-- dump date   	20120504_141512
-- class       	Genbank::CDS
-- table       	cds_note
-- id	note
YP_219433.1	catalyzes the formation of porphobilinogen from 5-aminolevulinate
YP_219434.1	uses the energy from reduction of ubiquinone-1 to ubiquinol to move Na(+) ions from the cytoplasm to the periplasm
YP_219435.1	Similar to Chlamydia muridarum hypothetical protein Tc0003 SWALL:Y003_CHLMU (SWALL:Q9PLU2) (143 aa) fasta scores: E(): 6.7e-35, 74.15% id in 147 aa. Only significant database matches are to Chlamydiaceae proteins.
YP_219436.1	contains N-terminal domain of unknown function fused to transcription elongation factor; GreA is necessary for efficient RNA polymerization through arresting sites; cleaves the nascent transcript and allows resumption of transcription elongation
YP_219437.1	catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate
YP_219438.1	in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall
YP_219439.1	Similar to Chlamydia pneumoniae exodeoxyribonuclease V beta chain cpn0738 or cp0007 SWALL:EX5B_CHLPN (SWALL:Q9Z7G7) (1050 aa) fasta scores: E(): 0, 59.18% id in 1056 aa, and to Salmonella typhimurium exonuclease V, beta chain STM2994 SWALL:Q8ZMB6 (EMBL:AE008837) (1181 aa) fasta scores: E(): 7.4e-25, 24.65% id in 1160 aa
YP_219440.1	Similar to many proposed exodeoxyribonuclease V proteins including: Chlamydia pneumoniae exodeoxyribonuclease V, gamma subunit cpn0737 SWALL:Q9Z7G8 (EMBL:AE001655) (1024 aa) fasta scores: E(): 4.1e-215, 52.87% id in 1027 aa
YP_219441.1	Similar to Chlamydia pneumoniae hypothetical protein Cp0009 SWALL:Q9K2F0 (EMBL:AE002164) (569 aa) fasta scores: E(): 2.3e-147, 67.42% id in 571 aa and to Chlamydia pneumoniae efflux protein YgeD or cpn0736 SWALL:Q9Z7G9 (EMBL:AE001655) (565 aa) fasta scores: E(): 7.3e-146, 67.19% id in 567 aa, and to Chlamydia trachomatis efflux protein YgeD or ct641 SWALL:O84647 (EMBL:AE001334) (559 aa) fasta scores: E(): 4.4e-130, 60.46% id in 564 aa
YP_219442.1	Similar to Chlamydia trachomatis hypothetical protein Ct627 ct627 SWALL:Y627_CHLTR (SWALL:O84632) (327 aa) fasta scores: E(): 3.1e-105, 80% id in 325 aa, and to Chlamydia muridarum hypothetical protein Tc0916 tc0916 SWALL:Y916_CHLMU (SWALL:Q9PJB6) (328 aa) fasta scores: E(): 7.7e-103, 77.84% id in 325 aa, and to Chlamydia pneumoniae hypothetical protein cpn0734 or cp0012 or cpj0734 SWALL:Y734_CHLPN (SWALL:Q9Z7H1) (324 aa) fasta scores: E(): 5.8e-106, 78.15% id in 325 aa.
YP_219443.1	primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination
YP_219444.1	Assists in DNA repair by cleaving phosphodiester bonds at apurinic or apyrimidinic sties to produce new 5' ends that are base-free deoxyribose 5-phosphate residues
YP_219445.1	Similar to Chlamydia muridarum virulence factor MviN homologue or tc0913 SWALL:MVIN_CHLMU (SWALL:Q9PJB9) (536 aa) fasta scores: E(): 1.6e-153, 72.6% id in 533 aa. The Chlamydia trachomatis orthologue of this gene is expressed during natural infection.
YP_219446.1	Similar to Chlamydia trachomatis lorf2 SWALL:Q46379 (EMBL:U50732) (182 aa) fasta scores: E(): 4.8e-33, 56.72% id in 171 aa. In C. trachomatis lorf2 is expressed during natural infection.In C. pneumoniae the protein encoded by the homologue of this gene is a species specific epitope.
YP_219447.1	Similar to Chlamydia pneumoniae Chlpn 76 kDa homolog_1 cpn0728 or cpj0728 or cp0018 SWALL:Q9Z7H7 (EMBL:AE001654) (651 aa) fasta scores: E(): 1.3e-66, 43.43% id in 663 aa, and to Chlamydia pneumoniae 76 kDa protein SWALL:Q46166 (EMBL:L23921) (715 aa) fasta scores: E(): 2.5e-28, 36.44% id in 461 aa. Similar to CAB014. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219448.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0727 or cp0019 SWALL:Q9Z7H8 (EMBL:AE001654) (872 aa) fasta scores: E(): 5.7e-136, 47.36% id in 874 aa, and to Chlamydia muridarum hypothetical protein Tc0909 SWALL:Q9PJC2 (EMBL:AE002357) (875 aa) fasta scores: E(): 1.2e-116, 41.88% id in 881 aa, and to Chlamydia trachomatis hypothetical protein Ct619 SWALL:O84624 (EMBL:AE001332) (877 aa) fasta scores: E(): 1.3e-103, 42.45% id in 881 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219449.1	Similar to Chlamydia pneumoniae hypothetical protein Cp0020 SWALL:Q9K2E9 (EMBL:AE002166) (812 aa) fasta scores: E(): 2e-138, 53.9% id in 846 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219450.1	Similar to Chlamydia pneumoniae ct652.1 hypothetical protein cpn0725 or cpj0725 or cp0021 SWALL:Q9Z7I0 (EMBL:AE001653) (75 aa) fasta scores: E(): 1.3e-14, 66.66% id in 78 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219451.1	Similar to Chlamydia pneumoniae  ABC transporter ATPase cpn0723 or cp0023 SWALL:Q9Z7I2 (EMBL:AE001653) (240 aa) fasta scores: E(): 3.4e-78, 92.08% id in 240 aa.
YP_219452.1	Similar to Chlamydia psittaci protein of unknown function Dsk1 SWALL:Q46226 (EMBL:Z50747) (161 aa) fasta scores: E(): 5.2e-66, 96.89% id in 161 aa.
YP_219453.1	catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis
YP_219454.1	Similar to Chlamydia pneumoniae protein cpn0720 or cp0026 or cpj0720 SWALL:Y720_CHLPN (SWALL:Q9Z7I5) (78 aa) fasta scores: E(): 1.5e-25, 92.3% id in 78 aa
YP_219455.1	Similar to Chlamydia pneumoniae predicted pseudouridine synthase SfhB or cpn0719 or cp0027 SWALL:Q9Z7I6 (EMBL:AE001653) (325 aa) fasta scores: E(): 5.4e-88, 70.66% id in 317 aa, and to Escherichia coli ribosomal large subunit pseudouridine synthase d RluD or SfhB SWALL:RLUD_ECOLI (SWALL:P33643) (326 aa) fasta scores: E(): 2.5e-32, 38.59% id in 298 aa
YP_219456.1	Similar to Chlamydia pneumoniae ct657 hypothetical protein cpn0718 or cpj0718 or cp0028 SWALL:Q9Z7I7 (EMBL:AE001653) (106 aa) fasta scores: E(): 1.6e-15, 51.54% id in 97 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219457.1	Similar to Chlamydia pneumoniae ct656 hypothetical protein cpn0717 or cpj0717 or cp0029 SWALL:Q9Z7I8 (EMBL:AE001653) (99 aa) fasta scores: E(): 6.5e-21, 65.3% id in 98 aa, and to Chlamydia trachomatis hypothetical protein Ct656 ct656 SWALL:O84663 (EMBL:AE001336) (97 aa) fasta scores: E(): 7.3e-20, 59.79% id in 97 aa, and to Chlamydia muridarum hypothetical protein Tc0027 tc0027 SWALL:Q9PLR8 (EMBL:AE002271) (95 aa) fasta scores: E(): 1.8e-12, 64.61% id in 65 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219458.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_219459.1	decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling
YP_219460.1	catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins
YP_219461.1	No significant database matches.
YP_219462.1	Similar to Chlamydia pneumoniae protein cpn0713 or cp0033 or cpj0713 SWALL:Y713_CHLPN (SWALL:Q9Z7J2) (130 aa) fasta scores: E(): 3.7e-37, 75.78% id in 128 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219463.1	Similar to Chlamydia pneumoniae fha domain cpn0712 or cpj0712 or cp0034 SWALL:Q9Z7J3 (EMBL:AE001652) (845 aa) fasta scores: E(): 5.3e-126, 62.85% id in 848 aa.
YP_219464.1	Similar to Chlamydia trachomatis hypothetical protein Ct665 SWALL:Y665_CHLTR (SWALL:O84672) (83 aa) fasta scores: E(): 2.4e-17, 70.37% id in 81 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219465.1	Similar to Chlamydia trachomatis protein Ct666 SWALL:Y666_CHLTR (SWALL:O84673) (83 aa) fasta scores: E(): 1e-28, 94.04% id in 84 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219466.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0709 or cpj0709 or cp0037 SWALL:Q9Z7J6 (EMBL:AE001652) (149 aa) fasta scores: E(): 6.5e-47, 79.05% id in 148 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219467.1	Similar to Chlamydia trachomatis hypothetical protein Ct668 SWALL:O84675 (EMBL:AE001337) (223 aa) fasta scores: E(): 6.8e-47, 66.81% id in 223 aa, and to Chlamydia pneumoniae hypothetical protein cpn0708 or cpj0708 or cp0038 SWALL:Q9Z7J7 (EMBL:AE001652) (224 aa) fasta scores: E(): 3.6e-46, 67.55% id in 225 aa, and to Chlamydia muridarum hypothetical protein Tc0039 SWALL:Q9PLQ6 (EMBL:AE002271) (226 aa) fasta scores: E(): 6.9e-44, 63.22% id in 223 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219468.1	Similar to Chlamydia pneumoniae YopN or YscN or cpn0707 or cp0039 SWALL:Q9Z7J8 (EMBL:AE001652) (442 aa) fasta scores: E(): 5.8e-152, 95.24% id in 442 aa, and to Yersinia enterocolitica probable ATP synthase YscN SWALL:YSCN_YEREN (SWALL:P40290) (439 aa) fasta scores: E(): 8.4e-81, 55.45% id in 422 aa and to Bacillus subtilis flagellum-specific ATP synthase FliI SWALL:FLII_BACSU (SWALL:P23445) (440 aa) fasta scores: E(): 1.5e-75, 52.39% id in 418 aa.
YP_219469.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0706 or cpj0706 or cp0040 SWALL:Q9Z7J9 (EMBL:AE001652) (168 aa) fasta scores: E(): 1.2e-37, 88.69% id in 168 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins. CDS contains coiled coil region from residues 22-151.
YP_219470.1	Similar to Chlamydia pneumoniae protein cpn0705 or cp0041 or cpj0705 SWALL:Y705_CHLPN (SWALL:Q9Z7K0) (280 aa) fasta scores: E(): 7.2e-51, 57.84% id in 287 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219471.1	Similar to Chlamydia pneumoniae flagellar motor switch domain/YscQ family FliN or cpn0704 or cp0042 SWALL:Q9Z7K1 (EMBL:AE001652) (371 aa) fasta scores: E(): 2.7e-93, 63.53% id in 373 aa, and to Chlamydia muridarum type III secretion translocase SctQ tc0043 SWALL:Q9PLQ2 (EMBL:AE002271) (373 aa) fasta scores: E(): 1.2e-87, 57.75% id in 374 aa.
YP_219472.1	Similar to Chlamydia pneumoniae serine/threonine-protein kinase cpn0703 or cpj0703 or cp0043 SWALL:Q9Z7K2 (EMBL:AE001652) (502 aa) fasta scores: E(): 3.1e-110, 56.17% id in 502 aa.
YP_219473.1	Similar to many OutD, general secretion protein, orthologues that are thought to be involved in the recognition of secreted proteins: Chlamydia trachomatis general secretion protein D or ct674 SWALL:O84681 (EMBL:AE001337) (921 aa) fasta scores: E(): 0, 73.52% id in 933 aa. Also similar to several Type III secretion system proteins.
YP_219474.1	Similar to Chlamydia pneumoniae hypothetical ATP:guanido phosphotransferase cpn0701 or cp0045 or cpj0701 SWALL:Y701_CHLPN (SWALL:Q9Z7K4) (358 aa) fasta scores: E(): 2.6e-98, 66.76% id in 358 aa, and to Chlamydia muridarum hypothetical ATP:guanido phosphotransferase Tc0046 SWALL:Y046_CHLMU (SWALL:Q9PLP9) (356 aa) fasta scores: E(): 3.5e-76, 54.39% id in 353 aa, and to Chlamydia trachomatis hypothetical ATP:guanido phosphotransferase Ct675 SWALL:Y675_CHLTR (SWALL:O84682) (356 aa) fasta scores: E(): 1.4e-73, 54.1% id in 353 aa
YP_219475.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0700 or cpj0700 or cp0046 SWALL:Q9Z7K5 (EMBL:AE001652) (171 aa) fasta scores: E(): 1.4e-44, 67.05% id in 170 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219476.1	Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs
YP_219477.1	Catalyzes the phosphorylation of UMP to UDP
YP_219478.1	EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu
YP_219479.1	one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit
YP_219480.1	Chlamydophila abortus major outer membrane protein precursor OmpA SWALL:AAK00237 (EMBL:AF269256) (389 aa) fasta scores: E(): 1.2e-160, 100% id in 389 aa
YP_219481.1	Similar to Chlamydia pneumoniae penicillin-binding protein,  cp0052 SWALL:Q9K2E6 (EMBL:AE002167) (1090 aa) fasta scores: E(): 0, 67.76% id in 1089 aa, and to Chlamydia pneumoniae pbp2-transglycolase/transpeptidase pbp2 or cpn0694 SWALL:Q9Z7L0 (EMBL:AE001651) (1090 aa) fasta scores: E(): 0, 67.76% id in 1089 aa
YP_219482.1	Similar to Chlamydia pneumoniae tpr repeats-ct683 hypothetical protein cpn0693 or cpj0693 or cp0053 SWALL:Q9Z7L1 (EMBL:AE001651) (339 aa) fasta scores: E(): 1.4e-115, 79.16% id in 336 aa, and to Chlamydia muridarum type III secretion chaperone,  tc0055 SWALL:Q9PLP4 (EMBL:AE002273) (335 aa) fasta scores: E(): 1.3e-112, 77.67% id in 327 aa
YP_219483.1	with SufCD activates cysteine desulfurase SufS
YP_219484.1	Similar to Chlamydia pneumoniae ABC transporter ATPase AbcX or cpn0691 or cp0055 SWALL:Q9Z7L3 (EMBL:AE001651) (256 aa) fasta scores: E(): 2.6e-56, 67.45% id in 255 aa, and to Erwinia chrysanthemi SufC protein SWALL:Q9EXP4 (EMBL:AJ301654) (248 aa) fasta scores: E(): 1.7e-32, 45.71% id in 245 aa
YP_219485.1	Similar to Chlamydia pneumoniae ABC transporter membrane protein cpn0690 or cpj0690 or cp0056 SWALL:Q9Z7L4 (EMBL:AE001651) (415 aa) fasta scores: E(): 4.2e-90, 55.97% id in 402 aa, and to Escherichia coli Sufd protein SWALL:SUFD_ECOLI (SWALL:P77689) (423 aa) fasta scores: E(): 1.9e-10, 26.68% id in 341 aa
YP_219486.1	Similar to Chlamydia pneumoniae probable cysteine desulfurase Csd or cpn0689 or cp0057 SWALL:CSD_CHLPN (SWALL:Q9Z7L5) (406 aa) fasta scores: E(): 5.2e-107, 67.66% id in 402 aa, and to Escherichia coli selenocysteine lyase CsdB or SufS SWALL:CSDB_ECOLI (SWALL:P77444) (406 aa) fasta scores: E(): 2.1e-60, 42.14% id in 401 aa
YP_219487.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0688 or cpj0688 or cp0058 SWALL:Q9Z7L6 (EMBL:AE001651) (252 aa) fasta scores: E(): 9.3e-50, 53.25% id in 246 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219488.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0687 or cp0059 SWALL:Q9Z7L7 (EMBL:AE001651) (217 aa) fasta scores: E(): 2.7e-47, 58.33% id in 216 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219489.1	Similar to Chlamydia pneumoniae probable chromosome partitioning protein parB or cpn0684 or cp0062 SWALL:PARB_CHLPN (SWALL:Q9Z7M0) (286 aa) fasta scores: E(): 5.5e-65, 68.72% id in 275 aa.
YP_219490.1	Similar to Chlamydia pneumoniae ABC ATPase dipeptide transport DppF_2 or cpn0683 or cp0064 SWALL:Q9Z7M1 (EMBL:AE001650) (324 aa) fasta scores: E(): 5.1e-72, 65.09% id in 318 aa
YP_219491.1	Similar to Chlamydia pneumoniae ABC ATPase dipeptide transport dppD or cpn0682 or cp0065 SWALL:Q9Z7M2 (EMBL:AE001650) (324 aa) fasta scores: E(): 3.3e-73, 68.73% id in 323 aa.
YP_219492.1	Similar to Chlamydia pneumoniae protein cpn0681 or cp0066 or cpj0681 SWALL:Y681_CHLPN (SWALL:Q9Z7M3) (224 aa) fasta scores: E(): 2.2e-70, 77.67% id in 224 aa.
YP_219493.1	Similar to Chlamydia pneumoniae  phosphate permease cpn0680 or cp0067 or cpj0680 SWALL:Y680_CHLPN (SWALL:Q9Z7M4) (426 aa) fasta scores: E(): 3.4e-130, 79.81% id in 426 aa
YP_219494.1	Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway
YP_219495.1	Similar to Chlamydophila caviae hypothetical protein cca00062 SWALL:Q824S7 (EMBL:AE016994) (463 aa) fasta scores: E(): 2.8e-44, 57.2% id in 500 aa and weakly to Chlamydia pneumoniae hypothetical protein cpn0677 or cpj0677 or cp0070 SWALL:Q9Z7M7 (EMBL:AE001650) (382 aa) fasta scores: E(): 5.6e-07, 26.73% id in 318 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219496.1	Similar to Chlamydia pneumoniae cpn0676 or cpj0676 or cp0071 SWALL:Q9Z7M8 (EMBL:AE001650) (389 aa) fasta scores: E(): 3.6e-38, 35.73% id in 403 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins
YP_219497.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0675 or cp0072 or cpj0675 SWALL:Y675_CHLPN (SWALL:Q9Z7M9) (384 aa) fasta scores: E(): 4.2e-69, 49.34% id in 383 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219499.1	Similar to Chlamydia pneumoniae D-ala-d-ala carboxypeptidase DacF or cpn0672 or cp0075 SWALL:Q9Z7N2 (EMBL:AE001649) (436 aa) fasta scores: E(): 7.5e-106, 61.37% id in 435 aa, and to Bacillus subtilis penicillin-binding protein DacF precursor SWALL:DACF_BACSU (SWALL:P38422) (389 aa) fasta scores: E(): 9.7e-12, 29.23% id in 366 aa
YP_219500.1	Similar to Chlamydia pneumoniae sigma regulatory factor-histidine kinase RsbW or cpn0670 SWALL:Q9Z7N4 (EMBL:AE001649) (144 aa) fasta scores: E(): 1.2e-33, 65.71% id in 140 aa and to Bacillus subtilis anti-sigma b factor RsbW SWALL:RSBW_BACSU (SWALL:P17904) (160 aa) fasta scores: E(): 0.0011, 26.66% id in 120 aa
YP_219501.1	Similar to Chlamydia pneumoniae ct548 hypothetical protein cpn0669 or cpj0669 or cp0078 SWALL:Q9Z7N5 (EMBL:AE001649) (199 aa) fasta scores: E(): 6.7e-46, 64.61% id in 195 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219502.1	Similar to Chlamydia pneumoniae ct547 hypothetical protein cpn0668 or cpj0668 SWALL:Q9Z7N6 (EMBL:AE001649) (318 aa) fasta scores: E(): 2.4e-85, 69.81% id in 318 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219503.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0667 or cpj0667 or cp0080 SWALL:Q9Z7N7 (EMBL:AE001649) (294 aa) fasta scores: E(): 4.4e-89, 68.7% id in 294 aa, and to Chlamydia trachomatis predicted omp ct546 SWALL:O84550 (EMBL:AE001325) (289 aa) fasta scores: E(): 4.4e-69, 58.76% id in 291 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219504.1	catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase
YP_219505.1	Similar to Chlamydia trachomatis probable hexose phosphate transport protein ct544 SWALL:UHPT_CHLTR (SWALL:O84548) (456 aa) fasta scores: E(): 1.8e-162, 83.85% id in 452 aa, and to Bacillus subtilis glycerol-3-phosphate transporter GlpT SWALL:GLPT_BACSU (SWALL:P37948) (444 aa) fasta scores: E(): 3.9e-60, 41.11% id in 450 aa
YP_219506.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0664 or cpj0664 or cp0083 SWALL:Q9Z7P0 (EMBL:AE001649) (67 aa) fasta scores: E(): 1.3, 32.14% id in 56 aa. No other significant database matches.
YP_219507.1	catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG
YP_219508.1	catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes
YP_219509.1	Similar to Chlamydophila caviae Mip protein SWALL:Q46176 (EMBL:L39892) (255 aa) fasta scores: E(): 3e-77, 87.05% id in 255 aa, and to Chlamydia pneumoniae peptidyl-prolyl cis-trans isomerase Mip precursor or cpn0661 or cp0086 SWALL:MIP_CHLPN (SWALL:Q9Z7P3) (258 aa) fasta scores: E(): 2.6e-63, 72.58% id in 248 aa
YP_219510.1	Similar to Chlamydophila caviae SpoU protein SWALL:Q46177 (EMBL:L39892) (156 aa) fasta scores: E(): 3.1e-56, 91.02% id in 156 aa, and to Chlamydia muridarum SpoU rRNA methylase tc0827 SWALL:Q9PJK2 (EMBL:AE002349) (151 aa) fasta scores: E(): 1.2e-40, 67.78% id in 149 aa
YP_219511.1	Similar to Chlamydia psittaci thioredoxin TrxA SWALL:THIO_CHLPS (SWALL:P52227) (102 aa) fasta scores: E(): 6.4e-35, 90.19% id in 102 aa, and to Oenococcus oeni thioredoxin TrxA SWALL:Q8RKA7 (EMBL:X93091) (104 aa) fasta scores: E(): 2.3e-13, 39% id in 100 aa
YP_219512.1	Similar to Chlamydia pneumoniae protein cpn0658 or cp0089 or cpj0658 SWALL:Y658_CHLPN (SWALL:Q9Z7P6) (238 aa) fasta scores: E(): 3e-80, 86.55% id in 238 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219513.1	Similar to Chlamydia pneumoniae YjeE hypothetical protein cpn0657 or cp0090 SWALL:Q9Z7P7 (EMBL:AE001648) (141 aa) fasta scores: E(): 3.2e-34, 63.12% id in 141 aa.
YP_219514.1	3'-5' exonuclease of DNA polymerase III
YP_219515.1	Similar to Chlamydia pneumoniae  acyl-coA thioester hydrolase cpn0654 or cp0093 or cpj0654 SWALL:Y654_CHLPN (SWALL:Q9Z7Q0) (155 aa) fasta scores: E(): 3.9e-58, 89.61% id in 154 aa, and to Bacillus subtilis  acyl-coA thioester hydrolase YkhA SWALL:YKHA_BACSU (SWALL:P49851) (179 aa) fasta scores: E(): 2.2e-15, 37.01% id in 154 aa
YP_219516.1	Transfers the fatty acyl group on membrane lipoproteins
YP_219517.1	zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis
YP_219518.1	in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP
YP_219519.1	catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis
YP_219520.1	modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth
YP_219521.1	Similar to Chlamydia pneumoniae ct529 hypothetical protein cpn0648 or cpj0648 or cp0099 SWALL:Q9Z7Q6 (EMBL:AE001648) (333 aa) fasta scores: E(): 2.4e-43, 43.47% id in 299 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219522.1	binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin
YP_219523.1	L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA
YP_219524.1	binds third domain of 23S rRNA and protein L29; part of exit tunnel
YP_219525.1	one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation
YP_219526.1	protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA
YP_219527.1	binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center
YP_219528.1	forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation
YP_219529.1	located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e
YP_219530.1	one of the stabilizing components for the large ribosomal subunit
YP_219531.1	primary binding protein; helps mediate assembly; involved in translation fidelity
YP_219532.1	binds to the 23S rRNA between the centers for peptidyl transferase and GTPase
YP_219533.1	assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel
YP_219534.1	part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13
YP_219535.1	binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
YP_219536.1	ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance
YP_219537.1	binds 5S rRNA along with protein L5 and L25
YP_219538.1	located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance
YP_219539.1	late assembly protein
YP_219540.1	forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase
YP_219541.1	located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA
YP_219542.1	located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3
YP_219543.1	catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme
YP_219544.1	is a component of the macrolide binding site in the peptidyl transferase center
YP_219545.1	catalyzes the formation of 3-phospho-D-glyceroyl phosphate from D-glyceraldehyde 3-phosphate
YP_219546.1	Similar to Chlamydia pneumoniae protein cpn0623/cp0124/cpj0623 cpn0623 or cp0124 or cpj0623 SWALL:Y623_CHLPN (SWALL:Q9Z7T1) (277 aa) fasta scores: E(): 6.7e-61, 69.45% id in 275 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219547.1	Similar to Chlamydia pneumoniae ct503 hypothetical protein cpn0622 or cpj0622 or cp0125 SWALL:Q9Z7T2 (EMBL:AE001646) (320 aa) fasta scores: E(): 2.7e-31, 45.72% id in 304 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219548.2	endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity
YP_219549.2	plays an essential role in ATP-dependent branch migration of the Holliday junction
YP_219550.1	catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate
YP_219551.1	Similar to Chlamydia pneumoniae lipoate-protein ligase a lpla_2 or cpn0618 or cp0129 SWALL:Q9Z7T6 (EMBL:AE001646) (235 aa) fasta scores: E(): 1.1e-59, 59.82% id in 234 aa
YP_219552.1	GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs
YP_219553.1	unwinds double stranded DNA
YP_219554.1	Similar to Chlamydia pneumoniae glycerol-3-p phosphatidyltransferase PgsA_1 or cpn0615 or cp0132 SWALL:Q9Z7T9 (EMBL:AE001646) (168 aa) fasta scores: E(): 6.8e-50, 74.25% id in 167 aa and to Rhodobacter sphaeroides phosphatidylglycerol phosphate synthase PgsA
YP_219555.1	Similar to Chlamydia trachomatis nucleoside triphosphate transport protein 2 npt2 SWALL:Q9X9D2 (EMBL:AJ010587) (540 aa) fasta scores: E(): 2.8e-69, 65.2% id in 549 aa
YP_219556.1	Similar to Chlamydia pneumoniae protease sohB or cpn0613 or cp0134 SWALL:Q9Z7U1 (EMBL:AE001645) (333 aa) fasta scores: E(): 1.4e-87, 69.9% id in 319 aa
YP_219557.1	has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair
YP_219558.1	catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis
YP_219559.1	An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes
YP_219560.1	Similar to Chlamydia pneumoniae ct490 hypothetical protein cpn0609 or cpj0609 or cp0138 SWALL:Q9Z7U5 (EMBL:AE001645) (94 aa) fasta scores: E(): 1.2e-08, 44.18% id in 86 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219561.2	catalyzes the formation of orotidine monophosphate from 5-phosphoribosyl-1-pyrophosphate and orotate
YP_219562.1	Similar to Chlamydia trachomatis glucose-1-p adenyltransferase GlgC or ct489 SWALL:O84496 (EMBL:AE001322) (441 aa) fasta scores: E(): 1.3e-138, 75.87% id in 427 aa, and to Solanum tuberosum glucose-1-phosphate adenylyltransferase small subunit, chloroplast precursor SWALL:GLGS_SOLTU (SWALL:P23509) (521 aa) fasta scores: E(): 3.4e-53, 35.38% id in 438 aa
YP_219563.1	Similar to Chlamydia pneumoniae ct488 hypothetical protein cpn0606 or cpj0606 or cp0141 SWALL:Q9Z7U8 (EMBL:AE001645) (246 aa) fasta scores: E(): 1.7e-71, 68.01% id in 247 aa
YP_219564.1	Similar to Chlamydia trachomatis methylase yhhf or ct487 SWALL:O84494 (EMBL:AE001322) (190 aa) fasta scores: E(): 7.5e-45, 66.31% id in 187 aa
YP_219565.1	Similar to Chlamydia pneumoniae glutamine binding protein FliY or cpn0604 or cp0143 SWALL:Q9Z7V0 (EMBL:AE001645) (250 aa) fasta scores: E(): 3.2e-73, 74.8% id in 250 aa
YP_219566.1	protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic
YP_219567.1	Similar to Chlamydia pneumoniae ct484 hypothetical protein cpn0602 or cpj0602 or cp0145 SWALL:Q9Z7V2 (EMBL:AE001645) (334 aa) fasta scores: E(): 3.4e-103, 78.32% id in 323 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219568.1	Similar to Chlamydia pneumoniae ct483 hypothetical protein cpn0601 or cpj0601 or cp0146 SWALL:Q9Z7V3 (EMBL:AE001645) (106 aa) fasta scores: E(): 2e-17, 54% id in 100 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219569.1	Similar to Chlamydophila caviae hypothetical protein cca00141 SWALL:Q824K4 (EMBL:AE016994) (54 aa) fasta scores: E(): 8.9e-06, 52.83% id in 53 aa. Note the differing N-termini. Also weakly similar to Chlamydia pneumoniae hypothetical protein Cp0147 cp0147 SWALL:Q9K2D5 (EMBL:AE002176) (65 aa) fasta scores: E(): 4.2, 35.59% id in 59 aa
YP_219570.1	Similar to Chlamydia pneumoniae oligopeptide binding lipoprotein AppA_5 or cpn0599 or cp0149 SWALL:Q9Z7V5 (EMBL:AE001644) (707 aa) fasta scores: E(): 0, 71.65% id in 709 aa, and to Bacillus subtilis oligopeptide-binding protein AppA precursor appA SWALL:APPA_BACSU (SWALL:P42061) (543 aa) fasta scores: E(): 1.3e-18, 33.08% id in 263 aa, and to Escherichia coli nickel-binding periplasmic protein precursor nika or b3476 SWALL:NIKA_ECOLI (SWALL:P33590) (524 aa) fasta scores: E(): 3.2e-08, 23.68% id in 380 aa
YP_219571.1	Similar to Chlamydia pneumoniae oligopeptide permease OppB_2 or cpn0598 or cp0150 SWALL:Q9Z7V6 (EMBL:AE001644) (493 aa) fasta scores: E(): 3.8e-147, 71.66% id in 494 aa, and to Escherichia coli, and Escherichia coli O157:H7 dipeptide transport system permease DppB SWALL:DPPB_ECOLI (SWALL:P37316) (339 aa) fasta scores: E(): 1.3e-17, 29.13% id in 278 aa
YP_219572.1	Similar to Chlamydia pneumoniae oligopeptide permease OppC_2 or cpn0597 or cp0151 SWALL:Q9Z7V7 (EMBL:AE001644) (579 aa) fasta scores: E(): 1.7e-158, 67.64% id in 578 aa and to Escherichia coli, and Escherichia coli O157:H7 oligopeptide transport system permease OppC SWALL:OPPC_ECOLI (SWALL:P77664) (302 aa) fasta scores: E(): 8e-20, 32.27% id in 251 aa
YP_219573.1	Similar to Chlamydia pneumoniae methyltransferase ada or cpn0596 or cp0152 SWALL:Q9Z7V8 (EMBL:AE001644) (173 aa) fasta scores: E(): 6.7e-45, 67.06% id in 167 aa, and to Bacillus subtilis methylated-DNA--protein-cysteine methyltransferase adaB SWALL:ADAB_BACSU (SWALL:P19220) (179 aa) fasta scores: E(): 1.5e-05, 39.5% id in 81 aa
YP_219574.1	Similar to Chlamydia pneumoniae ct476 hypothetical protein cpn0595 or cpj0595 or cp0153 SWALL:Q9Z7V9 (EMBL:AE001644) (323 aa) fasta scores: E(): 3.9e-104, 75.85% id in 323 aa
YP_219575.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily
YP_219576.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0593/cp0155/cpj0593 cpn0593 or cp0155 or cpj0593 SWALL:Y593_CHLPN (SWALL:Q9Z7W1) (362 aa) fasta scores: E(): 1.9e-78, 54.27% id in 363 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219577.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0592/cp0156/cpj0592 cpn0592 or cp0156 or cpj0592 SWALL:Y592_CHLPN (SWALL:Q9Z7W2) (103 aa) fasta scores: E(): 3.7e-25, 62.37% id in 101 aa
YP_219578.1	Similar to Chlamydia pneumoniae yage family yage or cpn0591 or cp0157 SWALL:Q9Z7W3 (EMBL:AE001643) (216 aa) fasta scores: E(): 2.9e-73, 84.57% id in 214 aa
YP_219579.1	Similar to Chlamydia muridarum hypothetical protein Tc0756 tc0756 SWALL:Q9PJS2 (EMBL:AE002343) (209 aa) fasta scores: E(): 5.4e-47, 58.11% id in 191 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219580.1	involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA
YP_219581.1	Similar to Chlamydia pneumoniae ct469 hypothetical protein cpn0588 or cpj0588 or cp0160 SWALL:Q9Z7W6 (EMBL:AE001643) (181 aa) fasta scores: E(): 3.6e-40, 58.91% id in 185 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219582.1	Similar to Chlamydia pneumoniae hypothetical protein YvyD or cpn0587 or cp0161 SWALL:Q9Z7W7 (EMBL:AE001643) (228 aa) fasta scores: E(): 1.7e-40, 52.65% id in 226 aa. No other significant database matches
YP_219583.1	Similar to Chlamydia pneumoniae sigma-54 dependent response regulator cp0162 SWALL:Q9K2D1 (EMBL:AE002177) (394 aa) fasta scores: E(): 6.5e-119, 77.97% id in 386 aa
YP_219585.1	Similar to Chlamydia trachomatis 2-component regulatory system-sensor histidine kinase atos or ct467 SWALL:O84473 (EMBL:AE001320) (352 aa) fasta scores: E(): 4.9e-85, 64.82% id in 344 aa
YP_219586.1	Similar to Chlamydia pneumoniae ct466 hypothetical protein cpn0583 or cpj0583 or cp0165 SWALL:Q9Z7X1 (EMBL:AE001643) (106 aa) fasta scores: E(): 1.4e-23, 72.38% id in 105 aa. Only significant database matches are to predicted Chlamydiaceae proteins. Note the differing N-termini and the alternative possible translational start sites at codon 19 and 22
YP_219587.1	Similar to Chlamydia pneumoniae ct465 hypothetical protein cpn0582 or cpj0582 or cp0166 SWALL:Q9Z7X2 (EMBL:AE001642) (225 aa) fasta scores: E(): 3.1e-28, 42.58% id in 209 aa.Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219588.1	Similar to Chlamydia pneumoniae phosphoglycolate phosphatase cpn0581 or cpj0581 SWALL:Q9Z7X3 (EMBL:AE001642) (230 aa) fasta scores: E(): 2.3e-44, 50.66% id in 227 aa, and to Chlamydia pneumoniae hydrolase, haloacid dehalogenase-like family cp0167 SWALL:Q9K2C9 (EMBL:AE002178) (244 aa) fasta scores: E(): 2.5e-44, 50.66% id in 227 aa
YP_219589.1	mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability
YP_219590.1	4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers
YP_219591.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0578/cp0170/cpj0578 precursor cpn0578 or cp0170 or cpj0578 SWALL:Y578_CHLPN (SWALL:Q9Z7X6) (320 aa) fasta scores: E(): 6.5e-86, 62.92% id in 321 aa
YP_219592.1	Similar to Chlamydia pneumoniae SwiB cpn0577 or cpj0577 or cp0171 SWALL:Q9Z7X7 (EMBL:AE001642) (87 aa) fasta scores: E(): 1.1e-26, 85.05% id in 87 aa, and to Chlamydia muridarum hypothetical protein Tc0745 SWALL:Q9PJT3 (EMBL:AE002343) (86 aa) fasta scores: E(): 7.3e-25, 78.16% id in 87 aa
YP_219593.1	recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1
YP_219594.1	Similar to Chlamydia pneumoniae amino group acetyl transferase YhhY or cpn0575 or cp0174 SWALL:Q9Z7X8 (EMBL:AE001642) (171 aa) fasta scores: E(): 1.8e-56, 78.57% id in 168 aa
YP_219595.1	Similar to Chlamydia muridarum hypothetical protein Tc0742 tc0742 SWALL:Y742_CHLMU (SWALL:Q9PJT5) (238 aa) fasta scores: E(): 1.4e-79, 85.65% id in 237 aa
YP_219596.1	Similar to Chlamydia pneumoniae protein cpn0572 or cp0177 or cpj0572 SWALL:Y572_CHLPN (SWALL:Q9Z7Y1) (755 aa) fasta scores: E(): 2.5e-77, 40.89% id in 802 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219597.1	adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active
YP_219598.1	catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase
YP_219599.1	Similar to Chlamydia pneumoniae glycerol-3-p acyltransferase PlsC or cpn0569 or cp0180 SWALL:Q9Z7Y4 (EMBL:AE001641) (212 aa) fasta scores: E(): 1e-58, 61.39% id in 215 aa
YP_219600.1	Catalyzes the formation of (d)CDP from ATP and (d)CMP
YP_219601.1	Similar to Chlamydia pneumoniae phosphatidate cytidylyltransferase CdsA or cpn0567 or cp0182 SWALL:CDSA_CHLPN (SWALL:Q9Z7Y6) (308 aa) fasta scores: E(): 1.6e-86, 72.96% id in 307 aa
YP_219602.1	catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate
YP_219603.1	Similar to Chlamydia pneumoniae ct449 hypothetical protein cpn0565 or cpj0565 or cp0185 SWALL:Q9Z7Y8 (EMBL:AE001641) (366 aa) fasta scores: E(): 2e-30, 32.05% id in 365 aa. Only significant database prokaryotic matches are to predicted Chlamydiaceae proteins.
YP_219604.1	part of the preprotein secretory system; forms a complex with protein YajC; SecDFyajC stimulates the proton motive force-driven protein translocation, seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF; in these organisms there is an unknown N-terminal domain
YP_219605.1	Similar to Chlamydia psittaci ssdna-specific exonuclease RecJ SWALL:P94659 (EMBL:AF058396) (519 aa) fasta scores: E(): 6.2e-178, 90.17% id in 519 aa, and to Chlamydia pneumoniae ssdna exonuclease RecJ or cpn0563 or cp0187 SWALL:Q9Z7Z0 (EMBL:AE001641) (588 aa) fasta scores: E(): 3.2e-159, 72.06% id in 580 aa
YP_219606.1	Similar to Chlamydophila caviae hypothetical 43.0 kDa protein SWALL:P94660 (EMBL:U41759) (384 aa) fasta scores: E(): 5.8e-113, 68.96% id in 377 aa, and to Chlamydia pneumoniae chlps 43 kDa protein homolog_1 cpj0562 or cp0188 SWALL:Q9JS10 (EMBL:AE002180) (373 aa) fasta scores: E(): 2.6e-79, 52.23% id in 358 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219607.1	Similar to Chlamydia psittaci early upstream open reading frame SWALL:EUO1_CHLPS (SWALL:Q06566) (182 aa) fasta scores: E(): 2.7e-64, 96.7% id in 182 aa, and to Chlamydia pneumoniae hypothetical protein cpn0561/cp0189/cpj0561 cpn0561 or cp0189 or cpj0561 SWALL:Y561_CHLPN (SWALL:Q9Z7Z2) (178 aa) fasta scores: E(): 1.1e-45, 76.68% id in 163 aa. Only significant full-length database matches are to predicted Chlamydiaceae proteins.
YP_219608.1	Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation
YP_219609.1	Highly similar to previously sequenced Chlamydophila abortus small cysteine-rich outer membrane lipoprotein OmlA SWALL:Q9AIS8 (EMBL:AF240773) (87 aa) fasta scores: E(): 5.2e-30, 98.85% id in 87 aa, and to Chlamydophila caviae outer membrane protein 3 Omp3 SWALL:P94663 (EMBL:U41759) (88 aa) fasta scores: E(): 8.4e-24, 80.68% id in 88 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219610.1	Previously sequenced as Chlamydophila abortus 60 kDa cysteine-rich membrane complex protein CmcB SWALL:Q9AIS7 (EMBL:AF240773) (557 aa) fasta scores: E(): 0, 100% id in 557 aa, and highly similar to Chlamydia psittaci 60 kDa outer membrane protein precursor Omcb or Mmp2 or EnvB SWALL:OM6_CHLPS (SWALL:P23701) (557 aa) fasta scores: E(): 4.8e-217, 97.3% id in 557 aa, and to Chlamydia pneumoniae 60 kDa outer membrane protein precursor Omcb or Omp2 or cpn0557 or cp0195 SWALL:OM6_CHLPN (SWALL:P23700) (556 aa) fasta scores: E(): 1e-189, 84.38% id in 557 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219611.1	Previously sequenced as Chlamydophila abortus sulfur-rich protein Srp SWALL:Q9AIS6 (EMBL:AF240773) (134 aa) fasta scores: E(): 5e-47, 100% id in 128 aa, and similar to Chlamydophila caviae hypothetical sulfur-rich protein srP SWALL:P94665 (EMBL:U41759) (160 aa) fasta scores: E(): 3.6e-46, 81.5% id in 146 aa, and to Chlamydia psittaci sulfur-rich protein Srp SWALL:SRP_CHLPS (SWALL:P28164) (134 aa) fasta scores: E(): 1.1e-42, 86.61% id in 127 aa, and to Chlamydia pneumoniae 15 kDa cysteine-rich protein crpa or cpn0556 or cp0196 SWALL:Q9Z7Z6 (EMBL:AE001640) (196 aa) fasta scores: E(): 2.9e-19, 39.75% id in 161 aa. Only significant database matches are to predicted Chlamydiaceae proteins.; Previously sequenced as Chlamydophila abortus sulfur-rich protein srP SWALL:Q9AIS6 (EMBL:AF240773) (134 aa) fasta scores: E(): 5e-47, 100% id in 128 aa
YP_219612.1	Similar to Chlamydia pneumoniae tail-specific protease tsp or cpn0555 or cp0197 SWALL:Q9Z7Z7 (EMBL:AE001640) (648 aa) fasta scores: E(): 5.6e-177, 69.45% id in 645 aa, and to Escherichia coli O157:H7 carboxy-terminal protease for penicillin-binding protein 3 prc or z2877 or ecs2540 SWALL:Q8XCM5 (EMBL:AE005405) (682 aa) fasta scores: E(): 2.4e-31, 30.69% id in 430 aa
YP_219613.1	Similar to Chlamydia pneumoniae ct440 hypothetical protein cpn0554 or cpj0554 or cp0198 SWALL:Q9Z7Z8 (EMBL:AE001640) (96 aa) fasta scores: E(): 9.2e-15, 64.93% id in 77 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219614.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0553 cpn0553 or cpj0553 or cp0199 SWALL:Q9Z7Z9 (EMBL:AE001639) (312 aa) fasta scores: E(): 1.2e-44, 41.39% id in 302 aa.
YP_219615.1	interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance
YP_219616.1	binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit
YP_219617.1	EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene
YP_219618.2	NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex
YP_219619.1	Similar to Chlamydia pneumoniae sulfite reductase CysJ or cpn0548 or cp0204 SWALL:Q9Z804 (EMBL:AE001639) (347 aa) fasta scores: E(): 9.2e-79, 56.85% id in 350 aa, and to Escherichia coli sulfite reductase [NADPH] flavoprotein alpha-component CysJ or b2764 SWALL:CYSJ_ECOLI (SWALL:P38038) (598 aa) fasta scores: E(): 2e-19, 30.34% id in 346 aa, and to Physarum polycephalum nitric oxide synthase form b NosB SWALL:Q968Y5 (EMBL:AF145040) (1046 aa) fasta scores: E(): 3.1e-19, 29.85% id in 355 aa
YP_219620.1	catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate
YP_219621.1	Similar to Chlamydia trachomatis 50S ribosomal protein l21 RplU or rl21 or ct420 SWALL:RL21_CHLTR (SWALL:O84425) (107 aa) fasta scores: E(): 4.3e-29, 75.7% id in 107 aa, and to Escherichia coli, and Escherichia coli O157:H7 50S ribosomal protein l21 RplU SWALL:RL21_ECOLI (SWALL:P02422) (103 aa) fasta scores: E(): 2.6e-12, 41.58% id in 101 aa
YP_219622.1	involved in the peptidyltransferase reaction during translation
YP_219623.1	essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication
YP_219624.1	Similar to Chlamydia pneumoniae probable metal transport system membrane protein cpn0543 or cp0209 or cpj0543 SWALL:Y543_CHLPN (SWALL:Q9Z809) (293 aa) fasta scores: E(): 1.9e-82, 78.21% id in 280 aa, and to Listeria monocytogenes hydrophobic membrane protein ZurM SWALL:Q9XDA5 (EMBL:AF104349) (295 aa) fasta scores: E(): 2.6e-17, 23.77% id in 265 aa
YP_219625.1	Similar to Chlamydia muridarum probable metal transport system ATP-binding protein Tc0697 SWALL:Y697_CHLMU (SWALL:Q9PJX9) (236 aa) fasta scores: E(): 9.5e-55, 64.13% id in 237 aa, and to Listeria monocytogenes zinc uptake system ATP-binding protein ZurA SWALL:ZURA_LISMO (SWALL:Q9XDA6) (257 aa) fasta scores: E(): 6.6e-18, 36.81% id in 220 aa
YP_219626.1	Similar to Chlamydia pneumoniae  periplasmic metal-binding protein precursor cpn0541 or cp0211 or cpj0541 SWALL:Y541_CHLPN (SWALL:Q9Z811) (278 aa) fasta scores: E(): 1.4e-67, 58.27% id in 278 aa, and to Bacillus subtilis manganese-binding lipoprotein MntA precursor SWALL:MNTA_BACSU (SWALL:O34385) (306 aa) fasta scores: E(): 1.6e-05, 26.69% id in 206 aa
YP_219627.1	Similar to Bacillus subtilis thiamine-phosphate pyrophosphorylase ThiE or ThiC SWALL:THIE_BACSU (SWALL:P39594) (222 aa) fasta scores: E(): 1.4e-14, 34.61% id in 182 aa, and to Clostridium acetobutylicum thiamine-phosphate pyrophosphorylase ThiE SWALL:Q97LQ9 (EMBL:AE007564) (211 aa) fasta scores: E(): 3e-21, 37.07% id in 205 aa. No database matches are to predicted Chlamydiaceae proteins.
YP_219628.1	Similar to Escherichia coli hydroxyethylthiazole kinase ThiM SWALL:THIM_ECOLI (SWALL:P76423) (262 aa) fasta scores: E(): 1.1e-26, 36.62% id in 243 aa. No database matches are to predicted Chlamydiaceae proteins.
YP_219629.1	Similar to Chlamydia muridarum probable outer membrane protein PmpB precursor or tc0694 SWALL:PMPB_CHLMU (SWALL:Q9PJY2) (1672 aa) fasta scores: E(): 3.1e-148, 44.7% id in 1859 aa, and to Chlamydia trachomatis probable outer membrane protein PmpB precursor or ct413 SWALL:PMPB_CHLTR (SWALL:O84418) (1754 aa) fasta scores: E(): 1.5e-132, 42.62% id in 1933 aa, and to Chlamydia pneumoniae probable outer membrane protein Pmp20 precursor or cpn0540 or cp0212 SWALL:PM20_CHLPN (SWALL:Q9Z812) (1723 aa) fasta scores: E(): 2.5e-120, 44.59% id in 1868 aa, and to Chlamydia psittaci  polymorphic membrane protein SWALL:Q8VL57 (EMBL:AF243416) (601 aa) fasta scores: E(): 1.6e-14, 27.06% id in 665 aa, and to Chlamydophila abortus Pomp91b precursor SWALL:P71133 (EMBL:U65943) (846 aa) fasta scores: E(): 7.6e-12, 26.18% id in 905 aa
YP_219630.1	Similar to Chlamydia pneumoniae probable outer membrane protein Pmp19 precursor or cpn0539 or cp0213 SWALL:PM19_CHLPN (SWALL:Q9Z813) (947 aa) fasta scores: E(): 2.5e-83, 47.68% id in 950 aa, and to Chlamydia muridarum probable outer membrane protein PmpA precursor or tc0693 SWALL:PMPA_CHLMU (SWALL:Q9PJY3) (976 aa) fasta scores: E(): 1.4e-78, 38.84% id in 937 aa, and to Chlamydia trachomatis probable outer membrane protein PmpA precursor or ct412 SWALL:PMPA_CHLTR (SWALL:O84417) (975 aa) fasta scores: E(): 1e-74, 38.95% id in 937 aa, and to Chlamydophila abortus Pomp91a SWALL:P71132 (EMBL:U65942) (847 aa) fasta scores: E(): 1.2e-29, 26.44% id in 779 aa, and to Chlamydia psittaci PomP90b precursor SWALL:P77792 (EMBL:U65943) (839 aa) fasta scores: E(): 1.6e-29, 25.09% id in 837 aa
YP_219631.1	Similar to Chlamydia pneumoniae ct814 hypothetical protein cpn0538 or cpj0538 or cp0214 SWALL:Q9Z814 (EMBL:AE001638) (100 aa) fasta scores: E(): 1.9e-23, 65.34% id in 101 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219632.1	Similar to Chlamydia pneumoniae ct814.1 hypothetical protein cpn0537 or cpj0537 or cp0215 SWALL:Q9Z815 (EMBL:AE001638) (119 aa) fasta scores: E(): 1.2e-18, 51.42% id in 105 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219633.1	Similar to Chlamydia pneumoniae D-ala/gly permease daga_1 or cpn0536 or cp0216 SWALL:Q9Z816 (EMBL:AE001638) (449 aa) fasta scores: E(): 4.9e-142, 78.22% id in 450 aa
YP_219634.1	lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis
YP_219635.1	Similar to Chlamydia pneumoniae DnaK suppressor DksA or cpn0534 SWALL:Q9Z818 (EMBL:AE001638) (124 aa) fasta scores: E(): 6e-41, 92.74% id in 124 aa, and to Chlamydia pneumoniae hypothetical protein Cp0218 cp0218 SWALL:Q9K2C0 (EMBL:AE002183) (132 aa) fasta scores: E(): 1.6e-40, 91.93% id in 124 aa
YP_219636.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0533/cp0219/cpj0533 cpn0533 or cp0219 or cpj0533 SWALL:Y533_CHLPN (SWALL:Q9Z819) (152 aa) fasta scores: E(): 8.5e-56, 98.02% id in 152 aa
YP_219637.1	catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine
YP_219638.1	Similar to Chlamydia pneumoniae SAM dependent methyltransferase cpn0531 or cpj0531 or cp0221 SWALL:Q9Z821 (EMBL:AE001638) (275 aa) fasta scores: E(): 2.5e-78, 63.37% id in 273 aa, and to Chlamydia muridarum hypothetical protein Tc0684 tc0684 SWALL:Q9PJZ2 (EMBL:AE002337) (275 aa) fasta scores: E(): 4.3e-76, 65.09% id in 275 aa
YP_219639.1	Similar to Chlamydia pneumoniae rRNA methylase Spou_1 or cpn0530 or cp0222 SWALL:Q9Z822 (EMBL:AE001638) (265 aa) fasta scores: E(): 7.5e-70, 62.73% id in 263 aa, and to Streptomyces viridochromogenes rRNA methyltransferase avirB SWALL:Q9F5K6 (EMBL:AF333038) (287 aa) fasta scores: E(): 3.9e-15, 29.6% id in 277 aa
YP_219640.1	transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate
YP_219641.1	Similar to Chlamydia pneumoniae glutamate symport GltT or cpn0528 or cp0224 SWALL:Q9Z824 (EMBL:AE001637) (414 aa) fasta scores: E(): 3.2e-130, 83.01% id in 418 aa, and to Bacillus caldotenax proton/sodium-glutamate symport protein GltT SWALL:GLTT_BACCA (SWALL:P24944) (421 aa) fasta scores: E(): 4.9e-45, 34.8% id in 408 aa
YP_219642.1	Catalyzes the transfer of acetyl from acetyldihydrolipoamide to coenzyme A to form acetyl CoA
YP_219643.1	Similar to Chlamydia muridarum hypothetical protein Tc0679 tc0679 SWALL:Y679_CHLMU (SWALL:Q9PJZ7) (328 aa) fasta scores: E(): 3.4e-89, 67.17% id in 329 aa and Yersinia pestis arabinose 5-phosphate isomerase kdsd or ypo3577 or y0149 or yp3832 SWALL:Q8ZB48 (EMBL:AJ414157) (328 aa) fasta scores: E(): 1.3e-32, 35.22% id in 318 aa
YP_219644.1	Similar to Chlamydia pneumoniae ct398 hypothetical protein cpn0525 or cpj0525 or cp0228 SWALL:Q9Z827 (EMBL:AE001637) (254 aa) fasta scores: E(): 2.5e-64, 86.61% id in 254 aa. CDS contains coiled coil region from residues 32-124.
YP_219645.1	Similar to Chlamydia pneumoniae hypothetical protein Cp0229 cp0229 SWALL:Q9K2B8 (EMBL:AE002184) (359 aa) fasta scores: E(): 3.3e-29, 33.42% id in 362 aa. Only significant database matches are to predicted Chlamydiaceae proteins.
YP_219646.1	Similar to Chlamydophila caviae hypothetical protein cca00222 SWALL:Q824D0 (EMBL:AE016994) (123 aa) fasta scores: E(): 6.5e-19, 45.45% id in 110 aa. Note the differing N-termini. Also weakly similar to Chlamydia pneumoniae hypothetical protein cpn0523 cpn0523 or cpj0523 or cp0230 SWALL:Q9Z829 (EMBL:AE001637) (110 aa) fasta scores: E(): 0.021, 29.88% id in 87 aa
YP_219647.1	catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis
YP_219648.1	catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate
YP_219649.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_219650.1	involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate
YP_219651.1	Similar to several proteins of unknown function including: Chlamydia trachomatis hypothetical protein Ct429 ct429 SWALL:Y429_CHLTR (SWALL:O84436) (329 aa) fasta scores: E(): 4.9e-102, 85.8% id in 331 aa, and to Chlamydia pneumoniae protein cpn0518/cp0235/cpj0518 cpn0518 or cp0235 or cpj0518 SWALL:Y518_CHLPN (SWALL:Q9Z834) (324 aa) fasta scores: E(): 9.4e-104, 88.48% id in 330 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219652.1	Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone
YP_219653.1	Similar to several proteins of unknown function including: Chlamydia pneumoniae ct427 hypothetical protein cpn0514 SWALL:Q9Z838 (EMBL:AE001636) (264 aa) fasta scores: E(): 3.7e-57, 56.37% id in 259 aa and weakly similar to Streptomyces coelicolor hypothetical protein Sco4506 or scd35.13 SWALL:Q9L0T8 (EMBL:AL939120) (282 aa) fasta scores: E(): 2.4e-06, 23.66% id in 262 aa
YP_219654.1	Similar to many proteins of undefined function including: Chlamydia muridarum hypothetical protein Tc0710 SWALL:Q9PJW6 (EMBL:AE002339) (369 aa) fasta scores: E(): 1.1e-107, 71.11% id in 367 aa, Aquifex aeolicus hypothetical protein Aq_648 SWALL:O66888 (EMBL:AE000700) (371 aa) fasta scores: E(): 8.1e-40, 37.17% id in 347 aa and to Bacillus halodurans hypothetical protein Bh3411 SWALL:Q9K7F1 (EMBL:AP001518) (364 aa) fasta scores: E(): 2.5e-35, 33.42% id in 356 aa
YP_219655.1	Similar to Chlamydia trachomatis hypothetical protein Ct425 SWALL:Y425_CHLTR (SWALL:O84432) (621 aa) fasta scores: E(): 1.2e-194, 72.98% id in 622 aa and to Chlamydia muridarum hypothetical protein Tc0708 SWALL:Y708_CHLMU (SWALL:Q9PJW8) (621 aa) fasta scores: E(): 2.1e-194, 73.31% id in 622 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219656.1	Weakly similar to Streptomyces coelicolor anti-sigma B factor antagonist RsbV or BldG or sco3549 or sch5.12C SWALL:RSBV_STRCO (SWALL:Q9WVX8) (113 aa) fasta scores: E(): 2.5e-05, 26.73% id in 101 aa and to Chlamydia pneumoniae sigma regulatory factor RsbV_1 or cpn0511 or cp0243 SWALL:Q9Z841 (EMBL:AE001636) (116 aa) fasta scores: E(): 1.2e-34, 81.03% id in 116 aa
YP_219657.1	Similar to several proteins of undefined function including: Chlamydia pneumoniae CBS domain protein tlyc_2 or cpn0510 or cp0244 SWALL:Q9Z842 (EMBL:AE001636) (387 aa) fasta scores: E(): 4.2e-81, 61.24% id in 387 aa and to Chlamydia muridarum hemolysin,  tc0706 SWALL:Q9PJX0 (EMBL:AE002339) (374 aa) fasta scores: E(): 6.5e-68, 53.74% id in 374 aa
YP_219658.1	Similar to several including: Chlamydia pneumoniae predicted metalloenzyme cpn0509 or cpj0509 or cp0245 SWALL:Q9Z843 (EMBL:AE001636) (158 aa) fasta scores: E(): 5.2e-37, 61.78% id in 157 aa, and to Chlamydia muridarum hypothetical protein Tc0705 tc0705 SWALL:Q9PJX1 (EMBL:AE002339) (161 aa) fasta scores: E(): 1.7e-32, 62.66% id in 150 aa
YP_219659.1	Doubtful CDS which is similar to Chlamydia pneumoniae ct421.2 hypothetical protein cpn0508 or cpj0508 or cp0246 SWALL:Q9Z844 (EMBL:AE001636) (53 aa) fasta scores: E(): 4e-18, 81.13% id in 53 aa, and to Chlamydia muridarum hypothetical protein Tc0704 tc0704 SWALL:Q9PJX2 (EMBL:AE002339) (53 aa) fasta scores: E(): 4.8e-18, 88.67% id in 53 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219660.1	Doubtful CDS. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219661.1	Similar to many including: Chlamydia muridarum hypothetical protein Tc0702 SWALL:Q9PJX4 (EMBL:AE002339) (215 aa) fasta scores: E(): 3.2e-62, 83.33% id in 210 aa, Fusobacterium nucleatum transporter fn1485 SWALL:Q8RDM7 (EMBL:AE010654) (223 aa) fasta scores: E(): 1.9e-15, 32.21% id in 208 aa and to Ralstonia solanacearum probable transmembrane protein rsc0465 or rs04432 SWALL:Q8Y271 (EMBL:AL646059) (243 aa) fasta scores: E(): 9.5e-15, 31.37% id in 204 aa
YP_219662.1	Similar to Prokaryotic and Eukaryotic glycosylases including: Chlamydia pneumoniae  3-methyladenine DNA glycosylase cpn0505 or cp0248 or cpj0505 SWALL:3MGH_CHLPN (SWALL:Q9Z847) (196 aa) fasta scores: E(): 5.4e-55, 69.35% id in 186 aa and to Rattus norvegicus DNA-3-methyladenine glycosylase mpG SWALL:3MG_RAT (SWALL:P23571) (317 aa) fasta scores: E(): 4.6e-14, 34.51% id in 197 aa
YP_219663.1	Weakly similar to Escherichia coli ribonuclease R Rnr or VacB or b4179 SWALL:RNR_ECOLI (SWALL:P21499) (813 aa) fasta scores: E(): 2.3e-41, 28.95% id in 701 aa and to Chlamydia muridarum ribonuclease R Rnr or VacB or tc0676 SWALL:RNR_CHLMU (SWALL:Q9PK00) (692 aa) fasta scores: E(): 5.7e-195, 71.64% id in 677 aa
YP_219664.1	heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria
YP_219665.1	Similar to Bacillus subtilis GrpE protein(hsp-70 cofactor) SWALL:GRPE_BACSU (SWALL:P15874) (186 aa) fasta scores: E(): 1.7e-11, 34.61% id in 156 aa, and to Chlamydia pneumoniae GrpE protein or cpn0502 or cp0252 SWALL:GRPE_CHLPN (SWALL:Q9Z849) (184 aa) fasta scores: E(): 1.1e-47, 76.66% id in 180 aa
YP_219666.1	Negative regulator of class I heat shock genes (grpE-dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons
YP_219667.1	catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro)
YP_219668.1	Similar to Chlamydia muridarum hypothetical protein Tc0671 SWALL:Y671_CHLMU (SWALL:Q9PK02) (379 aa) fasta scores: E(): 9.6e-11, 23.13% id in 402 aa and to Chlamydia pneumoniae hypothetical protein cpn0499/cp0255/cpj0499 cpn0499 or cp0255 or cpj0499 SWALL:Y499_CHLPN (SWALL:Q9Z852) (385 aa) fasta scores: E(): 6.5e-10, 25% id in 392 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219669.1	Similar to Chlamydia pneumoniae hypothetical protein Cpn0498 or cpj0498 or cp0256 SWALL:Q9Z853 (EMBL:AE001634) (317 aa) fasta scores: E(): 3.6e-70, 54.14% id in 314 aa
YP_219670.1	Similar to several proteins of unknown function e.g. Chlamydia trachomatis hypothetical protein Ct388 SWALL:O84393 (EMBL:AE001312) (115 aa) fasta scores: E(): 5.3e-17, 52.08% id in 96 aa and Pasteurella multocida hypothetical protein Pm1313 SWALL:Q9CLC6 (EMBL:AE006170) (99 aa) fasta scores: E(): 3.7e-05, 35.52% id in 76 aa
YP_219671.1	Similar to several proteins of unknown function e.g. Chlamydia pneumoniae ct391 hypothetical protein cpn0496 SWALL:Q9Z855 (EMBL:AE001634) (340 aa) fasta scores: E(): 1.8e-84, 66.16% id in 331 aa, and to Corynebacterium glutamicum uncharacterized BCR cgl2251 SWALL:BAB99644 (EMBL:AP005281) (313 aa) fasta scores: E(): 1.5e-06, 22.65% id in 309 aa
YP_219672.1	catalyzes the interconversion of tetrahydrodipicolinate and L,L-diaminopimelate in lysine biosynthesis
YP_219673.1	Similar to Chlamydophila caviae hypothetical protein cca00250 SWALL:Q824A3 (EMBL:AE016994) (296 aa) fasta scores: E(): 9.8e-13, 41.4% id in 314 aa. Note the variation between these two protein products in the central region.
YP_219674.1	Similar to Chlamydia pneumoniae hypothetical protein Cp0263 SWALL:Q9K2B1 (EMBL:AE002186) (410 aa) fasta scores: E(): 1.9e-131, 74.69% id in 403 aa and Chlamydia muridarum hypothetical protein Tc0668 tc0668 SWALL:Q9PK05 (EMBL:AE002334) (408 aa) fasta scores: E(): 6.7e-123, 70.17% id in 409 aa
YP_219675.1	Similar to Chlamydia muridarum hypothetical protein Tc0666 SWALL:Q9PK07 (EMBL:AE002334) (696 aa) fasta scores: E(): 1.8e-179, 61.85% id in 692 aa and to Chlamydia trachomatis hypothetical protein Ct387 SWALL:O84392 (EMBL:AE001312) (691 aa) fasta scores: E(): 1.5e-177, 61.12% id in 692 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219676.1	Similar to Prokaryotic and Eukaryotic proteins including: Chlamydia pneumoniae hypothetical protein cpn0489/cp0265/cpj0489 cpn0489 or cp0265 or cpj0489 SWALL:Y489_CHLPN (SWALL:Q9Z862) (290 aa) fasta scores: E(): 8.7e-104, 76.55% id in 290 aa and to Homo sapiens Myg1 protein c12orf10 SWALL:MYG1_HUMAN (SWALL:Q9HB07) (376 aa) fasta scores: E(): 2.4e-12, 32.18% id in 320 aa
YP_219677.1	Similar to Fusobacterium nucleatum bis(5'-nucleosyl)-tetraphosphatase (EC 3.6.1.17) fn1873 SWALL:Q8RHW7 (EMBL:AE010489) (112 aa) fasta scores: E(): 2.6e-15, 47.7% id in 109 aa and to Campylobacter jejuni hit-family protein Cj0898 SWALL:Q9PP33 (EMBL:AL139076) (121 aa) fasta scores: E(): 5.1e-15, 49.05% id in 106 aa. Contains a histidine triad motif
YP_219678.1	Similar to Chlamydia pneumoniae ct384 hypothetical protein cpn0487 or cpj0487 or cp0267 SWALL:Q9Z864 (EMBL:AE001634) (543 aa) fasta scores: E(): 2.6e-125, 58.17% id in 538 aa, and to Chlamydia muridarum hypothetical protein Tc0663 SWALL:Q9PK10 (EMBL:AE002334) (526 aa) fasta scores: E(): 6e-92, 48.68% id in 534 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219679.1	Similar to Haemophilus influenzae sodium/pantothenate symporter PanF or hi0975 SWALL:PANF_HAEIN (SWALL:P44963) (484 aa) fasta scores: E(): 2.5e-06, 22.98% id in 483 aa and to Chlamydia pneumoniae sodium:solute symporter family protein Cp0268 SWALL:Q9K2A8 (EMBL:AE002186) (444 aa) fasta scores: E(): 1e-99, 64.67% id in 436 aa
YP_219680.1	Similar to Chlamydia pneumoniae ct382.1 hypothetical protein cpn0485 or cpj0485 or cp0269 SWALL:Q9Z866 (EMBL:AE001633) (64 aa) fasta scores: E(): 5.8e-12, 59.01% id in 61 aa and to Chlamydia trachomatis hypothetical protein hypothetical protein Ct382.1 SWALL:O84387 (EMBL:AE001311) (63 aa) fasta scores: E(): 7.9e-07, 41.66% id in 60 aa
YP_219681.1	Similar to Chlamydophila caviae hypothetical protein cca00261 SWALL:Q823Z2 (EMBL:AE016994) (1044 aa) fasta scores: E(): 1.2e-150, 61.39% id in 1106 aa.Note the product of this CDS is rich in the amino acids Leu, Thr, Pro and Gln and the variation between these two protein products in the N-terminus
YP_219682.1	Similar to many aminoacid transprot proteins including: Escherichia coli arginine-binding periplasmic protein 2 precursor ArtJ or b0860 SWALL:ARTJ_ECOLI (SWALL:P30860) (243 aa) fasta scores: E(): 1.8e-15, 30.63% id in 222 aa and to Chlamydia pneumoniae arginine periplasmic binding protein ArtJ or cpn0482 SWALL:Q9Z869 (EMBL:AE001633) (259 aa) fasta scores: E(): 1.2e-62, 62.05% id in 253 aa
YP_219683.1	Similar to Chlamydia pneumoniae ct383 hypothetical protein cpn0480 or cpj0480 or cp0274 SWALL:Q9Z871 (EMBL:AE001633) (218 aa) fasta scores: E(): 8.9e-30, 39.81% id in 211 aa, and to Chlamydia muridarum hypothetical protein Tc0662 tc0662 SWALL:Q9PK11 (EMBL:AE002334) (246 aa) fasta scores: E(): 6.2e-22, 36.58% id in 205 aa
YP_219684.1	Similar to Chlamydia pneumoniae metal dependent hydrolase Cpn0479 or cp0275 SWALL:Q9Z872 (EMBL:AE001633) (270 aa) fasta scores: E(): 1e-59, 55.97% id in 268 aa and to Escherichia coli PhnP protein phnp or b4092 SWALL:PHNP_ECOLI (SWALL:P16692) (252 aa) fasta scores: E(): 0.016, 24.71% id in 263 aa
YP_219685.1	Similar to Escherichia coli GTP-binding protein HflX or b4173 SWALL:HFLX_ECOLI (SWALL:P25519) (426 aa) fasta scores: E(): 1.1e-40, 40.35% id in 399 aa and to Chlamydia muridarum GTP-binding protein tc0658 SWALL:Q9PK15 (EMBL:AE002334) (447 aa) fasta scores: E(): 1.6e-119, 74.72% id in 447 aa
YP_219686.1	Similar to several including: Chlamydia pneumoniae hypothetical protein Cpn0477/cp0277/cpj0477 cpn0477 or cp0277 or cpj0477 SWALL:Y477_CHLPN (SWALL:Q9Z874) (421 aa) fasta scores: E(): 4.1e-119, 71.97% id in 421 aa, and to Thermoanaerobacter tengcongensis 2-methylthioadenine synthetase MiaB or tte0962 SWALL:Q8RB61 (EMBL:AE013061) (437 aa) fasta scores: E(): 5.5e-40, 34.82% id in 425 aa, and to Thermotoga maritima hypothetical protein Tm0830 SWALL:Y830_THEMA (SWALL:Q9WZT7) (434 aa) fasta scores: E(): 6.3e-40, 36.83% id in 429 aa
YP_219687.1	Similar to Chlamydia pneumoniae ct865 hypothetical protein Cpn0476 or cpj0476 or cp0278 SWALL:Q9Z875 (EMBL:AE001632) (329 aa) fasta scores: E(): 8e-78, 59.45% id in 333 aa and to Chlamydia trachomatis hypothetical protein Ct865 SWALL:O84873 (EMBL:AE001359) (329 aa) fasta scores: E(): 2.9e-59, 50.74% id in 335 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219688.1	catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain
YP_219689.1	Similar to Chlamydia trachomatis hypothetical protein Ct365 SWALL:O84370 (EMBL:AE001309) (575 aa) fasta scores: E(): 2.7e-63, 39.96% id in 588 aa and to Chlamydia pneumoniae ct365 hypothetical protein cpn0474 or cpj0474 or cp0280 SWALL:Q9Z877 (EMBL:AE001632) (589 aa) fasta scores: E(): 5.3e-58, 50.08% id in 593 aa
YP_219691.1	Similar to many Chlamydial outer membrane proteins including: C.trachomatis probable outer membrane protein Pmpf precursor or ct870 SWALL:PMPF_CHLTR (SWALL:P38008) (1034 aa) fasta scores: E(): 1.7e-21, 28.99% id in 1083 aa and to Chlamydia pneumoniae probable outer membrane protein Pmp10 precursor or omp5 or cp0303 SWALL:PM10_CHLPN (SWALL:Q9RB65) (928 aa) fasta scores: E(): 3.2e-08, 24.13% id in 1036 aa
YP_219692.1	Similar to Chlamydia pneumoniae probable outer membrane protein Pmp15 precursor pmp15 or cpn0466 or cp0286 SWALL:PM15_CHLPN (SWALL:Q9Z883) (938 aa) fasta scores: E(): 3.4e-116, 41.2% id in 932 aa, and to Chlamydia trachomatis probable outer membrane protein pmpe precursor pmpe or ct869 SWALL:PMPE_CHLTR (SWALL:O84877) (964 aa) fasta scores: E(): 1.5e-51, 31.74% id in 945 aa. Note the product of this CDS appears to lack a signal sequence.
YP_219693.1	Weakly similar to the C-terminus of the products of many Chlamydia outer membrane proteins including: Chlamydia muridarum PmpE precursor or tc0261 SWALL:PMPE_CHLMU (SWALL:Q9PL47) (976 aa) fasta scores: E(): 1.7e-24, 28.98% id in 314 aa Chlamydia pneumoniae probable outer membrane protein Pmp18 precursor or cpn0471 or cp0283 SWALL:PM18_CHLPN (SWALL:Q9Z880) (946 aa) fasta scores: E(): 2.7e-22, 27.81% id in 338 aa. Note that although a translational start site has been assigned this CDS may be a degenerate gene fragment.
YP_219694.1	Similar to many Chlamydia outer membrane proteins including: Chlamydia pneumoniae probable outer membrane protein Pmp14 precursor or cpn0454 or cp0298 SWALL:PM14_CHLPN (SWALL:Q9Z895) (978 aa) fasta scores: E(): 9.5e-179, 48.07% id in 988 aa and to Chlamydia trachomatis probable outer membrane protein PmpH precursor or ct872 SWALL:PMPH_CHLTR (SWALL:O84880) (1016 aa) fasta scores: E(): 8.9e-113, 38.29% id in 1029 aa
YP_219695.1	Similar to Chlamydia trachomatis probable outer membrane protein PmpG precursor or ct871 SWALL:PMPG_CHLTR (SWALL:O84879) (1013 aa) fasta scores: E(): 7.8e-72, 38.95% id in 1068 aa and to Chlamydia pneumoniae probable outer membrane protein Pmp13 precursor or omp14 or cpn0453 or cp0299 SWALL:PM13_CHLPN (SWALL:Q9Z896) (973 aa) fasta scores: E(): 2.6e-63, 37.57% id in 1046 aa
YP_219696.1	Similar to many Chlamydophila outer membrane proteins including: C. abortus Pomp91a SWALL:P71132 (EMBL:U65942) (847 aa) fasta scores: E(): 4.5e-85, 34.81% id in 876 aa, and to Chlamydia pneumoniae probable outer membrane protein pmp11 precursor pmp11 or omp4 or cpn0449 or cp0302 SWALL:PM11_CHLPN (SWALL:O86164) (928 aa) fasta scores: E(): 1.4e-70, 33.08% id in 949 aa
YP_219697.1	Similar to many Chlamydophila outer membrane proteins including: Chlamydia pneumoniae probable outer membrane protein Pmp2 precursor or omp7 or cpn0013 or cp0761 SWALL:PMP2_CHLPN (SWALL:Q9Z3A1) (841 aa) fasta scores: E(): 1e-76, 33.87% id in 865 aa, and to Chlamydophila abortus pomp91a SWALL:P71132 (EMBL:U65942) (847 aa) fasta scores: E(): 2.8e-71, 32.65% id in 882 aa
YP_219698.1	Previously sequenced as:Chlamydophila abortus Pomp91A SWALL:P71132 (EMBL:U65942) (847 aa) fasta scores: E(): 0, 100% id in 847 aa. Also similar to Chlamydia pneumoniae probable outer membrane protein Pmp10 precursor or omp5 or cp0303 SWALL:PM10_CHLPN (SWALL:Q9RB65) (928 aa) fasta scores: E(): 1.2e-116, 41.89% id in 962 aa. Note this CDS contains a homopolymeric run of 10 x G residues which may be important for phase variable expression of its protein product
YP_219699.1	Previously sequenced as: Chlamydophila abortus outer membrane protein SWALL:P71135 (EMBL:U72499) (926 aa) fasta scores: E(): 0, 99.89% id in 926 aa. Also highly similar to Chlamydia pneumoniae probable outer membrane protein Pmp10 precursor or omp5 or cp0303 SWALL:PM10_CHLPN (SWALL:Q9RB65) (928 aa) fasta scores: E(): 9.4e-144, 46.84% id in 952 aa
YP_219700.1	Similar to Chlamydia pneumoniae probable outer membrane protein pmp6 precursor pmp6 or cpn0444 or cp0309 SWALL:PMP6_CHLPN (SWALL:Q9Z899) (1276 aa) fasta scores: E(): 2.8e-57, 30.65% id in 1450aa. Also highly similar to Chlamydophila abortus  outer membrane protein (gene fragment) SWALL:P71134 (EMBL:U72499) (649 aa) fasta scores: E(): 1.7e-204, 99.84% id in 649 aa
YP_219701.1	Similar to Chlamydia pneumoniae ct001 hypothetical protein Cpn0001 or cpj0001 or cp0775 SWALL:Q9Z9G9 (EMBL:AE001585) (93 aa) fasta scores: E(): 8.4e-20, 65.95% id in 94 aa, and to Chlamydia trachomatis hypothetical protein Ct001 ct001 SWALL:O84004 (EMBL:AE001275) (90 aa) fasta scores: E(): 9.8e-12, 50% id in 90 aa
YP_219702.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA; some Mycoplasma proteins contain an N-terminal fusion to an unknown domain
YP_219703.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_219704.1	allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases; reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA
YP_219705.1	Similar in parts to Chlamydia pneumoniae hypothetical protein cpn0443/cp0310/cpj0443 cpn0443 or cp0310 or cpj0443 SWALL:Y443_CHLPN (SWALL:Q9Z8A0) (417 aa) fasta scores: E(): 1.3e-36, 36.36% id in 374 aa
YP_219706.1	Similar to Chlamydia muridarum hypothetical protein Tc0274 SWALL:Y274_CHLMU (SWALL:Q9PL34) (193 aa) fasta scores: E(): 1.1e-10, 29.54% id in 176 aa and to Chlamydia trachomatis hypothetical protein Ct006 ct006 SWALL:Y006_CHLTR (SWALL:O84009) (189 aa) fasta scores: E(): 1.8e-08, 30.05% id in 173 aa
YP_219707.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0441/cp0312/cpj0441 cpn0441 or cp0312 or cpj0441 SWALL:Y441_CHLPN (SWALL:Q9Z8A2) (316 aa) fasta scores: E(): 1.3e-93, 67.82% id in 317 aa, and to Chlamydia muridarum hypothetical protein Tc0275 tc0275 SWALL:Y275_CHLMU (SWALL:Q9PL33) (316 aa) fasta scores: E(): 1.4e-79, 58.67% id in 317 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219708.1	An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids
YP_219709.1	Similar to Chlamydia pneumoniae HTH transcriptional regulator YfgA or cpn1069 or cp0781 SWALL:Q9Z6J0 (EMBL:AE001687) (143 aa) fasta scores: E(): 8.6e-46, 82.51% id in 143 aa, and to Chlamydia trachomatis HTH transcriptional regulator YfgA or ct009 SWALL:O84012 (EMBL:AE001275) (143 aa) fasta scores: E(): 7.3e-40, 73.42% id in 143 aa
YP_219710.1	Weakly similar to Chlamydia pneumoniae hypothetical protein cpn1070 or cpj1070 or cp0780 SWALL:Q9Z6I9 (EMBL:AE001687) (456 aa) fasta scores: E(): 2.4e-11, 27.35% id in 435 aa
YP_219712.1	doubtful CDS with no significant database hits
YP_219713.1	Similar to Chlamydia pneumoniae  outer membrane protein cpn1073/cp0776/cpj1073 precursor cpn1073 or cp0776 or cpj1073 SWALL:OMPZ_CHLPN (SWALL:Q9Z6I6) (274 aa) fasta scores: E(): 4.3e-07, 24.43% id in 221 aa and Chlamydia pneumoniae hypothetical protein cpn1072 or cpj1072 or cp0777 SWALL:Q9Z6I7 (EMBL:AE001687) (289 aa) fasta scores: E(): 9.6e-40, 41.75% id in 273 aa
YP_219714.1	Weakly similar to Chlamydia pneumoniae  outer membrane protein cpn1073/cp0776/cpj1073 precursor cpn1073 or cp0776 or cpj1073 SWALL:OMPZ_CHLPN (SWALL:Q9Z6I6) (274 aa) fasta scores: E(): 1.7e-38, 40.36% id in 270 aa, and to Chlamydia pneumoniae hypothetical protein cpn1072 or cpj1072 or cp0777 SWALL:Q9Z6I7 (EMBL:AE001687) (289 aa) fasta scores: E(): 2.5e-07, 28.17% id in 252 aa
YP_219715.1	Similar to many proteins of undefined function including: Chlamydia pneumoniae ct356 hypothetical protein cpn1057 or cpj1057 or cp0793 SWALL:Q9Z6K2 (EMBL:AE001686) (700 aa) fasta scores: E(): 3.7e-200, 65.23% id in 699 aa, and to Aquifex aeolicus hypothetical protein Aq_2146 aq_2146 SWALL:O67902 (EMBL:AE000775) (692 aa) fasta scores: E(): 9.8e-69, 32.45% id in 684 aa, and to Methanosarcina mazei conserved protein mm0619 SWALL:AAM30315 (EMBL:AE013287) (700 aa) fasta scores: E(): 2e-65, 32.69% id in 682 aa
YP_219716.1	Similar to Chlamydia pneumoniae protein precursor cpn1058 or cp0792 or cpj1058 SWALL:YA58_CHLPN (SWALL:Q9Z6K1) (363 aa) fasta scores: E(): 2.7e-91, 64.24% id in 358 aa, and to Clostridium perfringens hypothetical protein Cpe0268 cpe0268 SWALL:Q8XNR4 (EMBL:AP003186) (248 aa) fasta scores: E(): 8.5, 19.13% id in 230 aa
YP_219717.1	catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin
YP_219718.1	catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate
YP_219719.1	Similar to Chlamydia pneumoniae ct330 hypothetical protein cpn1061 or cp0789 SWALL:Q9Z6J8 (EMBL:AE001686) (85 aa) fasta scores: E(): 1.3e-09, 50% id in 74 aa and Chlamydia pneumoniae ct330 hypothetical protein cpj1061 SWALL:Q9JS71 (EMBL:AP002548) (85 aa) fasta scores: E(): 5.7e-09, 48.64% id in 74 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219720.1	catalyzes the bidirectional exonucleolytic cleavage of DNA
YP_219721.1	bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides
YP_219722.1	Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate
YP_219723.1	Similar to Chlamydia muridarum hypothetical protein Tc0631 SWALL:Q9PK42 (EMBL:AE002331) (102 aa) fasta scores: E(): 2.4e-25, 71.84% id in 103 aa and to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 protein-export membrane protein SecG or b3175 or c3931 or z4537 or ecs4054 SWALL:SECG_ECOLI (SWALL:P33582) (110 aa) fasta scores: E(): 0.0029, 32.85% id in 70 aa
YP_219724.1	cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+)
YP_219725.1	Similar to Chlamydia pneumoniae  OMP protein cpn0020 or cpj0020 SWALL:Q9Z9G1 (EMBL:AE001587) (695 aa) fasta scores: E(): 0, 71.71% id in 693 aa
YP_219726.1	Similar to Chlamydia pneumoniae  OMP protein cpn0021 or cpj0021 or cp0755 SWALL:Q9Z9G0 (EMBL:AE001587) (568 aa) fasta scores: E(): 4.8e-144, 68.01% id in 569 aa and to Chlamydia trachomatis hypothetical protein Ct350 SWALL:O84354 (EMBL:AE001308) (566 aa) fasta scores: E(): 2.8e-115, 56.46% id in 572 aa
YP_219727.1	Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell
YP_219728.1	Similar to many proposed ABC transporter, ATP-binding proteins including: Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 hypothetical YbiT or ecs0897 SWALL:YBIT_ECOLI (SWALL:P75790) (530 aa) fasta scores: E(): 1e-70, 42.91% id in 529 aa and Leptospira interrogans ABC transporter, ATP-binding protein La3684 SWALL:Q8F013 (EMBL:AE011523) (544 aa) fasta scores: E(): 4.9e-71, 44.98% id in 518 aa. Note the alternative translational start site at codon 5
YP_219729.1	site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs
YP_219730.1	member of metallo-beta-lactamase; the purified enzyme from Escherichia coli forms dimeric zinc phosphodiesterase; in Bacillus subtilis this protein is a 3'-tRNA processing endoribonuclease and is essential while in Escherichia coli it is not; associates with two zinc ions
YP_219731.1	Similar to Chlamydophila caviae hypothetical protein cca00318 SWALL:Q823T7 (EMBL:AE016995) (233 aa) fasta scores: E(): 4.9e-35, 53.5% id in 228 aa. Note the high incidence of the residue Serine in the C-terminus of the predicted product of this CDS.
YP_219732.1	Similar to many Prokaryotic and Eukaryotic serine proteases including: Chlamydia pneumoniae ATP-dependent protease Lon or cpn0027 or cp0749 SWALL:LON_CHLPN (SWALL:Q9Z9F4) (819 aa) fasta scores: E(): 0, 91.44% id in 818 aa, Homo sapiens Lon protease homolog, mitochondrial precursor prss15 SWALL:LONM_HUMAN (SWALL:P36776) (959 aa) fasta scores: E(): 4.8e-114, 45.43% id in 843 aa and Bacillus subtilis ATP-dependent protease LonA or loN SWALL:LON1_BACSU (SWALL:P37945) (774 aa) fasta scores: E(): 2.5e-93, 39.43% id in 781 aa
YP_219733.1	Weakly similar in the N-terminal region to several including: to Neisseria meningitidis hypothetical protein Nma0585 SWALL:Q9JW17 (EMBL:AL162753) (225 aa) fasta scores: E(): 0.027, 28.57% id in 161 aa, and to Escherichia coli hypothetical protease YeaZ or b1807 SWALL:YEAZ_ECOLI (SWALL:P76256) (231 aa) fasta scores: E(): 0.12, 28.14% id in 135 aa
YP_219734.1	a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA
YP_219735.1	chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion
YP_219736.1	Similar to over the whole range to Chlamydophila caviae 2-oxoisovalerate dehydrogenase, e1 component, alpha and beta subunit pdha/pdhb or cca00324 SWALL:Q823T1 (EMBL:AE016995) (678 aa) fasta scores: E(): 0, 92.77% id in 678 aa. Also similar in parts to many including Bacillus subtilis 2-oxoisovalerate dehydrogenase beta subunit SWALL:ODBB_BACSU (SWALL:P37941) (327 aa) fasta scores: E(): 1.2e-53, 47.07% id in 325 aa
YP_219737.1	Similar to Chlamydia pneumoniae ct339 hypothetical protein cpj0035 or cp0741 SWALL:Q9JS51 (EMBL:AE002232) (487 aa) fasta scores: E(): 9.4e-81, 49.88% id in 431 aa. Also similar in the C-terminus to several  competence proteins e.g. Chlorobium tepidum ComEC/rec2 family protein ct1367 SWALL:AAM72596 (EMBL:AE012895) (729 aa) fasta scores: E(): 8.7e-05, 24.01% id in 254 aa
YP_219738.1	Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219739.1	Similar to Chlamydia pneumoniae phosphocarrier protein Hpr PtsH or cpn0037 or cp0738 SWALL:PTHP_CHLPN (SWALL:Q9Z9E4) (108 aa) fasta scores: E(): 4.2e-24, 66.66% id in 99 aa, and to Bacillus subtilis phosphocarrier protein Hpr PtsH SWALL:PTHP_BACSU (SWALL:P08877) (87 aa) fasta scores: E(): 3.1e-06, 39.5% id in 81 aa
YP_219740.1	Similar to Mycoplasma genitalium phosphoenolpyruvate-protein phosphotransferase PtsI or mg429 SWALL:PT1_MYCGE (SWALL:P47668) (572 aa) fasta scores: E(): 2.1e-25, 28.47% id in 569 aa and to Streptomyces coelicolor phosphoenolpyruvate-protein phosphotransferase PtsI or sco1391 or sc1a8a.11 SWALL:Q9KZP1 (EMBL:AL939108) (556 aa) fasta scores: E(): 4.4e-37, 29.18% id in 562 aa
YP_219741.1	Similar to many proteins of undefined function including: Chlamydia pneumoniae upf0233 hypothetical protein cpn0039/cp0376/cpj0039 cpn0039 or cp0736 or cpj0039 SWALL:Y039_CHLPN (SWALL:Q9Z9E2) (96 aa) fasta scores: E(): 1e-29, 83.33% id in 96 aa, and to Rhizobium loti hypothetical upf0133 protein Mlr5504 mlr5504 SWALL:YJA4_RHILO (SWALL:Q98BM7) (107 aa) fasta scores: E(): 4.1e-05, 30.33% id in 89 aa
YP_219742.1	catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA
YP_219743.1	Similar to many proteins of undefined function including: Chlamydia pneumoniae conserved hypothetical inner membrane protein YqfF SWALL:Q9Z9D3 (EMBL:AE001590) (705 aa) fasta scores: E(): 2.3e-149, 55.54% id in 695 aa and Thermoanaerobacter tengcongensis predicted membrane-associated HD superfamily hydrolase tte0971 SWALL:Q8RB53 (EMBL:AE013062) (687 aa) fasta scores: E(): 3.1e-38, 28.03% id in 617 aa
YP_219744.1	Similar to Chlamydia pneumoniae hypothetical protein Cpn0049 SWALL:Q9Z9D2 (EMBL:AE001590) (160 aa) fasta scores: E(): 9.8e-05, 30.43% id in 138 aa
YP_219745.1	Note, weakly similar to CAB331
YP_219746.1	Note weakly similar to CAB330
YP_219747.1	transformation of prophobilinogen to hydroxymethylbilane in porphyrin biosynthesis
YP_219748.1	Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents
YP_219749.1	cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity
YP_219750.1	Similar to Chlamydia pneumoniae ct296 hypothetical protein cpn0055 or cpj0055 or cp0720 SWALL:Q9Z9C6 (EMBL:AE001590) (154 aa) fasta scores: E(): 7.6e-39, 62.09% id in 153 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219751.1	Similar to Mycoplasma pirum phosphomannomutase ManB SWALL:MANB_MYCPI (SWALL:P47723) (544 aa) fasta scores: E(): 1e-39, 31.31% id in 546 aa and to Chlamydia pneumoniae phosphomannomutase MrsA or cpn0056 SWALL:Q9Z9C5 (EMBL:AE001591) (598 aa) fasta scores: E(): 2.7e-148, 64.2% id in 595 aa, and to Streptococcus thermophilus phosphoglucomutase PgmA SWALL:Q9K560 (EMBL:AJ243290) (572 aa) fasta scores: E(): 2e-60, 37.2% id in 559 aa
YP_219752.1	Similar to many Prokaryotic and Eukaryotic dismutases including: Chlamydia pneumoniae superoxide dismutase [mn] SodA or cpn0057 or cp0718 SWALL:SODM_CHLPN (SWALL:Q9Z9C4) (207 aa) fasta scores: E(): 2.7e-67, 78.81% id in 203 aa and to Drosophila melanogaster superoxide dismutase [mn], mitochondrial precursor sod2 or cg8905 SWALL:SODM_DROME (SWALL:Q00637) (217 aa) fasta scores: E(): 7e-43, 55% id in 200 aa
YP_219753.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits
YP_219754.1	catalyzes the formation of dUMP from dUTP
YP_219755.1	Similar to many phosphotransferase system proteins including: Chlamydia muridarum PTS system, IIa component tc0564 SWALL:Q9PKA3 (EMBL:AE002324) (165 aa) fasta scores: E(): 2.2e-35, 61.93% id in 155 aa, and to Thermoanaerobacter tengcongensis phosphotransferase system mannitol/fructose-specific iia domain ptsn3 or tte2586 SWALL:Q8R738 (EMBL:AE013199) (151 aa) fasta scores: E(): 5.5e-11, 33.33% id in 141 aa
YP_219756.1	Similar to Chlamydia pneumoniae pts IIa protein with hth DNA-binding domain ptsn_2 or cp0714 SWALL:Q9JS03 (EMBL:AE002230) (225 aa) fasta scores: E(): 1e-66, 75.77% id in 227 aa, and to Escherichia coli, and Shigella flexneri nitrogen regulatory IIa protein PtsN or rpop or b3204 or sf3244 or s3462 SWALL:PTSN_ECOLI (SWALL:P31222) (163 aa) fasta scores: E(): 2.5e-06, 34.92% id in 126 aa
YP_219757.1	Similar to Chlamydia pneumoniae ct289 hypothetical protein cpn0062 or cpj0062 or cp0713 SWALL:Q9Z9B9 (EMBL:AE001591) (461 aa) fasta scores: E(): 4.2e-38, 35.71% id in 490 aa
YP_219758.1	Similar to many including: Chlamydia pneumoniae hypothetical protein cpn0065/cp0709/cpj0065 cpn0065 or cp0709 or cpj0065 SWALL:Y065_CHLPN (SWALL:Q9Z9B6) (576 aa) fasta scores: E(): 1.8e-33, 28.96% id in 587 aa
YP_219759.1	Similar in parts to Chlamydia pneumoniae hypothetical protein cpn0440/cp0313/cpj0440 cpn0440 or cp0313 or cpj0440 SWALL:Y440_CHLPN (SWALL:Q9Z8A3) (212 aa) fasta scores: E(): 2.4e-13, 32.4% id in 179 aa. Note the alternative possible translational start site at codon 6
YP_219760.1	Similar in parts to Chlamydia pneumoniae hypothetical protein cpn0439 cpn0439 or cpj0439 or cp0314 SWALL:Q9Z8A4 (EMBL:AE001627) (175 aa) fasta scores: E(): 2.5e-09, 28.14% id in 167 aa. Note the alternative possible translational start site at codon 5
YP_219761.1	catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs
YP_219762.1	Similar to Bacillus subtilis negative regulator of genetic competence ClpC/MecB SWALL:CLPC_BACSU (SWALL:P37571) (810 aa) fasta scores: E(): 2.7e-125, 51.97% id in 810 aa and to Chlamydia pneumoniae probable ATP-dependent clp protease ATP-binding subunit clpc or cpn0437 or cp0316 SWALL:CLPC_CHLPN (SWALL:Q9Z8A6) (845 aa) fasta scores: E(): 0, 92.43% id in 846 aa
YP_219763.1	Similar to Chlamydia pneumoniae lipoate protein ligase-like protein lpla_1 or cpn0436 or cp0317 SWALL:Q9Z8A7 (EMBL:AE001626) (239 aa) fasta scores: E(): 5.3e-58, 62.82% id in 234 aa and to Bacillus halodurans lipoate protein ligase bh2812 SWALL:Q9K938 (EMBL:AP001516) (276 aa) fasta scores: E(): 4.9e-10, 29.06% id in 203 aa. Contains a iotin/lipoate A/B protein ligase motif
YP_219764.1	Similar to Chlamydia pneumoniae phospholipase D superfamily cpn0435 or cpj0435 or cp0318 SWALL:Q9Z8A8 (EMBL:AE001626) (476 aa) fasta scores: E(): 5.1e-104, 51.68% id in 476 aa> Also similar in the C-terminus to several others e.g. Clostridium perfringens cardiolipin synthetase Cls or ClsD or cpe1430 SWALL:CLS_CLOPE (SWALL:Q9ZNC6) (476 aa) fasta scores: E(): 0.0027, 26.84% id in 190 aa
YP_219765.1	Similar to Chlamydia muridarum hypothetical protein Tc0556 tc0556 SWALL:Q9PKB1 (EMBL:AE002323) (690 aa) fasta scores: E(): 1.5e-154, 56.24% id in 681 aa
YP_219766.1	part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor
YP_219767.1	Similar to Chlamydophila caviae hypothetical protein cca00360 SWALL:Q823P7 (EMBL:AE016995) (97 aa) fasta scores: E(): 1.1e-22, 67.74% id in 93 aa
YP_219768.1	Similar to Chlamydophila caviae hypothetical protein cca00361 SWALL:Q823P6 (EMBL:AE016995) (110 aa) fasta scores: E(): 1.3e-33, 79.8% id in 104 aa, and to Chlamydia pneumoniae hypothetical protein cpn0431 cpn0431 or cpj0431 or cp0322 or cpb0447 SWALL:Q9Z8B2 (EMBL:AE001626) (111 aa) fasta scores: E(): 0.0086, 30.39% id in 102 aa
YP_219769.1	Similar to Haemophilus influenzae Na+-translocating NADH-quinone reductase subunit E, NqrE or hi0170 SWALL:NQRE_HAEIN (SWALL:P71342) (198 aa) fasta scores: E(): 3.3e-31, 48.48% id in 198 aa, and to Pasteurella multocida Na+-translocating NADH-quinone reductase subunit E NqrE or pm1332 SWALL:NQRE_PASMU (SWALL:Q9CLA7) (198 aa) fasta scores: E(): 1.3e-32, 50% id in 198 aa. Note the C-terminal extension of this protein.
YP_219770.1	Part of the NQR complex which catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na(+) ions from the cytoplasm to the periplasm
YP_219771.1	uses the energy from reduction of ubiquinone-1 to ubiquinol to move Na(+) ions from the cytoplasm to the periplasm
YP_219772.1	uses the energy from reduction of ubiquinone-1 to ubiquinol to move Na(+) ions from the cytoplasm to the periplasm
YP_219773.1	Similar to Chlamydia pneumoniae ct276 hypothetical protein cpn0425 or cpj0425 or cp0328 SWALL:Q9Z8B8 (EMBL:AE001625) (195 aa) fasta scores: E(): 1e-45, 72.22% id in 198 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219774.1	binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
YP_219775.1	Similar to Chlamydia trachomatis hypothetical protein Ct274 SWALL:O84276 (EMBL:AE001300) (139 aa) fasta scores: E(): 3.6e-46, 88.63% id in 132 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219776.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0422/cp0331/cpj0422 cpn0422 or cp0331 or cpj0422 SWALL:Y422_CHLPN (SWALL:Q9Z8C1) (181 aa) fasta scores: E(): 5e-52, 75.13% id in 181 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219777.1	Similar to Escherichia coli, and Escherichia coli O157:H7 S-adenosyl-methyltransferase MraW mraw or b0082 or z0092 or ecs0086 SWALL:MRAW_ECOLI (SWALL:P18595) (313 aa) fasta scores: E(): 5.1e-25, 38.48% id in 317 aa and to Rickettsia prowazekii S-adenosyl-methyltransferase MraW or rp569 SWALL:MRAW_RICPR (SWALL:Q9ZCY2) (306 aa) fasta scores: E(): 2.5e-27, 38.63% id in 308 aa
YP_219778.1	Similar to Chlamydia muridarum hypothetical protein Tc0543 SWALL:Q9PKC3 (EMBL:AE002322) (95 aa) fasta scores: E(): 2.3e-23, 64.21% id in 95 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219779.1	Similar to Neisseria meningitidis penicillin-binding protein 2 PenA or Nma2072 or Nmb0413 SWALL:PBP2_NEIMA (SWALL:P11882) (581 aa) fasta scores: E(): 1.1e-11, 28.75% id in 546 aa, and to Buchnera aphidicola peptidoglycan synthetase FtsI or bu222 SWALL:FTSI_BUCAI (SWALL:P57317) (579 aa) fasta scores: E(): 2e-10, 26.57% id in 621 aa
YP_219780.1	involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate
YP_219781.1	Weakly similar to Thermoanaerobacter tengcongensis N-acetylmuramoyl-L-alanine amidase AmiC2 or tte2424 SWALL:Q8R7I3 (EMBL:AE013184) (219 aa) fasta scores: E(): 1.9e-18, 35.74% id in 207 aa and to Bacillus subtilis N-acetylmuramoyl-L-alanine amidase CwlB precursor SWALL:CWLB_BACSU (SWALL:Q02114) (496 aa) fasta scores: E(): 6.8e-16, 34.06% id in 182 aa
YP_219782.1	Similar to many including: Haemophilus influenzae integration host factor alpha-subunit IhfA or HimA or Hi1313 SWALL:IHFA_HAEIN (SWALL:P43723) (96 aa) fasta scores: E(): 1.7e-06, 30.85% id in 94 aa and to Chlamydia pneumoniae probable DNA-binding protein HU Hup or cpn0416 or cp0338 SWALL:DBH_CHLPN (SWALL:Q9Z8C7) (100 aa) fasta scores: E(): 2.7e-36, 98% id in 100 aa
YP_219783.1	Similar to several proteins of undefined function e.g. Chlamydia pneumoniae hypothetical protein Cp0339 SWALL:Q9K294 (EMBL:AE002196) (404 aa) fasta scores: E(): 3.1e-101, 63.33% id in 390 aa and to Chlamydia muridarum hypothetical protein Tc0537 tc0537 SWALL:Q9PKC8 (EMBL:AE002322) (393 aa) fasta scores: E(): 5.8e-89, 56.88% id in 392 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219784.1	catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein
YP_219785.1	Similar to Bacillus subtilis hypothetical ABC transporter ATP-binding protein YfiC SWALL:YFIC_BACSU (SWALL:P54719) (604 aa) fasta scores: E(): 6.9e-46, 29.83% id in 590 aa and to Escherichia coli, and Escherichia coli O157:H7 lipid a export ATP-binding/permease MsbA or b0914 SWALL:MSBA_ECOLI (SWALL:P27299) (582 aa) fasta scores: E(): 1e-42, 28.97% id in 566 aa
YP_219786.2	Similar to Chlamydia trachomatis hypothetical protein Ct263 SWALL:O84265 (EMBL:AE001299) (196 aa) fasta scores: E(): 3.4e-19, 43.21% id in 162 aa. Note the differing N-termini of the other Chlamydia orthologues. An equivalent translational start site is present (complement 427211..427213) but this would lead to an uncommon overlap of 21 bps with the upstream CDS.
YP_219787.1	Similar to Chlamydia trachomatis hypothetical protein Ct262 SWALL:O84264 (EMBL:AE001299) (256 aa) fasta scores: E(): 8.2e-55, 54.72% id in 254 aa, and to Deinococcus radiodurans hypothetical protein Dr1011 SWALL:Q9RVL6 (EMBL:AE001953) (301 aa) fasta scores: E(): 6.5e-26, 35.15% id in 256 aa
YP_219788.1	3'-5' exonuclease of DNA polymerase III
YP_219789.1	Similar to Chlamydia muridarum hypothetical protein Tc0531 SWALL:Q9PKD4 (EMBL:AE002322) (159 aa) fasta scores: E(): 1.1e-50, 75.79% id in 157 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219790.1	Similar to Chlamydia pneumoniae ct102 hypothetical protein cpn0408 or cpj0408 or cp0346 SWALL:Q9Z8D5 (EMBL:AE001624) (159 aa) fasta scores: E(): 9.6e-33, 63.39% id in 153 aa
YP_219791.1	Similar to many proteins of undefined function including: Chlamydia pneumoniae HAD-superfamily hydrolase/phosphatase cpn0407 or cpj0407 or cp0348 SWALL:Q9Z8D6 (EMBL:AE001624) (295 aa) fasta scores: E(): 3.5e-69, 60.55% id in 289 aa and to Staphylococcus epidermidis conserved hypothetical protein se0329 SWALL:Q8CTS0 (EMBL:AE016745) (292 aa) fasta scores: E(): 0.0001, 21.35% id in 295 aa
YP_219792.1	Catalyzes a key regulatory step in fatty acid biosynthesis
YP_219793.1	Note rich in the aa Leu and Ser
YP_219794.1	Similar to Rickettsia prowazekii ribosomal large subunit pseudouridine synthase C RluC or rp258 SWALL:RLUC_RICPR (SWALL:Q9ZDR7) (303 aa) fasta scores: E(): 1.2e-15, 29.82% id in 285 aa and to Chlamydia trachomatis predicted pseudouridine synthetase YceC or ct106 SWALL:O84108 (EMBL:AE001284) (303 aa) fasta scores: E(): 8.4e-71, 61.13% id in 265 aa
YP_219795.1	Weakly similar to Escherichia coli A/G-specific adenine glycosylase MutY or MicA or b2961 SWALL:MUTY_ECOLI (SWALL:P17802) (350 aa) fasta scores: E(): 1.5e-31, 31.09% id in 312 aa. Note all 4 iron-sulfur (4fe-4s) binding sites are conserved between these two orthologues. Also similar to Bacillus halodurans adenine glycosylase bh0931 SWALL:Q9KEC2 (EMBL:AP001510) (372 aa) fasta scores: E(): 2.4e-44, 36.74% id in 362 aa
YP_219796.1	Similar to the N-terminal domain of Haemophilus influenzae MazG protein MazG or hi0460 SWALL:MAZG_HAEIN (SWALL:P44723) (263 aa) fasta scores: E(): 2.6e-07, 31.45% id in 124 aa, and to Chlamydia pneumoniae ct255 hypothetical protein cpn0401 or cpj0401 or cp0354 SWALL:Q9Z8E2 (EMBL:AE001624) (130 aa) fasta scores: E(): 4.5e-21, 50% id in 126 aa
YP_219797.1	Similar to many proteins of undefined function including: Oceanobacillus iheyensis hypothetical conserved protein ob3317 SWALL:Q8ELB4 (EMBL:AP004604) (234 aa) fasta scores: E(): 3.7e-06, 26.33% id in 224 aa, and to Bacillus anthracis CAAX amino terminal protease Ba5243 SWALL:Q81XJ4 (EMBL:AE017040) (227 aa) fasta scores: E(): 1.9e-05, 27.43% id in 226 aa
YP_219798.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct253 hypothetical protein Cpn0399 or cpj0399 or cp0356 SWALL:Q9Z8E4 (EMBL:AE001624) (215 aa) fasta scores: E(): 2.9e-61, 73.27% id in 217 aa. Note the differing N-termini.
YP_219799.1	Note the differing N-termini of the product of this CDS compared to the other Chlamydiaceae.
YP_219800.1	Similar to many proteins including: Myxococcus xanthus protein phosphatase 1 Pph1 SWALL:Q9KIU5 (EMBL:AF223364) (254 aa) fasta scores: E(): 2.7e-26, 36.88% id in 244 aa and to Bacillus anthracis protein phosphatase 2c-family protein ba4001 SWALL:Q81WH5 (EMBL:AE017036) (250 aa) fasta scores: E(): 1.4e-23, 39.07% id in 238 aa
YP_219801.1	Similar to many aminotransferases including: Escherichia coli, Escherichia coli O6, Escherichia coli O157:H7, and Shigella flexneri cysteine desulfurase IscS or b2530 or c3056 or z3797 or ecs3396 or sf2577 or s2749 SWALL:ISCS_ECOLI (SWALL:P39171) (404 aa) fasta scores: E(): 9.4e-25, 30.1% id in 382 aa and to Neisseria meningitidis cysteine desulfurase IscS or nmb1379 SWALL:ISCS_NEIMB (SWALL:Q9JYY0) (404 aa) fasta scores: E(): 8.1e-25, 30.72% id in 384 aa
YP_219802.1	Similar to many proteins of undefined function inluding: Coxiella burnetii hypothetical protein Cbu0452 SWALL:Q83E77 (EMBL:AE016961) (417 aa) fasta scores: E(): 2.2e-12, 21.79% id in 413 aa and to Escherichia coli hypothetical protein YfjD or b2612/b2613 SWALL:YFJD_ECOLI (SWALL:P37908) (428 aa) fasta scores: E(): 3.4e-09, 21.22% id in 410 aa
YP_219803.1	Similar to many including: Yersinia pestis membrane protein Ypo3298 or Y0890 SWALL:Q8ZBU4 (EMBL:AJ414156) (427 aa) fasta scores: E(): 1.9e-21, 24.1% id in 419 aa and Escherichia coli hypothetical protein YfjD or b2612/b2613 SWALL:YFJD_ECOLI (SWALL:P37908) (428 aa) fasta scores: E(): 2.9e-21, 23.98% id in 417 aa
YP_219804.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct038 hypothetical protein cpn0393 or cpj0393 or cp0362 SWALL:Q9Z8F0 (EMBL:AE001623) (115 aa) fasta scores: E(): 8.7e-20, 50.9% id in 110 aa
YP_219805.1	Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis
YP_219806.1	promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration
YP_219807.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae hypothetical protein cpn0389/cp0366/cpj0389 cpn0389 or cp0366 or cpj0389 SWALL:Y389_CHLPN (SWALL:Q9Z8F4) (272 aa) fasta scores: E(): 3.4e-84, 72.18% id in 266 aa
YP_219808.1	Similar to Prokaryotic and Eukaryotic proteins including: Mycobacterium tuberculosis glycogen operon protein GlgX homolog or rv1564c or mt1615 or mtcy48.01 SWALL:GLGX_MYCTU (SWALL:Q10767) (721 aa) fasta scores: E(): 8.4e-72, 40.06% id in 649 aa, Pirellula sp glycogen operon protein Glgx-2 or rb9292 SWALL:CAD76180 (EMBL:BX294149) (733 aa) fasta scores: E(): 8.7e-95, 44.75% id in 601 aa and Arabidopsis thaliana  isoamylase at4g09020 SWALL:Q8RWW6 (EMBL:AY091058) (764 aa) fasta scores: E(): 1.4e-89, 45.66% id in 635 aa
YP_219809.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct043 hypothetical protein cpn0387 or cpj0387 or cp0368 SWALL:Q9Z8F6 (EMBL:AE001623) (166 aa) fasta scores: E(): 9.3e-65, 98.79% id in 166 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219810.1	binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA
YP_219811.1	catalyzes the removal of N-terminal amino acids preferably leucine from various peptides
YP_219812.1	Similar to Bordetella pertussis histone H1 SWALL:Q45370 (EMBL:L37438) (182 aa) fasta scores: E(): 7e-09, 41.13% id in 141 aa and to Xanthomonas axonopodis histone h1 xac3058 SWALL:Q8PI40 (EMBL:AE011948) (155 aa) fasta scores: E(): 2e-08, 52.72% id in 110 aa
YP_219813.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct047 hypothetical protein cpn0383 or cpj0383 or cp0372 SWALL:Q9Z8G0 (EMBL:AE001622) (315 aa) fasta scores: E(): 1.3e-62, 51.93% id in 310 aa
YP_219814.1	Similar to many proteins of undefined function including: Ralstonia solanacearum probable transmembrane protein Rsc1045 or Rs04205 SWALL:Q8Y0J8 (EMBL:AL646062) (243 aa) fasta scores: E(): 1.4e-20, 37.7% id in 244 aa and to Neisseria meningitidis hypothetical protein Nmb1908 SWALL:Q9JXS3 (EMBL:AE002540) (241 aa) fasta scores: E(): 1.3e-16, 30.93% id in 236 aa
YP_219815.1	doubtful CDS which is similar in part to Chlamydophila caviae hypothetical protein cca00415 SWALL:Q823J5 (EMBL:AE016995) (77 aa) fasta scores: E(): 7.1e-09, 58.18% id in 55 aa
YP_219816.1	Weakly similar to several Prokaryotic and Eukaryotic proteins including: Chlamydia trachomatis hypothetical protein Ct049 SWALL:O84052 (EMBL:AE001279) (490 aa) fasta scores: E(): 2.1e-15, 30.13% id in 521 aa, and to Matricaria chamomilla thiol protease SWALL:Q9SP93 (EMBL:AF182079) (501 aa) fasta scores: E(): 1.2, 21.01% id in 395 aa
YP_219817.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia muridarum hypothetical protein Tc0320 tc0320 SWALL:Q9PKZ0 (EMBL:AE002299) (397 aa) fasta scores: E(): 2.2e-08, 29.84% id in 439 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219818.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_219819.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct053 hypothetical protein cpn0379 or cpj0379 or cp0377 SWALL:Q9Z8G4 (EMBL:AE001622) (148 aa) fasta scores: E(): 1.4e-42, 84.45% id in 148 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219820.1	SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide
YP_219821.1	component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA
YP_219822.1	Similar to several proteins of undefined function including: Chlamydia trachomatis hypothetical protein Ct056 SWALL:O84059 (EMBL:AE001280) (243 aa) fasta scores: E(): 3.2e-56, 60.97% id in 246 aa, and to Brucella melitensis hypothetical cytosolic protein Bmei0486 bmei0486 SWALL:Q8YIF8 (EMBL:AE009491) (265 aa) fasta scores: E(): 1.9e-12, 28.06% id in 196 aa
YP_219823.1	catalyzes the conversion of 2C-methyl-D-erythritol 2,4-clclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis; these proteins appear to consist of duplicate domains as compared to Escherichia coli IspG
YP_219824.1	Similar to Chlamydophila caviae hypothetical protein cca00424 SWALL:Q823I6 (EMBL:AE016995) (400 aa) fasta scores: E(): 6.9e-93, 63.01% id in 392 aa and to Thermoanaerobacter tengcongensis O-acetylhomoserine sulfhydrylase SWALL:Q8R872 (EMBL:AE013162) (427 aa) fasta scores: E(): 2.5, 28.19% id in 188 aa
YP_219825.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00425 SWALL:Q823I5 (EMBL:AE016995) (324 aa) fasta scores: E(): 4.5e-78, 63.3% id in 327 aa
YP_219826.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00426 SWALL:Q823I4 (EMBL:AE016995) (379 aa) fasta scores: E(): 7e-44, 52.77% id in 396 aa
YP_219827.1	Similar to Prokaryotic and Eukaryotic ferredoxins including: Raphanus sativus ferredoxin, root r-b2 SWALL:FER2_RAPSA (SWALL:P14937) (98 aa) fasta scores: E(): 0.0044, 37.68% id in 69 aa and hodobacter capsulatus ferredoxin IV FdxC SWALL:FER4_RHOCA (SWALL:P16022) (95 aa) fasta scores: E(): 8.3e-08, 39.13% id in 92 aa
YP_219828.1	Similar to Salmonella typhimurium flagellar biosynthesis protein FlhA or stm1913 SWALL:FLHA_SALTY (SWALL:P40729) (692 aa) fasta scores: E(): 1.9e-31, 25.07% id in 674 aa, and to Caulobacter crescentus flagellar biosynthesis protein FlhA SWALL:FLHA_CAUCR (SWALL:Q03845) (700 aa) fasta scores: E(): 1.3e-32, 27.38% id in 672 aa
YP_219829.1	expressed in response to temperature increase; may be involved in expression of genes involved in the developmental cycle of Chlamydia
YP_219830.1	Similar to Chlamydophila caviae hypothetical protein cca00430 SWALL:Q823I0 (EMBL:AE016995) (92 aa) fasta scores: E(): 4.5e-12, 55.4% id in 74 aa
YP_219831.1	catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr)
YP_219832.1	catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate
YP_219833.1	binds to the ribosome on the universally-conserved alpha-sarcin loop
YP_219834.1	Similar to several Chlamydial proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00434 SWALL:Q823H6 (EMBL:AE016995) (451 aa) fasta scores: E(): 1.6e-99, 58.39% id in 423 aa
YP_219835.1	Similar to Rickettsia typhi ADP/ATP carrier protein tlc1 SWALL:Q83W30 (EMBL:AJ507301) (498 aa) fasta scores: E(): 9.1e-82, 43.97% id in 498 aa and Arabidopsis thaliana chloroplast ADP/ATP carrier protein 1, chloroplast precursor AatP1 or at1g80300 or f5i6.5 SWALL:TLC1_ARATH (SWALL:Q39002) (624 aa) fasta scores: E(): 2.9e-98, 52.81% id in 498 aa
YP_219836.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00436 SWALL:Q823H4 (EMBL:AE016995) (167 aa) fasta scores: E(): 2e-61, 97.6% id in 167 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219837.1	Similar to Bacillus subtilis manganese-binding lipoprotein MntA precursor SWALL:MNTA_BACSU (SWALL:O34385) (306 aa) fasta scores: E(): 1.3e-15, 25.56% id in 309 aa and Pirellula sp manganese ABC transporter substrate binding protein mtsa or rb12440 SWALL:CAD77589 (EMBL:BX294155) (366 aa) fasta scores: E(): 1.5e-16, 29.37% id in 320 aa
YP_219838.1	Similar to Bacillus subtilis manganese transport system ATP-binding protein MntB SWALL:MNTB_BACSU (SWALL:O34338) (250 aa) fasta scores: E(): 2.9e-35, 46.12% id in 245 aa, and to Pirellula sp manganese transport system ATP-binding protein Rb12438 SWALL:CAD77587 (EMBL:BX294155) (280 aa) fasta scores: E(): 6.9e-37, 46.18% id in 249 aa
YP_219839.1	Similar to Bacillus subtilis manganese transport system membrane protein MntC SWALL:MNTC_BACSU (SWALL:O35024) (435 aa) fasta scores: E(): 2.7e-16, 23.52% id in 391 aa and Pirellula sp manganese ABC transporter permease Rb12437 SWALL:CAD77586 (EMBL:BX294155) (444 aa) fasta scores: E(): 2.6e-13, 23.51% id in 421 aa
YP_219840.1	Similar to Bacillus subtilis manganese transport system membrane protein MntC SWALL:MNTC_BACSU (SWALL:O35024) (435 aa) fasta scores: E(): 4.1e-14, 25% id in 268 aa and Fusobacterium nucleatum high-affinity zinc uptake system membrane protein ZnuB fn0670 SWALL:Q8RFM2 (EMBL:AE010578) (305 aa) fasta scores: E(): 5.4e-11, 25.17% id in 290 aa
YP_219841.1	catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate
YP_219842.1	Similar to many predicted metalloproteases including: Borrelia burgdorferi hypothetical zinc metalloprotease Bb0118 SWALL:Y118_BORBU (SWALL:O51145) (437 aa) fasta scores: E(): 1e-13, 27.95% id in 322 aa and Chlamydia trachomatis hypothetical zinc metalloprotease Ct072 SWALL:Y072_CHLTR (SWALL:O84075) (619 aa) fasta scores: E(): 4.2e-150, 59.51% id in 620 aa
YP_219843.1	Similar to Chlamydia pneumoniae Omp cpj0342 or cp0417 SWALL:Q9RB74 (EMBL:AE002203) (325 aa) fasta scores: E(): 3.3e-100, 75.84% id in 327 aa
YP_219844.1	Required for DNA replication; binds preferentially to single-stranded, linear DNA
YP_219845.1	binds the polymerase to DNA and acts as a sliding clamp
YP_219846.1	binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation
YP_219847.1	Similar to Haemophilus influenzae thiamine biosynthesis lipoprotein ApbE precursor hi0172 SWALL:APBE_HAEIN (SWALL:P44550) (346 aa) fasta scores: E(): 3.4e-23, 29.44% id in 326 aa, and to Vibrio cholerae thiamin biosynthesis lipoprotein ApbE vc2289 SWALL:Q9KPS3 (EMBL:AE004300) (367 aa) fasta scores: E(): 1.1e-22, 29.29% id in 314 aa
YP_219848.1	catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate
YP_219849.1	Similar to Chlamydia muridarum hypothetical protein Tc0351 SWALL:Q9PKW0 (EMBL:AE002303) (157 aa) fasta scores: E(): 6.2e-21, 42.85% id in 147 aa
YP_219850.1	Similar to Chlamydia trachomatis CDS idenitfied in the intracellular developmental cycle as a late transcription unit B protein LtuB or ct080 SWALL:LTUB_CHLTR (SWALL:Q46404) (97 aa) fasta scores: E(): 1.1e-10, 51.02% id in 98 aa
YP_219851.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia trachomatis hypothetical protein Ct082 SWALL:O84084 (EMBL:AE001282) (560 aa) fasta scores: E(): 8.1e-45, 44.8% id in 587 aa. Note the high numbers of Serine residues in the C-terminus of the predicted product of this CDS. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219852.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct083 hypothetical protein cpn0330 or cpj0330 or cp0427 SWALL:Q9Z8K8 (EMBL:AE001617) (158 aa) fasta scores: E(): 5.8e-29, 58.86% id in 158 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219853.1	Similar to Chlamydophila caviae hypothetical protein cca00453 SWALL:O34024 (EMBL:U88070) (351 aa) fasta scores: E(): 8.1e-103, 72.72% id in 352 aa
YP_219854.1	Similar to Thermoplasma volcanium hypothetical protein tv0410 or tvg0397730 SWALL:Q97BP5 (EMBL:AP000992) (481 aa) fasta scores: E(): 2.5e-58, 36.12% id in 454 aa, and to Bacillus halodurans hypothetical protein Bh3930 bh3930 SWALL:Q9K605 (EMBL:AP001520) (610 aa) fasta scores: E(): 5.2e-52, 36.85% id in 559 aa
YP_219855.1	required for 70S ribosome assembly
YP_219856.1	amylomaltase; acts to release glucose from maltodextrins
YP_219857.1	Similar to Chlamydophila caviae Scc1 protein or SycE or cca00457 SWALL:O34021 (EMBL:U88070) (146 aa) fasta scores: E(): 1.8e-53, 95.2% id in 146 aa
YP_219858.1	Similar to Pseudomonas aeruginosa (Pseudomonas outer membrane protein) PopN or pa1698 SWALL:O30531 (EMBL:AF010150) (288 aa) fasta scores: E(): 0.26, 23.82% id in 256 aa, and to Chlamydophila caviae CopN protein copn or cca00458 SWALL:O34020 (EMBL:U88070) (397 aa) fasta scores: E(): 2.3e-120, 86.68% id in 398 aa
YP_219859.1	Similar to Yersinia enterocolitica low calcium response locus protein D LcrD SWALL:LCRD_YEREN (SWALL:P21210) (704 aa) fasta scores: E(): 7.2e-118, 46.23% id in 703 aa and to Yersinia pestis, and Yersinia pseudotuberculosis low calcium response locus protein D LcrD or ypcd1.34c or y5044 or y0047 SWALL:LCRD_YERPE (SWALL:P31487) (704 aa) fasta scores: E(): 2.8e-117, 46.23% id in 703 aa
YP_219860.1	Similar to Bacillus subtilis flagellar biosynthetic protein FlhB SWALL:FLHB_BACSU (SWALL:P35538) (360 aa) fasta scores: E(): 1.1e-30, 32.85% id in 350 aa, Chlamydophila caviae hypothetical protein SWALL:O34018 (EMBL:U88070) (360 aa) fasta scores: E(): 5.5e-126, 96.11% id in 360 aa and Yersinia pestis, and Yersinia pseudotuberculosis yop proteins translocation protein U YscU or ypcd1.47 or y5031 or y0034 SWALL:YSCU_YERPE (SWALL:P40300) (354 aa) fasta scores: E(): 3e-32, 32.76% id in 354 aa
YP_219861.1	translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1
YP_219862.1	catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities
YP_219863.1	catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs
YP_219864.1	associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock
YP_219865.1	Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
YP_219866.1	modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination
YP_219867.1	in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins
YP_219868.1	Similar to Prokaryotic and Eukaryotic thioredoxins including: Mycobacterium smegmatis thioredoxin reductase TrxB SWALL:TRXB_MYCSM (SWALL:O30973) (311 aa) fasta scores: E(): 2.4e-54, 50.64% id in 310 aa, and to Arabidopsis thaliana thioredoxin reductase 2 Ntr2 or at2g17420 or f5j6.18 SWALL:TRB2_ARATH (SWALL:Q39242) (383 aa) fasta scores: E(): 4.5e-69, 57.82% id in 313 aa
YP_219869.1	Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids
YP_219870.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct101 hypothetical protein cpn0312 or cpj0312 or cp0446 SWALL:Q9Z8M6 (EMBL:AE001616) (151 aa) fasta scores: E(): 5.1e-26, 48.29% id in 147 aa
YP_219871.1	transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein
YP_219872.1	functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria
YP_219873.1	binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
YP_219874.1	Similar to Chlamydophila caviae hypothetical protein cca00474 SWALL:Q823E5 (EMBL:AE016995) (131 aa) fasta scores: E(): 2.4e-19, 52.89% id in 121 aa
YP_219875.1	Similar to Prokaryotic and Eukaryotic glycogen phosphorylase including: Escherichia coli, and Shigella flexneri glycogen phosphorylase GlgP or GlgY SWALL:PHSG_ECOLI (SWALL:P13031) (815 aa) fasta scores: E(): 1e-155, 47.46% id in 809 aa and Homo sapiens glycogen phosphorylase, brain form PygB SWALL:PHS3_HUMAN (SWALL:P11216) (843 aa) fasta scores: E(): 3.2e-175, 53.62% id in 813 aa
YP_219876.1	Catalyzes the transfer of acetyl from acetyldihydrolipoamide to coenzyme A to form acetyl CoA
YP_219877.1	Similar to the C-terminal beta domains of: Rhizobium meliloti pyruvate dehydrogenase E1 component, beta subunit PdhB SWALL:ODPB_RHIME (SWALL:Q9R9N4) (460 aa) fasta scores: E(): 2.1e-63, 50% id in 326 aa and to Brucella melitensis pyruvate dehydrogenase E1 component, beta subunit bmei0855 SWALL:Q8YHE6 (EMBL:AE009526) (461 aa) fasta scores: E(): 3.8e-64, 50.3% id in 326 aa
YP_219878.1	Similar to the N-terminal alpha subunits of: Rhizobium meliloti pyruvate dehydrogenase E1 component, alpha subunit PdhA SWALL:ODPA_RHIME (SWALL:Q9R9N5) (348 aa) fasta scores: E(): 9e-38, 40.13% id in 304 aa and Rickettsia sibirica pyruvate dehydrogenase E1 component alpha subunit SWALL:EAA25604 (EMBL:AABW01000001) (326 aa) fasta scores: E(): 1.3e-39, 39.81% id in 319 aa
YP_219879.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct244 hypothetical protein cpn0303 or cpj0303 SWALL:Q9Z8N5 (EMBL:AE001615) (346 aa) fasta scores: E(): 1.1e-72, 53.6% id in 347 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219880.1	adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis
YP_219881.1	Similar to Chlamydia trachomatis OmpH-like protein precursor ct242 SWALL:OMPH_CHLTR (SWALL:Q9ZN58) (173 aa) fasta scores: E(): 8.5e-29, 60.33% id in 179 aa
YP_219882.1	Similar to Haemophilus influenzae protective surface antigen d15 precursor SWALL:D153_HAEIN (SWALL:O32629) (793 aa) fasta scores: E(): 5.6e-13, 23.23% id in 835 aa and to Xylella fastidiosa outer membrane antigen xf1046 SWALL:Q9PEI2 (EMBL:AE003941) (784 aa) fasta scores: E(): 5.8e-26, 23.37% id in 830 aa
YP_219883.1	involved in a recombinational process of DNA repair, independent of the recBC complex
YP_219884.1	FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs
YP_219885.1	Similar to Escherichia coli, and Escherichia coli O6 malonyl CoA-acyl carrier protein transacylase FabD or TfpA or b1092 or c1361 SWALL:FABD_ECOLI (SWALL:P25715) (308 aa) fasta scores: E(): 2.3e-32, 39.16% id in 286 aa, and to Bacillus subtilis malonyl CoA-acyl carrier protein transacylase fabD SWALL:FABD_BACSU (SWALL:P71019) (317 aa) fasta scores: E(): 2.8e-38, 42.23% id in 296 aa
YP_219886.1	Catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis
YP_219887.1	carries the fatty acid chain in fatty acid biosynthesis
YP_219888.1	Similar to several proposed regulatory proteins including: Anabaena sp. transcriptional regulator all1035 SWALL:Q8YY17 (EMBL:AP003584) (146 aa) fasta scores: E(): 2.1e-07, 27.82% id in 133 aa, and to Mycobacterium leprae Crp/Fnr-family transcriptional regulator ml2302 SWALL:Q9CB91 (EMBL:AL583925) (224 aa) fasta scores: E(): 9.9e-07, 29.68% id in 128 aa
YP_219889.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00489 SWALL:Q823D3 (EMBL:AE016995) (925 aa) fasta scores: E(): 0, 88.43% id in 925 aa
YP_219890.1	Similar to Chlamydophila caviae inclusion membrane protein C IncC or cca00490 SWALL:O30783 (EMBL:AF017105) (186 aa) fasta scores: E(): 3.5e-45, 71.95% id in 189 aa
YP_219891.1	Similar to Chlamydophila caviae inclusion membrane protein B IncB or cca00491 SWALL:O30782 (EMBL:AF017105) (198 aa) fasta scores: E(): 1.7e-37, 54.95% id in 202 aa
YP_219892.1	Similar to Chlamydophila caviae sodium-dependent transporter NadT SWALL:O30781 (EMBL:AF017105) (386 aa) fasta scores: E(): 2.7e-125, 88.58% id in 368 aa and to Bacillus cereus sodium-dependent leucine transporter bc2170 SWALL:Q81E25 (EMBL:AE017005) (446 aa) fasta scores: E(): 1.8e-32, 30.68% id in 453 aa, and to Bacillus anthracis sodium-dependent transporter,  ba2216 SWALL:Q81R42 (EMBL:AE017031) (446 aa) fasta scores: E(): 3.2e-32, 30.46% id in 453 aa
YP_219893.1	Similar to Streptomyces coelicolor  proton transport protein Sco4498 or scd35.05 SWALL:Q9L0U6 (EMBL:AL939120) (440 aa) fasta scores: E(): 1.6e-23, 29.47% id in 380 aa and to Vibrio vulnificus Na+/H+-dicarboxylate symporter vv21383 SWALL:Q8D4C3 (EMBL:AE016813) (434 aa) fasta scores: E(): 4.4e-23, 27.58% id in 406 aa
YP_219894.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein cca00494 SWALL:Q823D1 (EMBL:AE016995) (388 aa) fasta scores: E(): 2.7e-128, 77.14% id in 385 aa
YP_219895.1	Similar to several Chlamydia proteins of undefined function including:Chlamydophila caviae hypothetical protein cca00495 SWALL:Q823D0 (EMBL:AE016995) (710 aa) fasta scores: E(): 0, 82.53% id in 710 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219896.1	Similar to many  membrane transport proteins including: Bacillus halodurans magnesium transporter bh3224 SWALL:Q9K7Y3 (EMBL:AP001518) (454 aa) fasta scores: E(): 3e-33, 28.47% id in 460 aa, and to Chlamydophila caviae magnesium transporter MgtE or cca00496 SWALL:Q823C9 (EMBL:AE016995) (470 aa) fasta scores: E(): 8e-171, 98.5% id in 469 aa
YP_219897.1	Similar in parts to Chlamydia pneumoniae hypothetical protein cpn0285 or cpj0285 or cp0473 SWALL:Q9Z8Q3 (EMBL:AE001613) (515 aa) fasta scores: E(): 7.8e-45, 30.97% id in 481 aa
YP_219898.1	Similar to many amino acid transport proteins including: Lactococcus lactis glutamate/gamma-aminobutyrate antiporter GadC SWALL:GADC_LACLC (SWALL:O30417) (503 aa) fasta scores: E(): 5.5e-46, 30.67% id in 463 aa and Brucella melitensis glutamate/gamma-aminobutyrate antiporter bmeii0909 SWALL:Q8YBJ1 (EMBL:AE009724) (510 aa) fasta scores: E(): 1.2e-54, 34.34% id in 460 aa
YP_219899.1	catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate
YP_219900.1	Weakly similar in parts to Chlamydia trachomatis hypothetical protein Ct214 SWALL:O84216 (EMBL:AE001295) (547 aa) fasta scores: E(): 0.017, 25.45% id in 444 aa
YP_219901.1	Similar to several membrane transporters including: Bacillus halodurans ABC transporter bh3481 SWALL:Q9K789 (EMBL:AP001518) (338 aa) fasta scores: E(): 2e-33, 36.57% id in 309 aa and Xanthomonas axonopodis ABC transporter ATP-binding protein xac3669 SWALL:AAM38512 (EMBL:AE012017) (335 aa) fasta scores: E(): 3.8e-33, 35.11% id in 319 aa
YP_219902.1	Similar to several membrane transporters including: Yersinia pestis  ABC transport integral membrane subunit Ypo1319 or y2865 SWALL:Q8ZGH8 (EMBL:AJ414147) (223 aa) fasta scores: E(): 2.9e-25, 37.2% id in 215 aa and Ralstonia solanacearum probable transmembrane ABC transporter protein Rsc0921 or Rs04492 SWALL:Q8Y0X2 (EMBL:AL646061) (217 aa) fasta scores: E(): 2.1e-22, 34.86% id in 218 aa
YP_219903.1	Similar to many including: Pasteurella haemolytica outer membrane lipoprotein 3 precursor PlpC SWALL:PLPC_PASHA (SWALL:Q08870) (263 aa) fasta scores: E(): 2.5e-15, 29.47% id in 268 aa and Streptomyces coelicolor  lipoprotein sco1557 or scl11.13C SWALL:Q9L1C5 (EMBL:AL939109) (275 aa) fasta scores: E(): 7.3e-25, 35.95% id in 267 aa
YP_219904.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0277 or cpj0277 or cp0481 or cpb0285 SWALL:Q9Z8R1 (EMBL:AE001613) (169 aa) fasta scores: E(): 0.41, 25.19% id in 131 aa
YP_219905.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct191 hypothetical protein cpn0276 or cpj0276 or cp0483 SWALL:Q9Z8R2 (EMBL:AE001612) (115 aa) fasta scores: E(): 5.2e-22, 56.89% id in 116 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219906.1	negatively supercoils closed circular double-stranded DNA
YP_219907.1	negatively supercoils closed circular double-stranded DNA
YP_219908.1	catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP)
YP_219909.1	catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA
YP_219910.1	Weakly similar to Homo sapiens lysophospholipase II Dj570f3.6 dj570f3.6 SWALL:Q9UGE0 (EMBL:AL050332) (231 aa) fasta scores: E(): 0.041, 26.96% id in 204 aa
YP_219911.1	Weakly similar to many e.g. Clostridium perfringens hypothetical protein Cpe2200 SWALL:Q8XIC1 (EMBL:AP003193) (350 aa) fasta scores: E(): 1.6e-13, 32.35% id in 204 aa
YP_219912.1	Similar to Brevibacillus borstelensis thermostable dipeptidase Bdp SWALL:Q9KH70 (EMBL:AF268476) (307 aa) fasta scores: E(): 6.3e-11, 26.8% id in 332 aa
YP_219913.1	Similar to Chlamydophila caviae hypothetical protein cca00513 SWALL:Q823B2 (EMBL:AE016995) (373 aa) fasta scores: E(): 1e-39, 51.05% id in 380 aa
YP_219914.1	Similar to Chlamydophila caviae hypothetical protein cca00514 SWALL:Q823B1 (EMBL:AE016995) (379 aa) fasta scores: E(): 1.4e-70, 58.31% id in 379 aa and to Chlamydia pneumoniae hypothetical protein cpb0274 SWALL:Q7VQ56 (EMBL:AE017157) (260 aa) fasta scores: E(): 4.6e-11, 28.27% id in 237 aa
YP_219915.1	Weakly similar to Streptomyces coelicolor hypothetical protein Sco5140 or scp8.03 SWALL:Q9FBL8 (EMBL:AL939122) (252 aa) fasta scores: E(): 1.8e-11, 33.82% id in 204 aa
YP_219916.1	UbiA prenyltransferase catalyzes the transfer of a prenyl group to various acceptors with hydrophobic ring structures in the biosynthesis of respiratory quinones, hemes, chlorophylls, vitamin E, and shikonin
YP_219917.1	Weakly similar to the C-terminus of Saccharomyces cerevisiae phenylacrylic acid decarboxylase pad1 or pof1 or ydr538W SWALL:PAD1_YEAST (SWALL:P33751) (242 aa) fasta scores: E(): 5.8e-24, 38.09% id in 189 aa. Also similar to several others for which function has to be fully defined e.g. Bacillus firmus probable aromatic acid decarboxylase SWALL:PAAD_BACFI (SWALL:P94300) (200 aa) fasta scores: E(): 2.3e-27, 44.89% id in 196 aa
YP_219918.1	Similar to many proteins of undefined function including: Bacillus cereus hypothetical membrane spanning protein Bc4280 SWALL:Q812T4 (EMBL:AE017011) (292 aa) fasta scores: E(): 7.2e-35, 39.56% id in 278 aa and Listeria monocytogenes, Listeria innocua hypothetical protein Lmo1385 or lin1422 SWALL:Q92BX0 (EMBL:AL591978) (308 aa) fasta scores: E(): 5.7e-28, 37.24% id in 290 aa
YP_219919.1	catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate
YP_219920.1	Similar to Rhizobium loti hypothetical protein Mlr0047 SWALL:Q98NP4 (EMBL:AP002994) (271 aa) fasta scores: E(): 4.8e-17, 35.15% id in 219 aa and to Xylella fastidiosa hypothetical protein Xf0569 xf0569 SWALL:Q9PFT8 (EMBL:AE003903) (312 aa) fasta scores: E(): 8.4e-17, 34.34% id in 230 aa
YP_219921.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae protein translocase subunit seca_1 or cpn0260 SWALL:Q9Z8S8 (EMBL:AE001611) (166 aa) fasta scores: E(): 1.4e-30, 56.62% id in 166 aa
YP_219922.1	Similar to several Chlamydia proteins of undefined function including:Chlamydia muridarum hypothetical protein Tc0419 tc0419 SWALL:Q9PKP6 (EMBL:AE002308) (280 aa) fasta scores: E(): 2.3e-36, 41.25% id in 286 aa
YP_219923.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia trachomatis hypothetical protein Ct143 SWALL:O84145 (EMBL:AE001287) (280 aa) fasta scores: E(): 1.9e-39, 45.07% id in 264 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219924.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct144 hypothetical protein_3 cpn0256 or cpj0256 or cp0505 SWALL:Q9Z8T0 (EMBL:AE001611) (289 aa) fasta scores: E(): 2e-38, 38.88% id in 288 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219925.1	Similar to Clostridium acetobutylicum predicted Fe-S oxidoreductase Cac1813 SWALL:Q97I40 (EMBL:AE007690) (445 aa) fasta scores: E(): 3.8e-58, 38.03% id in 447 aa and Salmonella typhi hypothetical protein YliG or sty0891 or t2037 SWALL:Q8Z861 (EMBL:AL627268) (441 aa) fasta scores: E(): 2.7e-50, 38.24% id in 455 aa. Note the differing N-termini when compared to other Chlamyidaceae orthologues.
YP_219926.1	in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif
YP_219927.1	Similar to several including: Chlamydia pneumoniae ct151 hypothetical protein Cpn0249 SWALL:Q9Z8T5 (EMBL:AE001610) (503 aa) fasta scores: E(): 8.1e-129, 65.4% id in 503 aa and Haemophilus influenzae lipoprotein releasing system transmembrane protein LolC or hi1548 SWALL:LOLE_HAEIN (SWALL:P44250) (416 aa) fasta scores: E(): 4.8e-08, 24.1% id in 336 aa
YP_219928.1	Similar to Escherichia coli lipoprotein releasing system ATP-binding protein LolD or b1117 SWALL:LOLD_ECOLI (SWALL:P75957) (233 aa) fasta scores: E(): 2e-29, 46.63% id in 223 aa, and to Haemophilus influenzae lipoprotein releasing system ATP-binding protein LolD or hi1549 SWALL:LOLD_HAEIN (SWALL:P45247) (227 aa) fasta scores: E(): 1.8e-30, 46.18% id in 223 aa
YP_219929.1	in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit
YP_219930.1	forms a direct contact with the tRNA during translation
YP_219931.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae polysaccharide hydrolase-invasin repeat family protein YdhO or cpn0245 or cp0517 SWALL:Q9Z8T9 (EMBL:AE001610) (285 aa) fasta scores: E(): 2.1e-48, 44.94% id in 287 aa
YP_219932.1	essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP
YP_219933.1	Similar to Chlamydophila caviae hypothetical protein cca00536 SWALL:Q822Z0 (EMBL:AE016996) (374 aa) fasta scores: E(): 6.9e-58, 48.79% id in 373 aa and to Chlamydia pneumoniae hypothetical protein Cpj0241 cpj0241 SWALL:Q9JSH3 (EMBL:AP002545) (384 aa) fasta scores: E(): 0.0044, 21.6% id in 250 aa
YP_219934.1	Similar to Chlamydophila caviae hypothetical protein cca00537 SWALL:Q822Y9 (EMBL:AE016996) (140 aa) fasta scores: E(): 3.5e-32, 57.14% id in 140 aa, and to Chlamydia pneumoniae hypothetical protein cpn0242 cpn0242 or cpj0242 or cp0520 or cpb0248 SWALL:Q9Z8U2 (EMBL:AE001610) (144 aa) fasta scores: E(): 0.033, 25.35% id in 142 aa
YP_219935.1	Similar to Chlamydophila caviae hypothetical protein cca00538 SWALL:Q822Y8 (EMBL:AE016996) (373 aa) fasta scores: E(): 4e-61, 48.94% id in 380 aa
YP_219936.1	catalyzes the formation of 6-phospho-D-gluconate from 6-phospho-D-glucono-1,5-lactone
YP_219937.1	catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate
YP_219938.1	Similar to Bacillus subtilis oligopeptide-binding protein OppA or Spo0ka or Bsu11430 SWALL:OPPA_BACSU (SWALL:P24141) (545 aa) fasta scores: E(): 1.3e-42, 29.72% id in 508 aa and Chlamydia trachomatis oligopeptide binding protein Oppa_3 or ct198 SWALL:O84201 (EMBL:AE001293) (518 aa) fasta scores: E(): 2.6e-94, 51.58% id in 537 aa. Note the large overpal with CAB527 and the alternative possible translational start site at codon 19
YP_219939.1	in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity
YP_219940.1	Similar to many membrane transport proteins including: Pseudomonas aeruginosa probable permease of ABC transporter Pa0313 SWALL:Q9I6H8 (EMBL:AE004469) (230 aa) fasta scores: E(): 4.8e-25, 35.64% id in 202 aa, and to Escherichia coli, Escherichia coli O6, and Shigella flexneri hypothetical amino-acid ABC transporter permease yecs yecs or b1918 or c2332 or sf1961 or s2057 SWALL:YECS_ECOLI (SWALL:P76315) (222 aa) fasta scores: E(): 6.3e-23, 36.94% id in 203 aa
YP_219941.1	Similar to Corynebacterium glutamicum ABC-type transporter, ATPase component Cgl1222 SWALL:BAB98615 (EMBL:AP005277) (243 aa) fasta scores: E(): 4e-16, 37.31% id in 201 aa and Clostridium acetobutylicum amino acid ABC-type transporter, ATPase component Cac3327 SWALL:Q97DZ3 (EMBL:AE007829) (247 aa) fasta scores: E(): 4.6e-16, 38.63% id in 220 aa
YP_219942.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0190/cp0577/cpj0190 cpn0190 or cp0577 or cpj0190 SWALL:Y190_CHLPN (SWALL:Q9Z8Z4) (452 aa) fasta scores: E(): 4.6e-56, 39.01% id in 446 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219943.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae hypothetical protein Cp0578 SWALL:Q9K243 (EMBL:AE002216) (1142 aa) fasta scores: E(): 0, 62.25% id in 1134 aa
YP_219944.1	Similar to several Chlamydia proteins of undefined function including: Chlamydia pneumoniae ct132 hypothetical protein Cpn0188 SWALL:Q9Z8Z6 (EMBL:AE001605) (430 aa) fasta scores: E(): 4.4e-118, 66.97% id in 430 aa. Note contains a protein motif similar to the Ribonuclease BN-like family of proteins.
YP_219945.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae strain GpiC inclusion membrane localised protein Cca00549 SWALL:Q46211 (EMBL:L35036) (270 aa) fasta scores: E(): 3.9e-89, 77.86% id in 271 aa. Contains an N-terminal hydrophobic domain
YP_219946.1	Similar to Chlamydophila caviae inclusion membrane localised protein IncA or cca00550 SWALL:Q46210 (EMBL:L35036) (355 aa) fasta scores: E(): 2e-48, 46.72% id in 351 aa
YP_219947.1	catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate
YP_219948.1	Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA
YP_219949.2	composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_219950.1	an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism
YP_219951.1	Similar to Chlamydophila caviae hypothetical protein cca00557 SWALL:Q822X1 (EMBL:AE016996) (328 aa) fasta scores: E(): 8.9e-41, 44% id in 325 aa
YP_219952.1	Weakly similar in parts to Arabidopsis thaliana bzip transcription factor at2g13150 SWALL:Q9SL54 (EMBL:AC006194) (262 aa) fasta scores: E(): 4.6, 28.48% id in 172 aa
YP_219954.1	Similar to regions within the Chlamydia muridarum MAC/perforin family protein tc0431 SWALL:Q9PKN4 (EMBL:AE002310) (809 aa) fasta scores: E(): 2.7e-24, 46.07% id in 191 aa. Note the high number of Val residues
YP_219955.1	Very low sequence similarity in parts to Chlamydophila caviae hypothetical protein CCA00634 SWALL:Q822P5 (EMBL:AE016996) (416 aa) fasta scores: E(): 4.4e-08, 28.06% id in 253 aa, and to Chlamydia pneumoniae hypothetical protein CPN0355 SWALL:Q9Z8I8 (EMBL:AE001619) (433 aa) fasta scores: E(): 0.00062, 25.61% id in 246 aa
YP_219957.1	Similar to Chlamydophila caviae hypothetical protein CCA00575 SWALL:Q822V4 (EMBL:AE016996) (294 aa) fasta scores: E(): 8e-75, 63.17% id in 277 aa, and to Chlamydia pneumoniae hypothetical protein CPN0177 or CPJ0177 or CP0592 SWALL:Q9Z907 (EMBL:AE001604) (284 aa) fasta scores: E(): 1.3e-42, 44.07% id in 270 aa
YP_219958.1	Similar to Chlamydophila caviae hypothetical protein CCA00576 SWALL:Q822V3 (EMBL:AE016996) (170 aa) fasta scores: E(): 1e-28, 63.75% id in 149 aa, and to Chlamydia pneumoniae hypothetical protein CPN0174 or CPJ0174 SWALL:Q9Z910 (EMBL:AE001604) (156 aa) fasta scores: E(): 4.2e-13, 39.04% id in 146 aa
YP_219959.1	Similar to Chlamydophila caviae hypothetical protein CCA00579 SWALL:Q822V0 (EMBL:AE016996) (148 aa) fasta scores: E(): 4e-11, 40.6% id in 133 aa, and to Chlamydia pneumoniae hypothetical protein CPJ0223 SWALL:Q9JSH5 (EMBL:AP002545) (126 aa) fasta scores: E(): 4.3e-08, 39.51% id in 124 aa
YP_219960.1	Similar to Staphylococcus aureus hypothetical protein SAV1432 or SA1265 or MW1321 SWALL:Q99U56 (EMBL:AP003362) (234 aa) fasta scores: E(): 9e-13, 28.38% id in 229 aa, and to Bacillus subtilis hypothetical protein YpdP or BSU21980 SWALL:YPDP_BACSU (SWALL:P54163) (229 aa) fasta scores: E(): 6.2e-10, 27.52% id in 218 aa
YP_219961.1	Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). After this exchange, a cyclopentendiol moiety is attached to the 7-aminomethyl group of 7-deazaguanine, resulting in the hypermodified nucleoside queuosine (Q) (7-(((4, 5-cis-dihydroxy-2-cyclopenten-1-yl)amino)methyl)-7- deazaguanosine)
YP_219962.1	Similar to Chlamydophila caviae hypothetical protein CCA00582 SWALL:Q822U7 (EMBL:AE016996) (148 aa) fasta scores: E(): 7.1e-45, 72.97% id in 148 aa, and to Chlamydia pneumoniae hypothetical protein CPN0221 or CPJ0221 or CP0544 SWALL:Q9Z8W3 (EMBL:AE001608) (136 aa) fasta scores: E(): 3.1e-12, 39.09% id in 110 aa
YP_219963.1	Similar to Chlamydophila caviae hypothetical protein CCA00583 SWALL:Q822U6 (EMBL:AE016996) (155 aa) fasta scores: E(): 1.7e-36, 59.74% id in 154 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein CPB0228 SWALL:AAP98161 (EMBL:AE017157) (126 aa) fasta scores: E(): 8.2e-12, 39.85% id in 133 aa
YP_219964.1	Similar to Bacillus subtilis disulfide bond formation protein C BdbC or Bsu33470 SWALL:BDBC_BACSU (SWALL:O32217) (138 aa) fasta scores: E(): 3.1e-14, 40.79% id in 125 aa and to Coxiella burnetii probable disulfide formation protein Cbu0888 SWALL:BDBC_COXBU (SWALL:Q83D55) (147 aa) fasta scores: E(): 1.3e-20, 48.12% id in 133 aa
YP_219965.1	Similar to Coxiella burnetii hypothetical protein Cbu0889 SWALL:Q83D54 (EMBL:AE016962) (218 aa) fasta scores: E(): 1.2e-10, 33.18% id in 220 aa and to Vibrio parahaemolyticus  membrane protein Vpa0994 SWALL:Q87HH1 (EMBL:AP005087) (262 aa) fasta scores: E(): 8.1e-05, 25.98% id in 204 aa
YP_219966.1	Similar to several Chlamydia proteins of undefined function including: Chlamydophila caviae hypothetical protein Cca00590 SWALL:Q822T9 (EMBL:AE016996) (408 aa) fasta scores: E(): 3.2e-146, 84.31% id in 408 aa
YP_219967.1	Similar to Chlamydophila caviae hypothetical protein CCA00591 SWALL:Q822T8 (EMBL:AE016996) (235 aa) fasta scores: E(): 3.4e-53, 64.25% id in 235 aa, and to Chlamydia pneumoniae CT179 hypothetical protein CPN0230 or CPJ0230 SWALL:Q9Z8V4 (EMBL:AE001609) (226 aa) fasta scores: E(): 2.7e-26, 38.46% id in 221 aa
YP_219968.1	Similar to many including: Bacillus anthracis ABC transporter, ATP-binding protein Ba0383 SWALL:Q81Z89 (EMBL:AE017025) (249 aa) fasta scores: E(): 6.9e-21, 36.63% id in 202 aa, and to Streptomyces avermitilis  ABC transporter ATP-binding protein sav1340 SWALL:Q82NG3 (EMBL:AP005026) (275 aa) fasta scores: E(): 2.3e-20, 36.98% id in 219 aa
YP_219969.1	Similar to Chlamydophila caviae hypothetical protein Cca00595 SWALL:Q822T4 (EMBL:AE016996) (229 aa) fasta scores: E(): 1.1e-81, 89.56% id in 230 aa
YP_219970.1	CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS
YP_219971.1	CTP synthase; CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer
YP_219972.1	similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function
YP_219973.1	Similar to Bacillus subtilis oligopeptide-binding protein precursor OppA or spo0ka or bsu11430 SWALL:OPPA_BACSU (SWALL:P24141) (545 aa) fasta scores: E(): 1.3e-07, 26.23% id in 446 aa, and to Chlamydophila caviae peptide ABC transporter, periplasmic binding protein cca00599 SWALL:Q822T0 (EMBL:AE016996) (445 aa) fasta scores: E(): 9.6e-152, 81.16% id in 446 aa, and to Fusobacterium nucleatum subsp. vincentii ATCC 49256 dipeptide-binding protein fnv1219 SWALL:EAA24064 (EMBL:AABF01000057) (474 aa) fasta scores: E(): 2e-12, 26.73% id in 389 aa
YP_219974.1	Similar to Bacillus subtilis dipeptide-binding protein DppE precursor or DcIAE or bsu12960 SWALL:DPPE_BACSU (SWALL:P26906) (543 aa) fasta scores: E(): 7.3e-37, 26.25% id in 518 aa, and to Chlamydophila caviae peptide ABC transporter, periplasmic binding protein,  cca00600 SWALL:Q822S9 (EMBL:AE016996) (535 aa) fasta scores: E(): 5.1e-170, 79.77% id in 534 aa, and to Rhizobium meliloti oligopeptide ABC transporter OppA or rb0861 or smb21196 SWALL:Q9AKR0 (EMBL:AJ296269) (532 aa) fasta scores: E(): 6.2e-37, 28.98% id in 514 aa. Note this CDS is also similar to the downstream CDS CAB574 51 % identity (51.357% ungapped) in 523 aa overlap
YP_219975.1	Similar to Bacillus subtilis oligopeptide-binding protein OppA precursor or spo0ka or bsu11430 SWALL:OPPA_BACSU (SWALL:P24141) (545 aa) fasta scores: E(): 4.8e-37, 25.88% id in 537 aa, and to Chlamydophila caviae peptide ABC transporter, periplasmic binding protein OppA or cca00601 SWALL:Q822S8 (EMBL:AE016996) (545 aa) fasta scores: E(): 5.6e-170, 80.18% id in 530 aa, and to Thermoanaerobacter tengcongensis ABC-type dipeptide/oligopeptide/nickel transport systems, periplasmic components OppA6 or tte0611 SWALL:Q8RC37 (EMBL:AE013030) (547 aa) fasta scores: E(): 3.6e-37, 28.99% id in 545 aa. Note this CDS is also similar to the upstream CDS CAB573 51 % identity (51.357% ungapped) in 523 aa overlap
YP_219976.1	Similar to Bacillus subtilis oligopeptide transport system permease OppB or Spo0kb or bsu11440 SWALL:OPPB_BACSU (SWALL:P24138) (311 aa) fasta scores: E(): 7.6e-49, 43.64% id in 307 aa, and to Chlamydophila caviae peptide ABC transporter, permease cca00602 SWALL:Q822S7 (EMBL:AE016996) (327 aa) fasta scores: E(): 3.9e-116, 94.42% id in 323 aa, and to Bacillus anthracis oligopeptide ABC transporter, permease ba0185 SWALL:Q81VL2 (EMBL:AE017024) (307 aa) fasta scores: E(): 1.5e-49, 43.93% id in 305 aa
YP_219977.1	Similar to Bacillus subtilis oligopeptide transport system permease OppC or spo0kc or bsu11450 SWALL:OPPC_BACSU (SWALL:P24139) (305 aa) fasta scores: E(): 2.8e-39, 39.03% id in 269 aa, and to Chlamydophila caviae peptide ABC transporter, permease OppC_1 or cca00603 SWALL:Q822S6 (EMBL:AE016996) (302 aa) fasta scores: E(): 1.1e-103, 93.7% id in 286 aa, and to Thermoanaerobacter tengcongensis ABC-type dipeptide/oligopeptide/nickel transport systems, permease components DppC4 or tte0613 SWALL:Q8RC35 (EMBL:AE013030) (305 aa) fasta scores: E(): 1.3e-40, 41.44% id in 263 aa
YP_219978.1	Similar to Bacillus thuringiensis oligopeptide transporter OppD SWALL:Q9F5U3 (EMBL:AF305387) (347 aa) fasta scores: E(): 6.3e-36, 41.53% id in 260 aa, and to Chlamydophila caviae peptide ABC transporter, ATP-binding protein OppD or cca00604 SWALL:Q822S5 (EMBL:AE016996) (288 aa) fasta scores: E(): 5e-93, 90.62% id in 288 aa, and to Staphylococcus aureus oligopeptide transport ATP-binding protein OppF or mw0181 SWALL:Q8NYL2 (EMBL:AP004822) (530 aa) fasta scores: E(): 2.6e-38, 42.53% id in 268 aa
YP_219979.1	Similar to Lactobacillus delbrueckii ATP-binding protein oligopeptide transporter OppF SWALL:Q8VPJ1 (EMBL:AY040221) (318 aa) fasta scores: E(): 7.9e-26, 35.04% id in 234 aa, and to Chlamydophila caviae peptide ABC transporter, ATP-binding protein cca00605 SWALL:Q822S4 (EMBL:AE016996) (261 aa) fasta scores: E(): 4.9e-85, 90.03% id in 261 aa, and to Agrobacterium tumefaciens ABC transporter, nucleotide binding/ATPase atu3437 or agr_l_2779 SWALL:Q8UAD7 (EMBL:AE009274) (311 aa) fasta scores: E(): 2.2e-28, 38.86% id in 229 aa
YP_219980.1	Similar to Chlamydophila caviae hypothetical protein cca00606 SWALL:Q822S3 (EMBL:AE016996) (251 aa) fasta scores: E(): 4e-91, 95.21% id in 251 aa, and to Chlamydia pneumoniae hypothetical protein cpn0206/cp0561/cpj0206 SWALL:Y206_CHLPN (SWALL:Q9Z8X8) (251 aa) fasta scores: E(): 2.3e-78, 82.47% id in 251 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein cpb0210 SWALL:AAP98143 (EMBL:AE017157) (251 aa) fasta scores: E(): 2.3e-78, 82.47% id in 251 aa
YP_219981.1	Similar to Bacillus subtilis YflS protein SWALL:O34726 (EMBL:Z99108) (478 aa) fasta scores: E(): 1e-99, 52.25% id in 465 aa, and to Chlamydophila caviae sodium:sulfate symporter family protein cca00607 SWALL:Q822S2 (EMBL:AE016996) (470 aa) fasta scores: E(): 1.2e-175, 94.24% id in 469 aa
YP_219982.1	catalyzes the formation of fructose 1,6-bisphosphate from fructose 6-phosphate and diphosphate
YP_219983.1	Similar to Chlamydophila caviae dienelactone hydrolase cca00609 SWALL:Q822S0 (EMBL:AE016996) (270 aa) fasta scores: E(): 3.1e-87, 78.14% id in 270 aa, and to Chlamydia pneumoniae predicted acyltransferase cpn0161 or cpj0161 or cp0610 SWALL:Q9Z923 (EMBL:AE001603) (275 aa) fasta scores: E(): 1.5e-43, 47.72% id in 264 aa, and to Chlamydophila pneumoniae TW-183 cinnamoyl ester hydrolase CinI or cpb0162 SWALL:AAP98095 (EMBL:AE017157) (275 aa) fasta scores: E(): 1.5e-43, 47.72% id in 264 aa
YP_219984.1	catalyzes the formation of fructose 1,6-bisphosphate from fructose 6-phosphate and diphosphate
YP_219985.1	catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A
YP_219986.1	leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase
YP_219987.1	Similar to Chlamydophila caviae hypothetical protein cca00614 SWALL:Q822R5 (EMBL:AE016996) (315 aa) fasta scores: E(): 7.3e-104, 81.02% id in 311 aa, and to Chlamydia pneumoniae ct149 hypothetical protein cpn0152 SWALL:Q9Z931 (EMBL:AE001602) (316 aa) fasta scores: E(): 7e-67, 52.88% id in 312 aa
YP_219988.1	Similar to Sphingobium chlorophenolicum pentachlorophenol 4-monooxygenase PcpB SWALL:PCPB_SPHCR (SWALL:P42535) (537 aa) fasta scores: E(): 1.8e-08, 22.07% id in 453 aa, and to Chlamydophila caviae hypothetical protein cca00615 SWALL:Q822R4 (EMBL:AE016996) (506 aa) fasta scores: E(): 2.1e-191, 90.9% id in 506 aa
YP_219989.1	Similar to Chlamydophila caviae hypothetical protein cca00616 SWALL:Q822R3 (EMBL:AE016996) (1458 aa) fasta scores: E(): 0, 60.35% id in 1468 aa, and to Chlamydia trachomatis hypothetical protein Ct147 SWALL:O84149 (EMBL:AE001288) (1449 aa) fasta scores: E(): 5.3e-40, 24.63% id in 1498 aa, and to Chlamydia pneumoniae ct147 hypothetical protein cpj0150 SWALL:Q9JSI7 (EMBL:AP002545) (1537 aa) fasta scores: E(): 1.8e-37, 27.09% id in 1480 aa
YP_219990.1	this protein catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction; essential for DNA replication and repair of damaged DNA; similar to ligase LigB
YP_219991.1	Similar to Chlamydia trachomatis serine/threonine protein kinase ct145 SWALL:O84147 (EMBL:AE001288) (614 aa) fasta scores: E(): 6e-141, 61.06% id in 619 aa, and to Chlamydophila caviae protein kinase,  cca00618 SWALL:Q822R1 (EMBL:AE016996) (618 aa) fasta scores: E(): 6.4e-208, 84.62% id in 618 aa
YP_219992.1	Similar to Chlamydophila caviae conserved domain protein cca00619 SWALL:Q822R0 (EMBL:AE016996) (121 aa) fasta scores: E(): 4.8e-34, 81.25% id in 112 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein cpb0148 SWALL:AAP98081 (EMBL:AE017157) (149 aa) fasta scores: E(): 3.3e-09, 39.78% id in 93 aa. Note the differing C-termini.
YP_219993.1	Very limited similarity to Fusobacterium nucleatum transcriptional regulator, MarR family fn1232 SWALL:Q8RE85 (EMBL:AE010629) (113 aa) fasta scores: E(): 4.6, 23.15% id in 95 aa
YP_219994.1	Similar to Chlamydophila caviae conserved domain protein cca00621 SWALL:Q822Q8 (EMBL:AE016996) (108 aa) fasta scores: E(): 2.2e-24, 66.03% id in 106 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein cpb0147 SWALL:AAP98080 (EMBL:AE017157) (161 aa) fasta scores: E(): 1.4e-05, 35.78% id in 95 aa, and to Chlamydia pneumoniae hypothetical protein cpn0146 or cpj0146 or cp0627 SWALL:Q9Z937 (EMBL:AE001601) (161 aa) fasta scores: E(): 1.4e-05, 35.78% id in 95 aa
YP_219995.1	Similar to Chlamydophila caviae hypothetical protein cca00622 SWALL:Q822Q7 (EMBL:AE016996) (143 aa) fasta scores: E(): 6e-15, 45.11% id in 133 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219996.1	Similar to Chlamydophila caviae hypothetical protein cca00623 SWALL:Q822Q6 (EMBL:AE016996) (502 aa) fasta scores: E(): 7.8e-165, 80.43% id in 501 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein cpb0146 SWALL:AAP98079 (EMBL:AE017157) (522 aa) fasta scores: E(): 1.2e-111, 58.05% id in 472 aa, and to Chlamydia pneumoniae hypothetical protein Cp0628 SWALL:Q9K227 (EMBL:AE002220) (522 aa) fasta scores: E(): 1.2e-111, 58.05% id in 472 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_219997.1	Similar to Chlamydia pneumoniae probable outer membrane protein Pmp10 precursor or omp5 or cp0303 SWALL:PM10_CHLPN (SWALL:Q9RB65) (928 aa) fasta scores: E(): 2.8e-116, 42.07% id in 953 aa, and to Chlamydia psittaci Pomp90B precursor SWALL:P77792 (EMBL:U65943) (839 aa) fasta scores: E(): 0, 100% id in 839 aa. Note this CDS contains a homopolymeric run of 15 x G residues which may be important for phase variable expression of its protein product
YP_219998.1	Similar to Brucella suis protein ClpB ATPase stress-respsonse protein or br1864 SWALL:Q9AEM5 (EMBL:AJ251205) (874 aa) fasta scores: E(): 3.3e-133, 50% id in 864 aa, and to Chlamydophila caviae ATP-dependent Clp protease, subunit B ClpB or cca00625 SWALL:Q822Q4 (EMBL:AE016996) (864 aa) fasta scores: E(): 0, 95.83% id in 864 aa, and to Caulobacter crescentus ATP-dependent Clp protease, ATP-binding subunit ClpB cc0878 SWALL:Q9A9T4 (EMBL:AE005764) (859 aa) fasta scores: E(): 5.5e-135, 51.1% id in 863 aa
YP_219999.1	Similar to Chlamydophila caviae ABC transporter, periplasmic substrate-binding protein,  cca00626 SWALL:Q822Q3 (EMBL:AE016996) (266 aa) fasta scores: E(): 4.4e-76, 75.28% id in 267 aa
YP_220000.1	Similar to Chlamydophila caviae ABC transporter, ATP-binding protein cca00627 SWALL:Q822Q2 (EMBL:AE016996) (248 aa) fasta scores: E(): 1.3e-80, 89.02% id in 246 aa, and to Leptospira interrogans  ABC transporter ATP-binding protein La2056 SWALL:Q8F4I5 (EMBL:AE011378) (255 aa) fasta scores: E(): 1.5e-26, 38.16% id in 262 aa, and to Synechococcus elongatus ABC transporter ATP-binding protein tll0328 SWALL:Q8DLZ8 (EMBL:AP005370) (268 aa) fasta scores: E(): 9.5e-26, 40.22% id in 266 aa
YP_220001.1	Similar to Pseudomonas putida toluene tolerance protein Ttg2B SWALL:Q9Z401 (EMBL:AF106002) (265 aa) fasta scores: E(): 2.7e-20, 34.72% id in 216 aa, and to Chlamydophila caviae ABC transporter, permease,  cca00628 SWALL:Q822Q1 (EMBL:AE016996) (263 aa) fasta scores: E(): 1.3e-90, 93.84% id in 260 aa, and to Pirellula sp probable permease of ABC transporter rb7135 SWALL:CAD75200 (EMBL:BX294145) (296 aa) fasta scores: E(): 1.1e-24, 41.66% id in 204 aa
YP_220002.1	catalyzes the formation of 5-aminolevulinate from (S)-4-amino-5-oxopentanoate
YP_220003.1	Similar to Pseudomonas aeruginosa transcriptional regulator AlgH or pa0405 SWALL:Q9RQ16 (EMBL:AF137022) (189 aa) fasta scores: E(): 1.4e-10, 31.57% id in 171 aa, and to Chlamydophila caviae transcriptional regulator, cca00630 SWALL:Q822P9 (EMBL:AE016996) (189 aa) fasta scores: E(): 2.3e-74, 93.65% id in 189 aa, and to Chlorobium tepidum hypothetical protein Ct0663 SWALL:Q8KEM4 (EMBL:AE012839) (187 aa) fasta scores: E(): 6.9e-23, 37.91% id in 182 aa
YP_220004.1	Similar to Chlamydophila caviae hypothetical protein cca00631 SWALL:Q822P8 (EMBL:AE016996) (146 aa) fasta scores: E(): 1.8e-53, 89.72% id in 146 aa, and to Chlamydophila pneumoniae TW-183 hypothetical protein cpb0141 SWALL:AAP98074 (EMBL:AE017157) (146 aa) fasta scores: E(): 2e-47, 80.13% id in 146 aa, and to Chlamydia pneumoniae hypothetical protein YqdE or cpn0140 or cp0632 SWALL:Q9Z943 (EMBL:AE001600) (146 aa) fasta scores: E(): 2e-47, 80.13% id in 146 aa
YP_220005.1	Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway
YP_220006.1	Doubtful CDS with no significant database hits
YP_220007.1	Similar to Chlamydophila caviae hypothetical protein cca00634 SWALL:Q822P5 (EMBL:AE016996) (416 aa) fasta scores: E(): 1.3e-65, 42.5% id in 400 aa, and to Chlamydophila caviae hypothetical protein cca00636 SWALL:Q822P3 (EMBL:AE016996) (411 aa) fasta scores: E(): 5.6e-62, 42.56% id in 397 aa, and to Chlamydophila caviae hypothetical protein cca00639 SWALL:Q822P0 (EMBL:AE016996) (556 aa) fasta scores: E(): 1.6e-36, 32.82% id in 326 aa
YP_220008.1	Similar to Chlamydophila caviae hypothetical protein cca00639 SWALL:Q822P0 (EMBL:AE016996) (556 aa) fasta scores: E(): 1.1e-80, 47.01% id in 436 aa, and to Chlamydophila caviae hypothetical protein cca00634 SWALL:Q822P5 (EMBL:AE016996) (416 aa) fasta scores: E(): 1.1e-38, 34.84% id in 330 aa, and to Chlamydophila caviae hypothetical protein cca00636 SWALL:Q822P3 (EMBL:AE016996) (411 aa) fasta scores: E(): 5.6e-37, 38.09% id in 294 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220009.1	Similar to Chlamydophila caviae hypothetical protein cca00640 SWALL:Q822N9 (EMBL:AE016996) (251 aa) fasta scores: E(): 3.3e-83, 79.28% id in 251 aa, and to Chlamydophila pneumoniae TW-183 YbgI or cpb0138 SWALL:AAP98071 (EMBL:AE017157) (251 aa) fasta scores: E(): 9.1e-70, 68.12% id in 251 aa, and to Chlamydia pneumoniae hypothetical protein cpn0137/cp0635/cpj0137 SWALL:Y137_CHLPN (SWALL:Q9Z946) (251 aa) fasta scores: E(): 9.1e-70, 68.12% id in 251 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220010.1	Similar to Bacillus licheniformis Pz-peptidase SWALL:P70922 (EMBL:D88209) (628 aa) fasta scores: E(): 1.5e-82, 36.92% id in 612 aa, and to Chlamydophila caviae oligoendopeptidase F PepF or cca00641 SWALL:Q822N8 (EMBL:AE016996) (609 aa) fasta scores: E(): 0, 86.7% id in 609 aa
YP_220011.1	10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring
YP_220012.1	60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth
YP_220013.1	Similar to Chlamydophila caviae hypothetical protein CCA00644 SWALL:Q822N7 (EMBL:AE016996) (267 aa) fasta scores: E(): 1.1e-94, 86.89% id in 267 aa, and to Chlamydia pneumoniae ChlPS hypothetical protein CPN0133 or CPJ0133 or CP0639 SWALL:Q9Z948 (EMBL:AE001599) (257 aa) fasta scores: E(): 5.2e-63, 60.67% id in 267 aa
YP_220015.1	Similar in parts to Chlamydophila caviae conserved domain protein cca00647 SWALL:Q822N4 (EMBL:AE016996) (269 aa) fasta scores: E(): 2.8e-16, 41.12% id in 214 aa
YP_220016.1	Similar to Chlamydophila pneumoniae TW-183 biotin--[acetyl-CoA-carboxylase] ligase CPB0130 SWALL:AAP98063 (EMBL:AE017157) (259 aa) fasta scores: E(): 4.1e-56, 54.47% id in 257 aa, and to Rickettsia conorii similarity to N-terminal of biotin-protein ligase RC0781 SWALL:Q92HJ0 (EMBL:AE008634) (250 aa) fasta scores: E(): 7.9e-17, 34.12% id in 252 aa
YP_220017.1	Similar to Shigella flexneri  transmembrane subunit YtfF or SF4276 SWALL:Q83IK9 (EMBL:AE015435) (324 aa) fasta scores: E(): 1.3e-21, 27.45% id in 306 aa, and to Escherichia coli hypothetical protein YtfF or B4210 SWALL:YTFF_ECOLI (SWALL:P39314) (324 aa) fasta scores: E(): 5.4e-21, 27.12% id in 306 aa
YP_220018.1	Similar to Chlorobium tepidum exodeoxyribonuclease V, alpha subunit,  CT1402 SWALL:Q8KCL3 (EMBL:AE012898) (734 aa) fasta scores: E(): 1.4e-94, 38.62% id in 725 aa, and to Clostridium tetani exodeoxyribonuclease V alpha chain CTC00322 SWALL:Q898W6 (EMBL:AE015937) (743 aa) fasta scores: E(): 1.7e-76, 38.15% id in 747 aa
YP_220019.1	methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content
YP_220020.1	Similar to Chlamydophila caviae hypothetical protein CCA00652 SWALL:Q822M9 (EMBL:AE016996) (98 aa) fasta scores: E(): 2e-28, 81.63% id in 98 aa, and to Chlamydia pneumoniae protein CPN0121 or CP0652 or CPJ0121 SWALL:Y121_CHLPN (SWALL:Q9Z960) (97 aa) fasta scores: E(): 5.3e-22, 69.38% id in 98 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220021.1	Essential for recycling GMP and indirectly, cGMP
YP_220022.1	RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids
YP_220023.1	this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site
YP_220024.1	methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; Chlamydial proteins show a C-terminal extension of unknown function
YP_220025.1	binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity
YP_220026.1	Similar to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 signal recognition particle protein Ffh or B2610 or C3131 or Z3904 or ECS3473 SWALL:SR54_ECOLI (SWALL:P07019) (453 aa) fasta scores: E(): 3.8e-58, 40.8% id in 446 aa, and to Bacillus halodurans signal recognition particle Ffh or BH2484 SWALL:Q9KA10 (EMBL:AP001515) (451 aa) fasta scores: E(): 4.6e-62, 43.21% id in 442 aa
YP_220027.1	HemK; PrmC; transfers a methyl group from S-adenosyl-methionine to amide nitrogen of specific glutamine residues in protein chain release factors PrfA and PrfB possibly stimulating release of completed polypeptide chains
YP_220028.1	recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2
YP_220029.1	RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome
YP_220030.1	Similar to Chlamydophila caviae hypothetical protein CCA00662 SWALL:Q822M0 (EMBL:AE016996) (249 aa) fasta scores: E(): 2.2e-74, 74.08% id in 247 aa, and to Chlamydia pneumoniae CT021 hypothetical protein CPN0111 or CPJ0111 or CP0662 SWALL:Q9Z970 (EMBL:AE001597) (251 aa) fasta scores: E(): 2.8e-44, 45.52% id in 246 aa
YP_220031.1	Similar to Chlamydophila caviae signal peptidase I, CCA00663 SWALL:Q822L9 (EMBL:AE016996) (629 aa) fasta scores: E(): 0, 85.87% id in 630 aa, and to Chlamydophila pneumoniae TW-183 signal peptidase I CPB0111 SWALL:AAP98044 (EMBL:AE017157) (636 aa) fasta scores: E(): 9e-172, 68.71% id in 636 aa
YP_220032.1	IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase type 2 subfamily; some organisms carry two different copies of this enzyme; in some organisms, the type 2 subfamily is associated with resistance to the antibiotic pseudomonic acid (mupirocin)
YP_220033.1	Similar to Chlamydophila caviae hypothetical protein CCA00665 SWALL:Q822L7 (EMBL:AE016996) (165 aa) fasta scores: E(): 1.8e-38, 60% id in 165 aa, and to Chlamydia pneumoniae similarity to CT018 CPN0108 or CPJ0108 or CP0666 SWALL:Q9Z973 (EMBL:AE001597) (185 aa) fasta scores: E(): 9.5e-19, 38.15% id in 152 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220034.1	Similar to Synechococcus sp. PhoH SEA0005 SWALL:Q935Z1 (EMBL:U30252) (442 aa) fasta scores: E(): 7.5e-52, 45.67% id in 451 aa, and to Bacillus cereus phosphate starvation-inducible protein PhoH protein BC3951 SWALL:Q819M5 (EMBL:AE017011) (442 aa) fasta scores: E(): 1.4e-49, 43.55% id in 450 aa
YP_220035.1	Similar to Chlamydophila caviae hypothetical protein CCA00667 SWALL:Q822L5 (EMBL:AE016996) (273 aa) fasta scores: E(): 1e-92, 88.84% id in 260 aa, and to Chlamydia pneumoniae CTt016 hypothetical protein CPN0105 or CPJ0105 or CP0669 SWALL:Q9Z976 (EMBL:AE001596) (273 aa) fasta scores: E(): 7.3e-72, 71.37% id in 255 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220036.1	Similar to Chlamydophila caviae hypothetical protein CCA00668 SWALL:Q822L4 (EMBL:AE016996) (409 aa) fasta scores: E(): 4.4e-125, 86.55% id in 409 aa, and to Chlamydia pneumoniae CT017 hypothetical protein CPN0104 or CPJ0104 or CP0670 SWALL:Q9Z977 (EMBL:AE001596) (400 aa) fasta scores: E(): 5.9e-98, 67.98% id in 406 aa
YP_220037.1	Similar to the C-terminus of both Oryza sativa P0048D08.24 protein SWALL:Q8H4C1 (EMBL:AP004269) (426 aa) fasta scores: E(): 6.1e-08, 23.48% id in 264 aa and Arabidopsis thaliana hypothetical protein SWALL:Q8LFU2 (EMBL:AY084639) (347 aa) fasta scores: E(): 1.3e-07, 24.29% id in 284 aa. Note: All significant database hits are to eukaryotic entries
YP_220038.1	Similar to Chlorobium tepidum cytochrome D ubiquinol oxidase, subunit II CydB or CT1819 SWALL:Q8KBG8 (EMBL:AE012934) (340 aa) fasta scores: E(): 5.3e-27, 31.08% id in 341 aa, and to Xanthomonas axonopodis cyanide insensitive terminal oxidase CioB or XAC3736 SWALL:Q8PG81 (EMBL:AE012023) (340 aa) fasta scores: E(): 4.8e-26, 32.75% id in 345 aa
YP_220039.1	Similar to Bacillus anthracis cytochrome D ubiquinol oxidase, subunit I CydA-1 or BA1943 SWALL:Q81RU4 (EMBL:AE017030) (467 aa) fasta scores: E(): 4.9e-59, 36.93% id in 444 aa, and to Bacillus subtilis cytochrome D ubiquinol oxidase subunit I CydA or BSU38760 SWALL:CYDA_BACSU (SWALL:P94364) (468 aa) fasta scores: E(): 3.6e-53, 34.34% id in 463 aa
YP_220040.1	Similar to Streptococcus pneumoniae conserved hypothetical protein SPR1419 SWALL:Q8DP14 (EMBL:AE008512) (292 aa) fasta scores: E(): 3.3e-26, 35.65% id in 258 aa, and to Lactococcus lactis hypothetical protein YedA or LL0423 SWALL:Q9CIE0 (EMBL:AE006279) (292 aa) fasta scores: E(): 7e-26, 36.03% id in 247 aa
YP_220041.1	Similar to Chlamydophila caviae hypothetical protein CCA00672 SWALL:Q822L0 (EMBL:AE016996) (427 aa) fasta scores: E(): 3.5e-159, 93.67% id in 427 aa, and to Chlamydia pneumoniae hypothetical protein CP0674 SWALL:Q9K219 (EMBL:AE002225) (425 aa) fasta scores: E(): 9.9e-133, 76.34% id in 427 aa. Note: This CDS has a possible alternative start codon at residue 22
YP_220042.1	Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA
YP_220043.1	catalyzes the formation of phosphoenolpyruvate from pyruvate
YP_220044.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate
YP_220045.1	PknD; responsible for phosphorylation of proteins on serine and threonine residues; similar to eukaryotic Ser/Thr kinases; in Chlamydia trachomatis itseems to interact with Pkn1, another serine/threonine-protein kinase
YP_220046.1	valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain
YP_220047.1	Similar to Chlamydophila caviae hypothetical protein CCA00679 SWALL:Q822K3 (EMBL:AE016996) (162 aa) fasta scores: E(): 1.1e-50, 79.11% id in 158 aa, and to Chlamydia pneumoniae CT303 hypothetical protein CPN0093 or CPJ0093 SWALL:Q9Z988 (EMBL:AE001594) (169 aa) fasta scores: E(): 2.1e-39, 63.29% id in 158 aa. Note: This CDS contains a possible alternative start codon at residue 29
YP_220048.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the K subunit is a nonenzymatic component which binds the dimeric form by interacting with the G and E subunits
YP_220049.1	Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit I is part of the membrane proton channel.
YP_220050.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the D subunit is part of the catalytic core of the ATP synthase complex
YP_220051.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the B subunit is part of the catalytic core of the ATP synthase complex
YP_220052.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the A subunit is part of the catalytic core of the ATP synthase complex
YP_220053.1	Similar to Chlamydophila caviae hypothetical protein cca00685 SWALL:Q822J7 (EMBL:AE016996) (266 aa) fasta scores: E(): 1.1e-99, 93.6% id in 266 aa, and to Chlamydia muridarum hypothetical protein Tc0583 tc0583 SWALL:Y583_CHLMU (SWALL:Q9PK84) (266 aa) fasta scores: E(): 5.9e-74, 69.54% id in 266 aa, and to Chlamydia pneumoniae hypothetical protein cpn0087/cp0687/cpj0087 cpn0087 or cp0687 or cpj0087 SWALL:Y087_CHLPN (SWALL:Q9Z994) (266 aa) fasta scores: E(): 1.2e-73, 68.79% id in 266 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220054.1	produces ATP from ADP in the presence of a proton gradient across the membrane; the E subunit is part of the catalytic core of the ATP synthase complex
YP_220055.1	Similar to Chlamydophila caviae hypothetical protein cca00687 SWALL:Q822J5 (EMBL:AE016996) (252 aa) fasta scores: E(): 6.4e-66, 76.19% id in 252 aa, and to Chlamydia pneumoniae ct311 hypothetical protein cpn0085 or cpj0085 or cp0690 SWALL:Q9Z996 (EMBL:AE001594) (247 aa) fasta scores: E(): 2.2e-44, 56.74% id in 252 aa, and to Chlamydia muridarum hypothetical protein Tc0585 SWALL:Q9PK82 (EMBL:AE002327) (237 aa) fasta scores: E(): 1.9e-42, 55.46% id in 247 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220056.1	Similar to Chlamydophila caviae hypothetical protein cca00688 SWALL:Q822J4 (EMBL:AE016996) (136 aa) fasta scores: E(): 1.3e-43, 89.68% id in 126 aa, and to Chlamydia pneumoniae predicted ferredoxin cpn0084 or cpj0084 or cp0691 SWALL:Q9Z997 (EMBL:AE001594) (130 aa) fasta scores: E(): 9.1e-32, 66.11% id in 121 aa, and to Chlamydia trachomatis predicted ferredoxin ct312 SWALL:O84314 (EMBL:AE001303) (123 aa) fasta scores: E(): 1.4e-26, 61.06% id in 113 aa. Note the differing N-termini. Only significant database matches are to Chlamydiaceae proteins.
YP_220057.1	Maintains the balance of metabolites in the pentose-phosphate pathway
YP_220058.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter
YP_220059.1	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme
YP_220060.2	present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors
YP_220061.1	binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit
YP_220062.1	in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA
YP_220063.1	binds directly to 23S ribosomal RNA
YP_220064.1	Modulates Rho-dependent transcription termination
YP_220065.1	forms a complex with SecY and SecG; SecYEG forms a protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force
YP_220066.1	EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu
YP_220067.1	stimulates the activities of the other two initiation factors, IF-2 and IF-3
YP_220068.1	Similar to Chlamydophila caviae hypothetical protein cca00700 SWALL:Q822I2 (EMBL:AE016996) (328 aa) fasta scores: E(): 2.1e-99, 81.15% id in 329 aa, and to Chlamydia pneumoniae ct324 hypothetical protein cpn0072 or cpj0072 SWALL:Q9Z9A9 (EMBL:AE001592) (335 aa) fasta scores: E(): 5.3e-54, 50.48% id in 311 aa
YP_220069.1	Similar to Chlamydophila caviae hypothetical protein cca00701 SWALL:Q822I1 (EMBL:AE016996) (149 aa) fasta scores: E(): 6.8e-53, 87.91% id in 149 aa, and to Chlamydia pneumoniae ct325 hypothetical protein cpn0071 SWALL:Q9Z9B0 (EMBL:AE001592) (149 aa) fasta scores: E(): 6.1e-42, 73.23% id in 142 aa, and to Bacteroides thetaiotaomicron conserved hypothetical protein bt2547 SWALL:Q8A4Q0 (EMBL:AE016936) (141 aa) fasta scores: E(): 1.3e-07, 33.92% id in 112 aa
YP_220070.1	Similar to Chlamydophila caviae hypothetical protein cca00706 SWALL:Q822H6 (EMBL:AE016996) (199 aa) fasta scores: E(): 8.6e-45, 63.26% id in 196 aa. Also similar to several BioY-family proteins including: Chlamydia muridarum SWALL:Q9PK35 (EMBL:AE002332)(196 aa) fasta scores: E()=8.4e-30, 50%i d in 180 aa.
YP_220071.1	Weakly similar to Chlamydophila caviae hypothetical protein Cca00707 SWALL:Q822H5 (EMBL:AE016996) (621 aa) fasta scores: E(): 1.1e-30, 33.87% id in 431 aa
YP_220072.1	Similar to Chlamydophila caviae hypothetical protein cca00708 SWALL:Q822H4 (EMBL:AE016996) (116 aa) fasta scores: E(): 1e-26, 66.66% id in 108 aa
YP_220073.1	Similar to Chlamydophila caviae hypothetical protein cca00709 SWALL:Q822H3 (EMBL:AE016996) (556 aa) fasta scores: E(): 3.7e-145, 63.92% id in 560 aa, and to Chlamydia pneumoniae hypothetical protein cpn0066 or cpj0066 or cp0708 SWALL:Q9Z9B5 (EMBL:AE001592) (577 aa) fasta scores: E(): 3.4e-67, 36.54% id in 561 aa
YP_220074.1	Similar to Chlamydophila caviae hypothetical protein cca00710 SWALL:Q822H2 (EMBL:AE016996) (176 aa) fasta scores: E(): 2.6e-40, 71.97% id in 157 aa. Note the differing N-termini. Only significant database matches are to Chlamydiaceae proteins.
YP_220075.1	catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis
YP_220076.1	catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP
YP_220077.1	catalyzes the formation of aspartate semialdehyde from aspartyl phosphate
YP_220078.1	catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis
YP_220079.1	phenylalanine 4-hydroxylase; phenylalanine 4-hydroxylase; catalyzes the formation of 4a-hydroxytetrahydrobiopterin and tyrosine from phenylalanine and tetrahydrobiopterin
YP_220080.1	Similar to Fusobacterium nucleatum subsp. vincentii ATCC 49256 transporter fnv1336 SWALL:EAA24320 (EMBL:AABF01000039) (235 aa) fasta scores: E(): 3.2e-08, 27.77% id in 198 aa, and to Chlamydophila caviae conserved hypothetical integral membrane protein tigr00697 cca00717 SWALL:Q822G5 (EMBL:AE016996) (223 aa) fasta scores: E(): 8.7e-59, 73.03% id in 204 aa, and to Thermotoga maritima hypothetical protein Tm0792 SWALL:Q9WZP9 (EMBL:AE001747) (212 aa) fasta scores: E(): 1.1e-13, 29.59% id in 196 aa
YP_220081.1	Similar to Chlamydophila caviae hypothetical protein cca00718 SWALL:Q822G4 (EMBL:AE016996) (359 aa) fasta scores: E(): 6.2e-82, 57.71% id in 350 aa, and to Chlamydia muridarum hypothetical protein Tc0258 SWALL:Q9PL50 (EMBL:AE002292) (335 aa) fasta scores: E(): 9.4e-16, 31.37% id in 290 aa, and to Chlamydia trachomatis membrane thiol protease ct868 SWALL:O84876 (EMBL:AE001360) (418 aa) fasta scores: E(): 1.5e-10, 28.09% id in 210 aa
YP_220082.1	Similar to Klebsiella aerogenes protein MoaE SWALL:MOAE_KLEAE (SWALL:P54795) (257 aa) fasta scores: E(): 2.2e-10, 23.67% id in 245 aa, and to Chlamydophila caviae short chain dehydrogenase,  cca00719 SWALL:Q822G3 (EMBL:AE016996) (282 aa) fasta scores: E(): 1.9e-79, 79.46% id in 263 aa, and to Thermoplasma acidophilum 3-oxoacyl-[acyl-carrier-protein] reductase related protein ta0822 SWALL:Q9HJY9 (EMBL:AL445065) (269 aa) fasta scores: E(): 1.2e-12, 28.96% id in 252 aa
YP_220083.1	Similar to Erwinia herbicola biotin synthase BioB SWALL:BIOB_ERWHE (SWALL:Q47862) (346 aa) fasta scores: E(): 6.4e-58, 48.55% id in 311 aa, and to Chlamydia pneumoniae biotin synthase BioB or cpn1044 or cp0808 SWALL:Q9Z6L5 (EMBL:AE001684) (331 aa) fasta scores: E(): 1.5e-103, 73.62% id in 326 aa, and to Anabaena sp. biotin synthase alr1921 SWALL:Q8YVQ3 (EMBL:AP003587) (335 aa) fasta scores: E(): 7.4e-71, 55.59% id in 322 aa
YP_220084.1	Similar to Bacillus sphaericus 8-amino-7-oxononanoate synthase BioF SWALL:BIOF_BACSH (SWALL:P22806) (389 aa) fasta scores: E(): 8.8e-38, 35.89% id in 351 aa, and to Chlamydia pneumoniae oxononanoate synthase BioF_2 or cpn1043 or cp0809 SWALL:Q9Z6L6 (EMBL:AE001684) (382 aa) fasta scores: E(): 9.2e-88, 60.36% id in 381 aa, and to Pasteurella multocida BioF or pm1901 SWALL:Q9CJU0 (EMBL:AE006227) (387 aa) fasta scores: E(): 1.8e-36, 36.05% id in 380 aa
YP_220085.1	Similar to Bacillus subtilis dethiobiotin synthetase BioD or bsu30210 SWALL:BIOD_BACSU (SWALL:P53558) (231 aa) fasta scores: E(): 7e-05, 29.46% id in 207 aa, and to Chlamydia pneumoniae dethiobiotin synthetase BioD or cpn1042 or cp0810 SWALL:BIOD_CHLPN (SWALL:Q9Z6L7) (219 aa) fasta scores: E(): 3.5e-51, 62.94% id in 197 aa, and to Rhizobium loti dethiobiotin synthetase mll9098 SWALL:Q982F7 (EMBL:AP003015) (211 aa) fasta scores: E(): 2.7e-22, 35.67% id in 199 aa
YP_220086.1	Similar to Escherichia coli adenosylmethionine-8-amino-7-oxononanoate aminotransferase BioA or b0774 SWALL:BIOA_ECOLI (SWALL:P12995) (429 aa) fasta scores: E(): 8.6e-51, 37.19% id in 414 aa, and to Chlamydia pneumoniae adenosylmethionine-8-amino-7-oxononanoate aminotransferase BioA or cpn1041 or Cp0811 SWALL:Q9Z6L8 (EMBL:AE001684) (423 aa) fasta scores: E(): 1.1e-118, 66.82% id in 422 aa, and to Bradyrhizobium japonicum id904 id904 or BioA or blr2099 SWALL:Q9AMS3 (EMBL:AF322013) (421 aa) fasta scores: E(): 3.1e-65, 43.3% id in 411 aa
YP_220087.1	Similar to Chlamydia pneumoniae hypothetical protein cpn1040 or cpj1040 or cp0812 SWALL:Q9Z6L9 (EMBL:AE001684) (223 aa) fasta scores: E(): 1.7e-52, 64.78% id in 213 aa, and to Leptospira interrogans conserved hypothetical protein La2331 SWALL:Q8F3R9 (EMBL:AE011402) (215 aa) fasta scores: E(): 3.3e-16, 37.65% id in 162 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220088.1	catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis
YP_220089.1	catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis
YP_220090.1	catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis
YP_220091.1	catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis
YP_220092.1	AroDE; bifunctional enzyme; can convert 3-dehydroquinate to 3-dehydroshkimate and then to shikimate; involved in the synthesis of aromatic amino acids and other metabolites; type I 3-DHQase
YP_220093.1	Similar to Chlamydophila caviae hypothetical protein cca00728 SWALL:Q822F5 (EMBL:AE016996) (263 aa) fasta scores: E(): 9.2e-84, 79.16% id in 264 aa, and to Chlamydia pneumoniae  outer membrane protein cpn1034/cp0818/cpj1034 precursor SWALL:OMPY_CHLPN (SWALL:Q9Z6M5) (262 aa) fasta scores: E(): 1.4e-56, 55.72% id in 262 aa, and to SWALL:AAP99003 (EMBL:UNKNOWN ACCESSION) (262 aa) fasta scores: E(): 1.4e-56, 55.72% id in 262 aa
YP_220094.1	Similar to Chlamydophila caviae hypothetical protein cca00729 SWALL:Q822F4 (EMBL:AE016996) (451 aa) fasta scores: E(): 3.7e-152, 82.04% id in 451 aa, and to Chlamydia pneumoniae ct372 hypothetical protein cpn1033 or cpj1033 or cp0819 SWALL:Q9Z6M6 (EMBL:AE001683) (438 aa) fasta scores: E(): 2.2e-102, 58.57% id in 449 aa, and to Chlamydia trachomatis hypothetical protein Ct372 SWALL:O84377 (EMBL:AE001310) (442 aa) fasta scores: E(): 3.9e-73, 49.88% id in 437 aa
YP_220095.1	Similar to Chlamydophila caviae hypothetical protein cca00730 SWALL:Q822F3 (EMBL:AE016996) (195 aa) fasta scores: E(): 5.6e-79, 96.92% id in 195 aa, and to Chlamydia muridarum hypothetical protein Tc0652 SWALL:Q9PK21 (EMBL:AE002332) (195 aa) fasta scores: E(): 7.4e-75, 91.28% id in 195 aa, and to Chlamydia pneumoniae ct373 hypothetical protein cpn1032 or cpj1032 or cp0820 SWALL:Q9Z6M7 (EMBL:AE001683) (195 aa) fasta scores: E(): 2.7e-73, 89.17% id in 194 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220096.1	Similar to Pseudomonas aeruginosa arginine/ornithine antiporter ArcD or pa5170 SWALL:ARCD_PSEAE (SWALL:P18275) (482 aa) fasta scores: E(): 2.3e-72, 43.3% id in 478 aa, and to Chlamydophila caviae amino acid permease ArcD or cca00731 SWALL:Q822F2 (EMBL:AE016996) (486 aa) fasta scores: E(): 2.9e-164, 87.86% id in 486 aa, and to Chlamydia pneumoniae amino acid permease cp0821 SWALL:Q9K1X7 (EMBL:AE002240) (485 aa) fasta scores: E(): 1.7e-154, 80.61% id in 485 aa
YP_220097.1	Similar to Chlamydophila caviae oxidoreductase, DadA family cca00732 SWALL:Q822F1 (EMBL:AE016996) (346 aa) fasta scores: E(): 9.8e-123, 89.56% id in 345 aa, and to Chlamydia pneumoniae predicted D-amino acid dehydrogenase cpn1030 or cpj1030 or cp0822 SWALL:Q9Z6M9 (EMBL:AE001683) (348 aa) fasta scores: E(): 1.7e-107, 75.86% id in 348 aa, and to Chlamydia muridarum oxidoreductase, DadA family tc0654 SWALL:Q9PK19 (EMBL:AE002334) (351 aa) fasta scores: E(): 3.6e-105, 74.85% id in 346 aa, and to Chlamydia trachomatis predicted D-amino acid dehydrogenase ct375 SWALL:O84380 (EMBL:AE001311) (352 aa) fasta scores: E(): 2.8e-103, 73.48% id in 347 aa
YP_220098.1	Similar to Chlamydophila caviae hypothetical protein cca00733 SWALL:Q822F0 (EMBL:AE016996) (274 aa) fasta scores: E(): 2.8e-93, 86.49% id in 274 aa, and to Chlamydia pneumoniae hypothetical protein Cp0823 SWALL:Q9K1X6 (EMBL:AE002240) (273 aa) fasta scores: E(): 8.6e-73, 68.13% id in 273 aa, and to Chlamydia pneumoniae hypothetical protein cpn1029 or cpj1029 SWALL:Q9Z6N0 (EMBL:AE001683) (279 aa) fasta scores: E(): 8.8e-73, 68.13% id in 273 aa
YP_220099.1	catalyzes the oxidation of malate to oxaloacetate
YP_220100.1	Similar to Chlamydophila caviae hypothetical protein cca00735 SWALL:Q822E8 (EMBL:AE016996) (47 aa) fasta scores: E(): 3e-16, 87.23% id in 47 aa, and to Chlamydia pneumoniae late transcription unit A protein LtuA or cpn1026 or cp0826 or cpj1026 SWALL:LTUA_CHLPN (SWALL:Q9Z6N3) (47 aa) fasta scores: E(): 7.7e-12, 63.83% id in 47 aa, and to Chlamydia trachomatis late transcription unit A protein LtuA or ct377 SWALL:LTUA_CHLTR (SWALL:Q46403) (46 aa) fasta scores: E(): 9.1e-11, 60% id in 45 aa
YP_220101.1	functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family
YP_220102.1	site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs
YP_220103.1	Similar to Chlamydophila caviae hypothetical protein cca00738 SWALL:Q822E5 (EMBL:AE016996) (95 aa) fasta scores: E(): 7.2e-22, 66.31% id in 95 aa, and to Chlamydia pneumoniae hypothetical protein cpn1023 cpn1023 or cpj1023 or cp0829 SWALL:Q9Z6N6 (EMBL:AE001683) (99 aa) fasta scores: E(): 5.5e-14, 48% id in 100 aa. Note the differing translational start sites and the alternative translational start site at codon 5.
YP_220104.1	Similar to Chlamydophila caviae hypothetical protein cca00739 SWALL:Q822E4 (EMBL:AE016996) (480 aa) fasta scores: E(): 1.3e-92, 67.28% id in 483 aa, and to Chlamydia trachomatis hypothetical protein Ct863 SWALL:O84871 (EMBL:AE001359) (482 aa) fasta scores: E(): 2.5e-51, 46.29% id in 499 aa, and to Chlamydia muridarum hypothetical protein Tc0253 SWALL:Q9PL55 (EMBL:AE002292) (490 aa) fasta scores: E(): 9.7e-48, 44.28% id in 499 aa. Note the high incidence of Serine residues in the predicted product of this CDS.Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220105.1	Similar to Yersinia pestis low calcium response locus protein H LcrH or ypcd1.30c or y5048 or y0051 SWALL:LCRH_YERPE (SWALL:P21207) (168 aa) fasta scores: E(): 3e-05, 28.22% id in 124 aa, and to Chlamydophila caviae type III secretion chaperone cca00740 SWALL:Q822E3 (EMBL:AE016996) (172 aa) fasta scores: E(): 5.2e-61, 88.37% id in 172 aa, and to Chlamydia pneumoniae low calcium response protein H LcrH_2 or cpn1021 or cp0832 SWALL:Q9Z6N8 (EMBL:AE001682) (172 aa) fasta scores: E(): 5.8e-51, 75.43% id in 171 aa
YP_220106.1	Similar to Chlamydophila caviae hypothetical protein cca00741 SWALL:Q822E2 (EMBL:AE016996) (504 aa) fasta scores: E(): 3.7e-125, 66.73% id in 505 aa, and to Chlamydia pneumoniae ct861 hypothetical protein cpn1020 or cp0833 SWALL:Q9Z6N9 (EMBL:AE001682) (510 aa) fasta scores: E(): 4.2e-70, 40.77% id in 515 aa, and to Chlamydia pneumoniae ct861 hypothetical protein cpj1020 SWALL:Q9JS77 (EMBL:AP002548) (510 aa) fasta scores: E(): 1.3e-69, 40.58% id in 515 aa. Note the high incidence of Serine and Leucine residues in the predicted product of this CDS.
YP_220107.1	Similar to Chlamydophila caviae hypothetical protein cca00742 SWALL:Q822E1 (EMBL:AE016996) (494 aa) fasta scores: E(): 2e-125, 76.76% id in 495 aa, and to Chlamydia pneumoniae ct860 hypothetical protein cpn1019 or cpj1019 or cp0834 SWALL:Q9Z6P0 (EMBL:AE001682) (497 aa) fasta scores: E(): 1.9e-66, 46.72% id in 488 aa, and to Chlamydia muridarum hypothetical protein Tc0250 SWALL:Q9PL58 (EMBL:AE002292) (497 aa) fasta scores: E(): 3.6e-56, 41.36% id in 498 aa. Note the high incidence of Serine residues in the predicted product of this CDS and the predicted DNA-binding motif between amino acid residues 358-379. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220108.1	Similar to Chlamydophila caviae hypothetical protein Cca00743 SWALL:Q822E0 (EMBL:AE016996) (240 aa) fasta scores: E(): 1.3e-76, 83.18% id in 220 aa, and to Chlamydia pneumoniae hypothetical protein Cp0835 SWALL:Q9K1X3 (EMBL:AE002242) (219 aa) fasta scores: E(): 3.8e-56, 62.5% id in 216 aa, and to Chlamydia pneumoniae hypothetical protein cpn1018 or cpj1018 SWALL:Q9Z6P1 (EMBL:AE001682) (244 aa) fasta scores: E(): 4.1e-56, 62.5% id in 216 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220109.1	catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway
YP_220110.1	Similar to Chlamydophila caviae hypothetical protein cca00745 SWALL:Q822D8 (EMBL:AE016996) (593 aa) fasta scores: E(): 4.5e-195, 77.9% id in 593 aa, and to Chlamydia pneumoniae protein cpn1016/cp0837/cpj1016 SWALL:YA16_CHLPN (SWALL:Q9Z6P3) (619 aa) fasta scores: E(): 3.7e-135, 55.44% id in 606 aa, and to Chlamydia muridarum hypothetical protein Tc0248 SWALL:Y248_CHLMU (SWALL:Q9PL60) (601 aa) fasta scores: E(): 3.3e-126, 51.82% id in 604 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220111.1	Similar to Vibrio cholerae Na+/H+ antiporter NhaD or vca1015 SWALL:Q9EYG4 (EMBL:AF331042) (477 aa) fasta scores: E(): 1.7e-07, 26.74% id in 445 aa, and to Chlamydophila caviae Na+/H+ antiporter,  cca00746 SWALL:Q822D7 (EMBL:AE016996) (420 aa) fasta scores: E(): 2.8e-167, 96.42% id in 420 aa, and to Chlamydia pneumoniae ct857 hypothetical protein cpn1015 or cpj1015 SWALL:Q9Z6P4 (EMBL:AE001682) (420 aa) fasta scores: E(): 3.3e-150, 85.68% id in 419 aa
YP_220112.1	Similar to Synechocystis sp. low affinity sulfate transporter sll0834 SWALL:Q55415 (EMBL:D64003) (564 aa) fasta scores: E(): 6.4e-37, 28.31% id in 565 aa, and to Chlamydophila caviae sulfate transporter family protein cca00747 SWALL:Q822D6 (EMBL:AE016996) (566 aa) fasta scores: E(): 1.3e-206, 95.4% id in 566 aa, and to Chlamydia trachomatis sulfate transporter YchM or ct856 SWALL:O84864 (EMBL:AE001358) (567 aa) fasta scores: E(): 2.1e-188, 85.86% id in 566 aa
YP_220113.1	class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle
YP_220114.1	Similar to Fusobacterium nucleatum subsp. vincentii ATCC 49256 hydroxymethylpyrimidine transport system permease fnv1192 SWALL:EAA24212 (EMBL:AABF01000046) (257 aa) fasta scores: E(): 1.2e-15, 25.55% id in 227 aa, and to Chlamydophila caviae ABC transporter, permease, cca00749 SWALL:Q822D4 (EMBL:AE016996) (610 aa) fasta scores: E(): 1.3e-199, 84.59% id in 610 aa, and to Chlamydia pneumoniae ABC transporter permease YzeB or cpn1012 or cp0841 SWALL:Q9Z6P7 (EMBL:AE001681) (591 aa) fasta scores: E(): 7.2e-146, 64.1% id in 585 aa. CDS overlaps approximately 90 nt with the adjacent CDS
YP_220115.1	Similar to Bradyrhizobium japonicum Bll5379 protein SWALL:Q89JA5 (EMBL:AP005954) (297 aa) fasta scores: E(): 2.7e-07, 33.33% id in 198 aa, and to Micrococcus luteus adenylate kinase Adk SWALL:KAD_MICLU (SWALL:P33107) (205 aa) fasta scores: E(): 5e-07, 30.28% id in 208 aa, and to Brachydanio rerio similar to riken cDNA 0610011d08 gene SWALL:Q7ZWE9 (EMBL:BC049446) (219 aa) fasta scores: E(): 2.3e-05, 27.72% id in 202 aa. CDS overlaps approximately 90 nt with adjacent CDS
YP_220116.1	Similar to Escherichia coli, Escherichia coli O157:H7, and Shigella flexneri hypothetical protein YhgN or b3434 or z4798 or ecs4279 or sf3457 or s4306 SWALL:YHGN_ECOLI (SWALL:P46851) (197 aa) fasta scores: E(): 1.1e-07, 25.62% id in 199 aa, and to Chlamydophila caviae hypothetical protein cca00750 SWALL:Q822D3 (EMBL:AE016996) (202 aa) fasta scores: E(): 2.6e-66, 87.62% id in 202 aa, and to Chlamydia muridarum hypothetical protein Tc0242 SWALL:Q9PL66 (EMBL:AE002291) (199 aa) fasta scores: E(): 1.8e-33, 48.51% id in 202 aa
YP_220117.1	Similar to Escherichia coli, Escherichia coli O157:H7, and Shigella flexneri hypothetical protein YhgN or b3434 or z4798 or ecs4279 or sf3457 or s4306 SWALL:YHGN_ECOLI (SWALL:P46851) (197 aa) fasta scores: E(): 2.6e-18, 32.65% id in 196 aa, and to Chlamydophila caviae hypothetical protein cca00751 SWALL:Q822D2 (EMBL:AE016996) (202 aa) fasta scores: E(): 6.1e-70, 91.58% id in 202 aa, and to Chlamydia pneumoniae hypothetical protein cpn1010/cp0843/cpj1010 SWALL:YA10_CHLPN (SWALL:Q9Z6P9) (202 aa) fasta scores: E(): 1.1e-57, 76.61% id in 201 aa
YP_220118.1	catalyzes the removal of N-terminal amino acids from peptides and arylamides
YP_220119.1	Similar to Chlamydophila caviae hypothetical protein CCA00753 SWALL:Q822D0 (EMBL:AE016996) (425 aa) fasta scores: E(): 9e-110, 77.88% id in 425 aa, and to Chlamydia pneumoniae CT850 hypothetical protein CPN1008 or CPJ1008 SWALL:Q9Z6Q1 (EMBL:AE001681) (432 aa) fasta scores: E(): 1.7e-47, 42.43% id in 436 aa
YP_220120.1	Similar to Chlamydophila caviae hypothetical protein CCA00754 SWALL:Q822C9 (EMBL:AE016996) (61 aa) fasta scores: E(): 2.5e-22, 93.44% id in 61 aa, and to Chlamydia pneumoniae hypothetical protein CP0846 SWALL:Q9K1W9 (EMBL:AE002244) (61 aa) fasta scores: E(): 1.4e-16, 75.41% id in 61 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220121.1	Similar to Chlamydophila caviae hypothetical protein CCA00755 SWALL:Q822C8 (EMBL:AE016996) (167 aa) fasta scores: E(): 1.5e-50, 93.41% id in 167 aa, and to Chlamydia pneumoniae CT849 hypothetical protein CPN1006 or CPJ1006 or CP0847 SWALL:Q9Z6Q3 (EMBL:AE001681) (161 aa) fasta scores: E(): 6.3e-41, 91.42% id in 140 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220122.1	Similar to Chlamydophila caviae hypothetical protein CCA00756 SWALL:Q822C7 (EMBL:AE016996) (172 aa) fasta scores: E(): 3.7e-55, 95.34% id in 172 aa, and to Chlamydia pneumoniae CTt848 hypothetical protein CPN1005 or CPJ1005 or CP0848 SWALL:Q9Z6Q4 (EMBL:AE001681) (173 aa) fasta scores: E(): 3.6e-47, 82.18% id in 174 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220123.1	Similar to Chlamydophila caviae hypothetical protein CCA00757 SWALL:Q822C6 (EMBL:AE016996) (176 aa) fasta scores: E(): 7.1e-50, 88.06% id in 176 aa, and to Chlamydia pneumoniae CT847 hypothetical protein CPN1004 or CPJ1004 or CP0849 SWALL:Q9Z6Q5 (EMBL:AE001681) (173 aa) fasta scores: E(): 5.7e-38, 68.18% id in 176 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220124.1	Similar to Chlamydophila caviae hypothetical protein CCA00758 SWALL:Q822C5 (EMBL:AE016996) (235 aa) fasta scores: E(): 1e-86, 87.23% id in 235 aa, and to Chlamydia pneumoniae CT846 hypothetical protein CPN1003 or CPJ1003 or CP0850 SWALL:Q9Z6Q6 (EMBL:AE001681) (235 aa) fasta scores: E(): 2.9e-55, 55.74% id in 235 aa
YP_220125.1	Similar to Chlamydophila caviae hypothetical protein CCA00759 SWALL:Q822C4 (EMBL:AE016996) (76 aa) fasta scores: E(): 9.6e-25, 89.33% id in 75 aa, and to Chlamydia pneumoniae CT845 hypothetical protein CPN1002 or CPJ1002 or CP0851 SWALL:Q9Z6Q7 (EMBL:AE001681) (76 aa) fasta scores: E(): 1.3e-17, 70.66% id in 75 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220126.1	Similar to Streptococcus pneumoniae cytidine/deoxycytidylate deaminase SP0020 SWALL:Q97TC0 (EMBL:AE007319) (155 aa) fasta scores: E(): 4.7e-26, 46.66% id in 150 aa, and to Thermoanaerobacter tengcongensis cytosine/adenosine deaminases TTE0037 SWALL:Q8RDI8 (EMBL:AE012978) (148 aa) fasta scores: E(): 2.3e-25, 50.69% id in 144 aa, and to Escherichia coli, and Shigella flexneri hypothetical protein YfhC or B2559 or SF2606 or S2778 SWALL:YFHC_ECOLI (SWALL:P30134) (178 aa) fasta scores: E(): 5.2e-22, 43.04% id in 151 aa
YP_220127.1	primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence
YP_220128.1	Similar to Bacillus subtilis polyribonucleotide nucleotidyltransferase PnpA or ComR SWALL:PNP_BACSU (SWALL:P50849) (704 aa) fasta scores: E(): 6.3e-110, 46.99% id in 683 aa, and to Escherichia coli polyribonucleotide nucleotidyltransferase Pnp or B3164 SWALL:PNP_ECOLI (SWALL:P05055) (711 aa) fasta scores: E(): 2.7e-104, 45.11% id in 676 aa
YP_220129.1	Similar in its C-terminal region to Neisseria meningitidis cell division protein FtsH NMB0798 SWALL:Q9K027 (EMBL:AE002433) (655 aa) fasta scores: E(): 5.8e-100, 51.55% id in 613 aa, and to Escherichia coli, and Shigella flexneri cell division protein FtsH or HflB or MrsC or TolZ or B3178 or SF3218 or S3436 SWALL:FTSH_ECOLI (SWALL:P28691) (644 aa) fasta scores: E(): 4.2e-97, 52.38% id in 565 aa
YP_220130.1	Similar to Streptococcus agalactiae MesJ/Ycf62 family protein SAG0014 SWALL:Q8E2H4 (EMBL:AE014191) (424 aa) fasta scores: E(): 1.8e-16, 32.75% id in 232 aa, and to Lactobacillus plantarum cell cycle protein MesJ or LP_0545 SWALL:Q88Z33 (EMBL:AL935253) (448 aa) fasta scores: E(): 1.1e-15, 27.79% id in 295 aa
YP_220131.1	Similar to Chlamydophila caviae YjgP/YjgQ family protein CCA00765 SWALL:Q822B8 (EMBL:AE016996) (357 aa) fasta scores: E(): 8.2e-128, 92.15% id in 357 aa, and to Chlamydia pneumoniae CT839 hypothetical protein CPN0996 or CPJ0996 or CP0859 SWALL:Q9Z6R3 (EMBL:AE001680) (357 aa) fasta scores: E(): 1.7e-111, 79.27% id in 357 aa
YP_220132.1	Similar to Chlamydophila caviae YjgP/YjgQ family protein CCA00766 SWALL:Q822B7 (EMBL:AE016996) (367 aa) fasta scores: E(): 1.3e-131, 93.18% id in 367 aa, and to Chlamydia pneumoniae CT838 hypothetical protein CPN0995 or CPJ0995 or CP0860 SWALL:Q9Z6R4 (EMBL:AE001680) (366 aa) fasta scores: E(): 5.4e-110, 76.83% id in 367 aa
YP_220133.1	Similar to Chlamydophila caviae hypothetical protein CCA00767 SWALL:Q822B6 (EMBL:AE016996) (675 aa) fasta scores: E(): 4.8e-215, 84.32% id in 676 aa, and to Chlamydia pneumoniae CT837 hypothetical protein CPN0994 or CPJ0994 or CP0861 SWALL:Q9Z6R5 (EMBL:AE001680) (681 aa) fasta scores: E(): 5e-148, 59.11% id in 680 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220134.1	catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily
YP_220135.1	binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit
YP_220136.1	Similar to Escherichia coli, Escherichia coli O157:H7, Salmonella typhimurium, Salmonella typhi, and Shigella flexneri 50S ribosomal protein L35 SWALL:RL35_ECOLI (SWALL:P07085) (64 aa) fasta scores: E(): 3.7e-05, 41.07% id in 56 aa, and to Clostridium acetobutylicum 50s ribosomal protein l35 RpmI or CAC2360 SWALL:RL35_CLOAB (SWALL:Q97GK6) (65 aa) fasta scores: E(): 5.5e-07, 46.77% id in 62 aa
YP_220137.1	IF-3 has several functions that are required and promote translation initiation including; preventing association of 70S by binding to 30S; monitoring codon-anticodon interactions by promoting disassociation of fMet-tRNA(fMet) from initiation complexes formed on leaderless mRNAs or incorrectly bound noninitiatior tRNAs and complexes with noncanonical start sites; stimulates codon-anticodon interactions at P-site; involved in moving mRNA to the P-site; and in recycling subunits
YP_220138.1	Regulates rRNA biosynthesis by transcriptional antitermination
YP_220139.1	catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis
YP_220140.1	tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine
YP_220141.1	Catalyzes the rate-limiting step in dNTP synthesis
YP_220142.1	catalyzes the rate-limiting step in dNTP synthesis
YP_220143.1	Similar to Fusobacterium nucleatum CDP-diacylglycerol--serine O-phosphatidyltransferase FN0991 SWALL:Q8REU8 (EMBL:AE010606) (261 aa) fasta scores: E(): 4.1e-13, 31.27% id in 259 aa, and to Bacteroides thetaiotaomicron CDPp-diacylglycerol--serine O-phosphatidyltransferase BT2232 SWALL:Q8A5K7 (EMBL:AE016935) (235 aa) fasta scores: E(): 5.8e-10, 28.01% id in 257 aa
YP_220144.1	Similar to Zymomonas mobilis DNA recombination protein RmuC homolog SWALL:RMUC_ZYMMO (SWALL:Q9REQ3) (448 aa) fasta scores: E(): 1e-18, 30.3% id in 363 aa, and to Haemophilus influenzae DNA recombination protein homolog RmuC or HI0500 SWALL:RMUC_HAEIN (SWALL:P44733) (450 aa) fasta scores: E(): 1.3e-10, 26.92% id in 364 aa
YP_220145.1	Similar to Deinococcus radiodurans metalloprotease, DR0617 SWALL:Q9RWP9 (EMBL:AE001919) (996 aa) fasta scores: E(): 9.6e-91, 32.88% id in 970 aa, and to Clostridium tetani zn-dependent peptidase, insulinase CTC00810 SWALL:Q897D0 (EMBL:AE015938) (973 aa) fasta scores: E(): 6.6e-80, 29.96% id in 988 aa
YP_220146.1	Similar to Bacillus halodurans hypothetical protein BH3875 SWALL:Q9K657 (EMBL:AP001520) (458 aa) fasta scores: E(): 6e-48, 35.09% id in 453 aa, and to Oceanobacillus iheyensis hypothetical conserved protein OB1111 SWALL:Q8CUJ6 (EMBL:AP004596) (453 aa) fasta scores: E(): 5.9e-46, 33.11% id in 447 aa
YP_220147.1	Similar to Escherichia coli, and Escherichia coli O157:H7 protease Do precursor DegP or HtrA or Ptd or B0161 or Z0173 or ECS0165 SWALL:DEGP_ECOLI (SWALL:P09376) (474 aa) fasta scores: E(): 3.9e-48, 37.65% id in 494 aa, and to Chlorobium tepidum serine protease CT1447 SWALL:Q8KCH4 (EMBL:AE012902) (505 aa) fasta scores: E(): 3.3e-60, 41.44% id in 444 aa
YP_220148.1	Catalyzes the only substrate-level phosphorylation in the TCA cycle
YP_220149.1	catalyzes the interconversion of succinyl-CoA and succinate
YP_220150.1	Similar to Thermoanaerobacter tengcongensis signal recognition particle GTPase FtsY or TTE1464 SWALL:Q8R9W8 (EMBL:AE013104) (295 aa) fasta scores: E(): 1.3e-33, 37.81% id in 275 aa, and to The C-terminal domain of Escherichia coli cell division protein FtsY or B3464, similarity limited to the NG-domain where the GTPase activity is located SWALL:FTSY_ECOLI (SWALL:P10121) (497 aa) fasta scores: E(): 6.9e-33, 38.73% id in 284 aa
YP_220151.1	Similar to Yersinia pestis  membrane protein YPO1163 or Y3018 SWALL:Q8ZGW1 (EMBL:AJ414146) (236 aa) fasta scores: E(): 3.4e-16, 33.63% id in 223 aa, and to Escherichia coli, and Escherichia coli O6 hypothetical protein YbhL or B0786 or C0868 SWALL:YBHL_ECOLI (SWALL:P75768) (234 aa) fasta scores: E(): 3.7e-14, 32.43% id in 222 aa
YP_220152.1	Similar to Vibrio vulnificus tyrosine-specific transport protein VVv12293 SWALL:Q8DAB5 (EMBL:AE016804) (401 aa) fasta scores: E(): 1.1e-32, 32.99% id in 394 aa, and to Escherichia coli, and Shigella flexneri tyrosine-specific transport protein TyrP or B1907 or SF1953 or S2046 SWALL:TYRP_ECOLI (SWALL:P18199) (403 aa) fasta scores: E(): 1.7e-30, 30.92% id in 401 aa
YP_220153.1	Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source
YP_220154.1	catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate
YP_220155.1	Similar to Neisseria meningitidis  poly(A) polymerase PcnB or NMA1053 SWALL:Q9JV08 (EMBL:AL162755) (453 aa) fasta scores: E(): 9.7e-34, 30.8% id in 409 aa, and to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 poly(A) polymerase PcnB or B0143 or C0176 or Z0154 or ECS0147 SWALL:PCNB_ECOLI (SWALL:P13685) (472 aa) fasta scores: E(): 2.3e-20, 33.33% id in 423 aa
YP_220156.1	catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate; lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM
YP_220157.1	Similar to Chlamydia pneumoniae hypothetical protein cpj1027 or cp0825 SWALL:Q9JS06 (EMBL:AE002240) (526 aa) fasta scores: E(): 1.9, 27.32% id in 172 aa. CDS contains coiled coil from residues 110-131. Possible pseudogene.
YP_220158.1	Similar to Chlamydophila caviae hypothetical protein cca00794 SWALL:Q821Z1 (EMBL:AE016997) (373 aa) fasta scores: E(): 8.8e-36, 43.05% id in 360 aa. Note the differing N-termini. CDS contains coiled coil from residues 153-178.
YP_220159.1	Similar to Chlamydophila caviae hypothetical protein cca00797 SWALL:Q821Y8 (EMBL:AE016997) (274 aa) fasta scores: E(): 7.6e-16, 37.18% id in 277 aa. Note the C-terminal extension on the product of this CDS compared to that of C. caviae. Also note the high incidence of Glu, Ala and Val residues and the coiled coil regions between residues 112-156, 182-234, 250-315, 325-363, 384-426 and 173-488.
YP_220160.1	Note the high incidence of Glu, Ala, Ser and Val residues and the presence of coiled coil region between residues 103-149. No significant database matches.
YP_220161.1	Similar to Chlamydophila caviae hypothetical protein cca00800 SWALL:Q821Y5 (EMBL:AE016997) (355 aa) fasta scores: E(): 4.1e-50, 56.42% id in 358 aa. CDS contains coiled coil region from residues 218-239.
YP_220162.1	No significant database matches. Note the high incidence of Glu and Ser residues within the product of this CDS
YP_220163.1	Similar to Chlamydia pneumoniae hypothetical protein CPJ0964 SWALL:Q9JS83 (EMBL:AP002548) (486 aa) fasta scores: E(): 0.00031, 23.11% id in 463 aa
YP_220164.1	No significant database matches.Note the high incidence of Glu Thr and Ser residues within the product of this CDS
YP_220165.1	Similar to Chlamydophila caviae hypothetical protein CCA00805 SWALL:Q821Y0 (EMBL:AE016997) (434 aa) fasta scores: E(): 1.3e-103, 60.46% id in 435 aa, and to Chlamydia pneumoniae hypothetical protein CPN0964 or CP0896 SWALL:Q9Z6U4 (EMBL:AE001676) (486 aa) fasta scores: E(): 2.1e-09, 30.87% id in 460 aa
YP_220166.1	Similar to Chlamydophila caviae polymorphic outer membrane protein D family protein/autotransporter CCA00806 SWALL:Q821X9 (EMBL:AE016997) (1537 aa) fasta scores: E(): 0, 73.47% id in 1542 aa, and to Chlamydia pneumoniae probable outer membrane protein precursor Pmp21 or CPN0963 or CP0897 SWALL:PM21_CHLPN (SWALL:Q9Z6U5) (1609 aa) fasta scores: E(): 6.2e-117, 42.64% id in 1646 aa, and to Chlamydia trachomatis cytolysin Ctc SWALL:Q93QE8 (EMBL:AF268092) (1530 aa) fasta scores: E(): 2.4e-107, 36.27% id in 1599 aa
YP_220167.1	involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY
YP_220168.1	some L32 proteins have zinc finger motifs consisting of CXXC while others do not
YP_220169.1	Similar to Chlamydophila caviae hypothetical protein CCA00809 SWALL:Q821X6 (EMBL:AE016997) (153 aa) fasta scores: E(): 3.1e-53, 85.62% id in 153 aa, and to Chlamydia muridarum hypothetical protein TC0194 SWALL:Q9PLB3 (EMBL:AE002286) (146 aa) fasta scores: E(): 2.6e-23, 52.23% id in 134 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220170.1	Similar to Xylella fastidiosa ribonuclease G CafA or PD0416 SWALL:Q87EA2 (EMBL:AE012554) (497 aa) fasta scores: E(): 6.7e-58, 39.61% id in 472 aa, and to Escherichia coli, Escherichia coli O6, Escherichia coli O157:H7, and Shigella flexneri ribonuclease G CafA or Rng or B3247 or C4001 or Z4605 or ECS4119 or SF3285 or S3502 SWALL:RNG_ECOLI (SWALL:P25537) (488 aa) fasta scores: E(): 7.8e-46, 35.25% id in 485 aa
YP_220171.1	Similar to Chlamydia trachomatis glycerol-3-P acyltransferase PlsB or CT807 SWALL:O84813 (EMBL:AE001353) (331 aa) fasta scores: E(): 1e-95, 67.97% id in 331 aa, and to a whole list of eukaryotic database entries, e.g. Cucumis sativus glycerol-3-phosphate acyltransferase, chloroplast precursor SWALL:PLSB_CUCSA (SWALL:Q39639) (470 aa) fasta scores: E(): 2e-42, 39.74% id in 317 aa
YP_220172.1	Similar to Vibrio parahaemolyticus peptidase, insulinase VP2206 SWALL:Q87MM5 (EMBL:AP005080) (925 aa) fasta scores: E(): 3.3e-48, 24.7% id in 927 aa, and to Shewanella oneidensis peptidase, M16 family SO3083 SWALL:Q8ECQ2 (EMBL:AE015745) (929 aa) fasta scores: E(): 1.7e-41, 23.1% id in 896 aa
YP_220173.1	Similar to Xylella fastidiosa hypothetical protein XF0042 SWALL:Q9PHA2 (EMBL:AE003858) (420 aa) fasta scores: E(): 1.5e-35, 29.35% id in 436 aa, and to Nitrosomonas europaea hypothetical protein NE1228 SWALL:Q82V73 (EMBL:BX321860) (418 aa) fasta scores: E(): 5.5e-32, 27.84% id in 431 aa
YP_220174.1	catalyzes the phosphorylation of 4-diphosphocytidyl-2-C-methyl-D-erythritol in the nonmevalonate pathway of isoprenoid biosynthesis
YP_220175.1	in Escherichia coli this protein is wrapped around the base of the L1 stalk
YP_220176.1	binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit
YP_220177.1	binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21
YP_220178.1	Enables the recycling of peptidyl-tRNAs produced at termination of translation
YP_220179.1	the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response
YP_220180.1	catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose
YP_220181.1	Similar to Oceanobacillus iheyensis phosphatidylglycerophosphate synthase PgsA or OB1622 SWALL:Q8EQR9 (EMBL:AP004598) (192 aa) fasta scores: E(): 2.7e-17, 34.82% id in 201 aa, and to Bacillus subtilis CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase PgsA SWALL:PGSA_BACSU (SWALL:P46322) (193 aa) fasta scores: E(): 4.8e-12, 31.72% id in 186 aa
YP_220182.1	Similar to Anabaena sp. glycyl-tRNA synthetase alpha chain GlyQ or ALL1985 SWALL:SYGA_ANASP (SWALL:Q8YVJ2) (294 aa) fasta scores: E(): 3.6e-66, 56.74% id in 289 aa, and to Tropheryma whipplei glycyl-tRNA synthetase GlyQS or TW262 SWALL:Q83I31 (EMBL:BX251410) (1024 aa) fasta scores: E(): 2.8e-77, 29.35% id in 1039 aa
YP_220183.1	Similar to Chlamydophila caviae hypothetical protein CCA00824 SWALL:Q821W1 (EMBL:AE016997) (148 aa) fasta scores: E(): 2.6e-27, 54.36% id in 149 aa, and to Chlamydia muridarum hypothetical protein TC0177 SWALL:Q9PLC7 (EMBL:AE002285) (164 aa) fasta scores: E(): 3e-05, 30.43% id in 161 aa
YP_220184.1	Similar to Chlamydophila caviae hypothetical protein CCA00825 SWALL:Q821W0 (EMBL:AE016997) (171 aa) fasta scores: E(): 7.2e-46, 73.68% id in 171 aa, and to Chlamydia muridarum hypothetical protein TC0177 SWALL:Q9PLC7 (EMBL:AE002285) (164 aa) fasta scores: E(): 3.1e-14, 38.32% id in 167 aa
YP_220185.1	Similar to Chlamydophila caviae hypothetical protein CCA00826 SWALL:Q821V9 (EMBL:AE016997) (169 aa) fasta scores: E(): 2.6e-44, 65.06% id in 166 aa, and to Chlamydia pneumoniae hypothetical protein CPN0944 or CPJ0944 or CP0915 SWALL:Q9Z6W2 (EMBL:AE001674) (162 aa) fasta scores: E(): 2.8e-09, 29.69% id in 165 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220186.1	Similar to Chlamydophila caviae hypothetical protein CCA00827 SWALL:Q821V8 (EMBL:AE016997) (88 aa) fasta scores: E(): 1.1e-25, 80.68% id in 88 aa, and to Chlamydia pneumoniae CT794.1 hypothetical protein CPN0943 or CPJ0943 or CP0917 SWALL:Q9Z6W3 (EMBL:AE001674) (87 aa) fasta scores: E(): 1.9e-11, 45.45% id in 88 aa
YP_220187.1	synthesizes RNA primers at the replication forks
YP_220188.1	This protein performs the mismatch recognition step during the DNA repair process
YP_220189.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision
YP_220190.1	Similar to Chlamydophila caviae hypothetical protein CCA00831 SWALL:Q821V4 (EMBL:AE016997) (160 aa) fasta scores: E(): 8.2e-53, 96.73% id in 153 aa, and to Chlamydia pneumoniae CT790 hypothetical protein CPN0939 or CPJ0939 or CP0922 SWALL:Q9Z6W7 (EMBL:AE001673) (156 aa) fasta scores: E(): 1.3e-45, 88.59% id in 149 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220191.1	Similar to Chlamydophila caviae hypothetical protein CCA00832 SWALL:Q821V3 (EMBL:AE016997) (167 aa) fasta scores: E(): 8.1e-55, 85.11% id in 168 aa, and to Chlamydia muridarum hypothetical protein TC0171 SWALL:Q9PLD3 (EMBL:AE002284) (166 aa) fasta scores: E(): 1.6e-30, 53.01% id in 166 aa
YP_220192.1	located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif
YP_220193.1	smallest protein in the large subunit; similar to what is found with protein L31 and L33 several bacterial genomes contain paralogs which may be regulated by zinc; the protein from Thermus thermophilus has a zinc-binding motif and contains a bound zinc ion; the proteins in this group do not have the motif
YP_220194.1	protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates
YP_220195.1	Similar to Chlamydophila caviae hypothetical protein CCA00836 SWALL:Q821U9 (EMBL:AE016997) (348 aa) fasta scores: E(): 2.6e-121, 85.63% id in 348 aa, and to Chlamydia muridarum hypothetical protein TC0166 SWALL:Q9PLD8 (EMBL:AE002284) (350 aa) fasta scores: E(): 2.1e-72, 54% id in 350 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220196.1	catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA
YP_220197.1	class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1
YP_220198.1	Similar to Chlamydophila caviae hypothetical protein CCA00842 SWALL:Q821U3 (EMBL:AE016997) (169 aa) fasta scores: E(): 4.5e-53, 78.1% id in 169 aa, and to Chlamydia muridarum hypothetical protein TC0161 SWALL:Q9PLE3 (EMBL:AE002283) (165 aa) fasta scores: E(): 6.2e-34, 52.69% id in 167 aa
YP_220199.1	Similar to Chlamydophila caviae hypothetical protein CCA00844 SWALL:Q821U1 (EMBL:AE016997) (240 aa) fasta scores: E(): 3.5e-65, 72.19% id in 241 aa, and to Chlamydia pneumoniae CT779 hypothetical protein CPN0925 or CPJ0925 or CP0941 SWALL:Q9Z6Y1 (EMBL:AE001672) (225 aa) fasta scores: E(): 4.9e-33, 48.68% id in 228 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220200.1	binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity
YP_220201.1	catalyzes the formation of 8-amino-7-oxononanoate from 6-carboxyhexanoyl-CoA and L-alanine
YP_220202.1	Synthesizes thioester adducts of fatty acids enzymatically to the phosphopantetheine group of acyl carrier protein
YP_220203.1	Similar to Chlamydophila caviae hypothetical protein CCA00848 SWALL:Q821T7 (EMBL:AE016997) (253 aa) fasta scores: E(): 5.9e-92, 86.56% id in 253 aa, and to Chlamydia pneumoniae SN glycerol-3-P acyltransferase CPN0921 or CP0945 SWALL:Q9Z6Y5 (EMBL:AE001672) (253 aa) fasta scores: E(): 1.1e-69, 64.03% id in 253 aa
YP_220204.1	Similar to Chlamydia trachomatis sulfite synthesis/biphosphate phosphatase CysQ or CT774 SWALL:O84779 (EMBL:AE001349) (342 aa) fasta scores: E(): 2.7e-62, 49.07% id in 324 aa, and to Pseudomonas syringae inositol-1-monophosphatase SuhB or PSPTO1419 SWALL:Q887A5 (EMBL:AE016860) (271 aa) fasta scores: E(): 1.8e-05, 25.24% id in 305 aa
YP_220205.1	Similar to Thermoanaerobacter tengcongensis glutamate dehydrogenase/leucine dehydrogenase GdhA3 or TTE2202 SWALL:Q8R831 (EMBL:AE013166) (355 aa) fasta scores: E(): 4.9e-48, 41.69% id in 343 aa, and to Bacillus subtilis leucine dehydrogenase YqiT SWALL:DHLE_BACSU (SWALL:P54531) (364 aa) fasta scores: E(): 1.2e-43, 39.42% id in 345 aa
YP_220206.1	catalyzes the hydrolysis of pyrophosphate to phosphate
YP_220207.1	Similar to Chlamydia muridarum mutt/nudix family protein TC0152 SWALL:Q9PLF2 (EMBL:AE002282) (150 aa) fasta scores: E(): 9.9e-51, 79.19% id in 149 aa, and to Bifidobacterium longum hypothetical protein with possible C-terminal pyrophosphate-releasing NTPase domain BL0653 SWALL:Q8G6I7 (EMBL:AE014686) (181 aa) fasta scores: E(): 3.2e-05, 34.86% id in 109 aa
YP_220208.1	FabF, beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP.
YP_220209.1	Similar to Xylella fastidiosa hypothetical protein XF2180 SWALL:Q9PBG4 (EMBL:AE004031) (148 aa) fasta scores: E(): 3.8e-12, 38.31% id in 107 aa, and to Aquifex aeolicus hypothetical protein AQ_1272 SWALL:O67309 (EMBL:AE000732) (109 aa) fasta scores: E(): 5.4e-12, 39% id in 100 aa
YP_220210.1	Similar to Chlamydophila caviae hypothetical protein CCA00856 SWALL:Q821T0 (EMBL:AE016997) (554 aa) fasta scores: E(): 1.6e-161, 91.51% id in 554 aa, and to Chlamydia pneumoniae CT768 hypothetical protein CPJ0912 or CP0954 SWALL:Q9JS48 (EMBL:AE002253) (553 aa) fasta scores: E(): 5.3e-116, 65.77% id in 558 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220211.1	Similar to Helicobacter pylori hypothetical protein HP0656 SWALL:O25370 (EMBL:AE000579) (383 aa) fasta scores: E(): 1.2e-57, 44.57% id in 341 aa, and to Campylobacter jejuni hypothetical protein CJ0462 SWALL:Q9PI46 (EMBL:AL139075) (348 aa) fasta scores: E(): 1.6e-54, 43.6% id in 344 aa
YP_220212.1	IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity
YP_220213.1	Similar to Streptomyces coelicolor anti-sigma-B factor antagonist RsbV or BldG or SCO3549 or SCH5.12c SWALL:RSBV_STRCO (SWALL:Q9WVX8) (113 aa) fasta scores: E(): 0.00018, 26.73% id in 101 aa, and to Leptospira interrogans probable anti-sigma factor antagonist LA0839 SWALL:Q8F7V3 (EMBL:AE011269) (110 aa) fasta scores: E(): 3.9e-06, 32.67% id in 101 aa
YP_220214.1	Similar to Chlamydophila caviae hypothetical protein CCA00860 SWALL:Q821S7 (EMBL:AE016997) (262 aa) fasta scores: E(): 8.8e-82, 79% id in 262 aa, and to Chlamydia trachomatis hypothetical protein CT764 SWALL:O84769 (EMBL:AE001349) (268 aa) fasta scores: E(): 2.8e-42, 47.05% id in 255 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220215.1	Similar to Shewanella oneidensis periplasmic divalent cation tolerance protein CutA or SO0697 SWALL:Q8EIY0 (EMBL:AE015515) (107 aa) fasta scores: E(): 7.5e-12, 36.44% id in 107 aa, and to Nitrosomonas europaea CutA1 divalent ion tolerance protein CutA or NE2388 SWALL:Q82SF1 (EMBL:BX321864) (112 aa) fasta scores: E(): 4.6e-11, 37% id in 100 aa
YP_220216.1	Similar in its full length to Chlamydophila caviae kh domain protein CCA00862 SWALL:Q821S5 (EMBL:AE016997) (142 aa) fasta scores: E(): 2.1e-45, 86.62% id in 142 aa, and in its N-terminal region to Thermoanaerobacter tengcongensis hypothetical protein TTE1460 SWALL:YE60_THETN (SWALL:Q8R9X2) (75 aa) fasta scores: E(): 1e-05, 38.96% id in 77 aa, and to Clostridium perfringens hypothetical protein CPE1711 SWALL:YH11_CLOPE (SWALL:Q8XJP5) (75 aa) fasta scores: E(): 1.2e-05, 38.96% id in 77 aa
YP_220217.1	catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine and catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis
YP_220218.1	UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis
YP_220219.1	Similar to Bacillus subtilis stage V sporulation protein E SpoVE SWALL:SP5E_BACSU (SWALL:P07373) (366 aa) fasta scores: E(): 2e-36, 35.22% id in 352 aa, and to Escherichia coli, Escherichia coli O157:H7, and Shigella flexneri rod shape-determining protein RodA MrdB or B0634 or Z0780 or ECS0672 or SF0647 or S0669 SWALL:RODA_ECOLI (SWALL:P15035) (370 aa) fasta scores: E(): 7.6e-30, 33.96% id in 318 aa, and to Escherichia coli, Escherichia coli O6, and Escherichia coli O157:H7 cell division protein FtsW or B0089 or C0107 or Z0099 or ECS0093 SWALL:FTSW_ECOLI (SWALL:P16457) (414 aa) fasta scores: E(): 4.9e-29, 31.28% id in 358 aa
YP_220220.1	Similar to Chlamydia trachomatis muramidase NlpD or CT759 SWALL:O84764 (EMBL:AE001348) (245 aa) fasta scores: E(): 4.1e-32, 52.98% id in 251 aa, and to Chlamydia muridarum hypothetical protein TC0140 SWALL:Q9PLG4 (EMBL:AE002281) (243 aa) fasta scores: E(): 5.9e-30, 51.79% id in 251 aa
YP_220221.1	UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation
YP_220222.1	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
YP_220223.1	Similar to Bacillus subtilis UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase MurF SWALL:MURF_BACSU (SWALL:P96613) (457 aa) fasta scores: E(): 5.6e-28, 28.35% id in 455 aa, and to Escherichia coli UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase MurF or Mra or B0086 SWALL:MURF_ECOLI (SWALL:P11880) (452 aa) fasta scores: E(): 5.1e-23, 26.62% id in 432 aa
YP_220224.1	Similar to Thermotoga maritima 60 kDa chaperonin GroL or GroEL or MopA or TM0506 SWALL:CH60_THEMA (SWALL:Q9WYX6) (538 aa) fasta scores: E(): 1.9e-34, 27.11% id in 509 aa, and to Coxiella burnetii 60 kDa chaperonin GroL or GroEL or MopA or HtpB or CBU1718 SWALL:CH60_COXBU (SWALL:P19421) (552 aa) fasta scores: E(): 7e-34, 27.84% id in 510 aa
YP_220225.1	Similar to Brucella melitensis  phosphohydrolases, ICC family BMEI0452 SWALL:Q8YIJ2 (EMBL:AE009488) (303 aa) fasta scores: E(): 1.1e-05, 24.08% id in 274 aa, and to Rhizobium loti hypothetical protein MLLl2796 SWALL:Q98HM9 (EMBL:AP003000) (321 aa) fasta scores: E(): 1.9e-05, 24.79% id in 238 aa
YP_220226.1	Similar to Chlamydia pneumoniae CT753 hypothetical protein CPN0896 or CPJ0896 SWALL:Q9Z710 (EMBL:AE001670) (76 aa) fasta scores: E(): 3.3e-12, 58.66% id in 75 aa, and to Chlamydia muridarum hypothetical protein TC0134 SWALL:Q9PLH0 (EMBL:AE002280) (74 aa) fasta scores: E(): 4.1e-10, 56% id in 75 aa. Only significant full-length database matches are to Chlamydiaceae proteins. Note the alternative possible translational start at codon 13
YP_220227.1	Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA
YP_220228.1	Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile
YP_220229.1	catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase
YP_220230.1	Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_220231.1	Similar to Bacillus subtilis transcription-repair coupling factor Mfd SWALL:MFD_BACSU (SWALL:P37474) (1177 aa) fasta scores: E(): 1.3e-103, 35.97% id in 1109 aa, and to Escherichia coli transcription-repair coupling factor Mfd or B1114 SWALL:MFD_ECOLI (SWALL:P30958) (1148 aa) fasta scores: E(): 1.8e-100, 35.5% id in 1014 aa
YP_220232.1	catalyzes the formation of coproporphyrinogen from uroporphyrinogen III
YP_220233.1	catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III
YP_220234.1	catalyzes the formation of protoporphyrin IX from protoporphyrinogen IX
YP_220235.1	Similar to Chlamydia pneumoniae ChlTR possible phosphoprotein CPN0887 SWALL:Q9Z719 (EMBL:AE001669) (822 aa) fasta scores: E(): 3e-148, 44.88% id in 831 aa, and to Chlamydia muridarum hypothetical protein TC0120 SWALL:Q9PLI0 (EMBL:AE002279) (823 aa) fasta scores: E(): 1.8e-126, 40.43% id in 826 aa. Note the DNA-binding motif between residues 386-407. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220236.1	Similar to the C-terminal region of Parechinus angulosus histone H1, gonadal SWALL:H1_PARAN (SWALL:P02256) (248 aa) fasta scores: E(): 0.0068, 35% id in 120 aa, and of Lytechinus pictus late histone H1 SWALL:H1_LYTPI (SWALL:P06144) (210 aa) fasta scores: E(): 0.02, 36.58% id in 123 aa
YP_220237.1	Similar to Chlorobium tepidum RNA methyltransferase, TrmA family CT0009 SWALL:AAM71257 (EMBL:AE012780) (483 aa) fasta scores: E(): 6.6e-24, 27.51% id in 418 aa, and to Escherichia coli 23S rRNA (uracil-5-)-methyltransferase RumA or B2785 SWALL:RUMA_ECOLI (SWALL:P55135) (432 aa) fasta scores: E(): 1.6e-15, 23.91% id in 393 aa
YP_220238.1	member of preprotein translocase; forms a heterotrimer with SecD and SecF; links the SecD/SecF/YajC/YidC complex with the SecY/SecE/SecG complex
YP_220239.1	uses the energy from reduction of ubiquinone-1 to ubiquinol to move Na(+) ions from the cytoplasm to the periplasm
YP_220240.1	Similar to Chlamydia pneumoniae hypothetical protein CPN0882 or CPJ0882 SWALL:Q9Z724 (EMBL:AE001669) (379 aa) fasta scores: E(): 2e-64, 47.36% id in 361 aa
YP_220242.1	Similar to Clostridium perfringens stage III sporulation protein E SpoIIIE or CPE1676 SWALL:Q8XJS8 (EMBL:AP003191) (796 aa) fasta scores: E(): 1.2e-74, 34.2% id in 807 aa, and to Bacillus subtilis stage III sporulation protein E SpoIIIE SWALL:SP3E_BACSU (SWALL:P21458) (787 aa) fasta scores: E(): 1.1e-73, 34.78% id in 779 aa
YP_220243.1	Similar to Thermoanaerobacter tengcongensis metal-dependent hydrolases of the beta-lactamase superfamily I PhnP or TTE2624 SWALL:Q8R705 (EMBL:AE013202) (259 aa) fasta scores: E(): 3.1e-29, 38.39% id in 237 aa, and to Bacillus halodurans hypothetical protein BH4023 SWALL:Q9K5R5 (EMBL:AP001520) (264 aa) fasta scores: E(): 1.8e-27, 36.59% id in 235 aa
YP_220244.1	Low simialrity to Leptospira interrogans SET family protein LA3978 SWALL:Q8EZ78 (EMBL:AE011553) (143 aa) fasta scores: E(): 9.5e-07, 37.16% id in 113 aa, and to Bradyrhizobium japonicum BLL5787 protein bll5787 SWALL:Q89I52 (EMBL:AP005956) (186 aa) fasta scores: E(): 0.00017, 34.82% id in 112 aa, and to Chlamydophila caviae SET domain protein CCA00889 SWALL:Q821Q0 (EMBL:AE016997) (220 aa) fasta scores: E(): 3.4e-87, 86.36% id in 220 aa
YP_220245.1	Similar to Rickettsia conorii hypothetical protein RC1288 SWALL:Q92G37 (EMBL:AE008675) (154 aa) fasta scores: E(): 2.9e-20, 39.86% id in 148 aa, and to Sulfolobus tokodaii hypothetical protein ST0476 SWALL:Q975D2 (EMBL:AP000982) (149 aa) fasta scores: E(): 5.2e-20, 43.87% id in 155 aa
YP_220246.1	Similar to Streptococcus pyogenes  amino acid symporter SPYM18_1219 SWALL:AAL97831 (EMBL:AE010046) (440 aa) fasta scores: E(): 1.7e-41, 31.96% id in 438 aa, and to Clostridium perfringens probable amino acid transport protein CPE1419 SWALL:Q8XKH6 (EMBL:AP003190) (462 aa) fasta scores: E(): 4e-41, 31.18% id in 465 aa
YP_220247.1	Similar to Chlamydia pneumoniae probable lipoprotein CPN0875/CP0994/CPJ0875 precursor CPN0875 or CP0994 or CPJ0875 SWALL:Y875_CHLPN (SWALL:Q9Z731) (217 aa) fasta scores: E(): 2e-53, 71.42% id in 217 aa, and to Chlamydia muridarum hypothetical lipoprotein TC0107 precursor SWALL:Y107_CHLMU (SWALL:Q9PLJ2) (218 aa) fasta scores: E(): 2.4e-43, 59.81% id in 219 aa
YP_220248.1	Similar to Chlamydia pneumoniae CT733 hypothetical protein CPN0874 or CPJ0874 or CP0995 SWALL:Q9Z732 (EMBL:AE001667) (453 aa) fasta scores: E(): 9.5e-123, 68.27% id in 457 aa, and to Chlamydia trachomatis hypothetical protein CT733 SWALL:O84738 (EMBL:AE001344) (448 aa) fasta scores: E(): 8.1e-109, 59.64% id in 456 aa
YP_220249.1	RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not
YP_220250.1	bifunctional enzyme DHBP synthase/GTP cyclohydrolase II; functions in riboflavin synthesis; converts GTP to 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine; converts ribulose 5-phopshate to 3,4-dihydroxy-2-butanone 4-phosphate
YP_220251.1	Similar to Escherichia coli riboflavin biosynthesis protein RibD [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26) (riboflavin-specific deaminase); 5-amino-6-(5- phosphoribosylamino)uracil reductase (EC 1.1.1.193) or RibG or B0414 SWALL:RIBD_ECOLI (SWALL:P25539) (367 aa) fasta scores: E(): 6.2e-44, 42.98% id in 335 aa, and to Actinobacillus pleuropneumoniae riboflavin biosynthesis protein RibD [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26) (riboflavin-specific deaminase); 5-amino-6-(5- phosphoribosylamino)uracil reductase (EC 1.1.1.193) or RibG SWALL:RIBD_ACTPL (SWALL:P50853) (376 aa) fasta scores: E(): 4.2e-47, 39.66% id in 363 aa
YP_220252.1	catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_220253.1	Similar to Chlamydia pneumoniae CT728 hypothetical protein CPN0869 or CPJ0869 or CP1000 SWALL:Q9Z737 (EMBL:AE001667) (248 aa) fasta scores: E(): 3.5e-64, 64.91% id in 248 aa, and to Chlamydia muridarum hypothetical protein TC0101 SWALL:Q9PLJ8 (EMBL:AE002277) (248 aa) fasta scores: E(): 6.3e-57, 54.03% id in 248 aa
YP_220254.1	Similar to Bacillus firmus probable cadmium-transporting ATPase CadA SWALL:CADA_BACFI (SWALL:P30336) (723 aa) fasta scores: E(): 4.2e-61, 32.78% id in 665 aa, and to Mycobacterium tuberculosis probable cation-transporting P-type ATPase D CtpD or Rv1469 or MT1515 or MTV007.16 SWALL:CTPD_MYCTU (SWALL:O53160) (657 aa) fasta scores: E(): 1e-53, 33.91% id in 634 aa
YP_220255.1	Similar to Pseudomonas aeruginosa rod shape-determining protein RodA or PA4002 SWALL:Q9X6V4 (EMBL:AF147448) (367 aa) fasta scores: E(): 1.7e-25, 29.8% id in 359 aa, and to Escherichia coli, Escherichia coli O157:H7, and Shigella flexneri rod shape-determining protein RodA or MrdB or B0634 or Z0780 or ECS0672 or SF0647 or s0669 SWALL:RODA_ECOLI (SWALL:P15035) (370 aa) fasta scores: E(): 7e-25, 28.53% id in 354 aa
YP_220256.1	catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon
YP_220257.1	Similar to Chlamydia pneumoniae CT724 hypothetical protein CPN0865 or CPJ0865 or CP1004 SWALL:Q9Z741 (EMBL:AE001667) (175 aa) fasta scores: E(): 1.1e-27, 48.27% id in 174 aa, and to Chlamydia muridarum hypothetical protein TC0097 SWALL:Q9PLK2 (EMBL:AE002277) (174 aa) fasta scores: E(): 3e-13, 28.82% id in 170 aa. Contains a possible N-terminal membrane spanning domain.
YP_220258.1	Similar to Thermotoga maritima 16S pseudouridylate synthase TM0264 SWALL:Q9WYA2 (EMBL:AE001708) (239 aa) fasta scores: E(): 1.2e-27, 41.04% id in 229 aa, and to Bacillus subtilis ribosomal large subunit pseudouridine synthase B RluB SWALL:RLUB_BACSU (SWALL:P35159) (229 aa) fasta scores: E(): 2.6e-22, 37.16% id in 226 aa
YP_220259.1	catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate
YP_220260.1	Similar to Anabaena azollae cysteine desulfurase NifS SWALL:NIFS_ANAAZ (SWALL:Q43884) (400 aa) fasta scores: E(): 1.4e-11, 23.01% id in 391 aa, and to Escherichia coli, Escherichia coli O6, Escherichia coli O157:H7, and Shigella flexneri cysteine desulfurase IscS or B2530 or C3056 or Z3797 or ECS3396 or SF2577 or S2749 SWALL:ISCS_ECOLI (SWALL:P39171) (404 aa) fasta scores: E(): 2.6e-11, 21.66% id in 300 aa
YP_220261.1	Similar to Campylobacter jejuni NifU protein homolog CJ0239C SWALL:Q9PIQ5 (EMBL:AL139074) (323 aa) fasta scores: E(): 2.6e-09, 25.16% id in 310 aa, and to Rhodobacter sphaeroides nitrogen fixation protein NifU SWALL:NIFU_RHOSH (SWALL:Q01180) (246 aa) fasta scores: E(): 0.00085, 24.51% id in 204 aa, and to Chlamydia pneumoniae NifU-related protein CPN0861 or CPJ0861 SWALL:Q9Z745 (EMBL:AE001667) (266 aa) fasta scores: E(): 2.3e-70, 64.39% id in 264 aa
YP_220262.1	Similar to Chlamydia pneumoniae flagellar M-ring protein FliF or CPN0860 or CP1009 SWALL:Q9Z746 (EMBL:AE001667) (341 aa) fasta scores: E(): 1.4e-61, 54.86% id in 339 aa, and to Chlamydia trachomatis flagellar M-ring protein FliF or CT719 SWALL:O84724 (EMBL:AE001342) (334 aa) fasta scores: E(): 8.6e-44, 44.51% id in 337 aa
YP_220263.1	Similar to Chlamydia pneumoniae CT718 hypothetical protein CPN0859 or CPJ0859 or CP1010 SWALL:Q9Z747 (EMBL:AE001667) (178 aa) fasta scores: E(): 7.9e-42, 65.38% id in 182 aa, and to Chlamydia muridarum hypothetical protein TC0091 SWALL:Q9PLK8 (EMBL:AE002276) (174 aa) fasta scores: E(): 1.6e-30, 60.43% id in 139 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220264.1	involved in type III protein export
YP_220265.1	Similar to Chlamydia pneumoniae CT716 hypothetical protein CPN0857 or CPJ0857 or CP1012 SWALL:Q9Z749 (EMBL:AE001667) (122 aa) fasta scores: E(): 4.6e-13, 46.72% id in 122 aa, and to Chlamydia muridarum hypothetical protein TC0089 SWALL:Q9PLL0 (EMBL:AE002276) (120 aa) fasta scores: E(): 1.1e-09, 40% id in 115 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220266.1	Similar to Chlamydia pneumoniae UDP-glucose pyrophosphorylase CPN0856 or CPJ0856 or CP1013 SWALL:Q9Z750 (EMBL:AE001667) (461 aa) fasta scores: E(): 4.1e-167, 85.68% id in 461 aa, and to Homo sapiens UDP-N-acetylhexosamine pyrophosphorylase Uap1 or SpaG2 SWALL:UAP1_HUMAN (SWALL:Q16222) (522 aa) fasta scores: E(): 1.4e-23, 28.47% id in 432 aa
YP_220267.1	catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate
YP_220268.1	Similar to Chlamydia pneumoniae outer membrane protein B precursor OmpB or PorB or CPN0854 or CP1015 SWALL:OMP2_CHLPN (SWALL:Q9Z752) (344 aa) fasta scores: E(): 8.9e-100, 68.31% id in 344 aa, and to Chlamydophila felis major outer membrane protein precursor OmpA SWALL:Q99QB0 (EMBL:AF269257) (392 aa) fasta scores: E(): 3.8e-05, 22.71% id in 339 aa
YP_220269.1	Similar to Chlamydia trachomatis hypothetical protein CT712 SWALL:O84718 (EMBL:AE001342) (390 aa) fasta scores: E(): 6.5e-85, 63.01% id in 392 aa, and to Chlamydia muridarum hypothetical protein TC0085 SWALL:Q9PLL4 (EMBL:AE002276) (390 aa) fasta scores: E(): 6.6e-81, 58.41% id in 392 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220270.1	Similar to Chlamydia trachomatis hypothetical protein CT711 SWALL:O84717 (EMBL:AE001342) (767 aa) fasta scores: E(): 4.1e-71, 44.68% id in 772 aa, and to Chlamydia muridarum hypothetical protein TC0084 SWALL:Q9PLL5 (EMBL:AE002276) (769 aa) fasta scores: E(): 3.2e-70, 43.33% id in 773 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220271.1	catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using GTP
YP_220272.1	Similar to Bacillus subtilis rod shape-determining protein MreB SWALL:MREB_BACSU (SWALL:Q01465) (337 aa) fasta scores: E(): 1.4e-64, 55.06% id in 336 aa, and to Escherichia coli, Escherichia coli O6, Salmonella typhimurium, Salmonella typhi, and Shigella flexneri rod shape-determining protein MreB SWALL:MREB_ECOLI (SWALL:P13519) (347 aa) fasta scores: E(): 1e-63, 57.73% id in 336 aa
YP_220273.1	Similar to Clostridium acetobutylicum superfamily II DNA/RNA helicases, Snf2 family CAC3303 SWALL:Q97E16 (EMBL:AE007827) (1077 aa) fasta scores: E(): 2e-73, 29.38% id in 1181 aa, and to Fusobacterium nucleatum SWF/SNF family helicase FN1160 SWALL:Q8REE7 (EMBL:AE010621) (1089 aa) fasta scores: E(): 2.2e-56, 29.64% id in 1130 aa
YP_220274.1	Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer
YP_220275.1	hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates
YP_220276.1	binds and unfolds substrates as part of the ClpXP protease
YP_220277.1	Similar to Chlamydia pneumoniae poly A polymerase PcnB_1 or CPN0845 or CP1024 SWALL:Q9Z761 (EMBL:AE001665) (410 aa) fasta scores: E(): 3.9e-138, 81.22% id in 410 aa, and to Bacillus subtilis poly A polymerase PapS SWALL:PAPS_BACSU (SWALL:P42977) (397 aa) fasta scores: E(): 1.2e-29, 34.21% id in 415 aa
YP_220278.1	EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains
YP_220279.1	functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; in some organisms, there are paralogous proteins that have been found to be nonessential but do function in secretion of a subset of exported proteins
YP_220280.1	Similar to Chlamydophila caviae hypothetical protein CCA00926 SWALL:Q821L4 (EMBL:AE016997) (441 aa) fasta scores: E(): 7e-170, 89.34% id in 441 aa, and to Chlamydia muridarum hypothetical protein TC0073 SWALL:Q9PLM6 (EMBL:AE002274) (441 aa) fasta scores: E(): 4.2e-119, 60.54% id in 441 aa. Note contains a possible N-terminal membrane spanning domain.
YP_220281.1	catalyzes the decarboxylaton of phospatidyl-L-sering to phosphatidylethanolamine
YP_220282.1	in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE
YP_220283.1	Similar to Chlamydia muridarum endonuclease III SWALL:Q9PLN0 (EMBL:AE002274) (210 aa) fasta scores: E(): 1.4e-56, 68.34% id in 199 aa, and to Micrococcus luteus ultraviolet N-glycosylase/ap lyase Pdg SWALL:UVEN_MICLU (SWALL:P46303) (279 aa) fasta scores: E(): 3.2e-18, 39.15% id in 189 aa
YP_220284.1	Similar to Chlamydia pneumoniae branched-chain amino acid transport system carrier protein,  Cp1033 SWALL:Q9K1T5 (EMBL:AE002260) (412 aa) fasta scores: E(): 2.4e-116, 72.57% id in 412 aa, and to Lactobacillus delbrueckii branched-chain amino acid transport system carrier protein BrnQ SWALL:BRNQ_LACDL (SWALL:P54104) (446 aa) fasta scores: E(): 1.2e-21, 28.71% id in 397 aa, and to Escherichia coli branched-chain amino acid transport system II carrier protein BrnQ SWALL:BRNQ_ECOLI (SWALL:P37011) (439 aa) fasta scores: E(): 1.4e-13, 26.35% id in 387 aa
YP_220285.1	Similar to Chlamydia pneumoniae Swi/Snf family helicase_1 SWALL:Q9Z771 (EMBL:AE001664) (1215 aa) fasta scores: E(): 0, 68.01% id in 1210 aa, and to Plasmodium falciparum Pfsnf2l SWALL:O00914 (EMBL:AF003086) (1422 aa) fasta scores: E(): 8.5e-40, 31.1% id in 508 aa, and to Mus musculus DNA-dependent ATPase Snf2l Smarca1 or Snf2L SWALL:Q91Y58 (EMBL:AF325920) (1064 aa) fasta scores: E(): 4.7e-34, 31.16% id in 616 aa
YP_220286.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z772 (EMBL:AE001664) (154 aa) fasta scores: E(): 2.5e-45, 76.38% id in 144 aa
YP_220287.1	E3 component of 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide
YP_220288.1	catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group
YP_220289.1	Similar to Chlamydia pneumoniae Yop translocation protein J SWALL:Q9Z778 (EMBL:AE001663) (335 aa) fasta scores: E(): 1.4e-96, 80.53% id in 334 aa, and to Burkholderia pseudomallei SctJ SWALL:Q93KZ5 (EMBL:AF074878) (274 aa) fasta scores: E(): 3.2e-13, 35.13% id in 185 aa
YP_220290.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z779 (EMBL:AE001663) (277 aa) fasta scores: E(): 2.7e-83, 70.39% id in 277 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220291.1	Similar to Chlamydia pneumoniae yop translocation l yscl or cpn0826 or cp1045 SWALL:Q9Z780 (EMBL:AE001663) (233 aa) fasta scores: E(): 4.1e-54, 74.05% id in 212 aa, and to Yersinia enterocolitica yop proteins translocation protein l yscL SWALL:YSCL_YEREN (SWALL:Q01253) (223 aa) fasta scores: E(): 2.4e-09, 25.12% id in 199 aa
YP_220292.1	Similar to Chlamydia pneumoniae Yop translocation protein R SWALL:Q9Z781 (EMBL:AE001663) (306 aa) fasta scores: E(): 8.8e-90, 81.1% id in 307 aa, and to Ralstonia solanacearum hypersensitivity response secretion protein HrcR or HrpT SWALL:HRCR_RALSO (SWALL:Q52488) (217 aa) fasta scores: E(): 3e-27, 38.63% id in 220 aa
YP_220293.1	Similar to Chlamydia pneumoniae YopS translocation protein SWALL:Q9Z782 (EMBL:AE001663) (95 aa) fasta scores: E(): 1.4e-31, 90.52% id in 95 aa, and to Yersinia pestis Yop protein translocation protein S SWALL:YSCS_YERPE (SWALL:P40298) (88 aa) fasta scores: E(): 1.5e-09, 43.05% id in 72 aa, and to Escherichia coli EscS SWALL:Q9AJ28 (EMBL:AF200363) (89 aa) fasta scores: E(): 6.4e-09, 41.33% id in 75 aa
YP_220294.1	Similar to Chlamydia pneumoniae YopT tranlocation protein SWALL:Q9Z783 (EMBL:AE001663) (289 aa) fasta scores: E(): 3.6e-99, 82% id in 289 aa, and to Salmonella typhimurium secretion system apparatus protein SsaT or stm1421 SWALL:SSAT_SALTY (SWALL:P96068) (259 aa) fasta scores: E(): 2.3e-13, 27.27% id in 242 aa
YP_220295.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z784 (EMBL:AE001663) (158 aa) fasta scores: E(): 3.7e-35, 66.89% id in 145 aa
YP_220296.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z785 (EMBL:AE001662) (334 aa) fasta scores: E(): 8.5e-92, 69.16% id in 334 aa
YP_220297.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9K1T1 (EMBL:AE002261) (174 aa) fasta scores: E(): 1.4e-23, 46.38% id in 166 aa
YP_220298.1	Similar to Chlamydia pneumoniae ct568 hypothetical protein cpn0819 or cpj0819 SWALL:Q9Z787 (EMBL:AE001662) (148 aa) fasta scores: E(): 7.7e-32, 56.73% id in 141 aa
YP_220299.1	Similar to Chlamydia pneumoniae  outer membrane protein SWALL:OMPX_CHLPN (SWALL:Q9Z788) (123 aa) fasta scores: E(): 2.6e-33, 78.89% id in 109 aa, and to Legionella pneumophila LspG precursor SWALL:Q9XD71 (EMBL:AF111940) (140 aa) fasta scores: E(): 0.13, 23.42% id in 111 aa, and to Escherichia coli precursor HofG or HopG SWALL:GSPG_ECOLI (SWALL:P41442) (145 aa) fasta scores: E(): 1.1, 28.97% id in 107 aa
YP_220300.1	Similar to Chlamydia pneumoniae general secretion protein F GspF SWALL:Q9Z789 (EMBL:AE001662) (391 aa) fasta scores: E(): 2.2e-107, 71.42% id in 392 aa, and to Pseudomonas aeruginosa general secretion pathway protein F xcps or pa3102 SWALL:GSPF_PSEAE (SWALL:Q00513) (405 aa) fasta scores: E(): 6.4e-28, 27.38% id in 409 aa
YP_220301.1	Similar to Pseudomonas aeruginosa general secretion pathway protein E XcpR SWALL:GSPE_PSEAE (SWALL:Q00512) (502 aa) fasta scores: E(): 6.1e-69, 47.63% id in 487 aa, and to Chlamydia pneumoniae genral secretion protein E GspE SWALL:Q9Z790 (EMBL:AE001662) (496 aa) fasta scores: E(): 2.3e-133, 75.86% id in 493 aa
YP_220302.1	Similar to Escherichia coli probable general secretion pathway protein D precursor GspD SWALL:GSPD_ECOLI (SWALL:P45758) (650 aa) fasta scores: E(): 5.8e-13, 21.23% id in 617 aa, and to Chlamydia pneumoniae general secretion protein D GspD SWALL:Q9Z791 (EMBL:AE001662) (754 aa) fasta scores: E(): 9.2e-217, 71.22% id in 754 aa, and to Aeromonas salmonicida general secretion pathway protein D precursor ExeD SWALL:GSPD_AERSA (SWALL:P45778) (678 aa) fasta scores: E(): 1.3e-10, 20.03% id in 599 aa
YP_220303.1	Similar to Chlamydia pneumoniae hypothetical protein cpn0814 SWALL:Q9Z792 (EMBL:AE001662) (417 aa) fasta scores: E(): 4.3e-109, 61% id in 418 aa, and to Chlamydia trachomatis hypothetical protein Ct573 SWALL:O84577 (EMBL:AE001327) (409 aa) fasta scores: E(): 4.5e-76, 50.24% id in 406 aa. Note possible alternative translational start site at codon 20. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220304.1	Similar to Chlamydia pneumoniae aminopeptidase P PepP SWALL:Q9Z793 (EMBL:AE001662) (355 aa) fasta scores: E(): 2.3e-91, 62.64% id in 356 aa, and to Pyrococcus furiosus Xaa-Pro dipeptidase PepQ SWALL:PEPQ_PYRFU (SWALL:P81535) (348 aa) fasta scores: E(): 8.1e-35, 32.09% id in 349 aa
YP_220305.1	This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex
YP_220306.1	Similar to Chlamydia muridarum type III secretion chaperone SycD SWALL:Q9PJG4 (EMBL:AE002353) (246 aa) fasta scores: E(): 1e-66, 77.82% id in 230 aa, and to Yersinia pseudotuberculosis low calcium response locus protein H LcrH SWALL:LCRH_YERPS (SWALL:P23995) (168 aa) fasta scores: E(): 6.3e-07, 26.31% id in 152 aa
YP_220307.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z796 (EMBL:AE001662) (120 aa) fasta scores: E(): 1.3e-13, 48% id in 125 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220308.1	Similar to Chlamydia muridarum hypothetical protein Tc0867 SWALL:Q9PJG2 (EMBL:AE002353) (491 aa) fasta scores: E(): 1.6e-91, 63.17% id in 497 aa
YP_220309.1	Similar to Chlamydia muridarum hypothetical protein Tc0868 SWALL:Y868_CHLMU (SWALL:Q9PJG1) (436 aa) fasta scores: E(): 2.6e-76, 65.76% id in 444 aa
YP_220310.1	Similar to Chlamydia muridarum hypothetical protein Tc0869 SWALL:Q9PJG0 (EMBL:AE002353) (318 aa) fasta scores: E(): 5.1e-79, 67.55% id in 302 aa, and to Bacillus subtilis hypothetical transport protein YoaV SWALL:YOAV_BACSU (SWALL:O34416) (292 aa) fasta scores: E(): 4.1e-09, 21.83% id in 284 aa
YP_220311.1	catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr)
YP_220312.1	Similar to Chlamydia pneumoniae ParA family protein SWALL:PARA_CHLPN (SWALL:Q9Z7A1) (255 aa) fasta scores: E(): 1.1e-93, 90.98% id in 255 aa, and to Chlamydia trachomatis virulence plasmid ParA family protein pgp5-d SWALL:GP5D_CHLTR (SWALL:P10559) (264 aa) fasta scores: E(): 3.9e-28, 37% id in 254 aa
YP_220313.1	Similar to Chlamydia muridarum virulence plasmid protein pgp6-D-related protein tc0872 SWALL:GP6R_CHLMU (SWALL:Q9PJF7) (262 aa) fasta scores: E(): 3.3e-66, 71.59% id in 250 aa, and to Chlamydia trachomatis virulence plasmid protein pgp6-d SWALL:GP6D_CHLTR (SWALL:P10560) (247 aa) fasta scores: E(): 3.4e-10, 30.46% id in 256 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220314.1	Similar to Chlamydia pneumoniae protein SWALL:Y803_CHLPN (SWALL:Q9Z7A3) (184 aa) fasta scores: E(): 6.1e-62, 86.95% id in 184 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220315.1	catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA
YP_220316.1	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion
YP_220317.1	enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis
YP_220318.1	Similar to Chlamydia pneumoniae sigma regulatory family protein-PP2c phosphatase RbsU SWALL:Q9Z7B3 (EMBL:AE001660) (635 aa) fasta scores: E(): 1.8e-165, 65.98% id in 632 aa, and to the C-terminus of Bacillus subtilis phosphoserine phosphatase sigma factor SigB regulation protein, RsbU SWALL:RSBU_BACSU (SWALL:P40399) (335 aa) fasta scores: E(): 1.2e-09, 24.8% id in 250 aa
YP_220319.1	Similar to Chlamydia pneumoniae hypothetical protein SWALL:Q9Z7B4 (EMBL:AE001660) (604 aa) fasta scores: E(): 2.3e-150, 62.37% id in 606 aa
YP_220320.1	Similar to Chlamydia trachomatis hypothetical protein Ct590 SWALL:O84594 (EMBL:AE001329) (954 aa) fasta scores: E(): 0, 58.77% id in 963 aa. Note the differing N-termini. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220321.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase
YP_220322.1	part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol
YP_220323.1	Similar to Chlamydia pneumoniae succinate dehydrogenase SdhC or cpn0788 or cp1084 SWALL:Q9Z7B8 (EMBL:AE001660) (297 aa) fasta scores: E(): 1.2e-82, 62.62% id in 297 aa, and to Bacillus subtilis succinate dehydrogenase cytochrome b-558 subunit SdhC SWALL:DHSC_BACSU (SWALL:P08064) (202 aa) fasta scores: E(): 0.015, 24.26% id in 272 aa
YP_220324.1	Similar to Chlamydia pneumoniae PHP superfamily yabd or cpn0787 or cp1085 SWALL:Q9Z7B9 (EMBL:AE001660) (261 aa) fasta scores: E(): 6.3e-78, 69.84% id in 262 aa, and to Brucella melitensis sec-independent protein TatD bmei0986 SWALL:Q8YH18 (EMBL:AE009539) (265 aa) fasta scores: E(): 3.3e-34, 39.46% id in 261 aa
YP_220325.1	Similar to Chlamydia pneumoniae thiol:disulfide interchange protein DsbD cp1086 SWALL:Q9K1S6 (EMBL:AE002265) (714 aa) fasta scores: E(): 4.5e-198, 70.84% id in 710 aa, and to Escherichia coli thiol:disulfide interchange protein DsbD precursor SWALL:DSBD_ECOLI (SWALL:P36655) (565 aa) fasta scores: E(): 1.2e-10, 27.44% id in 419 aa
YP_220326.1	Similar to Chlamydia pneumoniae macromolecule transporter ExbB SWALL:Q9Z7C1 (EMBL:AE001659) (232 aa) fasta scores: E(): 1.8e-73, 85.34% id in 232 aa, and to Escherichia coli TolQ protein SWALL:TOLQ_ECOLI (SWALL:P05828) (230 aa) fasta scores: E(): 2.5e-06, 25.82% id in 213 aa
YP_220327.1	Similar to Escherichia coli biopolymer transport ExbD protein SWALL:EXBD_ECOLI (SWALL:P18784) (141 aa) fasta scores: E(): 0.00012, 26.35% id in 129 aa, and to Chlamydia trachomatis biopolymer transport protein ExbD or ct597 SWALL:O84602 (EMBL:AE001330) (135 aa) fasta scores: E(): 2.3e-33, 68.14% id in 135 aa, and to Xanthomonas campestris biopolymer transport ExbD1 protein or Xcc0010 SWALL:EXB1_XANCP (SWALL:O34259) (140 aa) fasta scores: E(): 4.3e-06, 32.54% id in 126 aa
YP_220328.1	Similar to Chlamydia pneumoniae ct598 hypothetical protein SWALL:Q9JRY0 (EMBL:AE002265) (262 aa) fasta scores: E(): 5.7e-19, 39.24% id in 265 aa, and to Escherichia coli TonB protein SWALL:TONB_ECOLI (SWALL:P02929) (239 aa) fasta scores: E(): 0.2, 25.23% id in 214 aa
YP_220329.1	forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA
YP_220330.1	Similar to Chlamydia trachomatis peptidoglycan-associated lipoprotein Pal or ct600 SWALL:O84605 (EMBL:AE001330) (188 aa) fasta scores: E(): 2.7e-53, 72.25% id in 191 aa, and to Pseudomonas aeruginosa outer membrane protein OprL precursor or pa0973 SWALL:Q9I4Z4 (EMBL:AE004530) (168 aa) fasta scores: E(): 6e-13, 44.73% id in 114 aa, and to Escherichia coli peptidoglycan-associated lipoprotein precursor Pal or ExcC SWALL:PAL_ECOLI (SWALL:P07176) (173 aa) fasta scores: E(): 4.9e-12, 42.37% id in 118 aa
YP_220331.1	Similar to Chlamydia pneumoniae N-acetylmuramoyl-L-ala amidase AmiB SWALL:Q9Z7C6 (EMBL:AE001659) (205 aa) fasta scores: E(): 3.1e-36, 62.08% id in 182 aa, and to Bacillus subtilis endopeptidase LytE precursor or PapQ or CwlF SWALL:LYTE_BACSU (SWALL:P54421) (334 aa) fasta scores: E(): 0.61, 26.79% id in 153 aa
YP_220332.1	Similar to Chlamydia pneumoniae ct602 hypothetical protein SWALL:Q9Z7C7 (EMBL:AE001659) (129 aa) fasta scores: E(): 3.7e-39, 72.72% id in 132 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220333.1	Similar to Chlamydia pneumoniae thio-specific antioxidant AhpC or cpn0778 SWALL:Q9Z7C8 (EMBL:AE001659) (196 aa) fasta scores: E(): 1.9e-57, 72.91% id in 192 aa, and to Homo sapiens peroxiredoxin 2 PrdX2 or TdpX1 or NkeFB SWALL:PDX2_HUMAN (SWALL:P32119) (198 aa) fasta scores: E(): 3.9e-38, 49.73% id in 191 aa
YP_220334.1	60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is not essential for growth
YP_220335.1	Similar to Chlamydia pneumoniae ct605 hypothetical protein SWALL:Q9Z7D0 (EMBL:AE001659) (414 aa) fasta scores: E(): 5.5e-109, 60.82% id in 411 aa, and to Bacillus subtilis hypothetical protein YbbC SWALL:YBBC_BACSU (SWALL:P40407) (414 aa) fasta scores: E(): 2.7e-36, 35.71% id in 336 aa
YP_220336.1	HAM1-like protein; Rec-dependent growth; RgdB; yggV; it is suspected that this protein functions to remove misincorporated bases such as xanthine or hypoxanthine
YP_220337.1	Similar to Chlamydia pneumoniae ct606.1 hypothetical protein SWALL:Q9Z7D2 (EMBL:AE001659) (77 aa) fasta scores: E(): 8.6e-19, 70.13% id in 77 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220338.1	Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine
YP_220339.1	Similar to Escherichia coli DNA helicase II UvrD or MutU or PdeB or Rad or RecL SWALL:UVRD_ECOLI (SWALL:P03018) (720 aa) fasta scores: E(): 9.8e-75, 38.23% id in 646 aa, and to Chlamydia pneumoniae DNA helicase UvrD SWALL:Q9Z7D4 (EMBL:AE001658) (639 aa) fasta scores: E(): 2.5e-184, 75.39% id in 634 aa, and to Bacillus stearothermophilus ATP-dependent DNA helicase PcrA SWALL:PCRA_BACST (SWALL:P56255) (724 aa) fasta scores: E(): 6.3e-90, 44.25% id in 644 aa
YP_220340.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma 54 factor is responsible for the expression of enzymes involved in nitrogen assimilation and metabolism; the rhizobia often have 2 copies of this sigma factor; in Rhizobium etli RpoN1 shown to be involved in the assimilation of several nitrogen and carbon sources during free-living aerobic growth and RpoN2 is involved in symbiotic nitrogen fixation; in Bradyrhizobium both RpoN1 and N2 are functional in free-living and symbiotic conditions, rpoN1 gene was regulated in response to oxygen
YP_220341.1	Similar to Chlamydia pneumoniae ct642 hypothetical protein SWALL:Q9Z7D6 (EMBL:AE001658) (264 aa) fasta scores: E(): 5.4e-72, 65.53% id in 264 aa
YP_220342.1	catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity
YP_220343.1	Contains Pfam match to entry PF01207 UPF0034, Dihydrouridine synthase (Dus, involved in tRNA modification), score 222.9, E-value 3e-64. Similar to Chlamydia trachomatis predicted oxidoreductase SWALL:O84650 (EMBL:AE001335) (334 aa) fasta scores: E(): 7.8e-97, 76.59% id in 329 aa, and to Thermoanaerobacter tengcongensis predicted TIM-barrel enzymes, possibly dehydrogenases, NifR3 family Tte0344 SWALL:Q8RCR8 (EMBL:AE013007) (322 aa) fasta scores: E(): 5.1e-36, 37.42% id in 318 aa
YP_220344.1	Similar to Chlamydia muridarum hypothetical protein Tc0014 SWALL:Q9PLT1 (EMBL:AE002270) (98 aa) fasta scores: E(): 1.1e-30, 66.32% id in 98 aa, and to Bacillus halodurans hypothetical protein Bh2548 SWALL:Q9K9U7 (EMBL:AP001515) (84 aa) fasta scores: E(): 6.9e-09, 48.38% id in 62 aa
YP_220345.1	Similar to Chlamydia pneumoniae ct646 hypothetical protein SWALL:Q9Z7E0 (EMBL:AE001658) (463 aa) fasta scores: E(): 1.2e-103, 52.48% id in 463 aa
YP_220346.1	Similar to Chlamydia pneumoniae ct647 hypothetical protein SWALL:Q9Z7E1 (EMBL:AE001658) (194 aa) fasta scores: E(): 3.7e-31, 46.39% id in 194 aa
YP_220347.1	Similar to Chlamydia pneumoniae ct648 hypothetical protein SWALL:Q9Z7E2 (EMBL:AE001658) (428 aa) fasta scores: E(): 6.8e-133, 73.95% id in 430 aa
YP_220348.1	Similar to Chlamydia pneumoniae formyltetrahydrofolate cycloligase SWALL:Q9Z7E3 (EMBL:AE001658) (180 aa) fasta scores: E(): 3.2e-32, 52.87% id in 174 aa, and to Aquifex aeolicus hypothetical protein Aq_1731 SWALL:O67621 (EMBL:AE000753) (186 aa) fasta scores: E(): 4.2e-09, 29.41% id in 170 aa, and to Caulobacter crescentus 5-formyltetrahydrofolate cyclo-ligase Cc3245 SWALL:Q9A3F9 (EMBL:AE005988) (214 aa) fasta scores: E(): 6.4e-08, 32.27% id in 189 aa
YP_220349.1	catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs
YP_220350.1	Similar to Chlamydia trachomatis hypothetical protein Ct610 SWALL:O84616 (EMBL:AE001331) (231 aa) fasta scores: E(): 9.8e-62, 71.56% id in 218 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220351.1	Similar to Chlamydia pneumoniae ct611 hypothetical protein Cpj0760 SWALL:Q9JSA6 (EMBL:AP002547) (246 aa) fasta scores: E(): 7.4e-64, 63.48% id in 241 aa, and to Methanosarcina acetivorans hypothetical protein Ma3512 SWALL:Q8TKA2 (EMBL:AE011060) (268 aa) fasta scores: E(): 1.4e-16, 36.52% id in 230 aa
YP_220352.1	Similar to Staphylococcus haemolyticus dihydrofolate reductase DfrD SWALL:DYR_STAHA (SWALL:Q54277) (166 aa) fasta scores: E(): 5.6e-12, 31.64% id in 158 aa, and to Chlamydia pneumoniae dihydrofolate reductase FolA SWALL:Q9Z7E7 (EMBL:AE001657) (170 aa) fasta scores: E(): 2.2e-34, 54.71% id in 159 aa
YP_220353.1	Similar to Chlamydia pneumoniae folate synthesis bifunctional protein [includes: 2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) (7,8- dihydro-6-hydroxymethylpterin-pyrophosphokinase) (HppK) (6- hydroxymethyl-7,8-dihydropterin pyrophosphokinase) (PppK); dihydropteroate synthase (EC 2.5.1.15) (dhps) (dihydropteroate pyrophosphorylase)] FolKP or FolP SWALL:FOKP_CHLPN (SWALL:Q9Z7E8) (450 aa) fasta scores: E(): 2.4e-110, 61.17% id in 443 aa, and to Pneumocystis carinii folic acid synthesis protein [includes: dihydroneopterin aldolase (EC 4.1.2.25) (DhnA) (FasA); FasB; dihydropteroate synthase (EC 2.5.1.15) (DhpS) (dihydropteroate pyrophosphorylase) (FasC); 2- amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase (EC 2.7.6.3) (7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase) (HppK) (6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase) (PppK) (FasC)] Fas SWALL:FAS_PNECA (SWALL:P29251) (740 aa) fasta scores: E(): 1.2e-21, 28.9% id in 467 aa
YP_220354.1	sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released
YP_220355.1	Similar to Chlamydia pneumoniae ct616 hypothetical protein SWALL:Q9Z7F1 (EMBL:AE001657) (401 aa) fasta scores: E(): 4.3e-84, 65.08% id in 401 aa, and to Streptococcus pyogenes virulence factor-related M protein precursor EnnX SWALL:MX_STRPY (SWALL:P16946) (369 aa) fasta scores: E(): 0.076, 22.68% id in 238 aa
YP_220356.1	binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase
YP_220357.1	Similar to Chlamydia pneumoniae hypothetical protein Cpn0753 SWALL:Q9Z7F3 (EMBL:AE001657) (282 aa) fasta scores: E(): 2.6e-12, 30.85% id in 269 aa
YP_220358.1	Similar to Escherichia coli exodeoxyribonuclease V alpha chain recD SWALL:EX5A_ECOLI (SWALL:P04993) (608 aa) fasta scores: E(): 9.3e-05, 25.33% id in 592 aa, and to Chlamydia pneumoniae exodeoxyribonuclease V SWALL:Q9JRZ2 (EMBL:AE002268) (493 aa) fasta scores: E(): 2.9e-108, 56.7% id in 492 aa
YP_220359.1	Similar to Chlamydia pneumoniae Ct651 hypothetical protein SWALL:Q9Z7F5 (EMBL:AE001657) (609 aa) fasta scores: E(): 1.3e-116, 49.34% id in 612 aa
YP_220360.1	Similar to Chlamydia pneumoniae HTH transcriptional regulatory protein + receiver doman TctD SWALL:Q9Z7F6 (EMBL:AE001656) (235 aa) fasta scores: E(): 8.4e-60, 67.24% id in 232 aa, and to Lactococcus lactis two-component system regulator LlrA or ll1594 SWALL:Q9CF87 (EMBL:AE006390) (230 aa) fasta scores: E(): 4.6e-09, 27.39% id in 230 aa, and to Salmonella typhimurium transcriptional regulatory protein TctD or stm2785 SWALL:TCTD_SALTY (SWALL:P22104) (224 aa) fasta scores: E(): 1.7e-07, 31.69% id in 142 aa
YP_220361.1	Similar to C-terminal region of Escherichia coli bifunctional GlmU protein [includes: N-terminal UDP-N-acetylglucosamine pyrophosphorylase (EC 2.7.7.23) and glucosamine-1-phosphate N-acetyltransferase (EC 2.3.1.57)] SWALL:GLMU_ECOLI (SWALL:P17114) (456 aa) fasta scores: E(): 2.1e-06, 29.32% id in 208 aa, and to Sulfolobus tokodaii  glucose-1-phosphate thymidylyltransferase St0452 SWALL:Q975F9 (EMBL:AP000982) (401 aa) fasta scores: E(): 1.2e-18, 38.54% id in 179 aa
YP_220362.1	Similar to Chlamydia trachomatis geranylgeranyl pyrophosphate synthase IspA or ct628 SWALL:O84633 (EMBL:AE001333) (291 aa) fasta scores: E(): 2.9e-62, 58.51% id in 282 aa, and to Escherichia coli geranyltranstransferase IspA or b0421 SWALL:ISPA_ECOLI (SWALL:P22939) (299 aa) fasta scores: E(): 2.8e-20, 35.29% id in 272 aa
YP_220363.1	Similar to Chlamydia muridarum hypothetical protein Tc0920 SWALL:Q9PJB2 (EMBL:AE002358) (84 aa) fasta scores: E(): 3.8e-27, 84.52% id in 84 aa. Only significant full-length database matches are to Chlamydiaceae proteins.
YP_220364.1	Similar to others from Chlamydia eg. Chlamydia trachomatis protein Ct632 SWALL:Y632_CHLTR (SWALL:O84637) (529 aa) fasta scores: E(): 7e-170, 78.45% id in 529 aa