Query 035937 Match_columns 82 No_of_seqs 167 out of 1183 Neff 9.4 Searched_HMMs 46136 Date Fri Mar 29 07:49:42 2013 Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035937.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035937hhsearch_cdd -cpu 12 -v 0 No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 PF00406 ADK: Adenylate kinase 99.9 9.3E-27 2E-31 135.4 10.5 80 2-81 1-94 (151) 2 PLN02674 adenylate kinase 99.9 4.8E-26 1E-30 141.3 9.6 81 1-81 35-129 (244) 3 PLN02459 probable adenylate ki 99.9 5.3E-25 1.1E-29 137.5 10.0 81 1-81 33-129 (261) 4 PRK14529 adenylate kinase; Pro 99.9 6.2E-25 1.3E-29 134.9 8.3 81 1-81 4-97 (223) 5 KOG3079 Uridylate kinase/adeny 99.9 1.4E-24 3.1E-29 128.8 9.2 81 1-81 12-107 (195) 6 TIGR01351 adk adenylate kinase 99.9 2.8E-24 6.1E-29 130.8 9.7 81 1-81 3-98 (210) 7 PRK13808 adenylate kinase; Pro 99.9 1.9E-24 4.2E-29 138.7 9.3 81 1-81 4-98 (333) 8 PTZ00088 adenylate kinase 1; P 99.9 3.3E-24 7.3E-29 132.2 9.8 81 1-81 10-106 (229) 9 PRK14532 adenylate kinase; Pro 99.9 3.3E-24 7.3E-29 128.3 9.5 81 1-81 4-98 (188) 10 PRK14531 adenylate kinase; Pro 99.9 3.3E-24 7.2E-29 128.2 9.3 81 1-81 6-99 (183) 11 TIGR01359 UMP_CMP_kin_fam UMP- 99.9 7.4E-24 1.6E-28 126.1 9.5 81 1-81 3-96 (183) 12 PRK14526 adenylate kinase; Pro 99.9 9.4E-24 2E-28 128.9 9.3 81 1-81 4-98 (211) 13 COG0563 Adk Adenylate kinase a 99.9 2.3E-23 5E-28 124.4 9.5 81 1-81 4-98 (178) 14 PRK14528 adenylate kinase; Pro 99.9 3.2E-23 6.9E-28 124.4 9.4 81 1-81 5-99 (186) 15 PRK00279 adk adenylate kinase; 99.9 3.3E-23 7.1E-28 126.5 9.4 80 1-80 4-97 (215) 16 PRK02496 adk adenylate kinase; 99.9 1.1E-22 2.5E-27 121.4 9.8 81 1-81 5-99 (184) 17 PLN02200 adenylate kinase fami 99.9 9.9E-23 2.1E-27 126.0 9.7 81 1-81 47-140 (234) 18 PRK14527 adenylate kinase; Pro 99.9 3.7E-22 8E-27 120.0 8.9 81 1-81 10-103 (191) 19 cd01428 ADK Adenylate kinase ( 99.9 5.5E-22 1.2E-26 118.7 9.6 81 1-81 3-97 (194) 20 PRK14530 adenylate kinase; Pro 99.9 3.4E-21 7.5E-26 117.6 9.3 79 1-81 7-102 (215) 21 PLN02842 nucleotide kinase 99.8 5.9E-20 1.3E-24 123.0 10.2 81 1-81 1-96 (505) 22 TIGR01360 aden_kin_iso1 adenyl 99.8 2.4E-19 5.1E-24 106.8 10.4 80 1-80 7-101 (188) 23 KOG3078 Adenylate kinase [Nucl 99.8 2.5E-18 5.4E-23 105.9 5.9 81 1-81 19-113 (235) 24 PRK01184 hypothetical protein; 99.7 1.3E-15 2.8E-20 90.9 8.9 79 1-81 5-99 (184) 25 PRK08118 topology modulation p 99.6 1.7E-15 3.8E-20 89.7 6.7 65 1-71 5-69 (167) 26 PRK03839 putative kinase; Prov 99.6 7E-15 1.5E-19 87.5 6.0 69 1-71 4-75 (180) 27 PRK06217 hypothetical protein; 99.6 7.9E-15 1.7E-19 87.7 5.0 70 1-72 5-75 (183) 28 PRK08356 hypothetical protein; 99.5 1.5E-14 3.3E-19 87.2 5.3 77 1-81 9-113 (195) 29 PF13207 AAA_17: AAA domain; P 99.5 8.8E-15 1.9E-19 81.9 3.9 69 1-69 3-78 (121) 30 COG1102 Cmk Cytidylate kinase 99.5 1.5E-13 3.3E-18 80.8 6.9 38 2-39 5-42 (179) 31 PRK07261 topology modulation p 99.5 1.3E-13 2.8E-18 81.9 5.9 68 1-74 4-71 (171) 32 PHA02530 pseT polynucleotide k 99.4 4.7E-13 1E-17 84.9 7.3 81 1-81 6-95 (300) 33 PF13671 AAA_33: AAA domain; P 99.4 1.3E-12 2.8E-17 74.8 8.4 80 1-80 3-89 (143) 34 KOG3347 Predicted nucleotide k 99.4 8.9E-13 1.9E-17 76.8 6.5 64 1-67 11-81 (176) 35 PRK13949 shikimate kinase; Pro 99.4 2.3E-12 5.1E-17 76.4 7.6 78 1-81 5-93 (169) 36 PRK04040 adenylate kinase; Pro 99.3 6.4E-12 1.4E-16 75.7 7.1 69 1-69 6-88 (188) 37 PRK06762 hypothetical protein; 99.3 2.3E-11 5E-16 71.4 8.5 76 1-79 6-86 (166) 38 cd02020 CMPK Cytidine monophos 99.3 3.5E-12 7.5E-17 73.1 4.5 34 1-34 3-36 (147) 39 PRK00625 shikimate kinase; Pro 99.3 2.7E-11 5.9E-16 72.2 8.2 36 1-36 4-39 (173) 40 PRK12339 2-phosphoglycerate ki 99.3 9.1E-11 2E-15 71.3 9.6 38 1-38 7-44 (197) 41 cd02021 GntK Gluconate kinase 99.3 3.2E-11 6.8E-16 69.8 7.3 81 1-81 3-92 (150) 42 COG0703 AroK Shikimate kinase 99.3 4E-11 8.8E-16 71.3 7.3 77 1-80 6-93 (172) 43 PRK13948 shikimate kinase; Pro 99.2 4.7E-11 1E-15 71.7 7.3 77 1-80 14-101 (182) 44 TIGR02173 cyt_kin_arch cytidyl 99.2 3.5E-11 7.6E-16 70.6 6.4 37 1-37 4-40 (171) 45 cd00464 SK Shikimate kinase (S 99.2 1E-10 2.2E-15 67.6 7.3 36 1-36 3-38 (154) 46 PRK04182 cytidylate kinase; Pr 99.2 8E-11 1.7E-15 69.5 6.8 37 1-37 4-40 (180) 47 PRK13947 shikimate kinase; Pro 99.2 1.1E-10 2.3E-15 68.8 7.2 35 1-35 5-39 (171) 48 PRK03731 aroL shikimate kinase 99.2 2.3E-10 5.1E-15 67.4 8.1 36 1-36 6-41 (171) 49 PRK13946 shikimate kinase; Pro 99.1 4.2E-10 9.2E-15 67.4 7.8 35 1-35 14-48 (184) 50 PRK00131 aroK shikimate kinase 99.1 8.8E-11 1.9E-15 68.9 4.3 35 1-35 8-42 (175) 51 TIGR01313 therm_gnt_kin carboh 99.1 5.1E-10 1.1E-14 65.6 7.2 32 1-32 2-33 (163) 52 PRK14730 coaE dephospho-CoA ki 99.1 1.6E-10 3.5E-15 69.9 4.5 38 1-38 5-42 (195) 53 TIGR03574 selen_PSTK L-seryl-t 99.1 6.6E-10 1.4E-14 69.2 6.6 72 1-75 3-82 (249) 54 cd02022 DPCK Dephospho-coenzym 99.0 3.3E-10 7.1E-15 67.6 4.2 37 1-38 3-39 (179) 55 COG0283 Cmk Cytidylate kinase 99.0 3.2E-10 7E-15 69.4 4.2 35 2-36 9-43 (222) 56 TIGR01663 PNK-3'Pase polynucle 99.0 2.3E-09 4.9E-14 73.1 8.4 68 1-81 373-440 (526) 57 COG0237 CoaE Dephospho-CoA kin 99.0 5E-10 1.1E-14 68.3 4.4 36 2-38 7-42 (201) 58 PRK14021 bifunctional shikimat 99.0 2.4E-09 5.3E-14 73.2 7.6 75 1-78 10-95 (542) 59 PRK12338 hypothetical protein; 99.0 3.5E-09 7.6E-14 68.4 7.8 37 1-37 8-44 (319) 60 PF01202 SKI: Shikimate kinase 99.0 1.9E-09 4.2E-14 63.1 5.8 72 6-80 1-83 (158) 61 PF13238 AAA_18: AAA domain; P 99.0 6.3E-09 1.4E-13 58.1 7.6 21 1-21 2-22 (129) 62 cd02027 APSK Adenosine 5'-phos 99.0 1E-08 2.2E-13 59.7 8.6 80 1-81 3-91 (149) 63 PRK05057 aroK shikimate kinase 99.0 4.5E-09 9.7E-14 62.5 7.0 35 1-35 8-42 (172) 64 COG0645 Predicted kinase [Gene 98.9 5.2E-09 1.1E-13 62.0 6.7 81 1-81 5-96 (170) 65 PRK00081 coaE dephospho-CoA ki 98.9 1.3E-09 2.9E-14 65.8 4.3 37 1-38 6-42 (194) 66 PLN02199 shikimate kinase 98.9 7.7E-09 1.7E-13 66.2 7.9 36 1-36 106-141 (303) 67 COG1936 Predicted nucleotide k 98.9 1.1E-09 2.3E-14 65.2 3.6 35 1-36 4-38 (180) 68 cd00227 CPT Chloramphenicol (C 98.9 6.8E-09 1.5E-13 61.6 7.0 34 1-34 6-41 (175) 69 PRK13951 bifunctional shikimat 98.9 5.5E-09 1.2E-13 70.8 7.4 35 1-35 4-38 (488) 70 TIGR00152 dephospho-CoA kinase 98.9 2E-09 4.3E-14 64.6 4.4 38 1-38 3-40 (188) 71 PRK04220 2-phosphoglycerate ki 98.9 1.4E-08 3.1E-13 65.1 8.5 37 1-37 96-132 (301) 72 PRK09518 bifunctional cytidyla 98.9 4.1E-09 8.9E-14 74.0 6.5 35 2-36 6-40 (712) 73 PRK03333 coaE dephospho-CoA ki 98.9 5.6E-09 1.2E-13 69.1 6.3 36 2-38 6-41 (395) 74 TIGR00017 cmk cytidylate kinas 98.9 2.2E-09 4.9E-14 66.0 4.2 34 2-35 7-40 (217) 75 PHA02575 1 deoxynucleoside mon 98.9 2E-08 4.3E-13 62.1 7.9 35 2-37 5-40 (227) 76 PRK06547 hypothetical protein; 98.9 1.3E-09 2.8E-14 64.9 2.5 33 2-34 20-52 (172) 77 cd02019 NK Nucleoside/nucleoti 98.9 4.3E-09 9.3E-14 54.0 4.1 21 1-21 3-23 (69) 78 PRK00023 cmk cytidylate kinase 98.9 2.7E-09 5.9E-14 65.9 4.0 35 2-36 9-43 (225) 79 PRK08233 hypothetical protein; 98.9 5.6E-09 1.2E-13 61.8 4.8 22 1-22 7-28 (182) 80 PRK11860 bifunctional 3-phosph 98.9 1E-08 2.2E-13 71.5 6.8 34 2-35 447-480 (661) 81 PF00004 AAA: ATPase family as 98.9 2.2E-09 4.7E-14 60.3 2.9 32 1-32 2-35 (132) 82 KOG3354 Gluconate kinase [Carb 98.8 6.2E-09 1.3E-13 61.3 4.7 79 1-79 16-102 (191) 83 PRK14734 coaE dephospho-CoA ki 98.8 5.1E-09 1.1E-13 63.7 4.5 37 2-39 6-42 (200) 84 PRK08154 anaerobic benzoate ca 98.8 2.6E-08 5.6E-13 64.1 7.9 35 1-35 137-171 (309) 85 COG2019 AdkA Archaeal adenylat 98.8 1.3E-08 2.9E-13 60.5 5.9 68 1-68 8-86 (189) 86 PTZ00451 dephospho-CoA kinase; 98.8 6E-09 1.3E-13 65.2 4.8 38 2-39 6-43 (244) 87 COG1222 RPT1 ATP-dependent 26S 98.8 1.2E-08 2.6E-13 66.7 6.2 39 1-39 189-229 (406) 88 PRK14733 coaE dephospho-CoA ki 98.8 6.5E-09 1.4E-13 63.5 4.4 36 2-37 11-46 (204) 89 PRK12724 flagellar biosynthesi 98.8 1.9E-08 4E-13 67.1 6.7 79 1-81 227-323 (432) 90 PRK05541 adenylylsulfate kinas 98.8 2.9E-08 6.4E-13 58.8 7.0 35 1-36 11-50 (176) 91 PLN02422 dephospho-CoA kinase 98.8 8.7E-09 1.9E-13 64.0 4.6 37 2-39 6-42 (232) 92 PHA00729 NTP-binding motif con 98.8 1.9E-08 4.2E-13 62.2 5.8 67 1-68 21-90 (226) 93 KOG0733 Nuclear AAA ATPase (VC 98.8 1.7E-08 3.7E-13 69.8 6.0 61 1-67 227-289 (802) 94 COG3265 GntK Gluconate kinase 98.8 2E-08 4.3E-13 58.6 4.8 57 3-59 1-63 (161) 95 PRK13477 bifunctional pantoate 98.8 6.3E-09 1.4E-13 70.8 3.0 34 2-35 289-322 (512) 96 PF01121 CoaE: Dephospho-CoA k 98.7 1.1E-08 2.5E-13 61.4 3.6 36 2-38 5-40 (180) 97 PF06414 Zeta_toxin: Zeta toxi 98.7 3E-08 6.5E-13 60.0 5.4 75 1-77 19-109 (199) 98 PRK05800 cobU adenosylcobinami 98.7 4.9E-08 1.1E-12 58.1 6.1 36 1-36 5-42 (170) 99 PF07931 CPT: Chloramphenicol 98.7 3.1E-08 6.7E-13 59.2 5.1 79 1-79 5-102 (174) 100 TIGR00455 apsK adenylylsulfate 98.7 2.1E-07 4.5E-12 55.6 8.7 80 1-81 22-110 (184) 101 COG1618 Predicted nucleotide k 98.7 6.7E-09 1.5E-13 61.4 2.2 38 1-38 9-46 (179) 102 PRK14731 coaE dephospho-CoA ki 98.7 1.8E-08 4E-13 61.5 4.1 35 2-37 10-44 (208) 103 PF01745 IPT: Isopentenyl tran 98.7 4.2E-08 9.1E-13 60.4 5.5 68 1-68 5-97 (233) 104 PRK12269 bifunctional cytidyla 98.7 2.2E-08 4.8E-13 71.5 4.8 35 2-36 39-73 (863) 105 PRK00889 adenylylsulfate kinas 98.7 2.6E-07 5.7E-12 54.7 8.6 36 1-37 8-48 (175) 106 cd02024 NRK1 Nicotinamide ribo 98.7 1.2E-08 2.7E-13 61.6 2.9 34 2-35 4-38 (187) 107 PRK12377 putative replication 98.7 6.1E-08 1.3E-12 60.8 5.7 37 1-37 105-146 (248) 108 COG2256 MGS1 ATPase related to 98.7 6.6E-08 1.4E-12 64.0 6.0 31 1-31 52-82 (436) 109 PRK14732 coaE dephospho-CoA ki 98.7 3.6E-08 7.7E-13 59.9 4.3 36 2-38 4-39 (196) 110 PRK12337 2-phosphoglycerate ki 98.7 1.5E-07 3.3E-12 63.5 7.4 37 1-37 259-295 (475) 111 KOG0739 AAA+-type ATPase [Post 98.7 1.3E-07 2.9E-12 61.1 6.9 61 1-67 170-232 (439) 112 PF05496 RuvB_N: Holliday junc 98.6 1.9E-08 4E-13 62.3 2.6 25 1-25 54-78 (233) 113 PRK09825 idnK D-gluconate kina 98.6 1.5E-07 3.3E-12 56.2 6.4 32 1-32 7-38 (176) 114 TIGR02881 spore_V_K stage V sp 98.6 1.1E-07 2.4E-12 59.7 6.0 21 1-21 46-66 (261) 115 PRK05537 bifunctional sulfate 98.6 1.1E-07 2.5E-12 65.5 6.4 36 1-37 396-437 (568) 116 COG0572 Udk Uridine kinase [Nu 98.6 6.2E-08 1.4E-12 59.6 4.5 34 2-35 13-49 (218) 117 PF13173 AAA_14: AAA domain 98.6 1.8E-07 3.8E-12 53.0 6.0 34 1-34 6-43 (128) 118 PF01583 APS_kinase: Adenylyls 98.6 1.4E-07 3E-12 55.5 5.6 79 1-81 6-94 (156) 119 PRK08181 transposase; Validate 98.6 9.7E-08 2.1E-12 60.5 5.1 37 1-37 110-151 (269) 120 PRK03846 adenylylsulfate kinas 98.6 4E-07 8.7E-12 55.1 7.5 31 1-31 28-63 (198) 121 PRK13973 thymidylate kinase; P 98.6 1.9E-07 4.2E-12 57.1 6.2 37 2-38 8-55 (213) 122 PRK06526 transposase; Provisio 98.6 1.3E-07 2.7E-12 59.6 5.3 36 1-36 102-142 (254) 123 PRK11545 gntK gluconate kinase 98.6 3.8E-08 8.2E-13 58.1 2.5 29 3-31 1-29 (163) 124 PF01695 IstB_IS21: IstB-like 98.6 3.4E-08 7.3E-13 59.1 2.3 62 1-69 51-117 (178) 125 COG1484 DnaC DNA replication p 98.6 3.9E-07 8.4E-12 57.4 7.0 75 1-81 109-191 (254) 126 KOG3220 Similar to bacterial d 98.6 3.7E-07 8E-12 55.7 6.6 37 2-39 6-42 (225) 127 KOG1969 DNA replication checkp 98.6 4.3E-07 9.4E-12 63.9 7.5 61 1-70 330-400 (877) 128 PRK06696 uridine kinase; Valid 98.6 5.9E-08 1.3E-12 59.7 3.0 34 2-35 27-65 (223) 129 PLN00020 ribulose bisphosphate 98.6 1.8E-07 3.9E-12 61.8 5.4 52 1-57 152-205 (413) 130 PF00485 PRK: Phosphoribulokin 98.6 7.2E-08 1.6E-12 58.1 3.3 32 2-33 4-44 (194) 131 PRK00091 miaA tRNA delta(2)-is 98.6 1.2E-07 2.6E-12 61.1 4.4 31 1-31 8-38 (307) 132 KOG0729 26S proteasome regulat 98.5 2.3E-07 5.1E-12 59.4 5.6 38 1-38 215-254 (435) 133 cd02028 UMPK_like Uridine mono 98.5 7.6E-08 1.7E-12 57.6 3.2 34 1-34 3-41 (179) 134 TIGR03575 selen_PSTK_euk L-ser 98.5 1E-07 2.2E-12 62.2 3.8 36 1-36 3-44 (340) 135 CHL00181 cbbX CbbX; Provisiona 98.5 4E-07 8.7E-12 58.2 6.4 34 1-34 63-105 (287) 136 PF07728 AAA_5: AAA domain (dy 98.5 8.5E-08 1.9E-12 54.7 3.0 25 1-25 3-27 (139) 137 PF13401 AAA_22: AAA domain; P 98.5 7.8E-07 1.7E-11 49.9 6.9 69 1-69 8-96 (131) 138 PRK05506 bifunctional sulfate 98.5 5.5E-07 1.2E-11 62.7 7.3 79 1-81 464-552 (632) 139 cd02023 UMPK Uridine monophosp 98.5 8E-08 1.7E-12 57.9 2.9 32 2-33 4-38 (198) 140 PRK03992 proteasome-activating 98.5 5.7E-07 1.2E-11 59.5 7.1 34 1-34 169-204 (389) 141 PRK09183 transposase/IS protei 98.5 3.4E-07 7.3E-12 57.7 5.5 35 1-35 106-145 (259) 142 TIGR00041 DTMP_kinase thymidyl 98.5 1.3E-06 2.8E-11 52.4 7.8 22 1-22 7-28 (195) 143 smart00382 AAA ATPases associa 98.5 7.2E-08 1.6E-12 53.6 2.2 23 1-23 6-28 (148) 144 PRK09087 hypothetical protein; 98.5 8.4E-07 1.8E-11 54.9 7.0 35 1-35 48-82 (226) 145 PRK05480 uridine/cytidine kina 98.5 7.5E-08 1.6E-12 58.5 2.3 32 2-33 11-45 (209) 146 PRK07667 uridine kinase; Provi 98.5 1.2E-07 2.5E-12 57.3 2.9 35 2-36 22-61 (193) 147 PF13521 AAA_28: AAA domain; P 98.5 1.1E-07 2.4E-12 55.8 2.6 36 1-39 3-38 (163) 148 PHA02244 ATPase-like protein 98.5 4.4E-07 9.6E-12 59.9 5.5 33 1-33 123-155 (383) 149 cd02025 PanK Pantothenate kina 98.5 1.2E-07 2.6E-12 58.5 2.7 32 2-33 4-42 (220) 150 PF08433 KTI12: Chromatin asso 98.5 2.8E-07 6E-12 58.5 4.4 32 1-32 5-41 (270) 151 PTZ00301 uridine kinase; Provi 98.5 7.9E-08 1.7E-12 59.0 1.9 33 2-34 8-47 (210) 152 PRK06835 DNA replication prote 98.5 1.1E-06 2.4E-11 57.1 7.1 36 1-36 187-227 (329) 153 TIGR02322 phosphon_PhnN phosph 98.5 1.3E-07 2.9E-12 56.0 2.6 22 1-22 5-26 (179) 154 KOG0744 AAA+-type ATPase [Post 98.5 1E-07 2.2E-12 62.0 2.2 38 1-38 181-229 (423) 155 TIGR02880 cbbX_cfxQ probable R 98.4 6E-07 1.3E-11 57.2 5.6 33 1-33 62-103 (284) 156 PRK04195 replication factor C 98.4 9.1E-07 2E-11 59.9 6.7 28 1-28 43-70 (482) 157 PLN02165 adenylate isopentenyl 98.4 1.6E-07 3.5E-12 61.1 2.9 31 1-31 47-77 (334) 158 PRK13975 thymidylate kinase; P 98.4 2.3E-07 4.9E-12 55.7 3.3 23 1-23 6-28 (196) 159 PRK10078 ribose 1,5-bisphospho 98.4 9.4E-08 2E-12 57.3 1.6 28 1-28 6-33 (186) 160 PF08303 tRNA_lig_kinase: tRNA 98.4 3.1E-06 6.6E-11 50.2 7.6 57 3-68 5-62 (168) 161 TIGR03420 DnaA_homol_Hda DnaA 98.4 8.7E-07 1.9E-11 54.1 5.6 33 1-33 42-79 (226) 162 TIGR00635 ruvB Holliday juncti 98.4 7.2E-07 1.6E-11 56.8 5.4 24 1-24 34-57 (305) 163 PRK08099 bifunctional DNA-bind 98.4 9.3E-07 2E-11 58.8 6.0 25 1-25 223-247 (399) 164 PRK06921 hypothetical protein; 98.4 2.4E-06 5.1E-11 54.1 7.6 35 1-35 121-161 (266) 165 PF00448 SRP54: SRP54-type pro 98.4 6E-07 1.3E-11 54.6 4.7 28 1-28 5-37 (196) 166 TIGR00174 miaA tRNA isopenteny 98.4 2.6E-07 5.6E-12 59.1 3.1 30 1-30 3-32 (287) 167 TIGR00235 udk uridine kinase. 98.4 2.4E-07 5.1E-12 56.4 2.8 31 2-32 11-44 (207) 168 COG3911 Predicted ATPase [Gene 98.4 3.4E-06 7.4E-11 49.6 7.4 45 1-45 13-58 (183) 169 TIGR00390 hslU ATP-dependent p 98.4 2.6E-07 5.5E-12 61.8 3.0 29 1-29 51-79 (441) 170 KOG0738 AAA+-type ATPase [Post 98.4 1.3E-06 2.7E-11 58.1 6.1 35 1-35 249-285 (491) 171 PRK07952 DNA replication prote 98.4 2.6E-06 5.6E-11 53.4 7.3 36 1-36 103-143 (244) 172 COG2074 2-phosphoglycerate kin 98.4 4.2E-07 9E-12 57.3 3.7 38 1-38 93-130 (299) 173 COG4639 Predicted kinase [Gene 98.4 2.7E-06 5.8E-11 50.2 6.8 78 1-80 6-88 (168) 174 cd03115 SRP The signal recogni 98.4 5.8E-06 1.2E-10 48.8 8.3 29 1-29 4-37 (173) 175 PRK05642 DNA replication initi 98.4 1.9E-06 4.1E-11 53.5 6.4 34 1-34 49-87 (234) 176 TIGR03263 guanyl_kin guanylate 98.4 1.3E-07 2.7E-12 56.1 1.0 24 1-24 5-28 (180) 177 KOG0731 AAA+-type ATPase conta 98.4 9.9E-07 2.1E-11 62.4 5.4 34 1-34 348-383 (774) 178 smart00763 AAA_PrkA PrkA AAA d 98.4 2.8E-07 6E-12 60.5 2.5 23 1-23 82-104 (361) 179 PRK08116 hypothetical protein; 98.4 3.1E-06 6.6E-11 53.7 7.1 36 1-36 118-158 (268) 180 PRK05201 hslU ATP-dependent pr 98.3 3.3E-07 7.1E-12 61.4 2.8 29 1-29 54-82 (443) 181 PRK13974 thymidylate kinase; P 98.3 4.3E-06 9.2E-11 51.2 7.4 22 1-22 7-28 (212) 182 cd00544 CobU Adenosylcobinamid 98.3 8.2E-07 1.8E-11 52.9 4.2 29 1-29 3-33 (169) 183 CHL00195 ycf46 Ycf46; Provisio 98.3 3.6E-07 7.7E-12 62.1 2.9 28 1-28 263-290 (489) 184 cd00009 AAA The AAA+ (ATPases 98.3 4.5E-07 9.7E-12 50.8 2.9 21 1-21 23-43 (151) 185 COG4088 Predicted nucleotide k 98.3 2.9E-07 6.2E-12 56.7 2.1 21 1-21 5-25 (261) 186 smart00072 GuKc Guanylate kina 98.3 6.9E-07 1.5E-11 53.5 3.8 21 1-21 6-26 (184) 187 KOG0727 26S proteasome regulat 98.3 2E-06 4.4E-11 54.8 6.0 39 1-39 193-233 (408) 188 PRK05342 clpX ATP-dependent pr 98.3 3.9E-07 8.5E-12 60.8 2.9 28 1-28 112-139 (412) 189 TIGR02640 gas_vesic_GvpN gas v 98.3 4.9E-07 1.1E-11 57.0 3.2 26 1-26 25-50 (262) 190 TIGR01650 PD_CobS cobaltochela 98.3 4.5E-07 9.7E-12 58.9 3.0 26 1-26 68-93 (327) 191 KOG0743 AAA+-type ATPase [Post 98.3 9.7E-07 2.1E-11 59.2 4.6 28 1-28 239-266 (457) 192 PRK00080 ruvB Holliday junctio 98.3 1.6E-06 3.4E-11 56.1 5.4 25 1-25 55-79 (328) 193 PRK06620 hypothetical protein; 98.3 4.4E-07 9.5E-12 55.8 2.6 28 1-28 48-75 (214) 194 cd01672 TMPK Thymidine monopho 98.3 5.9E-07 1.3E-11 53.5 3.2 37 1-37 4-51 (200) 195 PLN02840 tRNA dimethylallyltra 98.3 4.4E-07 9.5E-12 60.6 2.8 30 1-30 25-54 (421) 196 PRK08939 primosomal protein Dn 98.3 2E-06 4.4E-11 55.5 5.7 37 1-37 160-201 (306) 197 TIGR02012 tigrfam_recA protein 98.3 4.7E-06 1E-10 54.1 7.2 69 1-69 59-142 (321) 198 PRK00771 signal recognition pa 98.3 8.5E-07 1.8E-11 59.6 3.9 74 1-75 99-190 (437) 199 TIGR03015 pepcterm_ATPase puta 98.3 1E-05 2.2E-10 50.6 8.5 22 1-22 47-68 (269) 200 TIGR01241 FtsH_fam ATP-depende 98.3 5.5E-07 1.2E-11 61.1 3.0 28 1-28 92-119 (495) 201 cd00983 recA RecA is a bacter 98.3 5E-06 1.1E-10 54.1 7.3 68 2-69 60-142 (325) 202 PF03266 NTPase_1: NTPase; In 98.3 6.8E-07 1.5E-11 53.2 2.8 21 1-21 3-23 (168) 203 TIGR01242 26Sp45 26S proteasom 98.3 7.3E-07 1.6E-11 58.4 3.2 27 1-27 160-186 (364) 204 TIGR00382 clpX endopeptidase C 98.3 6.7E-07 1.5E-11 59.7 3.0 27 1-27 120-146 (413) 205 PRK05439 pantothenate kinase; 98.3 5.9E-07 1.3E-11 58.0 2.6 33 2-34 91-130 (311) 206 PRK05703 flhF flagellar biosyn 98.3 3.1E-06 6.7E-11 56.8 6.0 30 1-30 225-261 (424) 207 cd01120 RecA-like_NTPases RecA 98.3 5.4E-06 1.2E-10 47.6 6.3 33 1-33 3-40 (165) 208 COG0529 CysC Adenylylsulfate k 98.3 6.3E-07 1.4E-11 53.8 2.4 38 1-39 27-69 (197) 209 TIGR01243 CDC48 AAA family ATP 98.3 2.9E-06 6.4E-11 60.0 6.1 34 1-34 491-526 (733) 210 PF03215 Rad17: Rad17 cell cyc 98.3 8.2E-07 1.8E-11 60.8 3.1 27 1-27 49-75 (519) 211 PF01591 6PF2K: 6-phosphofruct 98.3 2.7E-06 5.8E-11 52.7 5.1 80 1-80 16-115 (222) 212 PTZ00454 26S protease regulato 98.3 8.5E-07 1.8E-11 59.0 3.1 28 1-28 183-210 (398) 213 PRK06761 hypothetical protein; 98.3 6.7E-07 1.5E-11 57.1 2.5 23 1-23 7-29 (282) 214 KOG0730 AAA+-type ATPase [Post 98.2 4.4E-06 9.6E-11 58.2 6.5 37 1-37 472-510 (693) 215 PRK08903 DnaA regulatory inact 98.2 1.4E-06 3.1E-11 53.5 3.8 34 1-34 46-84 (227) 216 PRK06893 DNA replication initi 98.2 1.2E-06 2.6E-11 54.2 3.5 29 1-29 43-76 (229) 217 PRK14087 dnaA chromosomal repl 98.2 7.7E-06 1.7E-10 55.2 7.5 36 1-36 145-187 (450) 218 COG1428 Deoxynucleoside kinase 98.2 9.4E-07 2E-11 54.2 2.8 24 2-25 9-32 (216) 219 PRK13341 recombination factor 98.2 6.8E-06 1.5E-10 58.3 7.3 30 1-30 56-85 (725) 220 cd01124 KaiC KaiC is a circadi 98.2 4.1E-06 8.8E-11 49.7 5.3 29 1-29 3-36 (187) 221 PRK14086 dnaA chromosomal repl 98.2 6.2E-06 1.3E-10 57.5 6.8 36 1-36 318-360 (617) 222 TIGR01618 phage_P_loop phage n 98.2 3.3E-06 7.3E-11 52.2 5.0 67 1-69 16-90 (220) 223 COG0464 SpoVK ATPases of the A 98.2 2.8E-06 6.2E-11 57.6 5.0 36 1-36 280-317 (494) 224 PRK00300 gmk guanylate kinase; 98.2 1E-06 2.2E-11 53.2 2.6 22 1-22 9-30 (205) 225 PF06745 KaiC: KaiC; InterPro 98.2 4.4E-06 9.6E-11 51.3 5.4 69 1-69 23-124 (226) 226 cd00071 GMPK Guanosine monopho 98.2 9.9E-07 2.1E-11 50.7 2.4 22 1-22 3-24 (137) 227 PF03029 ATP_bind_1: Conserved 98.2 1.2E-06 2.6E-11 54.7 2.8 21 2-22 1-21 (238) 228 PF00910 RNA_helicase: RNA hel 98.2 1.3E-06 2.8E-11 48.2 2.6 21 1-21 2-22 (107) 229 cd01673 dNK Deoxyribonucleosid 98.2 1.3E-06 2.9E-11 52.3 2.8 26 1-26 3-28 (193) 230 TIGR00064 ftsY signal recognit 98.2 1.8E-05 3.8E-10 50.4 8.0 28 2-29 77-109 (272) 231 PRK13342 recombination factor 98.2 1.3E-06 2.8E-11 58.2 3.0 28 1-28 40-67 (413) 232 COG1219 ClpX ATP-dependent pro 98.2 5.2E-06 1.1E-10 54.1 5.5 54 1-59 101-154 (408) 233 TIGR02639 ClpA ATP-dependent C 98.2 6.6E-06 1.4E-10 58.3 6.5 33 1-33 488-522 (731) 234 PTZ00361 26 proteosome regulat 98.2 1.4E-06 3.1E-11 58.5 3.1 26 1-26 221-246 (438) 235 COG2255 RuvB Holliday junction 98.2 1.5E-06 3.2E-11 55.7 3.0 25 1-25 56-80 (332) 236 PRK12723 flagellar biosynthesi 98.2 2.3E-06 4.9E-11 56.8 4.0 21 1-21 178-198 (388) 237 PLN02748 tRNA dimethylallyltra 98.2 1.4E-06 3E-11 59.0 2.9 34 1-34 26-61 (468) 238 TIGR00554 panK_bact pantothena 98.2 1.2E-06 2.6E-11 56.1 2.5 32 2-33 67-105 (290) 239 PRK08084 DNA replication initi 98.2 1.5E-06 3.3E-11 53.9 2.8 30 1-30 49-83 (235) 240 KOG0734 AAA+-type ATPase conta 98.2 7.3E-06 1.6E-10 56.6 6.2 28 1-28 341-368 (752) 241 TIGR00362 DnaA chromosomal rep 98.2 4.3E-06 9.2E-11 55.5 5.0 36 1-36 140-182 (405) 242 PF05729 NACHT: NACHT domain 98.2 1.4E-06 3.1E-11 50.3 2.5 21 1-21 4-24 (166) 243 PF00308 Bac_DnaA: Bacterial d 98.2 3.2E-06 6.9E-11 52.1 4.1 36 1-36 38-80 (219) 244 PRK12402 replication factor C 98.2 2E-06 4.4E-11 55.2 3.3 32 1-32 40-78 (337) 245 PRK09354 recA recombinase A; P 98.2 1.4E-05 3E-10 52.5 7.1 68 2-69 65-147 (349) 246 PRK10416 signal recognition pa 98.2 8E-06 1.7E-10 53.0 5.9 21 1-21 118-138 (318) 247 TIGR03345 VI_ClpV1 type VI sec 98.2 1E-05 2.3E-10 58.2 7.0 34 1-34 600-638 (852) 248 PF13245 AAA_19: Part of AAA d 98.1 2E-06 4.4E-11 44.9 2.6 20 2-21 15-35 (76) 249 PRK08727 hypothetical protein; 98.1 1.5E-05 3.2E-10 49.5 6.8 33 1-33 45-82 (233) 250 CHL00176 ftsH cell division pr 98.1 1.9E-06 4.1E-11 60.3 3.1 28 1-28 220-247 (638) 251 PRK15453 phosphoribulokinase; 98.1 2.1E-06 4.5E-11 54.9 2.9 33 1-33 9-46 (290) 252 PF07724 AAA_2: AAA domain (Cd 98.1 2.2E-06 4.7E-11 51.1 2.8 33 1-33 7-45 (171) 253 KOG3308 Uncharacterized protei 98.1 5.7E-06 1.2E-10 50.6 4.6 35 2-36 9-44 (225) 254 PRK07429 phosphoribulokinase; 98.1 2.1E-06 4.6E-11 55.8 2.9 31 2-32 13-46 (327) 255 PRK14737 gmk guanylate kinase; 98.1 1.8E-06 3.8E-11 52.1 2.3 22 1-22 8-29 (186) 256 KOG0733 Nuclear AAA ATPase (VC 98.1 2E-06 4.3E-11 59.9 2.7 38 1-38 549-588 (802) 257 TIGR03878 thermo_KaiC_2 KaiC d 98.1 2.5E-05 5.4E-10 49.2 7.5 29 1-29 40-73 (259) 258 PLN02348 phosphoribulokinase 98.1 2.4E-06 5.2E-11 56.7 2.9 31 2-32 54-104 (395) 259 TIGR02655 circ_KaiC circadian 98.1 1.2E-05 2.5E-10 54.7 6.3 69 1-69 267-362 (484) 260 TIGR01526 nadR_NMN_Atrans nico 98.1 2.7E-06 5.8E-11 55.3 3.1 26 1-26 166-191 (325) 261 PRK11331 5-methylcytosine-spec 98.1 6.3E-06 1.4E-10 55.7 4.9 22 1-22 198-219 (459) 262 PRK00149 dnaA chromosomal repl 98.1 5.7E-06 1.2E-10 55.6 4.7 35 1-35 152-193 (450) 263 TIGR00959 ffh signal recogniti 98.1 1.1E-05 2.5E-10 54.2 6.1 32 1-33 103-140 (428) 264 KOG0651 26S proteasome regulat 98.1 8.9E-06 1.9E-10 52.9 5.3 36 1-36 170-207 (388) 265 cd02026 PRK Phosphoribulokinas 98.1 2.5E-06 5.4E-11 54.2 2.8 31 2-32 4-37 (273) 266 TIGR00150 HI0065_YjeE ATPase, 98.1 2.8E-06 6.1E-11 48.8 2.8 24 1-24 26-49 (133) 267 PRK10867 signal recognition pa 98.1 1.2E-05 2.6E-10 54.1 6.2 33 1-34 104-142 (433) 268 PF07726 AAA_3: ATPase family 98.1 1.6E-06 3.5E-11 49.6 1.4 26 1-26 3-28 (131) 269 PRK11889 flhF flagellar biosyn 98.1 9E-06 1.9E-10 54.4 5.0 28 1-28 245-277 (436) 270 PF06068 TIP49: TIP49 C-termin 98.1 1.4E-06 3E-11 57.5 1.2 36 1-36 54-93 (398) 271 PRK14962 DNA polymerase III su 98.1 2.7E-06 5.9E-11 57.7 2.7 23 1-23 40-62 (472) 272 PRK14088 dnaA chromosomal repl 98.1 5.8E-06 1.3E-10 55.6 4.1 36 1-36 134-176 (440) 273 PRK12422 chromosomal replicati 98.1 1.5E-05 3.2E-10 53.8 6.0 35 1-35 145-184 (445) 274 cd02029 PRK_like Phosphoribulo 98.1 2.4E-06 5.2E-11 54.3 2.1 32 2-33 4-40 (277) 275 COG0466 Lon ATP-dependent Lon 98.1 2.6E-06 5.6E-11 59.9 2.4 31 1-31 354-386 (782) 276 PRK14974 cell division protein 98.1 1.6E-05 3.4E-10 52.0 5.8 21 1-21 144-164 (336) 277 PRK14738 gmk guanylate kinase; 98.1 2.6E-06 5.7E-11 51.9 2.1 20 1-20 17-36 (206) 278 KOG0728 26S proteasome regulat 98.1 1.9E-05 4.2E-10 50.4 6.0 39 1-39 185-225 (404) 279 PRK00411 cdc6 cell division co 98.0 3.1E-05 6.8E-10 50.9 7.2 21 1-21 59-79 (394) 280 PRK00698 tmk thymidylate kinas 98.0 3.5E-06 7.6E-11 50.7 2.6 21 1-21 7-27 (205) 281 PLN03025 replication factor C 98.0 3.4E-06 7.4E-11 54.4 2.6 21 1-21 38-58 (319) 282 PRK10865 protein disaggregatio 98.0 2.1E-05 4.5E-10 56.8 6.7 21 1-21 203-223 (857) 283 PF13555 AAA_29: P-loop contai 98.0 3.9E-06 8.6E-11 42.3 2.2 18 1-18 27-44 (62) 284 TIGR03689 pup_AAA proteasome A 98.0 3.6E-06 7.8E-11 57.6 2.7 23 1-23 220-242 (512) 285 TIGR01243 CDC48 AAA family ATP 98.0 3.8E-06 8.3E-11 59.4 2.8 27 1-27 216-242 (733) 286 PRK09270 nucleoside triphospha 98.0 4.4E-06 9.6E-11 51.6 2.8 21 2-22 38-58 (229) 287 TIGR01425 SRP54_euk signal rec 98.0 3.1E-05 6.7E-10 52.1 6.9 32 1-33 104-140 (429) 288 PLN02796 D-glycerate 3-kinase 98.0 4E-06 8.6E-11 54.9 2.7 32 2-33 105-141 (347) 289 PRK14961 DNA polymerase III su 98.0 3.8E-06 8.3E-11 55.1 2.6 23 1-23 42-64 (363) 290 TIGR00763 lon ATP-dependent pr 98.0 4.8E-06 1.1E-10 59.3 3.1 26 1-26 351-376 (775) 291 COG1224 TIP49 DNA helicase TIP 98.0 6.6E-06 1.4E-10 54.3 3.4 37 1-37 69-109 (450) 292 COG1855 ATPase (PilT family) [ 98.0 3.9E-06 8.5E-11 56.8 2.4 22 1-22 267-288 (604) 293 TIGR03877 thermo_KaiC_1 KaiC d 98.0 2.3E-05 4.9E-10 48.7 5.7 30 1-30 25-59 (237) 294 PF13086 AAA_11: AAA domain; P 98.0 4.7E-06 1E-10 50.4 2.5 21 1-21 21-41 (236) 295 KOG1970 Checkpoint RAD17-RFC c 98.0 4.2E-06 9.1E-11 57.5 2.4 29 1-29 114-142 (634) 296 cd01131 PilT Pilus retraction 98.0 5.1E-06 1.1E-10 50.4 2.5 22 1-22 5-26 (198) 297 COG0194 Gmk Guanylate kinase [ 98.0 5.6E-06 1.2E-10 50.0 2.5 22 1-22 8-29 (191) 298 PRK10865 protein disaggregatio 98.0 4.8E-05 1E-09 55.0 7.4 34 1-34 602-640 (857) 299 PRK14956 DNA polymerase III su 98.0 5.6E-06 1.2E-10 56.3 2.6 24 1-24 44-67 (484) 300 CHL00206 ycf2 Ycf2; Provisiona 98.0 5.5E-06 1.2E-10 63.4 2.8 33 1-33 1634-1668(2281) 301 PLN02318 phosphoribulokinase/u 98.0 5.7E-06 1.2E-10 57.6 2.6 31 2-32 70-101 (656) 302 cd00984 DnaB_C DnaB helicase C 98.0 4.3E-05 9.4E-10 47.2 6.3 28 1-28 17-50 (242) 303 COG0324 MiaA tRNA delta(2)-iso 98.0 8.2E-06 1.8E-10 52.7 3.2 31 1-31 7-37 (308) 304 PRK06645 DNA polymerase III su 98.0 6.1E-06 1.3E-10 56.5 2.7 25 1-25 47-71 (507) 305 KOG0736 Peroxisome assembly fa 98.0 3.3E-05 7.2E-10 55.1 6.3 51 1-56 709-761 (953) 306 TIGR02639 ClpA ATP-dependent C 98.0 4E-05 8.7E-10 54.4 6.7 21 1-21 207-227 (731) 307 KOG0737 AAA+-type ATPase [Post 97.9 5.9E-06 1.3E-10 54.4 2.4 37 1-37 131-169 (386) 308 PRK11034 clpA ATP-dependent Cl 97.9 6.8E-06 1.5E-10 58.5 2.9 31 1-31 492-524 (758) 309 TIGR03499 FlhF flagellar biosy 97.9 2.8E-05 6.1E-10 49.6 5.4 30 1-30 198-234 (282) 310 PRK06067 flagellar accessory p 97.9 4.4E-05 9.5E-10 47.2 6.1 32 1-32 29-65 (234) 311 COG0396 sufC Cysteine desulfur 97.9 6.7E-06 1.4E-10 51.3 2.4 19 2-20 35-53 (251) 312 PF00625 Guanylate_kin: Guanyl 97.9 7.6E-06 1.7E-10 48.9 2.6 22 1-22 6-27 (183) 313 KOG0726 26S proteasome regulat 97.9 2.4E-05 5.1E-10 50.9 4.9 38 1-38 223-262 (440) 314 PHA02544 44 clamp loader, smal 97.9 8.6E-06 1.9E-10 52.2 2.9 22 2-23 48-69 (316) 315 PRK04328 hypothetical protein; 97.9 8.7E-05 1.9E-09 46.5 7.3 28 1-28 27-59 (249) 316 KOG0735 AAA+-type ATPase [Post 97.9 2.7E-05 5.9E-10 55.3 5.4 37 1-37 705-743 (952) 317 PF13189 Cytidylate_kin2: Cyti 97.9 2.3E-05 5E-10 46.9 4.4 36 2-38 4-39 (179) 318 cd00820 PEPCK_HprK Phosphoenol 97.9 1E-05 2.2E-10 45.0 2.6 31 1-33 19-49 (107) 319 PF13191 AAA_16: AAA ATPase do 97.9 7.7E-06 1.7E-10 48.2 2.3 21 1-21 28-48 (185) 320 PRK12726 flagellar biosynthesi 97.9 7.4E-05 1.6E-09 49.9 6.9 29 1-29 210-243 (407) 321 PTZ00322 6-phosphofructo-2-kin 97.9 3.5E-05 7.6E-10 54.2 5.8 24 1-24 219-242 (664) 322 PF03308 ArgK: ArgK protein; 97.9 9.8E-06 2.1E-10 51.3 2.7 20 2-21 34-53 (266) 323 COG0714 MoxR-like ATPases [Gen 97.9 1.1E-05 2.4E-10 52.3 3.0 26 1-26 47-72 (329) 324 PF01078 Mg_chelatase: Magnesi 97.9 7.8E-06 1.7E-10 50.1 2.0 22 1-22 26-47 (206) 325 PRK05416 glmZ(sRNA)-inactivati 97.9 1.1E-05 2.5E-10 51.6 2.9 26 1-27 10-35 (288) 326 COG1223 Predicted ATPase (AAA+ 97.9 9.2E-06 2E-10 51.9 2.4 37 1-37 155-193 (368) 327 KOG2004 Mitochondrial ATP-depe 97.9 6.3E-06 1.4E-10 58.3 1.7 33 1-33 442-476 (906) 328 PRK14955 DNA polymerase III su 97.9 1.2E-05 2.5E-10 53.5 2.9 23 1-23 42-64 (397) 329 KOG0652 26S proteasome regulat 97.9 3.3E-05 7.1E-10 49.6 4.7 26 1-26 209-234 (424) 330 PF13479 AAA_24: AAA domain 97.9 3.6E-05 7.8E-10 47.2 4.8 27 1-30 7-33 (213) 331 COG1126 GlnQ ABC-type polar am 97.9 1.1E-05 2.3E-10 50.1 2.3 18 1-18 32-49 (240) 332 COG1136 SalX ABC-type antimicr 97.9 1.2E-05 2.5E-10 50.0 2.5 17 2-18 36-52 (226) 333 cd03255 ABC_MJ0796_Lo1CDE_FtsE 97.9 1.2E-05 2.5E-10 49.1 2.5 20 2-21 35-54 (218) 334 PRK14957 DNA polymerase III su 97.9 1.1E-05 2.5E-10 55.6 2.7 23 1-23 42-64 (546) 335 COG3842 PotA ABC-type spermidi 97.9 1.1E-05 2.4E-10 53.0 2.4 17 2-18 36-52 (352) 336 PRK14949 DNA polymerase III su 97.9 1.2E-05 2.5E-10 58.2 2.7 24 1-24 42-65 (944) 337 cd02030 NDUO42 NADH:Ubiquinone 97.9 2E-05 4.3E-10 48.5 3.4 25 2-26 4-28 (219) 338 PRK14963 DNA polymerase III su 97.9 1.1E-05 2.4E-10 55.2 2.5 23 1-23 40-62 (504) 339 PF08477 Miro: Miro-like prote 97.9 1.1E-05 2.4E-10 44.5 2.2 21 1-21 3-23 (119) 340 PRK10733 hflB ATP-dependent me 97.9 1.3E-05 2.8E-10 56.2 2.9 28 1-28 189-216 (644) 341 COG0465 HflB ATP-dependent Zn 97.8 6.3E-05 1.4E-09 52.4 6.1 35 1-35 187-223 (596) 342 cd01130 VirB11-like_ATPase Typ 97.8 1.3E-05 2.7E-10 48.1 2.5 21 1-21 29-49 (186) 343 PRK14964 DNA polymerase III su 97.8 1.3E-05 2.7E-10 54.8 2.6 23 1-23 39-61 (491) 344 PRK14958 DNA polymerase III su 97.8 1.3E-05 2.9E-10 54.9 2.7 24 1-24 42-65 (509) 345 PRK14960 DNA polymerase III su 97.8 1.3E-05 2.9E-10 56.4 2.8 24 1-24 41-64 (702) 346 COG3839 MalK ABC-type sugar tr 97.8 1.1E-05 2.3E-10 52.8 2.2 18 1-18 33-50 (338) 347 KOG2028 ATPase related to the 97.8 1E-05 2.2E-10 53.9 2.0 28 1-28 166-196 (554) 348 COG1124 DppF ABC-type dipeptid 97.8 1.3E-05 2.8E-10 50.2 2.4 17 2-18 38-54 (252) 349 TIGR01166 cbiO cobalt transpor 97.8 1.4E-05 3E-10 47.9 2.4 19 2-20 23-41 (190) 350 PRK04296 thymidine kinase; Pro 97.8 1.3E-05 2.8E-10 48.4 2.3 21 1-21 6-26 (190) 351 COG3854 SpoIIIAA ncharacterize 97.8 0.00011 2.4E-09 46.4 6.4 78 1-80 141-237 (308) 352 TIGR00960 3a0501s02 Type II (G 97.8 1.4E-05 3E-10 48.7 2.4 20 2-21 34-53 (216) 353 PLN03046 D-glycerate 3-kinase; 97.8 1.4E-05 3E-10 53.8 2.5 32 2-33 217-253 (460) 354 cd03225 ABC_cobalt_CbiO_domain 97.8 1.4E-05 3.1E-10 48.5 2.5 19 2-20 32-50 (211) 355 cd01918 HprK_C HprK/P, the bif 97.8 1.4E-05 3E-10 46.8 2.3 27 1-28 18-44 (149) 356 TIGR00416 sms DNA repair prote 97.8 3E-05 6.5E-10 52.5 4.1 68 1-69 98-179 (454) 357 TIGR01420 pilT_fam pilus retra 97.8 9.1E-05 2E-09 48.4 6.3 76 1-78 126-212 (343) 358 cd03292 ABC_FtsE_transporter F 97.8 1.5E-05 3.3E-10 48.4 2.5 20 2-21 32-51 (214) 359 PF00005 ABC_tran: ABC transpo 97.8 1.2E-05 2.7E-10 45.5 2.0 21 1-21 15-35 (137) 360 cd03261 ABC_Org_Solvent_Resist 97.8 1.5E-05 3.3E-10 49.2 2.5 19 2-20 31-49 (235) 361 PRK15455 PrkA family serine pr 97.8 1.2E-05 2.6E-10 55.9 2.1 22 1-22 107-128 (644) 362 cd01393 recA_like RecA is a b 97.8 0.00017 3.7E-09 44.1 7.1 19 2-20 24-42 (226) 363 cd03269 ABC_putative_ATPase Th 97.8 1.6E-05 3.5E-10 48.3 2.5 19 2-20 31-49 (210) 364 PRK14969 DNA polymerase III su 97.8 1.6E-05 3.5E-10 54.6 2.7 23 1-23 42-64 (527) 365 TIGR02673 FtsE cell division A 97.8 1.6E-05 3.5E-10 48.3 2.5 19 2-20 33-51 (214) 366 KOG0745 Putative ATP-dependent 97.8 2.6E-05 5.7E-10 52.7 3.6 29 1-29 230-258 (564) 367 PRK13695 putative NTPase; Prov 97.8 1.8E-05 3.9E-10 46.9 2.6 21 1-21 4-24 (174) 368 cd03264 ABC_drug_resistance_li 97.8 1.6E-05 3.6E-10 48.2 2.5 19 2-20 30-48 (211) 369 COG1120 FepC ABC-type cobalami 97.8 1.6E-05 3.5E-10 50.3 2.4 31 2-32 33-67 (258) 370 TIGR01223 Pmev_kin_anim phosph 97.8 0.00033 7.1E-09 42.2 7.9 80 1-81 3-110 (182) 371 cd03283 ABC_MutS-like MutS-lik 97.8 1.4E-05 3.1E-10 48.5 2.2 18 1-18 29-46 (199) 372 cd03263 ABC_subfamily_A The AB 97.8 1.7E-05 3.7E-10 48.4 2.5 19 2-20 33-51 (220) 373 cd03226 ABC_cobalt_CbiO_domain 97.8 1.7E-05 3.7E-10 48.0 2.4 19 2-20 31-49 (205) 374 cd03293 ABC_NrtD_SsuB_transpor 97.8 1.7E-05 3.7E-10 48.5 2.5 19 2-20 35-53 (220) 375 PF10662 PduV-EutP: Ethanolami 97.8 1.5E-05 3.3E-10 46.4 2.0 19 1-19 5-23 (143) 376 cd03259 ABC_Carb_Solutes_like 97.8 1.8E-05 3.9E-10 48.1 2.5 19 2-20 31-49 (213) 377 KOG0989 Replication factor C, 97.8 1.9E-05 4E-10 51.2 2.6 28 1-28 61-88 (346) 378 cd03258 ABC_MetN_methionine_tr 97.8 1.8E-05 3.9E-10 48.7 2.5 20 2-21 36-55 (233) 379 PF02367 UPF0079: Uncharacteri 97.8 2.2E-05 4.8E-10 44.6 2.6 24 1-24 19-42 (123) 380 cd03265 ABC_DrrA DrrA is the A 97.8 1.9E-05 4.1E-10 48.3 2.5 19 2-20 31-49 (220) 381 cd03301 ABC_MalK_N The N-termi 97.8 1.9E-05 4.2E-10 47.9 2.5 19 2-20 31-49 (213) 382 TIGR02315 ABC_phnC phosphonate 97.8 1.9E-05 4.1E-10 48.9 2.5 19 2-20 33-51 (243) 383 PRK10787 DNA-binding ATP-depen 97.8 2E-05 4.4E-10 56.4 2.9 26 1-26 353-378 (784) 384 cd01121 Sms Sms (bacterial rad 97.8 3.8E-05 8.2E-10 50.8 4.0 30 1-30 86-120 (372) 385 cd03256 ABC_PhnC_transporter A 97.8 1.9E-05 4.1E-10 48.8 2.5 19 2-20 32-50 (241) 386 cd03224 ABC_TM1139_LivF_branch 97.8 1.8E-05 3.9E-10 48.3 2.4 19 2-20 31-49 (222) 387 COG0467 RAD55 RecA-superfamily 97.8 0.00012 2.6E-09 45.9 6.1 30 1-30 27-61 (260) 388 PF01443 Viral_helicase1: Vira 97.8 2E-05 4.3E-10 48.2 2.5 21 1-21 2-22 (234) 389 TIGR03346 chaperone_ClpB ATP-d 97.8 0.00011 2.5E-09 53.0 6.6 21 1-21 198-218 (852) 390 TIGR03608 L_ocin_972_ABC putat 97.8 2E-05 4.4E-10 47.6 2.5 20 2-21 29-48 (206) 391 COG1116 TauB ABC-type nitrate/ 97.8 2E-05 4.2E-10 49.5 2.4 17 2-18 34-50 (248) 392 cd03296 ABC_CysA_sulfate_impor 97.8 1.9E-05 4.2E-10 48.8 2.5 19 2-20 33-51 (239) 393 cd03229 ABC_Class3 This class 97.8 2.1E-05 4.6E-10 46.7 2.5 19 2-20 31-49 (178) 394 cd03219 ABC_Mj1267_LivG_branch 97.8 1.8E-05 3.9E-10 48.8 2.2 19 2-20 31-49 (236) 395 TIGR02237 recomb_radB DNA repa 97.8 2.2E-05 4.7E-10 47.6 2.5 30 1-30 16-50 (209) 396 PRK11629 lolD lipoprotein tran 97.8 2.1E-05 4.5E-10 48.5 2.5 19 2-20 40-58 (233) 397 TIGR02211 LolD_lipo_ex lipopro 97.8 2.1E-05 4.5E-10 48.0 2.5 19 2-20 36-54 (221) 398 cd03262 ABC_HisP_GlnQ_permease 97.8 2.1E-05 4.6E-10 47.7 2.5 19 2-20 31-49 (213) 399 cd03260 ABC_PstB_phosphate_tra 97.8 2.2E-05 4.7E-10 48.2 2.5 20 2-21 31-50 (227) 400 TIGR02788 VirB11 P-type DNA tr 97.8 6.5E-05 1.4E-09 48.4 4.8 22 1-22 148-169 (308) 401 PRK09435 membrane ATPase/prote 97.8 2.5E-05 5.5E-10 51.0 2.9 20 2-21 61-80 (332) 402 TIGR03346 chaperone_ClpB ATP-d 97.7 8.5E-05 1.8E-09 53.7 5.7 33 1-33 599-636 (852) 403 cd03235 ABC_Metallic_Cations A 97.7 1.9E-05 4.1E-10 48.0 2.2 19 2-20 30-48 (213) 404 PRK10463 hydrogenase nickel in 97.7 2.6E-05 5.7E-10 50.1 2.8 20 2-21 109-128 (290) 405 PRK12727 flagellar biosynthesi 97.7 0.00013 2.8E-09 50.5 6.2 19 2-20 355-373 (559) 406 KOG1533 Predicted GTPase [Gene 97.7 1.3E-05 2.7E-10 50.4 1.3 19 1-19 6-24 (290) 407 PRK13541 cytochrome c biogenes 97.7 2.4E-05 5.1E-10 47.1 2.5 19 2-20 31-49 (195) 408 PRK15177 Vi polysaccharide exp 97.7 2.3E-05 5E-10 48.0 2.4 18 2-19 18-35 (213) 409 cd01394 radB RadB. The archaea 97.7 2.4E-05 5.2E-10 47.7 2.5 29 1-29 23-56 (218) 410 PRK14722 flhF flagellar biosyn 97.7 2.3E-05 5E-10 51.9 2.6 20 1-20 141-160 (374) 411 cd03218 ABC_YhbG The ABC trans 97.7 2.4E-05 5.2E-10 48.1 2.5 19 2-20 31-49 (232) 412 TIGR00101 ureG urease accessor 97.7 3.1E-05 6.8E-10 47.1 2.9 20 2-21 6-25 (199) 413 cd03222 ABC_RNaseL_inhibitor T 97.7 2.3E-05 4.9E-10 47.0 2.2 19 2-20 30-48 (177) 414 PRK00440 rfc replication facto 97.7 2.5E-05 5.5E-10 49.8 2.6 21 1-21 42-62 (319) 415 TIGR03864 PQQ_ABC_ATP ABC tran 97.7 2.5E-05 5.5E-10 48.3 2.5 19 2-20 32-50 (236) 416 TIGR01978 sufC FeS assembly AT 97.7 2.4E-05 5.2E-10 48.4 2.4 19 2-20 31-49 (243) 417 cd03257 ABC_NikE_OppD_transpor 97.7 2.4E-05 5.2E-10 47.9 2.4 19 2-20 36-54 (228) 418 TIGR03410 urea_trans_UrtE urea 97.7 2.4E-05 5.2E-10 48.1 2.4 19 2-20 31-49 (230) 419 TIGR02782 TrbB_P P-type conjug 97.7 2.8E-05 6.1E-10 50.1 2.7 75 1-79 136-222 (299) 420 PRK09519 recA DNA recombinatio 97.7 0.00014 3E-09 52.2 6.3 69 1-69 64-147 (790) 421 PRK10247 putative ABC transpor 97.7 2.6E-05 5.6E-10 48.0 2.5 19 2-20 38-56 (225) 422 PRK10751 molybdopterin-guanine 97.7 3.1E-05 6.6E-10 46.4 2.7 20 2-21 11-30 (173) 423 COG4619 ABC-type uncharacteriz 97.7 2.4E-05 5.3E-10 47.2 2.2 19 1-19 33-51 (223) 424 PRK11248 tauB taurine transpor 97.7 2.7E-05 5.8E-10 48.8 2.5 19 2-20 32-50 (255) 425 cd03297 ABC_ModC_molybdenum_tr 97.7 2.8E-05 6E-10 47.4 2.5 20 2-21 28-47 (214) 426 cd03268 ABC_BcrA_bacitracin_re 97.7 2.8E-05 6.1E-10 47.1 2.5 19 2-20 31-49 (208) 427 PRK11823 DNA repair protein Ra 97.7 5.1E-05 1.1E-09 51.3 3.9 34 1-34 84-122 (446) 428 PRK11124 artP arginine transpo 97.7 2.8E-05 6E-10 48.2 2.5 19 2-20 33-51 (242) 429 cd03266 ABC_NatA_sodium_export 97.7 2.8E-05 6.1E-10 47.4 2.4 19 2-20 36-54 (218) 430 TIGR02928 orc1/cdc6 family rep 97.7 2.7E-05 6E-10 50.7 2.5 20 1-20 44-63 (365) 431 cd03223 ABCD_peroxisomal_ALDP 97.7 3E-05 6.5E-10 45.7 2.5 19 2-20 32-50 (166) 432 PRK10584 putative ABC transpor 97.7 2.9E-05 6.3E-10 47.7 2.5 20 2-21 41-60 (228) 433 PRK14250 phosphate ABC transpo 97.7 2.8E-05 6.1E-10 48.2 2.5 19 2-20 34-52 (241) 434 PRK14242 phosphate transporter 97.7 2.9E-05 6.3E-10 48.4 2.5 19 2-20 37-55 (253) 435 cd03230 ABC_DR_subfamily_A Thi 97.7 3E-05 6.6E-10 45.9 2.5 19 2-20 31-49 (173) 436 COG2884 FtsE Predicted ATPase 97.7 2.8E-05 6E-10 47.5 2.3 20 1-20 32-51 (223) 437 cd03251 ABCC_MsbA MsbA is an e 97.7 2.9E-05 6.3E-10 47.8 2.5 20 2-21 33-52 (234) 438 PRK11264 putative amino-acid A 97.7 2.9E-05 6.4E-10 48.2 2.5 19 2-20 34-52 (250) 439 PF01926 MMR_HSR1: 50S ribosom 97.7 2.7E-05 5.9E-10 43.0 2.1 19 1-19 3-21 (116) 440 cd03215 ABC_Carb_Monos_II This 97.7 2.9E-05 6.4E-10 46.3 2.4 20 2-21 31-50 (182) 441 cd03247 ABCC_cytochrome_bd The 97.7 3.1E-05 6.7E-10 46.0 2.5 20 2-21 33-52 (178) 442 CHL00095 clpC Clp protease ATP 97.7 0.0001 2.2E-09 53.0 5.5 21 1-21 204-224 (821) 443 TIGR02770 nickel_nikD nickel i 97.7 2.8E-05 6.1E-10 47.9 2.4 19 2-20 17-35 (230) 444 PRK05896 DNA polymerase III su 97.7 3.1E-05 6.8E-10 54.0 2.8 23 1-23 42-64 (605) 445 PRK14247 phosphate ABC transpo 97.7 3E-05 6.4E-10 48.3 2.5 20 2-21 34-53 (250) 446 PRK10744 pstB phosphate transp 97.7 3E-05 6.4E-10 48.7 2.5 19 2-20 44-62 (260) 447 PRK10908 cell division protein 97.7 3.1E-05 6.7E-10 47.4 2.5 20 2-21 33-52 (222) 448 TIGR00176 mobB molybdopterin-g 97.7 4.1E-05 8.9E-10 44.9 2.9 20 2-21 4-23 (155) 449 cd03232 ABC_PDR_domain2 The pl 97.7 3.1E-05 6.8E-10 46.6 2.4 18 2-19 38-55 (192) 450 PRK13764 ATPase; Provisional 97.7 2.8E-05 6.1E-10 54.2 2.5 22 1-22 261-282 (602) 451 TIGR01184 ntrCD nitrate transp 97.7 3.2E-05 7E-10 47.7 2.5 19 2-20 16-34 (230) 452 PTZ00035 Rad51 protein; Provis 97.7 7.7E-05 1.7E-09 48.8 4.3 17 2-18 123-139 (337) 453 TIGR02323 CP_lyasePhnK phospho 97.7 3.1E-05 6.8E-10 48.2 2.5 20 2-21 34-53 (253) 454 PRK14729 miaA tRNA delta(2)-is 97.7 4.5E-05 9.7E-10 49.2 3.2 29 1-30 8-36 (300) 455 PRK14274 phosphate ABC transpo 97.7 3.3E-05 7.1E-10 48.4 2.5 19 2-20 43-61 (259) 456 PRK07994 DNA polymerase III su 97.7 2.9E-05 6.3E-10 54.5 2.4 24 1-24 42-65 (647) 457 cd03237 ABC_RNaseL_inhibitor_d 97.7 3.3E-05 7.1E-10 48.4 2.5 19 2-20 30-48 (246) 458 cd03228 ABCC_MRP_Like The MRP 97.7 3.6E-05 7.7E-10 45.5 2.5 20 2-21 33-52 (171) 459 PLN02924 thymidylate kinase 97.7 3.2E-05 6.9E-10 47.8 2.4 21 2-22 21-41 (220) 460 cd03298 ABC_ThiQ_thiamine_tran 97.7 3.4E-05 7.3E-10 46.9 2.4 20 2-21 29-48 (211) 461 cd03234 ABCG_White The White s 97.7 3.3E-05 7.2E-10 47.4 2.4 20 2-21 38-57 (226) 462 cd03238 ABC_UvrA The excision 97.7 3.3E-05 7.2E-10 46.2 2.4 17 2-18 26-42 (176) 463 PRK14267 phosphate ABC transpo 97.7 3.3E-05 7.2E-10 48.1 2.4 19 2-20 35-53 (253) 464 cd03295 ABC_OpuCA_Osmoprotecti 97.7 3.5E-05 7.5E-10 47.8 2.5 19 2-20 32-50 (242) 465 cd03246 ABCC_Protease_Secretio 97.7 3.7E-05 8E-10 45.5 2.5 20 2-21 33-52 (173) 466 PRK09302 circadian clock prote 97.7 0.00021 4.5E-09 48.9 6.4 29 1-29 277-310 (509) 467 PRK09493 glnQ glutamine ABC tr 97.7 3.5E-05 7.6E-10 47.7 2.5 19 2-20 32-50 (240) 468 PRK13648 cbiO cobalt transport 97.7 3.4E-05 7.5E-10 48.6 2.5 19 2-20 40-58 (269) 469 TIGR02868 CydC thiol reductant 97.7 0.00012 2.6E-09 50.0 5.2 20 2-21 366-385 (529) 470 TIGR00764 lon_rel lon-related 97.7 6.1E-05 1.3E-09 52.7 3.8 37 1-37 41-88 (608) 471 cd03254 ABCC_Glucan_exporter_l 97.7 3.5E-05 7.6E-10 47.3 2.5 20 2-21 34-53 (229) 472 PRK13531 regulatory ATPase Rav 97.7 3.1E-05 6.7E-10 52.9 2.3 22 1-22 43-64 (498) 473 PRK13538 cytochrome c biogenes 97.7 3.5E-05 7.7E-10 46.7 2.4 19 2-20 32-50 (204) 474 PRK10771 thiQ thiamine transpo 97.7 3.4E-05 7.3E-10 47.6 2.4 19 2-20 30-48 (232) 475 cd03221 ABCF_EF-3 ABCF_EF-3 E 97.7 3.4E-05 7.4E-10 44.6 2.2 20 2-21 31-50 (144) 476 cd03249 ABC_MTABC3_MDL1_MDL2 M 97.7 3.5E-05 7.5E-10 47.6 2.4 19 2-20 34-52 (238) 477 PRK14241 phosphate transporter 97.7 3.5E-05 7.7E-10 48.2 2.5 19 2-20 35-53 (258) 478 COG1419 FlhF Flagellar GTP-bin 97.7 0.00011 2.4E-09 49.0 4.9 29 2-30 208-243 (407) 479 KOG0991 Replication factor C, 97.7 3.5E-05 7.5E-10 48.7 2.3 21 1-21 52-72 (333) 480 TIGR01189 ccmA heme ABC export 97.7 3.8E-05 8.2E-10 46.3 2.5 20 2-21 31-50 (198) 481 TIGR03005 ectoine_ehuA ectoine 97.7 3.5E-05 7.6E-10 48.0 2.4 19 2-20 31-49 (252) 482 TIGR02324 CP_lyasePhnL phospho 97.7 3.7E-05 8E-10 47.1 2.5 20 2-21 39-58 (224) 483 PRK10895 lipopolysaccharide AB 97.7 3.7E-05 8E-10 47.6 2.5 19 2-20 34-52 (241) 484 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 97.7 3.6E-05 7.7E-10 47.4 2.4 19 2-20 53-71 (224) 485 COG1703 ArgK Putative periplas 97.7 3.8E-05 8.2E-10 49.6 2.5 20 2-21 56-75 (323) 486 cd03245 ABCC_bacteriocin_expor 97.7 3.7E-05 8.1E-10 46.9 2.5 19 2-20 35-53 (220) 487 PRK14255 phosphate ABC transpo 97.7 3.7E-05 8E-10 47.9 2.5 18 2-19 36-53 (252) 488 PRK14951 DNA polymerase III su 97.7 3.8E-05 8.3E-10 53.7 2.7 23 1-23 42-64 (618) 489 PRK11701 phnK phosphonate C-P 97.7 3.7E-05 8E-10 48.1 2.5 20 2-21 37-56 (258) 490 COG0378 HypB Ni2+-binding GTPa 97.7 4.3E-05 9.2E-10 46.6 2.6 31 2-33 18-52 (202) 491 PRK13540 cytochrome c biogenes 97.7 3.9E-05 8.4E-10 46.4 2.5 19 2-20 32-50 (200) 492 PRK14256 phosphate ABC transpo 97.6 3.8E-05 8.2E-10 47.9 2.5 20 2-21 35-54 (252) 493 PRK11247 ssuB aliphatic sulfon 97.6 3.8E-05 8.2E-10 48.4 2.5 19 2-20 43-61 (257) 494 PRK14248 phosphate ABC transpo 97.6 3.8E-05 8.3E-10 48.3 2.5 18 2-19 52-69 (268) 495 cd03252 ABCC_Hemolysin The ABC 97.6 3.8E-05 8.3E-10 47.4 2.4 20 2-21 33-52 (237) 496 PRK14251 phosphate ABC transpo 97.6 3.9E-05 8.5E-10 47.8 2.5 19 2-20 35-53 (251) 497 cd03253 ABCC_ATM1_transporter 97.6 3.9E-05 8.4E-10 47.3 2.5 19 2-20 32-50 (236) 498 PRK14262 phosphate ABC transpo 97.6 3.9E-05 8.5E-10 47.7 2.5 18 2-19 34-51 (250) 499 cd03214 ABC_Iron-Siderophores_ 97.6 4.2E-05 9E-10 45.6 2.5 19 2-20 30-48 (180) 500 KOG0741 AAA+-type ATPase [Post 97.6 0.00013 2.8E-09 50.6 5.0 38 1-38 260-300 (744) No 1 >PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reactionAMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A .... Probab=99.95 E-value=9.3e-27 Score=135.45 Aligned_cols=80 Identities=46% Similarity=0.885 Sum_probs=71.5 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEEe Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLIN 67 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~iid 67 (82) |+|||||||||+|+.||++|++.|++++++++++.... +..+|++++.+++.+.+.+.. .++||+| T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~~~llr~~~~~~s~~g~~i~~~l~~g~~vp~~~v~~ll~~~l~~~~~~~g~ild 80 (151) T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISVGDLLREEIKSDSELGKQIQEYLDNGELVPDELVIELLKERLEQPPCNRGFILD 80 (151) T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEHHHHHHHHHHTTSHHHHHHHHHHHTTSS--HHHHHHHHHHHHHSGGTTTEEEEE T ss_pred CcCCCCCChHHHHHHHHHhcCcceechHHHHHHHHhhhhHHHHHHHHHHHhhccchHHHHHHHHHHHHhhhcccceeeee Confidence 68999999999999999999999999999999987543 889999999999999999874 8999999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) |||++.+|++.|.+ T Consensus 81 GfPrt~~Qa~~l~~ 94 (151) T PF00406_consen 81 GFPRTLEQAEALEE 94 (151) T ss_dssp SB-SSHHHHHHHHH T ss_pred eccccHHHHHHHHH Confidence 99999999999875 No 2 >PLN02674 adenylate kinase Probab=99.94 E-value=4.8e-26 Score=141.28 Aligned_cols=81 Identities=32% Similarity=0.693 Sum_probs=74.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|||||||||+|+.|+++|++.|+|++|++|+++..+ |..+|++++..++.+++...+ ..+||+ T Consensus 35 ~l~G~PGsGKgT~a~~La~~~~~~his~GdllR~~i~~~s~~g~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~g~il 114 (244) T PLN02674 35 ILIGPPGSGKGTQSPIIKDEYCLCHLATGDMLRAAVAAKTPLGIKAKEAMDKGELVSDDLVVGIIDEAMKKPSCQKGFIL 114 (244) T ss_pred EEECCCCCCHHHHHHHHHHHcCCcEEchhHHHHHHHhccChhhHHHHHHHHcCCccCHHHHHHHHHHHHhCcCcCCcEEE Confidence 589999999999999999999999999999999986442 999999999999999998876 789999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) |||||+..|++.|++ T Consensus 115 DGfPRt~~Qa~~l~~ 129 (244) T PLN02674 115 DGFPRTVVQAQKLDE 129 (244) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999998864 No 3 >PLN02459 probable adenylate kinase Probab=99.93 E-value=5.3e-25 Score=137.49 Aligned_cols=81 Identities=38% Similarity=0.772 Sum_probs=73.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcC--C-CCeE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESS--D-NHKF 64 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~--~-~~~~ 64 (82) +|+|||||||||+|+.|+++|++.|+++++++|+++..+ |..+|++++..++.+++.+. . ..+| T Consensus 33 i~~G~PGsGK~T~a~~la~~~~~~~is~gdllR~ei~~~t~lg~~i~~~~~~G~lVPdeiv~~ll~~~l~~~~~~~~~g~ 112 (261) T PLN02459 33 VFLGCPGVGKGTYASRLSKLLGVPHIATGDLVREEIKSSGPLGAQLKEIVNQGKLVPDEIIFSLLSKRLEAGEEEGESGF 112 (261) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEeCcHHHHHHHhccchhHHHHHHHHHcCCccCHHHHHHHHHHHHhcccccCCceE Confidence 478999999999999999999999999999999986542 89999999999999999874 2 6899 Q ss_pred EEeCCCCCHHHHHHHHh Q 035937 65 LINGFPRSEENRAAFER 81 (82) Q Consensus 65 iidg~p~~~~~~~~~~~ 81 (82) |+|||||+..|++.|.. T Consensus 113 iLDGFPRt~~Qa~~Le~ 129 (261) T PLN02459 113 ILDGFPRTVRQAEILEG 129 (261) T ss_pred EEeCCCCCHHHHHHHHh Confidence 99999999999999975 No 4 >PRK14529 adenylate kinase; Provisional Probab=99.92 E-value=6.2e-25 Score=134.91 Aligned_cols=81 Identities=30% Similarity=0.640 Sum_probs=73.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +|.|||||||||+|+.|+++|++.|+|.+++++++... .+..+|++++..++.+++.+.+.++||+| T Consensus 4 ~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr~~i~~~t~lg~~i~~~i~~G~lvpdei~~~lv~~~l~~~~~~g~iLD 83 (223) T PRK14529 4 LIFGPNGSGKGTQGALVKKKYDLAHIESGAIFREHIGGGTELGKKAKEYIDRGDLVPDDITIPMILETLKQDGKNGWLLD 83 (223) T ss_pred EEECCCCCCHHHHHHHHHHHHCCCCcccchhhhhhccCCChHHHHHHHHHhccCcchHHHHHHHHHHHHhccCCCcEEEe Confidence 47999999999999999999999999999999987542 28999999999999999987767899999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) ||||+..|++.|.+ T Consensus 84 GfPRt~~Qa~~l~~ 97 (223) T PRK14529 84 GFPRNKVQAEKLWE 97 (223) T ss_pred CCCCCHHHHHHHHH Confidence 99999999998863 No 5 >KOG3079 consensus Uridylate kinase/adenylate kinase [Nucleotide transport and metabolism] Probab=99.92 E-value=1.4e-24 Score=128.84 Aligned_cols=81 Identities=57% Similarity=1.001 Sum_probs=75.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-C-------------CCcCCHHHHHHHHHHHHhcCC-CCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-N-------------RKIVPSEVTISLIRKEIESSD-NHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~i 65 (82) |+.|+|||||-|+|.+++++|++.|+|++|++|++... + |..+|.+++..+++++|.+.. .++|+ T Consensus 12 fVlGGPGsgKgTqC~kiv~ky~ftHlSaGdLLR~E~~~~gse~g~~I~~~i~~G~iVP~ei~~~LL~~am~~~~~~~~fL 91 (195) T KOG3079|consen 12 FVLGGPGSGKGTQCEKIVEKYGFTHLSAGDLLRAEIASAGSERGALIKEIIKNGDLVPVEITLSLLEEAMRSSGDSNGFL 91 (195) T ss_pred EEEcCCCCCcchHHHHHHHHcCceeecHHHHHHHHHccccChHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhcCCCCeEE Confidence 68999999999999999999999999999999999875 3 999999999999999999886 46699 Q ss_pred EeCCCCCHHHHHHHHh Q 035937 66 INGFPRSEENRAAFER 81 (82) Q Consensus 66 idg~p~~~~~~~~~~~ 81 (82) ||||||+.+|+..|++ T Consensus 92 IDGyPR~~~q~~~fe~ 107 (195) T KOG3079|consen 92 IDGYPRNVDQLVEFER 107 (195) T ss_pred ecCCCCChHHHHHHHH Confidence 9999999999999875 No 6 >TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason. Probab=99.92 E-value=2.8e-24 Score=130.80 Aligned_cols=81 Identities=40% Similarity=0.813 Sum_probs=72.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC--CCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD--NHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~--~~~~i 65 (82) +|+|+|||||||+|+.|+++|++.|++++|++++++.. .+..+|++++.+++.+++.+.. ..+|| T Consensus 3 ~i~G~pGsGKsT~a~~La~~~g~~~is~gdllr~~~~~~~~~~~~~~~~~~~g~~vp~~~~~~l~~~~i~~~~~~~~~~i 82 (210) T TIGR01351 3 VLLGPPGSGKGTQAKRIAEKYGLPHISTGDLLRAEIKAGTPLGKKAKEYMEKGELVPDEIVNQLVKERLTQNQDNENGFI 82 (210) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCeeehhHHHHHhhccccHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCcccCCcEE Confidence 58999999999999999999999999999999987543 2789999999999999998743 67999 Q ss_pred EeCCCCCHHHHHHHHh Q 035937 66 INGFPRSEENRAAFER 81 (82) Q Consensus 66 idg~p~~~~~~~~~~~ 81 (82) |||||++..|++.|.+ T Consensus 83 lDGfPrt~~Qa~~l~~ 98 (210) T TIGR01351 83 LDGFPRTLSQAEALDA 98 (210) T ss_pred EeCCCCCHHHHHHHHH Confidence 9999999999999864 No 7 >PRK13808 adenylate kinase; Provisional Probab=99.92 E-value=1.9e-24 Score=138.74 Aligned_cols=81 Identities=40% Similarity=0.820 Sum_probs=73.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|||||||||+|+.|++.|++.|++++|++++++.. .+..+|++++..++.+.+.+.+ ..+||| T Consensus 4 iv~GpPGSGK~T~a~~LA~~ygl~~is~gdlLR~~i~~~s~~g~~~~~~~~~G~lVPdeiv~~li~e~l~~~~~~~G~IL 83 (333) T PRK13808 4 ILLGPPGAGKGTQAQRLVQQYGIVQLSTGDMLRAAVAAGTPVGLKAKDIMASGGLVPDEVVVGIISDRIEQPDAANGFIL 83 (333) T ss_pred EEECCCCCCHHHHHHHHHHHhCCceecccHHHHHHhhcCChhhHHHHHHHHcCCCCCHHHHHHHHHHHHhcccccCCEEE Confidence 58999999999999999999999999999999987533 2778999999999999998876 789999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.|++ T Consensus 84 DGFPRt~~QA~~L~~ 98 (333) T PRK13808 84 DGFPRTVPQAEALDA 98 (333) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999998864 No 8 >PTZ00088 adenylate kinase 1; Provisional Probab=99.91 E-value=3.3e-24 Score=132.22 Aligned_cols=81 Identities=33% Similarity=0.680 Sum_probs=73.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhc--CC-CCeE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIES--SD-NHKF 64 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~--~~-~~~~ 64 (82) +|+|||||||||+|+.||++|+++|++++++++++.... +..+|++++.+++.+.+.+ .+ ..+| T Consensus 10 vl~G~PGsGK~T~a~~La~~~g~~~is~gdllr~~~~~~t~lg~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~~~g~ 89 (229) T PTZ00088 10 VLFGAPGVGKGTFAEILSKKENLKHINMGNILREEIKAKTTIGKEIQKVVTSGNLVPDNLVIAIVKDEIAKVTDDCFKGF 89 (229) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEECChHHHHHhhcCChHHHHHHHHHHcCCcCCHHHHHHHHHHHHHhhccccCceE Confidence 589999999999999999999999999999999876532 7889999999999999987 34 6899 Q ss_pred EEeCCCCCHHHHHHHHh Q 035937 65 LINGFPRSEENRAAFER 81 (82) Q Consensus 65 iidg~p~~~~~~~~~~~ 81 (82) |+||||++..|++.|.+ T Consensus 90 iLDGfPRt~~Qa~~l~~ 106 (229) T PTZ00088 90 ILDGFPRNLKQCKELGK 106 (229) T ss_pred EEecCCCCHHHHHHHHh Confidence 99999999999999864 No 9 >PRK14532 adenylate kinase; Provisional Probab=99.91 E-value=3.3e-24 Score=128.29 Aligned_cols=81 Identities=36% Similarity=0.692 Sum_probs=72.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+|+.||+++|+.|++++|+++++... .+..+|++++..++.+.+...+ +.+||+ T Consensus 4 ~~~G~pGsGKsT~a~~la~~~g~~~is~~d~lr~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~g~vl 83 (188) T PRK14532 4 ILFGPPAAGKGTQAKRLVEERGMVQLSTGDMLRAAIASGSELGQRVKGIMDRGELVSDEIVIALIEERLPEAEAAGGAIF 83 (188) T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEEeCcHHHHHHHHcCCHHHHHHHHHHHCCCccCHHHHHHHHHHHHhCcCccCcEEE Confidence 58999999999999999999999999999999986532 2788999999999999997776 789999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.|.+ T Consensus 84 dg~pr~~~q~~~~~~ 98 (188) T PRK14532 84 DGFPRTVAQAEALDK 98 (188) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999998753 No 10 >PRK14531 adenylate kinase; Provisional Probab=99.91 E-value=3.3e-24 Score=128.22 Aligned_cols=81 Identities=35% Similarity=0.732 Sum_probs=71.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +++|+|||||||+|+.|++++|+.|++++|+++++... .+..+|++++..++.+.+.+....+||+| T Consensus 6 ~i~G~pGsGKsT~~~~la~~~g~~~is~gd~lr~~~~~~~~~~~~~~~~~~~G~~v~d~l~~~~~~~~l~~~~~~g~ilD 85 (183) T PRK14531 6 LFLGPPGAGKGTQAARLCAAHGLRHLSTGDLLRSEVAAGSALGQEAEAVMNRGELVSDALVLAIVESQLKALNSGGWLLD 85 (183) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCeEecccHHHHHHhcCCHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhccCCcEEEe Confidence 58999999999999999999999999999999987542 26789999999999988876556789999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) |||++..|++.|.+ T Consensus 86 Gfpr~~~q~~~~~~ 99 (183) T PRK14531 86 GFPRTVAQAEALEP 99 (183) T ss_pred CCCCCHHHHHHHHH Confidence 99999999988754 No 11 >TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic. Probab=99.91 E-value=7.4e-24 Score=126.12 Aligned_cols=81 Identities=67% Similarity=1.106 Sum_probs=71.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +|+|+|||||||+|+.|++++++.|++++|++++.... .+..+|++++..++.+.+.....++||+| T Consensus 3 ~i~G~pGsGKst~a~~la~~~~~~~is~~d~lr~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~vlD 82 (183) T TIGR01359 3 FVLGGPGSGKGTQCAKIVENFGFTHLSAGDLLRAEIKSGSENGELIESMIKNGKIVPSEVTVKLLKNAIQADGSKKFLID 82 (183) T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEEECChHHHHHHhcCChHHHHHHHHHHCCCcCCHHHHHHHHHHHHhccCCCcEEEe Confidence 58999999999999999999999999999999987543 26789999999999999876556789999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) |||++..|++.+.+ T Consensus 83 g~p~~~~q~~~~~~ 96 (183) T TIGR01359 83 GFPRNEENLEAWEK 96 (183) T ss_pred CCCCCHHHHHHHHH Confidence 99999999988764 No 12 >PRK14526 adenylate kinase; Provisional Probab=99.91 E-value=9.4e-24 Score=128.92 Aligned_cols=81 Identities=33% Similarity=0.716 Sum_probs=73.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+++.|++.+++.+++.+++++++...+ +..+|++++..++.+.+...+ ..+||+ T Consensus 4 ~l~G~pGsGKsT~a~~La~~~~~~~is~G~llr~~~~~~t~~g~~i~~~~~~g~lvpd~~~~~lv~~~l~~~~~~~g~il 83 (211) T PRK14526 4 VFLGPPGSGKGTIAKILSNELNYYHISTGDLFRENILNSTPLGKEIKQIVENGQLVPDSITIKIVEDKINTIKNNDNFIL 83 (211) T ss_pred EEECCCCCCHHHHHHHHHHHhCCceeecChHHHHhcccCChhhHHHHHHHHcCccCChHHHHHHHHHHHhcccccCcEEE Confidence 589999999999999999999999999999999875432 788999999999999998766 789999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) |||||+..|++.|.+ T Consensus 84 DGfPR~~~Qa~~l~~ 98 (211) T PRK14526 84 DGFPRNINQAKALDK 98 (211) T ss_pred ECCCCCHHHHHHHHH Confidence 999999999999875 No 13 >COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism] Probab=99.90 E-value=2.3e-23 Score=124.42 Aligned_cols=81 Identities=37% Similarity=0.763 Sum_probs=73.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|.|+|||||||+|+.|+++++++|+|.+++++...... +..+|++++..++.+++...+ ..+||+ T Consensus 4 iilG~pGaGK~T~A~~La~~~~i~hlstgd~~r~~~~~~t~lg~~~k~~i~~g~lv~d~i~~~~v~~rl~~~d~~~~~I~ 83 (178) T COG0563 4 LILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAERTELGEEIKKYIDKGELVPDEIVNGLVKERLDEADCKAGFIL 83 (178) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhHhhhccCChHHHHHHHHHHcCCccchHHHHHHHHHHHHhhcccCeEEE Confidence 589999999999999999999999999999999987643 778999999999999999887 338999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.|++ T Consensus 84 dg~PR~~~qa~~l~r 98 (178) T COG0563 84 DGFPRTLCQARALKR 98 (178) T ss_pred eCCCCcHHHHHHHHH Confidence 999999999999885 No 14 >PRK14528 adenylate kinase; Provisional Probab=99.90 E-value=3.2e-23 Score=124.42 Aligned_cols=81 Identities=35% Similarity=0.750 Sum_probs=72.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|||||||||+|+.|++.|+++++++++++++....+ +..+|++++..++.+.+.+.+ ..+||+ T Consensus 5 ~i~G~pGsGKtt~a~~la~~~~~~~is~~~~lr~~~~~~~~~g~~~~~~~~~g~lvp~~~~~~~~~~~l~~~~~~~g~vi 84 (186) T PRK14528 5 IFMGPPGAGKGTQAKILCERLSIPQISTGDILREAVKNQTAMGIEAKRYMDAGDLVPDSVVIGIIKDRIREADCKNGFLL 84 (186) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCeeeCCHHHHHHhhcCCHHHHHHHHHHhCCCccCHHHHHHHHHHHHhCcCccCcEEE Confidence 589999999999999999999999999999999876432 777899999999999998876 678999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.|.+ T Consensus 85 DG~Pr~~~qa~~l~~ 99 (186) T PRK14528 85 DGFPRTVEQADALDA 99 (186) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999998864 No 15 >PRK00279 adk adenylate kinase; Reviewed Probab=99.90 E-value=3.3e-23 Score=126.48 Aligned_cols=80 Identities=38% Similarity=0.815 Sum_probs=71.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+|+.||++|++.|++++|+++++...+ +..+|++++.+++.+.+.+.+ ..+||| T Consensus 4 ~v~G~pGsGKsT~a~~la~~~~~~~is~~dl~r~~~~~~~~~~~~~~~~~~~g~~~p~~~~~~~i~~~l~~~~~~~g~Vl 83 (215) T PRK00279 4 ILLGPPGAGKGTQAKFIAEKYGIPHISTGDMLRAAVKAGTELGKEAKSYMDAGELVPDEIVIGLVKERLAQPDCKNGFLL 83 (215) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEECCccHHHHHhccchHHHHHHHHHHcCCcCCHHHHHHHHHHHHhccCccCCEEE Confidence 589999999999999999999999999999999875432 778999999999999998766 559999 Q ss_pred eCCCCCHHHHHHHH Q 035937 67 NGFPRSEENRAAFE 80 (82) Q Consensus 67 dg~p~~~~~~~~~~ 80 (82) ||||++..|++.|+ T Consensus 84 DGfPr~~~qa~~l~ 97 (215) T PRK00279 84 DGFPRTIPQAEALD 97 (215) T ss_pred ecCCCCHHHHHHHH Confidence 99999999999885 No 16 >PRK02496 adk adenylate kinase; Provisional Probab=99.89 E-value=1.1e-22 Score=121.40 Aligned_cols=81 Identities=30% Similarity=0.717 Sum_probs=71.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+|+.|++++++++++.++++++.... .+..+|++++..++.+.+.+.+ ..+||+ T Consensus 5 ~i~G~pGsGKst~a~~la~~~~~~~i~~~~~~~~~~~~~~~~g~~~~~~~~~g~~~~~~~~~~~l~~~l~~~~~~~g~vl 84 (184) T PRK02496 5 IFLGPPGAGKGTQAVVLAEHLHIPHISTGDILRQAIKEQTPLGIKAQGYMDKGELVPDQLVLDLVQERLQQPDAANGWIL 84 (184) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEEhHHHHHHHHhccChhHHHHHHHHHCCCccCHHHHHHHHHHHHhCcCccCCEEE Confidence 47999999999999999999999999999999987632 2778899999999999998765 678999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.+++ T Consensus 85 dGfPr~~~q~~~l~~ 99 (184) T PRK02496 85 DGFPRKVTQAAFLDE 99 (184) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999988764 No 17 >PLN02200 adenylate kinase family protein Probab=99.89 E-value=9.9e-23 Score=126.04 Aligned_cols=81 Identities=78% Similarity=1.222 Sum_probs=71.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +|+|+|||||||+|+.|++++|+.|++.+|++++.... .+..+|++++..++.+.+...++.+|||| T Consensus 47 ~I~G~PGSGKsT~a~~La~~~g~~his~gdllR~~i~~~s~~~~~i~~~~~~G~~vp~e~~~~~l~~~l~~~~~~~~ILD 126 (234) T PLN02200 47 FVLGGPGSGKGTQCEKIVETFGFKHLSAGDLLRREIASNSEHGAMILNTIKEGKIVPSEVTVKLIQKEMESSDNNKFLID 126 (234) T ss_pred EEECCCCCCHHHHHHHHHHHhCCeEEEccHHHHHHHhccChhHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCCCeEEec Confidence 57999999999999999999999999999999987643 27788999999999998876556789999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) |+|++..|+..|++ T Consensus 127 G~Prt~~q~~~l~~ 140 (234) T PLN02200 127 GFPRTEENRIAFER 140 (234) T ss_pred CCcccHHHHHHHHH Confidence 99999999988764 No 18 >PRK14527 adenylate kinase; Provisional Probab=99.88 E-value=3.7e-22 Score=119.96 Aligned_cols=81 Identities=37% Similarity=0.769 Sum_probs=71.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +++|+|||||||+|+.|+++|++.+++.+++++.+... .+..+|++++..++.+.+.+.+..+||+| T Consensus 10 ~i~G~pGsGKsT~a~~La~~~~~~~is~gd~~r~~~~~~~~~~~~~~~~~~~g~~~p~~~~~~l~~~~l~~~~~~~~VlD 89 (191) T PRK14527 10 IFLGPPGAGKGTQAERLAQELGLKKLSTGDILRDHVARGTELGQRAKPIMEAGDLVPDELILALIRDELAGMEPVRVIFD 89 (191) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCCCCccHHHHHHHhcCcHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhcCCCCcEEEc Confidence 58999999999999999999999999999999976542 26788999999999999987666689999 Q ss_pred CCCCCHHHHHHHHh Q 035937 68 GFPRSEENRAAFER 81 (82) Q Consensus 68 g~p~~~~~~~~~~~ 81 (82) |||++..|++.|+. T Consensus 90 Gfpr~~~q~~~~~~ 103 (191) T PRK14527 90 GFPRTLAQAEALDR 103 (191) T ss_pred CCCCCHHHHHHHHH Confidence 99999999988764 No 19 >cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates. Probab=99.88 E-value=5.5e-22 Score=118.73 Aligned_cols=81 Identities=46% Similarity=0.909 Sum_probs=71.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+|+.|+++|++.++++++++++.... .+..+|++++.+++.+.+.... ..+||+ T Consensus 3 ~i~G~pGsGKst~a~~La~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~~l~~~~~~~~~vl 82 (194) T cd01428 3 LLLGPPGSGKGTQAERLAKKYGLPHISTGDLLREEIASGTELGKKAKEYIDSGKLVPDEIVIKLLKERLKKPDCKKGFIL 82 (194) T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEEECcHHHHHHHhcCChHHHHHHHHHHcCCccCHHHHHHHHHHHHhcccccCCEEE Confidence 58999999999999999999999999999999987542 1677888999999999998764 678999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.|.+ T Consensus 83 dg~Pr~~~q~~~l~~ 97 (194) T cd01428 83 DGFPRTVDQAEALDE 97 (194) T ss_pred eCCCCCHHHHHHHHH Confidence 999999999998875 No 20 >PRK14530 adenylate kinase; Provisional Probab=99.86 E-value=3.4e-21 Score=117.58 Aligned_cols=79 Identities=32% Similarity=0.694 Sum_probs=67.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh-----h------------CCCcCCHHHHHHHHHHHHhcCCCCe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA-----S------------NRKIVPSEVTISLIRKEIESSDNHK 63 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~-----~------------~~~~~~~~~~~~~l~~~i~~~~~~~ 63 (82) +|+|+|||||||+|+.|++++++.|++++++++++.. . .+..+|+++..+++.+.+.+ ..+ T Consensus 7 ~i~G~pGsGKsT~~~~La~~~~~~~i~~g~~lr~~~~~~~~~~~~~~~~~~~~~~~g~~~~d~~~~~~l~~~l~~--~~~ 84 (215) T PRK14530 7 LLLGAPGAGKGTQSSNLAEEFGVEHVTTGDALRANKQMDISDMDTEYDTPGEYMDAGELVPDAVVNEIVEEALSD--ADG 84 (215) T ss_pred EEECCCCCCHHHHHHHHHHHhCCeEEeccHHHHHhccCCcccccchHHHHHHHHHcCCCCCHHHHHHHHHHHHhc--CCC Confidence 5899999999999999999999999999999998761 1 15668888888888888754 468 Q ss_pred EEEeCCCCCHHHHHHHHh Q 035937 64 FLINGFPRSEENRAAFER 81 (82) Q Consensus 64 ~iidg~p~~~~~~~~~~~ 81 (82) ||+||||++..|++.|++ T Consensus 85 ~IldG~pr~~~q~~~l~~ 102 (215) T PRK14530 85 FVLDGYPRNLEQAEYLES 102 (215) T ss_pred EEEcCCCCCHHHHHHHHH Confidence 999999999999998864 No 21 >PLN02842 nucleotide kinase Probab=99.83 E-value=5.9e-20 Score=123.02 Aligned_cols=81 Identities=43% Similarity=0.880 Sum_probs=71.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcCC--CCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESSD--NHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~~--~~~~i 65 (82) +|+|+|||||||+|+.|+++|++.|++.+++++.+... .+..+|++++..++.+++...+ ..+|| T Consensus 1 ~I~G~PGSGKSTqa~~Lak~lg~~hIs~gdLLR~ev~~~T~iG~~Ire~l~~G~lvPdeiv~~ll~drl~~~~~~~~G~I 80 (505) T PLN02842 1 MISGAPASGKGTQCELIVHKFGLVHISTGDLLRAEVSAGTDIGKRAKEFMNSGRLVPDEIVIAMVTGRLSREDAKEKGWL 80 (505) T ss_pred CeeCCCCCCHHHHHHHHHHHhCCCEEEccHHHHHHhccCCHHHHHHHHHHhCCCCCcHHHHHHHHHHHHhCccccCCcEE Confidence 58999999999999999999999999999999987432 2788999999999999997654 67899 Q ss_pred EeCCCCCHHHHHHHHh Q 035937 66 INGFPRSEENRAAFER 81 (82) Q Consensus 66 idg~p~~~~~~~~~~~ 81 (82) +||||++..|++.|.+ T Consensus 81 LDGfPRt~~Qa~~Le~ 96 (505) T PLN02842 81 LDGYPRSFAQAQSLEK 96 (505) T ss_pred EeCCCCcHHHHHHHHh Confidence 9999999999988764 No 22 >TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351. Probab=99.82 E-value=2.4e-19 Score=106.79 Aligned_cols=80 Identities=48% Similarity=0.936 Sum_probs=67.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-------------CCCcCCHHHHHHHHHHHHhcC-C-CCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-------------NRKIVPSEVTISLIRKEIESS-D-NHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-------------~~~~~~~~~~~~~l~~~i~~~-~-~~~~i 65 (82) +|.|+|||||||+|+.|++.+|+.+++.+++++..... .+...|.+.+...+.+.+... . +.+|| T Consensus 7 ~i~G~~GsGKsTl~~~l~~~~g~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~i 86 (188) T TIGR01360 7 FIVGGPGSGKGTQCEKIVEKYGFTHLSTGDLLRAEVASGSERGKQLQAIMESGDLVPLDTVLDLLKDAMVAALGTSKGFL 86 (188) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEeHHHHHHHHHhcCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcccCcCCeEE Confidence 47999999999999999999999999999999886422 256777787788888777653 2 67899 Q ss_pred EeCCCCCHHHHHHHH Q 035937 66 INGFPRSEENRAAFE 80 (82) Q Consensus 66 idg~p~~~~~~~~~~ 80 (82) +||+|++..|++.|. T Consensus 87 ~dg~~~~~~q~~~~~ 101 (188) T TIGR01360 87 IDGYPREVKQGEEFE 101 (188) T ss_pred EeCCCCCHHHHHHHH Confidence 999999999988775 No 23 >KOG3078 consensus Adenylate kinase [Nucleotide transport and metabolism] Probab=99.75 E-value=2.5e-18 Score=105.86 Aligned_cols=81 Identities=47% Similarity=0.865 Sum_probs=72.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------------CCcCCHHHHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------------RKIVPSEVTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------------~~~~~~~~~~~~l~~~i~~~~-~~~~ii 66 (82) ++.|+||+||+|+|..+++.|+..|++++|++|++...+ +..+|++++..++...+.+.. +.+|++ T Consensus 19 v~~G~pg~gkgt~a~~l~~~~~~~hl~tGdllr~~ia~~telg~~~~~~~~~g~lvpDeiv~~~l~~~l~~~~~~~~~il 98 (235) T KOG3078|consen 19 VLLGAPGSGKGTQAPRLTKNFGVIHISTGDLLRDEIASGTELGKEAKEAIDKGKLVPDEVVVRLLEKRLENPRCQKGFIL 98 (235) T ss_pred EEEeCCCCCCCccCHHHHHhcCCccchhHHHHHHHHhccCcHHHHHHHHHHhcCcCcHHHHHHHHHhhcccccccccccc Confidence 478999999999999999999999999999999987653 999999999997777777765 889999 Q ss_pred eCCCCCHHHHHHHHh Q 035937 67 NGFPRSEENRAAFER 81 (82) Q Consensus 67 dg~p~~~~~~~~~~~ 81 (82) ||||++..|++.+.+ T Consensus 99 dg~Prt~~qa~~l~~ 113 (235) T KOG3078|consen 99 DGFPRTVQQAEELLD 113 (235) T ss_pred CCCCcchHHHHHHHH Confidence 999999998887653 No 24 >PRK01184 hypothetical protein; Provisional Probab=99.66 E-value=1.3e-15 Score=90.87 Aligned_cols=79 Identities=23% Similarity=0.429 Sum_probs=57.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCC----------------cCCHHHHHHHHHHHHhcCCCCeE Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRK----------------IVPSEVTISLIRKEIESSDNHKF 64 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~----------------~~~~~~~~~~l~~~i~~~~~~~~ 64 (82) +|+|+|||||||+++ +++++|+++++++|++++.....+. .+..+.+..++.+.+.......+ T Consensus 5 ~l~G~~GsGKsT~a~-~~~~~g~~~i~~~d~lr~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~v 83 (184) T PRK01184 5 GVVGMPGSGKGEFSK-IAREMGIPVVVMGDVIREEVKKRGLEPTDENIGKVAIDLRKELGMDAVAKRTVPKIREKGDEVV 83 (184) T ss_pred EEECCCCCCHHHHHH-HHHHcCCcEEEhhHHHHHHHHHcCCCCCcHHHHHHHHHHHHHHChHHHHHHHHHHHHhcCCCcE Confidence 479999999999997 7899999999999999998743211 11223333444455554346789 Q ss_pred EEeCCCCCHHHHHHHHh Q 035937 65 LINGFPRSEENRAAFER 81 (82) Q Consensus 65 iidg~p~~~~~~~~~~~ 81 (82) |+||+ ++..|++.+++ T Consensus 84 vidg~-r~~~e~~~~~~ 99 (184) T PRK01184 84 VIDGV-RGDAEVEYFRK 99 (184) T ss_pred EEeCC-CCHHHHHHHHH Confidence 99999 78888877754 No 25 >PRK08118 topology modulation protein; Reviewed Probab=99.62 E-value=1.7e-15 Score=89.67 Aligned_cols=65 Identities=23% Similarity=0.379 Sum_probs=51.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~ 71 (82) +|+|+|||||||+|+.|++.+++++++++++++.. +....+++...+++.+.+.+ .+||+||.+. T Consensus 5 ~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~---~w~~~~~~~~~~~~~~~~~~---~~wVidG~~~ 69 (167) T PRK08118 5 ILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKP---NWEGVPKEEQITVQNELVKE---DEWIIDGNYG 69 (167) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCceecchhhccc---CCcCCCHHHHHHHHHHHhcC---CCEEEeCCcc Confidence 48999999999999999999999999999888652 23455666666666665543 5699999544 No 26 >PRK03839 putative kinase; Provisional Probab=99.57 E-value=7e-15 Score=87.53 Aligned_cols=69 Identities=16% Similarity=0.295 Sum_probs=47.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCH--HHHHHHHHHHHhcC-CCCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPS--EVTISLIRKEIESS-DNHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~i~~~-~~~~~iidg~p~ 71 (82) +|+|+|||||||+++.||++++++++++++++++..- ....+. +...+.+...+... .+.+||+||++. T Consensus 4 ~l~G~pGsGKsT~~~~La~~~~~~~id~d~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~vIidG~~~ 75 (180) T PRK03839 4 AITGTPGVGKTTVSKLLAEKLGYEYVDLTEFALKKGI--GEEKDDEMEIDFDKLAYFIEEEFKEKNVVLDGHLS 75 (180) T ss_pred EEECCCCCCHHHHHHHHHHHhCCcEEehhhhhhhcCC--cccCChhhhcCHHHHHHHHHHhccCCCEEEEeccc Confidence 5899999999999999999999999999999876421 111111 12233344444322 245799999754 No 27 >PRK06217 hypothetical protein; Validated Probab=99.55 E-value=7.9e-15 Score=87.68 Aligned_cols=70 Identities=17% Similarity=0.356 Sum_probs=52.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh-CCCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS-NRKIVPSEVTISLIRKEIESSDNHKFLINGFPRS 72 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~~ 72 (82) +|+|+|||||||+|+.|++++++++++.|++++..... -....+.+.....+.+.+.. +.+|||||+|.. T Consensus 5 ~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~vi~G~~~~ 75 (183) T PRK06217 5 HITGASGSGTTTLGAALAERLDIPHLDTDDYFWLPTDPPFTTKRPPEERLRLLLEDLRP--REGWVLSGSALG 75 (183) T ss_pred EEECCCCCCHHHHHHHHHHHcCCcEEEcCceeeccCCCCccccCCHHHHHHHHHHHHhc--CCCEEEEccHHH Confidence 48999999999999999999999999999988754211 12344555555555555533 457999999765 No 28 >PRK08356 hypothetical protein; Provisional Probab=99.53 E-value=1.5e-14 Score=87.25 Aligned_cols=77 Identities=22% Similarity=0.291 Sum_probs=53.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC------------------------CCcCC----HHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN------------------------RKIVP----SEVTISLI 52 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~------------------------~~~~~----~~~~~~~l 52 (82) +|+|||||||||+|+.|+ ++++.+++.++.++...... +..++ .+++.+++ T Consensus 9 ~~~G~~gsGK~t~a~~l~-~~g~~~is~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~e~g~~~~~~yG~~~~~~~~ 87 (195) T PRK08356 9 GVVGKIAAGKTTVAKFFE-EKGFCRVSCSDPLIDLLTHNVSDYSWVPEVPFKGEPTRENLIELGRYLKEKYGEDILIRLA 87 (195) T ss_pred EEECCCCCCHHHHHHHHH-HCCCcEEeCCCcccccccccccccccccHHHHhhccccccHHHHHHHHHHhcCcHHHHHHH Confidence 479999999999999995 58999999998654322110 11222 24444455 Q ss_pred HHHHhcCCCCeEEEeCCCCCHHHHHHHHh Q 035937 53 RKEIESSDNHKFLINGFPRSEENRAAFER 81 (82) Q Consensus 53 ~~~i~~~~~~~~iidg~p~~~~~~~~~~~ 81 (82) .+.+.. ...|++||+ ++..|++.|++ T Consensus 88 ~~~~~~--~~~ividG~-r~~~q~~~l~~ 113 (195) T PRK08356 88 VDKKRN--CKNIAIDGV-RSRGEVEAIKR 113 (195) T ss_pred HHHhcc--CCeEEEcCc-CCHHHHHHHHh Confidence 555522 346999999 99999998864 No 29 >PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A .... Probab=99.53 E-value=8.8e-15 Score=81.85 Aligned_cols=69 Identities=29% Similarity=0.502 Sum_probs=44.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh-hCCCcCCH--HHHHHHHHHHHhcC----CCCeEEEeCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA-SNRKIVPS--EVTISLIRKEIESS----DNHKFLINGF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~-~~~~~~~~--~~~~~~l~~~i~~~----~~~~~iidg~ 69 (82) +|.|+|||||||+|+.|++++++++++++++++.... ........ ....+.+.+.+... ....||+||. T Consensus 3 ~I~G~~gsGKST~a~~La~~~~~~~i~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ii~g~ 78 (121) T PF13207_consen 3 IISGPPGSGKSTLAKELAERLGFPVISMDDLIREPGWIERDDDEREYIDADIDLLDDILEQLQNKPDNDNWIIDGS 78 (121) T ss_dssp EEEESTTSSHHHHHHHHHHHHTCEEEEEHHHHCCGTHCHGCTTCCHHHHHHHHHHHHHHHHHHETTT--EEEEECC T ss_pred EEECCCCCCHHHHHHHHHHHHCCeEEEecceEEeccccccCcchhhHHHHHHHHHHHHHHhhhccCCCCeEEEeCC Confidence 4899999999999999999999999999995432211 11122221 22333444444433 3678999993 No 30 >COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism] Probab=99.49 E-value=1.5e-13 Score=80.76 Aligned_cols=38 Identities=37% Similarity=0.622 Sum_probs=35.8 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) |.|+|||||||+|+.||+.+|++++|.++++|+.+++. T Consensus 5 IsG~pGsG~TTva~~lAe~~gl~~vsaG~iFR~~A~e~ 42 (179) T COG1102 5 ISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMARER 42 (179) T ss_pred eccCCCCChhHHHHHHHHHhCCceeeccHHHHHHHHHc Confidence 68999999999999999999999999999999988764 No 31 >PRK07261 topology modulation protein; Provisional Probab=99.47 E-value=1.3e-13 Score=81.92 Aligned_cols=68 Identities=22% Similarity=0.232 Sum_probs=50.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCCCHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLINGFPRSEE 74 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~~~~ 74 (82) +|+|+|||||||+|+.|++.+++++++.|++... .+....+.+...+.+.+.+.+ ..||+||.+.+.. T Consensus 4 ~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~---~~~~~~~~~~~~~~~~~~~~~---~~wIidg~~~~~~ 71 (171) T PRK07261 4 AIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQ---PNWQERDDDDMIADISNFLLK---HDWIIDGNYSWCL 71 (171) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEec---cccccCCHHHHHHHHHHHHhC---CCEEEcCcchhhh Confidence 4899999999999999999999999999876543 122334555566666666644 3499999977644 No 32 >PHA02530 pseT polynucleotide kinase; Provisional Probab=99.44 E-value=4.7e-13 Score=84.91 Aligned_cols=81 Identities=15% Similarity=0.221 Sum_probs=52.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-CCceeehHHHHHHHHhhC--CC-cCC---HHHHHHHHHHHHhcC--CCCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-GLTHLSAGDLLRREIASN--RK-IVP---SEVTISLIRKEIESS--DNHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-~~~~i~~~~~~~~~~~~~--~~-~~~---~~~~~~~l~~~i~~~--~~~~~iidg~p~ 71 (82) +++|+|||||||+|+.|++++ ++.+++.+++.+...... +. ... .+.+.....+.+... .+..+|+|+++. T Consensus 6 il~G~pGSGKSTla~~L~~~~~~~~~l~~D~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~vIid~~~~ 85 (300) T PHA02530 6 LTVGVPGSGKSTWAREFAAKNPKAVNVNRDDLRQSLFGHGEWGEYKFTKEKEDLVTKAQEAAALAALKSGKSVIISDTNL 85 (300) T ss_pred EEEcCCCCCHHHHHHHHHHHCCCCEEEeccHHHHHhcCCCcccccccChHHHHHHHHHHHHHHHHHHHcCCeEEEeCCCC Confidence 478999999999999999999 899999966443332221 11 111 112222333333222 257799999999 Q ss_pred CHHHHHHHHh Q 035937 72 SEENRAAFER 81 (82) Q Consensus 72 ~~~~~~~~~~ 81 (82) +..+++.+.+ T Consensus 86 ~~~~~~~~~~ 95 (300) T PHA02530 86 NPERRRKWKE 95 (300) T ss_pred CHHHHHHHHH Confidence 9888877653 No 33 >PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B .... Probab=99.44 E-value=1.3e-12 Score=74.79 Aligned_cols=80 Identities=24% Similarity=0.397 Sum_probs=50.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCC--cCCHH---HHHHHHHHHHhcC--CCCeEEEeCCCCCH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRK--IVPSE---VTISLIRKEIESS--DNHKFLINGFPRSE 73 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~--~~~~~---~~~~~l~~~i~~~--~~~~~iidg~p~~~ 73 (82) +++|+|||||||+++.+++.++..+++.+++.......... ....+ .....+...+... .+..+|+|+..... T Consensus 3 i~~G~pgsGKSt~a~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~g~~~vvd~~~~~~ 82 (143) T PF13671_consen 3 ILCGPPGSGKSTLAKRLAKRLGAVVISQDEIRRRLAGEDPPSPSDYIEAEERAYQILNAAIRKALRNGNSVVVDNTNLSR 82 (143) T ss_dssp EEEESTTSSHHHHHHHHHHHSTEEEEEHHHHHHHHCCSSSGCCCCCHHHHHHHHHHHHHHHHHHHHTT-EEEEESS--SH T ss_pred EEECCCCCCHHHHHHHHHHHCCCEEEeHHHHHHHHcccccccchhHHHHHHHHHHHHHHHHHHHHHcCCCceeccCcCCH Confidence 58999999999999999999999999997777665432211 11112 2222333333221 26679999765666 Q ss_pred HHHHHHH Q 035937 74 ENRAAFE 80 (82) Q Consensus 74 ~~~~~~~ 80 (82) .+.+.+. T Consensus 83 ~~r~~~~ 89 (143) T PF13671_consen 83 EERARLR 89 (143) T ss_dssp HHHHHHH T ss_pred HHHHHHH Confidence 6666554 No 34 >KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism] Probab=99.42 E-value=8.9e-13 Score=76.79 Aligned_cols=64 Identities=17% Similarity=0.377 Sum_probs=54.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC-------CCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN-------RKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~-------~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +|+|-||+||||+|++||+.+++.++.++|++++..-.. ...++++.+.+-+...+.+ .|.||| T Consensus 11 LvtGTPG~GKstl~~~lae~~~~~~i~isd~vkEn~l~~gyDE~y~c~i~DEdkv~D~Le~~m~~---Gg~IVD 81 (176) T KOG3347|consen 11 LVTGTPGTGKSTLAERLAEKTGLEYIEISDLVKENNLYEGYDEEYKCHILDEDKVLDELEPLMIE---GGNIVD 81 (176) T ss_pred EEeCCCCCCchhHHHHHHHHhCCceEehhhHHhhhcchhcccccccCccccHHHHHHHHHHHHhc---CCcEEe Confidence 589999999999999999999999999999999875321 5567778888888888765 678888 No 35 >PRK13949 shikimate kinase; Provisional Probab=99.40 E-value=2.3e-12 Score=76.44 Aligned_cols=78 Identities=18% Similarity=0.304 Sum_probs=53.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCCCCeEEE-e--CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSDNHKFLI-N--GF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~~~~~ii-d--g~ 69 (82) +|+|+|||||||+++.||+.+++.+++.++++.+..... +.....+...+++.+ +.. ..++|| + |+ T Consensus 5 ~liG~~GsGKstl~~~La~~l~~~~id~D~~i~~~~~~~~~~~~~~~g~~~fr~~e~~~l~~-l~~--~~~~vis~Ggg~ 81 (169) T PRK13949 5 FLVGYMGAGKTTLGKALARELGLSFIDLDFFIENRFHKTVGDIFAERGEAVFRELERNMLHE-VAE--FEDVVISTGGGA 81 (169) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCeecccHHHHHHHCccHHHHHHHhCHHHHHHHHHHHHHH-HHh--CCCEEEEcCCcc Confidence 488999999999999999999999999998887654321 222223333444444 222 345677 4 56 Q ss_pred CCCHHHHHHHHh Q 035937 70 PRSEENRAAFER 81 (82) Q Consensus 70 p~~~~~~~~~~~ 81 (82) |.+....+.|++ T Consensus 82 ~~~~~~~~~l~~ 93 (169) T PRK13949 82 PCFFDNMELMNA 93 (169) T ss_pred cCCHHHHHHHHh Confidence 777777776653 No 36 >PRK04040 adenylate kinase; Provisional Probab=99.34 E-value=6.4e-12 Score=75.73 Aligned_cols=69 Identities=17% Similarity=0.304 Sum_probs=48.9 Q ss_pred CeecCCCCCHHHHHHHHHHHh--CCceeehHHHHHHHHhhCCCc--------CCHH---HHHHHHHHHHhcCC-CCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNF--GLTHLSAGDLLRREIASNRKI--------VPSE---VTISLIRKEIESSD-NHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~--~~~~i~~~~~~~~~~~~~~~~--------~~~~---~~~~~l~~~i~~~~-~~~~ii 66 (82) +|+|+|||||||+++.|++++ ++.+++.++++++.+...+-. .+.+ .+..+..+.+.... +..+|+ T Consensus 6 ~v~G~pG~GKtt~~~~l~~~l~~~~~~~~~g~~~~~~a~~~g~~~~~d~~r~l~~~~~~~~~~~a~~~i~~~~~~~~~~~ 85 (188) T PRK04040 6 VVTGVPGVGKTTVLNKALEKLKEDYKIVNFGDVMLEVAKEEGLVEHRDEMRKLPPEEQKELQREAAERIAEMAGEGPVIV 85 (188) T ss_pred EEEeCCCCCHHHHHHHHHHHhccCCeEEecchHHHHHHHHcCCCCCHHHHhhCChhhhHHHHHHHHHHHHHhhcCCCEEE Confidence 479999999999999999999 899999999998877654321 1111 22334444444433 456999 Q ss_pred eCC Q 035937 67 NGF 69 (82) Q Consensus 67 dg~ 69 (82) ||. T Consensus 86 ~~h 88 (188) T PRK04040 86 DTH 88 (188) T ss_pred eee Confidence 984 No 37 >PRK06762 hypothetical protein; Provisional Probab=99.32 E-value=2.3e-11 Score=71.43 Aligned_cols=76 Identities=18% Similarity=0.322 Sum_probs=45.6 Q ss_pred CeecCCCCCHHHHHHHHHHHh--CCceeehHHHHHHHHhhC---CCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCCCHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF--GLTHLSAGDLLRREIASN---RKIVPSEVTISLIRKEIESSDNHKFLINGFPRSEEN 75 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~--~~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~~~~~ 75 (82) +|+|+|||||||+|+.|++.+ ++.+++.+. ++...... ......+.+...++..+.. +..+|+|+......+ T Consensus 6 ~i~G~~GsGKST~A~~L~~~l~~~~~~i~~D~-~r~~l~~~~~~~~~~~~~~~~~~~~~~~~~--g~~vild~~~~~~~~ 82 (166) T PRK06762 6 IIRGNSGSGKTTIAKQLQERLGRGTLLVSQDV-VRRDMLRVKDGPGNLSIDLIEQLVRYGLGH--CEFVILEGILNSDRY 82 (166) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCeEEecHHH-HHHHhccccCCCCCcCHHHHHHHHHHHHhC--CCEEEEchhhccHhH Confidence 489999999999999999998 566777744 55433221 1112223333333333322 567899987544444 Q ss_pred HHHH Q 035937 76 RAAF 79 (82) Q Consensus 76 ~~~~ 79 (82) .+.+ T Consensus 83 ~~~~ 86 (166) T PRK06762 83 GPML 86 (166) T ss_pred HHHH Confidence 4433 No 38 >cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor. Probab=99.31 E-value=3.5e-12 Score=73.14 Aligned_cols=34 Identities=32% Similarity=0.554 Sum_probs=29.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~ 34 (82) +|.|+|||||||+|+.|++++++++++.+.+..+ T Consensus 3 ~i~G~~GsGKst~a~~la~~~~~~~~~~~~i~~e 36 (147) T cd02020 3 AIDGPAGSGKSTVAKLLAKKLGLPYLDTGGIRTE 36 (147) T ss_pred EEECCCCCCHHHHHHHHHHHhCCceeccccCCHH Confidence 4789999999999999999999999999755444 No 39 >PRK00625 shikimate kinase; Provisional Probab=99.30 E-value=2.7e-11 Score=72.22 Aligned_cols=36 Identities=25% Similarity=0.379 Sum_probs=33.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+++.||++++++++++|+++++.. T Consensus 4 ~LiG~pGsGKTT~~k~La~~l~~~~id~D~~I~~~~ 39 (173) T PRK00625 4 FLCGLPTVGKTSFGKALAKFLSLPFFDTDDLIVSNY 39 (173) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEhhHHHHHHh Confidence 589999999999999999999999999999998764 No 40 >PRK12339 2-phosphoglycerate kinase; Provisional Probab=99.27 E-value=9.1e-11 Score=71.25 Aligned_cols=38 Identities=26% Similarity=0.449 Sum_probs=35.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) +|+|+|||||||+|+.|++++++.++..+|++|+.+.. T Consensus 7 ~i~G~~G~GKst~a~~l~~~~~~~~~~~~D~~r~~~r~ 44 (197) T PRK12339 7 FIGGIPGVGKTSISGYIARHRAIDIVLSGDYLREFLRP 44 (197) T ss_pred EEECCCCCCHHHHHHHHHHhcCCeEEehhHHHHHHHHH Confidence 58999999999999999999999999999999998763 No 41 >cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits. Probab=99.27 E-value=3.2e-11 Score=69.78 Aligned_cols=81 Identities=14% Similarity=0.140 Sum_probs=49.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh---hCCCcCCH---HHHHHHHHHHHh-c--CCCCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA---SNRKIVPS---EVTISLIRKEIE-S--SDNHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~---~~~~~~~~---~~~~~~l~~~i~-~--~~~~~~iidg~p~ 71 (82) +|+|+|||||||+|+.|++.++..+++.+++...... ..+...++ +.+...+.+... . ..+..+|+|.... T Consensus 3 ~l~G~~GsGKST~a~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~vVid~~~~ 82 (150) T cd02021 3 VVMGVSGSGKSTVGKALAERLGAPFIDGDDLHPPANIAKMAAGIPLNDEDRWPWLQALTDALLAKLASAGEGVVVACSAL 82 (150) T ss_pred EEEcCCCCCHHHHHHHHHhhcCCEEEeCcccccHHHHHHHHcCCCCCccchhhHHHHHHHHHHHHHHhCCCCEEEEeccc Confidence 5899999999999999999999999999877654221 11222221 222222222221 1 1255788886545 Q ss_pred CHHHHHHHHh Q 035937 72 SEENRAAFER 81 (82) Q Consensus 72 ~~~~~~~~~~ 81 (82) .....+.+.+ T Consensus 83 ~~~~r~~~~~ 92 (150) T cd02021 83 KRIYRDILRG 92 (150) T ss_pred cHHHHHHHHh Confidence 5666666554 No 42 >COG0703 AroK Shikimate kinase [Amino acid transport and metabolism] Probab=99.26 E-value=4e-11 Score=71.25 Aligned_cols=77 Identities=21% Similarity=0.293 Sum_probs=51.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCCCCeEEEe---CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSDNHKFLIN---GF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~~~~~iid---g~ 69 (82) +|+|++||||||+++.||+.++++++++|.+|.+..... |+....+.-.+++.+..... +.||. |. T Consensus 6 vLiG~mGaGKSTIGr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR~~E~~vl~~l~~~~---~~ViaTGGG~ 82 (172) T COG0703 6 VLIGFMGAGKSTIGRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLETEVLKELLEED---NAVIATGGGA 82 (172) T ss_pred EEEcCCCCCHhHHHHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHHHHHHHHHHHHhhcC---CeEEECCCcc Confidence 589999999999999999999999999999998875432 33333333344555554432 23443 34 Q ss_pred CCCHHHHHHHH Q 035937 70 PRSEENRAAFE 80 (82) Q Consensus 70 p~~~~~~~~~~ 80 (82) ..+.+-+..++ T Consensus 83 v~~~enr~~l~ 93 (172) T COG0703 83 VLSEENRNLLK 93 (172) T ss_pred ccCHHHHHHHH Confidence 45555555443 No 43 >PRK13948 shikimate kinase; Provisional Probab=99.25 E-value=4.7e-11 Score=71.71 Aligned_cols=77 Identities=18% Similarity=0.213 Sum_probs=50.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCCCCeEEEe---CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSDNHKFLIN---GF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~~~~~iid---g~ 69 (82) +|+|++||||||+++.|++.+++.++++|.++.+..... +...-.+...+++.+.... .+.||. |. T Consensus 14 ~LiG~~GsGKSTvg~~La~~lg~~~iD~D~~ie~~~g~si~~if~~~Ge~~fR~~E~~~l~~l~~~---~~~VIa~GgG~ 90 (182) T PRK13948 14 ALAGFMGTGKSRIGWELSRALMLHFIDTDRYIERVTGKSIPEIFRHLGEAYFRRCEAEVVRRLTRL---DYAVISLGGGT 90 (182) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCEEECCHHHHHHHhCCHHHHHHHhCHHHHHHHHHHHHHHHHhc---CCeEEECCCcE Confidence 478999999999999999999999999998887764321 2222222333344443322 334554 56 Q ss_pred CCCHHHHHHHH Q 035937 70 PRSEENRAAFE 80 (82) Q Consensus 70 p~~~~~~~~~~ 80 (82) +.+.+..+.++ T Consensus 91 v~~~~n~~~l~ 101 (182) T PRK13948 91 FMHEENRRKLL 101 (182) T ss_pred EcCHHHHHHHH Confidence 66666555554 No 44 >TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017. Probab=99.24 E-value=3.5e-11 Score=70.62 Aligned_cols=37 Identities=41% Similarity=0.639 Sum_probs=33.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) .|+|++||||||+|+.|++++++++++.++++++... T Consensus 4 ~i~G~~GSGKstia~~la~~lg~~~~~~~~~~~~~~~ 40 (171) T TIGR02173 4 TISGPPGSGKTTVAKILAEKLSLKLISAGDIFRELAA 40 (171) T ss_pred EEECCCCCCHHHHHHHHHHHcCCceecHHHHHHHHHH Confidence 4799999999999999999999999999998887654 No 45 >cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP. Probab=99.21 E-value=1e-10 Score=67.57 Aligned_cols=36 Identities=28% Similarity=0.447 Sum_probs=32.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+|+.|++.+++.+++.++++.... T Consensus 3 ~l~G~~GsGKstla~~la~~l~~~~~~~d~~~~~~~ 38 (154) T cd00464 3 VLIGMMGAGKTTVGRLLAKALGLPFVDLDELIEQRA 38 (154) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCEEEchHHHHHHc Confidence 479999999999999999999999999998877654 No 46 >PRK04182 cytidylate kinase; Provisional Probab=99.21 E-value=8e-11 Score=69.53 Aligned_cols=37 Identities=41% Similarity=0.711 Sum_probs=33.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) +|+|+|||||||+|+.|++++++++++.++++++... T Consensus 4 ~i~G~~GsGKstia~~la~~lg~~~id~~~~~~~~~~ 40 (180) T PRK04182 4 TISGPPGSGKTTVARLLAEKLGLKHVSAGEIFRELAK 40 (180) T ss_pred EEECCCCCCHHHHHHHHHHHcCCcEecHHHHHHHHHH Confidence 4799999999999999999999999999998888654 No 47 >PRK13947 shikimate kinase; Provisional Probab=99.20 E-value=1.1e-10 Score=68.82 Aligned_cols=35 Identities=17% Similarity=0.325 Sum_probs=32.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|+|||||||+|+.||+.+++++++.+.++++. T Consensus 5 ~l~G~~GsGKst~a~~La~~lg~~~id~d~~~~~~ 39 (171) T PRK13947 5 VLIGFMGTGKTTVGKRVATTLSFGFIDTDKEIEKM 39 (171) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCEEECchhhhhh Confidence 47899999999999999999999999998887665 No 48 >PRK03731 aroL shikimate kinase II; Reviewed Probab=99.19 E-value=2.3e-10 Score=67.45 Aligned_cols=36 Identities=22% Similarity=0.401 Sum_probs=32.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+++.||+.+|+++++.+.++.... T Consensus 6 ~~~G~~GsGKst~~~~la~~lg~~~~d~D~~~~~~~ 41 (171) T PRK03731 6 FLVGARGCGKTTVGMALAQALGYRFVDTDQWLQSTS 41 (171) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEccHHHHHHh Confidence 478999999999999999999999999988876653 No 49 >PRK13946 shikimate kinase; Provisional Probab=99.14 E-value=4.2e-10 Score=67.40 Aligned_cols=35 Identities=31% Similarity=0.470 Sum_probs=31.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +++|+|||||||+++.||+++|+++++.+.++... T Consensus 14 ~l~G~~GsGKsti~~~LA~~Lg~~~id~D~~~~~~ 48 (184) T PRK13946 14 VLVGLMGAGKSTVGRRLATMLGLPFLDADTEIERA 48 (184) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCeECcCHHHHHH Confidence 47899999999999999999999999998766554 No 50 >PRK00131 aroK shikimate kinase; Reviewed Probab=99.12 E-value=8.8e-11 Score=68.92 Aligned_cols=35 Identities=26% Similarity=0.413 Sum_probs=32.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|+|||||||+|+.|++.+++.+++.++++.+. T Consensus 8 ~l~G~~GsGKstla~~La~~l~~~~~d~d~~~~~~ 42 (175) T PRK00131 8 VLIGFMGAGKSTIGRLLAKRLGYDFIDTDHLIEAR 42 (175) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCEEEChHHHHHH Confidence 58999999999999999999999999998887664 No 51 >TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases. Probab=99.11 E-value=5.1e-10 Score=65.56 Aligned_cols=32 Identities=31% Similarity=0.528 Sum_probs=29.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~ 32 (82) +++|+|||||||+|+.|++.++..+++.+++. T Consensus 2 ~l~G~~GsGKSTla~~l~~~l~~~~v~~D~~~ 33 (163) T TIGR01313 2 VLMGVAGSGKSTIASALAHRLGAKFIEGDDLH 33 (163) T ss_pred EEECCCCCCHHHHHHHHHHhcCCeEEeCcccc Confidence 47999999999999999999999999998874 No 52 >PRK14730 coaE dephospho-CoA kinase; Provisional Probab=99.09 E-value=1.6e-10 Score=69.95 Aligned_cols=38 Identities=32% Similarity=0.393 Sum_probs=34.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) .|+|++||||||+++.+++.+|+++++.|++.++.... T Consensus 5 ~itG~~gsGKst~~~~l~~~~g~~~i~~D~~~~~~~~~ 42 (195) T PRK14730 5 GLTGGIASGKSTVGNYLAQQKGIPILDADIYAREALAP 42 (195) T ss_pred EEECCCCCCHHHHHHHHHHhhCCeEeeCcHHHHHHHhc Confidence 37999999999999999999999999999999887654 No 53 >TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity. Probab=99.07 E-value=6.6e-10 Score=69.23 Aligned_cols=72 Identities=21% Similarity=0.372 Sum_probs=41.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHHHHHHHHhh---CCCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLRREIAS---NRKIVPSEVTISLIRKEIESSDNHKFLINGFPRS 72 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~~ 72 (82) +|+|+|||||||+|+.|++.+. +.+++. |.+++.... .......+.....+...+.. +..+|+|+.... T Consensus 3 vl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~-D~lr~~~~~~~~~~e~~~~~~~~~~i~~~l~~--~~~VI~D~~~~~ 79 (249) T TIGR03574 3 ILTGLPGVGKSTFSKELAKKLSEKNIDVIILGT-DLIRESFPVWKEKYEEFIRDSTLYLIKTALKN--KYSVIVDDTNYY 79 (249) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCceEEEcc-HHHHHHhHHhhHHhHHHHHHHHHHHHHHHHhC--CCeEEEeccchH Confidence 5899999999999999998762 445555 555544311 01111112222334444432 456889986444 Q ss_pred HHH Q 035937 73 EEN 75 (82) Q Consensus 73 ~~~ 75 (82) ..+ T Consensus 80 ~~~ 82 (249) T TIGR03574 80 NSM 82 (249) T ss_pred HHH Confidence 333 No 54 >cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis. Probab=99.04 E-value=3.3e-10 Score=67.61 Aligned_cols=37 Identities=27% Similarity=0.448 Sum_probs=33.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) .|+|+|||||||+++.+++ +|++++++|++.++.... T Consensus 3 ~itG~~gsGKst~~~~l~~-~g~~~i~~D~~~~~~~~~ 39 (179) T cd02022 3 GLTGGIGSGKSTVAKLLKE-LGIPVIDADKIAHEVYEP 39 (179) T ss_pred EEECCCCCCHHHHHHHHHH-CCCCEEecCHHHHhhhhc Confidence 3799999999999999988 999999999999987654 No 55 >COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism] Probab=99.04 E-value=3.2e-10 Score=69.39 Aligned_cols=35 Identities=29% Similarity=0.531 Sum_probs=33.2 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) |-||+||||||+|+.||+++|+.|++.+.++|... T Consensus 9 IDGPagsGKsTvak~lA~~Lg~~yldTGamYRa~a 43 (222) T COG0283 9 IDGPAGSGKSTVAKILAEKLGFHYLDTGAMYRAVA 43 (222) T ss_pred EeCCCccChHHHHHHHHHHhCCCeecccHHHHHHH Confidence 67999999999999999999999999999999865 No 56 >TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78 Probab=99.03 E-value=2.3e-09 Score=73.10 Aligned_cols=68 Identities=22% Similarity=0.419 Sum_probs=51.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeCCCCCHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLINGFPRSEENRAAFE 80 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~p~~~~~~~~~~ 80 (82) +++|+|||||||+|+.++...++.+++.|++- . .+.....+.+.+.+ +..+|||..-.+..++..+. T Consensus 373 il~G~pGSGKST~A~~l~~~~g~~~vn~D~lg-~----------~~~~~~~a~~~L~~--G~sVVIDaTn~~~~~R~~~i 439 (526) T TIGR01663 373 IAVGFPGAGKSHFCKKFFQPAGYKHVNADTLG-S----------TQNCLTACERALDQ--GKRCAIDNTNPDAASRAKFL 439 (526) T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEECcHHHH-H----------HHHHHHHHHHHHhC--CCcEEEECCCCCHHHHHHHH Confidence 47899999999999999999999999997652 1 22344455555544 67899999877777777665 Q ss_pred h Q 035937 81 R 81 (82) Q Consensus 81 ~ 81 (82) + T Consensus 440 ~ 440 (526) T TIGR01663 440 Q 440 (526) T ss_pred H Confidence 4 No 57 >COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism] Probab=99.01 E-value=5e-10 Score=68.25 Aligned_cols=36 Identities=33% Similarity=0.604 Sum_probs=33.1 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) |+|.|||||||+|+.+++ +|++.+++|+++++...+ T Consensus 7 lTG~igsGKStva~~~~~-~G~~vidaD~v~r~~~~~ 42 (201) T COG0237 7 LTGGIGSGKSTVAKILAE-LGFPVIDADDVAREVVEP 42 (201) T ss_pred EecCCCCCHHHHHHHHHH-cCCeEEEccHHHHHHHhc Confidence 799999999999999988 999999999999977654 No 58 >PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional Probab=98.99 E-value=2.4e-09 Score=73.23 Aligned_cols=75 Identities=20% Similarity=0.272 Sum_probs=49.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCCCCeEEEe---CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSDNHKFLIN---GF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~~~~~iid---g~ 69 (82) +|+|+|||||||+++.||+.++++++++|+.+.+..... |+....+.-.+.+.+.... .+.||. |. T Consensus 10 ~LiG~~GaGKttvg~~LA~~L~~~fiD~D~~ie~~~g~si~eif~~~Ge~~FR~~E~~~l~~~~~~---~~~VIs~GGG~ 86 (542) T PRK14021 10 VIIGMMGAGKTRVGKEVAQMMRLPFADADVEIEREIGMSIPSYFEEYGEPAFREVEADVVADMLED---FDGIFSLGGGA 86 (542) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEchHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHHhc---CCeEEECCCch Confidence 588999999999999999999999999999988765321 3333334444455544432 233443 45 Q ss_pred CCCHHHHHH Q 035937 70 PRSEENRAA 78 (82) Q Consensus 70 p~~~~~~~~ 78 (82) +.+.+..+. T Consensus 87 v~~~~n~~~ 95 (542) T PRK14021 87 PMTPSTQHA 95 (542) T ss_pred hCCHHHHHH Confidence 555544443 No 59 >PRK12338 hypothetical protein; Provisional Probab=98.99 E-value=3.5e-09 Score=68.35 Aligned_cols=37 Identities=22% Similarity=0.539 Sum_probs=34.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) +|.|+|||||||+|+.||+++++.++..+|.+++.+. T Consensus 8 ~i~G~sGsGKST~a~~la~~l~~~~~~~tD~~r~~~~ 44 (319) T PRK12338 8 LIGSASGIGKSTIASELARTLNIKHLIETDFIREVVR 44 (319) T ss_pred EEECCCCCCHHHHHHHHHHHCCCeEEccChHHHHHHc Confidence 4789999999999999999999999988899999765 No 60 >PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction:ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A .... Probab=98.98 E-value=1.9e-09 Score=63.15 Aligned_cols=72 Identities=22% Similarity=0.316 Sum_probs=47.8 Q ss_pred CCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCCCCeEEEe---CCCCCHH Q 035937 6 PGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSDNHKFLIN---GFPRSEE 74 (82) Q Consensus 6 pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~~~~~iid---g~p~~~~ 74 (82) |||||||+++.||+.++++++++|+++.+..... |...-.+...+++.+.+... +.||. |.+.+.+ T Consensus 1 ~GsGKStvg~~lA~~L~~~fiD~D~~i~~~~g~si~~i~~~~G~~~fr~~E~~~l~~l~~~~---~~VIa~GGG~~~~~~ 77 (158) T PF01202_consen 1 MGSGKSTVGKLLAKRLGRPFIDLDDEIEERTGMSISEIFAEEGEEAFRELESEALRELLKEN---NCVIACGGGIVLKEE 77 (158) T ss_dssp TTSSHHHHHHHHHHHHTSEEEEHHHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHHHHHCSS---SEEEEE-TTGGGSHH T ss_pred CCCcHHHHHHHHHHHhCCCccccCHHHHHHhCCcHHHHHHcCChHHHHHHHHHHHHHHhccC---cEEEeCCCCCcCcHH Confidence 7999999999999999999999999987765421 11222233344454444432 44554 4667777 Q ss_pred HHHHHH Q 035937 75 NRAAFE 80 (82) Q Consensus 75 ~~~~~~ 80 (82) ..+.++ T Consensus 78 ~~~~L~ 83 (158) T PF01202_consen 78 NRELLK 83 (158) T ss_dssp HHHHHH T ss_pred HHHHHH Confidence 666665 No 61 >PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C .... Probab=98.97 E-value=6.3e-09 Score=58.13 Aligned_cols=21 Identities=38% Similarity=0.596 Sum_probs=19.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.|+|||||||+|+.|++++ T Consensus 2 ~i~G~~GsGKtTia~~L~~~~ 22 (129) T PF13238_consen 2 GISGIPGSGKTTIAKELAERL 22 (129) T ss_dssp EEEESTTSSHHHHHHHHHHHH T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 489999999999999999988 No 62 >cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate. Probab=98.97 E-value=1e-08 Score=59.67 Aligned_cols=80 Identities=20% Similarity=0.233 Sum_probs=44.6 Q ss_pred CeecCCCCCHHHHHHHHHHHh---CC--ceeehHHHHHHHHhhCCCcCCHHH--HHHHHHHHHhc--CCCCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---GL--THLSAGDLLRREIASNRKIVPSEV--TISLIRKEIES--SDNHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~~--~~i~~~~~~~~~~~~~~~~~~~~~--~~~~l~~~i~~--~~~~~~iidg~p~ 71 (82) +|+|.|||||||+|+.|++.+ +. .+++. |.++..+.......+.+. ..+.+...... ..+..+|+|..-. T Consensus 3 ~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~-d~~r~~l~~~~~~~~~~~~~~~~~~~~~a~~l~~~G~~VIid~~~~ 81 (149) T cd02027 3 WLTGLSGSGKSTIARALEEKLFQRGRPVYVLDG-DNVRHGLNKDLGFSREDREENIRRIAEVAKLLADAGLIVIAAFISP 81 (149) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcC-HHHHHhhhhccCCCcchHHHHHHHHHHHHHHHHhCCCEEEEccCCC Confidence 489999999999999999887 53 34444 556654432211112211 11112211111 1256788887645 Q ss_pred CHHHHHHHHh Q 035937 72 SEENRAAFER 81 (82) Q Consensus 72 ~~~~~~~~~~ 81 (82) ...+++.+++ T Consensus 82 ~~~~R~~~~~ 91 (149) T cd02027 82 YREDREAARK 91 (149) T ss_pred CHHHHHHHHH Confidence 5566665543 No 63 >PRK05057 aroK shikimate kinase I; Reviewed Probab=98.96 E-value=4.5e-09 Score=62.51 Aligned_cols=35 Identities=17% Similarity=0.394 Sum_probs=31.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|++||||||+++.|++.+++.+++.+..+... T Consensus 8 ~liG~~GaGKStl~~~La~~l~~~~vd~D~~i~~~ 42 (172) T PRK05057 8 FLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIEKR 42 (172) T ss_pred EEECCCCcCHHHHHHHHHHHcCCcEEECCchHHHH Confidence 47899999999999999999999999998776654 No 64 >COG0645 Predicted kinase [General function prediction only] Probab=98.94 E-value=5.2e-09 Score=61.99 Aligned_cols=81 Identities=17% Similarity=0.266 Sum_probs=53.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh----C--CCcCCHHHHHHH----HHHHHhcCC-CCeEEEeCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS----N--RKIVPSEVTISL----IRKEIESSD-NHKFLINGF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~----~--~~~~~~~~~~~~----l~~~i~~~~-~~~~iidg~ 69 (82) ++.|.|||||||+|+.|++.++..+++.|++....... . ....+.+..... ......... +..+|+|+. T Consensus 5 l~~Gl~GsGKstlA~~l~~~lgA~~lrsD~irk~L~g~p~~~r~~~g~ys~~~~~~vy~~l~~~A~l~l~~G~~VVlDa~ 84 (170) T COG0645 5 LVGGLPGSGKSTLARGLAELLGAIRLRSDVIRKRLFGVPEETRGPAGLYSPAATAAVYDELLGRAELLLSSGHSVVLDAT 84 (170) T ss_pred EEecCCCccHhHHHHHHHhhcCceEEehHHHHHHhcCCcccccCCCCCCcHHHHHHHHHHHHHHHHHHHhCCCcEEEecc Confidence 47899999999999999999999999995554444331 1 222333332222 222222223 788999988 Q ss_pred CCCHHHHHHHHh Q 035937 70 PRSEENRAAFER 81 (82) Q Consensus 70 p~~~~~~~~~~~ 81 (82) .....+++...+ T Consensus 85 ~~r~~~R~~~~~ 96 (170) T COG0645 85 FDRPQERALARA 96 (170) T ss_pred cCCHHHHHHHHH Confidence 788777776543 No 65 >PRK00081 coaE dephospho-CoA kinase; Reviewed Probab=98.94 E-value=1.3e-09 Score=65.83 Aligned_cols=37 Identities=27% Similarity=0.443 Sum_probs=33.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) .|+|++||||||+++.|++ +|+++++.|++.++.... T Consensus 6 ~ltG~~gsGKst~~~~l~~-~g~~~i~~D~~~~~~~~~ 42 (194) T PRK00081 6 GLTGGIGSGKSTVANLFAE-LGAPVIDADAIAHEVVEP 42 (194) T ss_pred EEECCCCCCHHHHHHHHHH-cCCEEEEecHHHHHHhhc Confidence 3799999999999999988 999999999999987653 No 66 >PLN02199 shikimate kinase Probab=98.94 E-value=7.7e-09 Score=66.20 Aligned_cols=36 Identities=31% Similarity=0.425 Sum_probs=33.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) +|+|++||||||+++.||+.++++++++|.++.+.. T Consensus 106 ~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~lIe~~~ 141 (303) T PLN02199 106 YLVGMMGSGKTTVGKLMSKVLGYTFFDCDTLIEQAM 141 (303) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEehHHHHHHHh Confidence 489999999999999999999999999999998863 No 67 >COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism] Probab=98.93 E-value=1.1e-09 Score=65.19 Aligned_cols=35 Identities=26% Similarity=0.545 Sum_probs=32.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) .|+|.||+||||+|+.|+ .+|+.+++..+++.+.- T Consensus 4 ~ITGTPGvGKTT~~~~L~-~lg~~~i~l~el~~e~~ 38 (180) T COG1936 4 AITGTPGVGKTTVCKLLR-ELGYKVIELNELAKENG 38 (180) T ss_pred EEeCCCCCchHHHHHHHH-HhCCceeeHHHHHHhcC Confidence 489999999999999998 99999999999988863 No 68 >cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II. Probab=98.93 E-value=6.8e-09 Score=61.63 Aligned_cols=34 Identities=18% Similarity=0.428 Sum_probs=27.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC--ceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL--THLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~--~~i~~~~~~~~ 34 (82) +++|+|||||||+|+.|++.++. .+++.|++... T Consensus 6 ~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D~~~~~ 41 (175) T cd00227 6 ILNGGSSAGKSSIARALQSVLAEPWLHFGVDSFIEA 41 (175) T ss_pred EEECCCCCCHHHHHHHHHHhhCCCccccCccHHHHh Confidence 58999999999999999998764 45577665543 No 69 >PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional Probab=98.93 E-value=5.5e-09 Score=70.76 Aligned_cols=35 Identities=26% Similarity=0.417 Sum_probs=32.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|+|||||||+++.|++.+++.++++|+++.+. T Consensus 4 ~l~G~~GsGKSTv~~~La~~lg~~~id~D~~i~~~ 38 (488) T PRK13951 4 FLVGMMGSGKSTIGKRVSEVLDLQFIDMDEEIERR 38 (488) T ss_pred EEECCCCCCHHHHHHHHHHHcCCeEEECcHHHHHH Confidence 48999999999999999999999999999988664 No 70 >TIGR00152 dephospho-CoA kinase. This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases. Probab=98.92 E-value=2e-09 Score=64.57 Aligned_cols=38 Identities=24% Similarity=0.447 Sum_probs=34.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) .|+|++||||||+++.|++..++++++.|++.++.... T Consensus 3 ~itG~~gsGKst~~~~l~~~~~~~~i~~D~~~~~~~~~ 40 (188) T TIGR00152 3 GLTGGIGSGKSTVANYLADKYHFPVIDADKIAHQVVEK 40 (188) T ss_pred EEECCCCCCHHHHHHHHHHhcCCeEEeCCHHHHHHHhc Confidence 37999999999999999998889999999998887654 No 71 >PRK04220 2-phosphoglycerate kinase; Provisional Probab=98.92 E-value=1.4e-08 Score=65.07 Aligned_cols=37 Identities=19% Similarity=0.456 Sum_probs=31.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) +|.|++||||||+|..||+++++.++-..|.+++.+. T Consensus 96 lI~G~sgsGKStlA~~La~~l~~~~vi~~D~~re~~R 132 (301) T PRK04220 96 LIGGASGVGTSTIAFELASRLGIRSVIGTDSIREVMR 132 (301) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHHHH Confidence 4799999999999999999999985544688886654 No 72 >PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed Probab=98.91 E-value=4.1e-09 Score=73.98 Aligned_cols=35 Identities=23% Similarity=0.462 Sum_probs=33.4 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) |.|||||||||+|+.||+++|+.+++.+.++|... T Consensus 6 I~G~~GsGKST~ak~la~~l~~~~~~~g~~~r~~~ 40 (712) T PRK09518 6 IDGPAGVGKSSVSRALAQYLGYAYLDTGAMYRACA 40 (712) T ss_pred EECCCCCCHHHHHHHHHHHhCCcEeecCcEeHHHH Confidence 78999999999999999999999999999999865 No 73 >PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional Probab=98.90 E-value=5.6e-09 Score=69.14 Aligned_cols=36 Identities=31% Similarity=0.553 Sum_probs=32.8 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) |+|++||||||+++.|++ +|+++++.|.+.++.... T Consensus 6 ltG~igsGKStv~~~L~~-~G~~vidaD~i~~~l~~~ 41 (395) T PRK03333 6 LTGGIGAGKSTVAARLAE-LGAVVVDADVLAREVVEP 41 (395) T ss_pred EECCCCCCHHHHHHHHHH-CCCeEEehHHHHHHHhcC Confidence 799999999999999977 899999999999986654 No 74 >TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors. Probab=98.90 E-value=2.2e-09 Score=66.02 Aligned_cols=34 Identities=26% Similarity=0.551 Sum_probs=32.0 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) |.||+||||||+++.|++++++.+++.+++++.. T Consensus 7 i~G~~GsGKst~~~~la~~~~~~~~~~g~~~r~~ 40 (217) T TIGR00017 7 IDGPSGAGKSTVAKAVAEKLGYAYLDSGAMYRAI 40 (217) T ss_pred EECCCCCCHHHHHHHHHHHhCCceeeCchHHHHH Confidence 7899999999999999999999999999998765 No 75 >PHA02575 1 deoxynucleoside monophosphate kinase; Provisional Probab=98.88 E-value=2e-08 Score=62.07 Aligned_cols=35 Identities=26% Similarity=0.252 Sum_probs=28.9 Q ss_pred eecCCCCCHHHHHHHHHHHhCCce-eehHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTH-LSAGDLLRREIA 37 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~-i~~~~~~~~~~~ 37 (82) |+|.|||||||+|+.+.+ .+.++ ++++|.+++.+. T Consensus 5 i~G~~gsGKstva~~~~~-~g~~~~~~~~d~ik~~l~ 40 (227) T PHA02575 5 ISGKKRSGKDTVADFIIE-NYNAVKYQLADPIKEILA 40 (227) T ss_pred EeCCCCCCHHHHHHHHHh-cCCcEEEehhHHHHHHHH Confidence 799999999999988855 45555 999999988753 No 76 >PRK06547 hypothetical protein; Provisional Probab=98.87 E-value=1.3e-09 Score=64.94 Aligned_cols=33 Identities=27% Similarity=0.418 Sum_probs=30.3 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRR 34 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~ 34 (82) |.|++||||||+++.|++.+++..++.++++.. T Consensus 20 i~G~~GsGKTt~a~~l~~~~~~~~~~~d~~~~~ 52 (172) T PRK06547 20 IDGRSGSGKTTLAGALAARTGFQLVHLDDLYPG 52 (172) T ss_pred EECCCCCCHHHHHHHHHHHhCCCeecccceecc Confidence 679999999999999999999999999988753 No 77 >cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate. Probab=98.87 E-value=4.3e-09 Score=54.00 Aligned_cols=21 Identities=38% Similarity=0.759 Sum_probs=19.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+|||||||+++.|++.+ T Consensus 3 ~i~G~~gsGKst~~~~l~~~l 23 (69) T cd02019 3 AITGGSGSGKSTVAKKLAEQL 23 (69) T ss_pred EEECCCCCCHHHHHHHHHHHh Confidence 478999999999999999984 No 78 >PRK00023 cmk cytidylate kinase; Provisional Probab=98.87 E-value=2.7e-09 Score=65.91 Aligned_cols=35 Identities=34% Similarity=0.609 Sum_probs=32.6 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) |.|+|||||||+++.|++++|+.+++.++++|... T Consensus 9 i~g~~gsGksti~~~la~~~~~~~~~~~~~~r~~~ 43 (225) T PRK00023 9 IDGPAGSGKGTVAKILAKKLGFHYLDTGAMYRAVA 43 (225) T ss_pred EECCCCCCHHHHHHHHHHHhCCCcccCchhHHHHH Confidence 78999999999999999999999999999988743 No 79 >PRK08233 hypothetical protein; Provisional Probab=98.86 E-value=5.6e-09 Score=61.79 Aligned_cols=22 Identities=18% Similarity=0.376 Sum_probs=20.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) .|.|+|||||||+|+.|++.++ T Consensus 7 ~I~G~~GsGKtTla~~L~~~l~ 28 (182) T PRK08233 7 TIAAVSGGGKTTLTERLTHKLK 28 (182) T ss_pred EEECCCCCCHHHHHHHHHhhCC Confidence 3789999999999999999986 No 80 >PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional Probab=98.86 E-value=1e-08 Score=71.55 Aligned_cols=34 Identities=32% Similarity=0.597 Sum_probs=32.9 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) |.||+||||||+++.||+++++.|++.++++|.. T Consensus 447 i~g~~~~gks~~~~~l~~~~~~~~~~~~~~~~~~ 480 (661) T PRK11860 447 IDGPTASGKGTVAARVAEALGYHYLDSGALYRLT 480 (661) T ss_pred eeCCCCCCHHHHHHHHHHHhCCeEecHHHhhhHH Confidence 6899999999999999999999999999999987 No 81 >PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G .... Probab=98.85 E-value=2.2e-09 Score=60.25 Aligned_cols=32 Identities=28% Similarity=0.668 Sum_probs=26.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~~ 32 (82) +|.||||+|||++++.+++.++.++ ++..++. T Consensus 2 ll~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~ 35 (132) T PF00004_consen 2 LLHGPPGTGKTTLARALAQYLGFPFIEIDGSELI 35 (132) T ss_dssp EEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHH T ss_pred EEECcCCCCeeHHHHHHHhhcccccccccccccc Confidence 5899999999999999999998655 5554554 No 82 >KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism] Probab=98.85 E-value=6.2e-09 Score=61.31 Aligned_cols=79 Identities=16% Similarity=0.218 Sum_probs=49.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh---CCCcCCHHH---HHHHHHHHHhc-C-CCCeEEEeCCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS---NRKIVPSEV---TISLIRKEIES-S-DNHKFLINGFPRS 72 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~---~~~~~~~~~---~~~~l~~~i~~-~-~~~~~iidg~p~~ 72 (82) +++|++||||||+++.|++++++.+++.+|+=..+..+ .|.+++++. |..-+...... . +..++|+---.-. T Consensus 16 ~vmGvsGsGKSTigk~L~~~l~~~F~dgDd~Hp~~NveKM~~GipLnD~DR~pWL~~i~~~~~~~l~~~q~vVlACSaLK 95 (191) T KOG3354|consen 16 VVMGVSGSGKSTIGKALSEELGLKFIDGDDLHPPANVEKMTQGIPLNDDDRWPWLKKIAVELRKALASGQGVVLACSALK 95 (191) T ss_pred EEEecCCCChhhHHHHHHHHhCCcccccccCCCHHHHHHHhcCCCCCcccccHHHHHHHHHHHHHhhcCCeEEEEhHHHH Confidence 47899999999999999999999999999875544321 255555542 22222222221 1 2567777543333 Q ss_pred HHHHHHH Q 035937 73 EENRAAF 79 (82) Q Consensus 73 ~~~~~~~ 79 (82) ...++.+ T Consensus 96 k~YRdIL 102 (191) T KOG3354|consen 96 KKYRDIL 102 (191) T ss_pred HHHHHHH Confidence 3444443 No 83 >PRK14734 coaE dephospho-CoA kinase; Provisional Probab=98.85 E-value=5.1e-09 Score=63.65 Aligned_cols=37 Identities=30% Similarity=0.447 Sum_probs=33.2 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) |+|++||||||+++.|++ +|+++++.|++.++....+ T Consensus 6 itG~igsGKst~~~~l~~-~g~~vid~D~i~~~~~~~~ 42 (200) T PRK14734 6 LTGGIGSGKSTVADLLSS-EGFLIVDADQVARDIVEPG 42 (200) T ss_pred EECCCCCCHHHHHHHHHH-CCCeEEeCcHHHHHHHhcC Confidence 799999999999999987 8999999999888877653 No 84 >PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed Probab=98.84 E-value=2.6e-08 Score=64.08 Aligned_cols=35 Identities=26% Similarity=0.390 Sum_probs=31.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|+|||||||+++.|++.+|+++++++..+.+. T Consensus 137 ~l~G~~GsGKStvg~~La~~Lg~~~id~D~~i~~~ 171 (309) T PRK08154 137 ALIGLRGAGKSTLGRMLAARLGVPFVELNREIERE 171 (309) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCEEeHHHHHHHH Confidence 47999999999999999999999999998777654 No 85 >COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism] Probab=98.84 E-value=1.3e-08 Score=60.47 Aligned_cols=68 Identities=19% Similarity=0.284 Sum_probs=50.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-CCceeehHHHHHHHHhhC--------CCcCCHHHHHHHHHHHHhcCC--CCeEEEeC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-GLTHLSAGDLLRREIASN--------RKIVPSEVTISLIRKEIESSD--NHKFLING 68 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-~~~~i~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~~i~~~~--~~~~iidg 68 (82) +++|-||+||||+.+.+.+.+ .+..++.++++-+..... -..+|.+...++...+.+... ...+|+|. T Consensus 8 vitGVpGvGKTTVl~~~~~~l~~~~ivNyG~~Mle~A~k~glve~rD~~Rklp~e~Q~~lq~~Aa~rI~~~~~~iivDt 86 (189) T COG2019 8 VITGVPGVGKTTVLKIALKELVKHKIVNYGDLMLEIAKKKGLVEHRDEMRKLPLENQRELQAEAAKRIAEMALEIIVDT 86 (189) T ss_pred EEEcCCCCChHHHHHHHHHHHhhceeeeHhHHHHHHHHHhCCcccHHHHhcCCHHHHHHHHHHHHHHHHHhhhceEEec Confidence 479999999999999999888 888999999999887653 235666666666666555443 22278874 No 86 >PTZ00451 dephospho-CoA kinase; Provisional Probab=98.84 E-value=6e-09 Score=65.17 Aligned_cols=38 Identities=26% Similarity=0.354 Sum_probs=34.7 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) |+|.+||||||+++.|.+++|++.++.|.+.++...++ T Consensus 6 lTGgIgSGKStVs~~L~~~~G~~viDaD~iar~l~~~~ 43 (244) T PTZ00451 6 LTGGIACGKSTVSRILREEHHIEVIDADLVVRELQAPN 43 (244) T ss_pred EECCCCCCHHHHHHHHHHHcCCeEEehHHHHHHHHcCC Confidence 79999999999999999889999999999999877643 No 87 >COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones] Probab=98.84 E-value=1.2e-08 Score=66.72 Aligned_cols=39 Identities=21% Similarity=0.454 Sum_probs=32.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASN 39 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~ 39 (82) ++.||||+|||.+|++.|.+.+ |..+..++++++...++ T Consensus 189 LLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGEG 229 (406) T COG1222 189 LLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEG 229 (406) T ss_pred EeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhccc Confidence 5899999999999999999987 55566778888887654 No 88 >PRK14733 coaE dephospho-CoA kinase; Provisional Probab=98.82 E-value=6.5e-09 Score=63.50 Aligned_cols=36 Identities=25% Similarity=0.388 Sum_probs=33.0 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) |+|++||||||+++.+++.+|+.+++.+.+.++... T Consensus 11 lTG~iGsGKStv~~~l~~~lg~~vidaD~i~~~l~~ 46 (204) T PRK14733 11 ITGGIASGKSTATRILKEKLNLNVVCADTISREITK 46 (204) T ss_pred EECCCCCCHHHHHHHHHHHcCCeEEeccHHHHHHHC Confidence 799999999999999999999999999888888754 No 89 >PRK12724 flagellar biosynthesis regulator FlhF; Provisional Probab=98.82 E-value=1.9e-08 Score=67.14 Aligned_cols=79 Identities=20% Similarity=0.354 Sum_probs=47.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh----C--CceeehHHHHHHHHhh--------CCC-cCCHHHHHHHHHHHHhcCCCCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNF----G--LTHLSAGDLLRREIAS--------NRK-IVPSEVTISLIRKEIESSDNHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~----~--~~~i~~~~~~~~~~~~--------~~~-~~~~~~~~~~l~~~i~~~~~~~~i 65 (82) +++||+||||||++..||..+ | ..+++. |..|..... .+- ..+..... .+.+.+...+.+.++ T Consensus 227 ~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~-Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~-~l~~~l~~~~~D~VL 304 (432) T PRK12724 227 FFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT-DNYRIAAIEQLKRYADTMGMPFYPVKDIK-KFKETLARDGSELIL 304 (432) T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc-cchhhhHHHHHHHHHHhcCCCeeehHHHH-HHHHHHHhCCCCEEE Confidence 478999999999999999654 2 333444 554443221 111 12222222 334444433367799 Q ss_pred Ee--CC-CCCHHHHHHHHh Q 035937 66 IN--GF-PRSEENRAAFER 81 (82) Q Consensus 66 id--g~-p~~~~~~~~~~~ 81 (82) || |+ |++..+++.+.+ T Consensus 305 IDTaGr~~rd~~~l~eL~~ 323 (432) T PRK12724 305 IDTAGYSHRNLEQLERMQS 323 (432) T ss_pred EeCCCCCccCHHHHHHHHH Confidence 99 77 477888887764 No 90 >PRK05541 adenylylsulfate kinase; Provisional Probab=98.81 E-value=2.9e-08 Score=58.82 Aligned_cols=35 Identities=29% Similarity=0.414 Sum_probs=27.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+++.|++++. ..+++. |-+++.. T Consensus 11 ~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~-d~~r~~~ 50 (176) T PRK05541 11 WITGLAGSGKTTIAKALYERLKLKYSNVIYLDG-DELREIL 50 (176) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEec-HHHHhhc Confidence 4799999999999999998875 556665 4555544 No 91 >PLN02422 dephospho-CoA kinase Probab=98.80 E-value=8.7e-09 Score=64.04 Aligned_cols=37 Identities=27% Similarity=0.404 Sum_probs=33.6 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) |+|++||||||+++.|+ ++|+++++.|++.++....+ T Consensus 6 ltG~igsGKstv~~~l~-~~g~~~idaD~~~~~l~~~g 42 (232) T PLN02422 6 LTGGIASGKSTVSNLFK-SSGIPVVDADKVARDVLKKG 42 (232) T ss_pred EECCCCCCHHHHHHHHH-HCCCeEEehhHHHHHHHHhh Confidence 79999999999999998 68999999999999887653 No 92 >PHA00729 NTP-binding motif containing protein Probab=98.79 E-value=1.9e-08 Score=62.25 Aligned_cols=67 Identities=21% Similarity=0.248 Sum_probs=38.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC-CCeEEEeC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSD-NHKFLING 68 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~-~~~~iidg 68 (82) +|+|+||+||||+|..|++..+ +..++.++..+.. ......++.+.+.+.+........ ...+|||+ T Consensus 21 lItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~-~~~~~fid~~~Ll~~L~~a~~~~~~~dlLIIDd 90 (226) T PHA00729 21 VIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQY-VQNSYFFELPDALEKIQDAIDNDYRIPLIIFDD 90 (226) T ss_pred EEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhc-CCcEEEEEHHHHHHHHHHHHhcCCCCCEEEEeC Confidence 5899999999999999998865 2233333222211 011223344444555555443322 24468887 No 93 >KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones] Probab=98.79 E-value=1.7e-08 Score=69.79 Aligned_cols=61 Identities=20% Similarity=0.360 Sum_probs=41.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH--HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG--DLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) +|+||||+|||.+|+.+|..++++++++. +++.....+ +++.+.++..++....++ .++|| T Consensus 227 LlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGE-----SEkkiRelF~~A~~~aPc-ivFiD 289 (802) T KOG0733|consen 227 LLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGE-----SEKKIRELFDQAKSNAPC-IVFID 289 (802) T ss_pred eeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcc-----cHHHHHHHHHHHhccCCe-EEEee Confidence 58999999999999999999998887764 455443222 445556666666655432 34445 No 94 >COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism] Probab=98.76 E-value=2e-08 Score=58.58 Aligned_cols=57 Identities=19% Similarity=0.216 Sum_probs=42.1 Q ss_pred ecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH-h--hCCCcCCHHH---HHHHHHHHHhcC Q 035937 3 SGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI-A--SNRKIVPSEV---TISLIRKEIESS 59 (82) Q Consensus 3 ~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~-~--~~~~~~~~~~---~~~~l~~~i~~~ 59 (82) +|.+||||||+++.||+++++.+++-+++=-... . ..|.+++++. |.+.+.+.+.+. T Consensus 1 MGVsG~GKStvg~~lA~~lg~~fidGDdlHp~aNi~KM~~GiPL~DdDR~pWL~~l~~~~~~~ 63 (161) T COG3265 1 MGVSGSGKSTVGSALAERLGAKFIDGDDLHPPANIEKMSAGIPLNDDDRWPWLEALGDAAASL 63 (161) T ss_pred CCCCccCHHHHHHHHHHHcCCceecccccCCHHHHHHHhCCCCCCcchhhHHHHHHHHHHHHh Confidence 5899999999999999999999999988654332 2 2266666653 556666666553 No 95 >PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional Probab=98.75 E-value=6.3e-09 Score=70.79 Aligned_cols=34 Identities=32% Similarity=0.580 Sum_probs=32.7 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) |.||+||||||+|+.|++++++.+++.|+++|.. T Consensus 289 i~G~sgsGKst~a~~la~~l~~~~~d~g~~YR~~ 322 (512) T PRK13477 289 IDGPAGAGKSTVTRAVAKKLGLLYLDTGAMYRAV 322 (512) T ss_pred EECCCCCCHHHHHHHHHHHcCCeEecCCceehHH Confidence 7899999999999999999999999999999985 No 96 >PF01121 CoaE: Dephospho-CoA kinase; InterPro: IPR001977 This family contains dephospho-CoA kinases (2.7.1.24 from EC), which catalyzes the final step in CoA biosynthesis, the phosphorylation of the 3'-hydroxyl group of ribose using ATP as a phosphate donor. The crystal structures of a number of the proteins in this entry have been determined, including the structure of the protein from Haemophilus influenzae to 2.0-A resolution in a comlex with ATP. The protein consists of three domains: the nucleotide-binding domain with a five-stranded parallel beta-sheet, the substrate-binding alpha-helical domain, and the lid domain formed by a pair of alpha-helices; the overall topology of the protein resembles the structures of other nucleotide kinases [].; GO: 0004140 dephospho-CoA kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 1VHL_A 1N3B_A 1VIY_A 1VHT_B 1T3H_B 1UF9_C 2F6R_A 2GRJ_D 2IF2_C 1JJV_A. Probab=98.74 E-value=1.1e-08 Score=61.36 Aligned_cols=36 Identities=28% Similarity=0.510 Sum_probs=32.0 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) |+|..||||||+++.+++ +|+++++.|.+.++.... T Consensus 5 lTG~igsGKStv~~~l~~-~G~~vidaD~i~~~l~~~ 40 (180) T PF01121_consen 5 LTGGIGSGKSTVSKILAE-LGFPVIDADEIAHELYEP 40 (180) T ss_dssp EEESTTSSHHHHHHHHHH-TT-EEEEHHHHHHHCTSC T ss_pred EECCCcCCHHHHHHHHHH-CCCCEECccHHHHHHhhc Confidence 799999999999999977 999999999998887764 No 97 >PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D. Probab=98.74 E-value=3e-08 Score=60.01 Aligned_cols=75 Identities=20% Similarity=0.400 Sum_probs=39.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh---CCceeehHHHHHHHHh------hCCC---cCCHH----HHHHHHHHHHhcCCCCeE Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---GLTHLSAGDLLRREIA------SNRK---IVPSE----VTISLIRKEIESSDNHKF 64 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~~~~i~~~~~~~~~~~------~~~~---~~~~~----~~~~~l~~~i~~~~~~~~ 64 (82) ++.|+|||||||++..+...+ ++.+++.|++-..... .... ..... +...++...+.+ +..+ T Consensus 19 i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~~~p~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~a~~~--~~ni 96 (199) T PF06414_consen 19 IIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQFHPDYDELLKADPDEASELTQKEASRLAEKLIEYAIEN--RYNI 96 (199) T ss_dssp EEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGGGSTTHHHHHHHHCCCTHHHHHHHHHHHHHHHHHHHHHC--T--E T ss_pred EEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHHhccchhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHc--CCCE Confidence 478999999999999999886 5888998665322110 0000 11111 223333444433 6689 Q ss_pred EEeCCCCCHHHHH Q 035937 65 LINGFPRSEENRA 77 (82) Q Consensus 65 iidg~p~~~~~~~ 77 (82) |+|+...+..... T Consensus 97 i~E~tl~~~~~~~ 109 (199) T PF06414_consen 97 IFEGTLSNPSKLR 109 (199) T ss_dssp EEE--TTSSHHHH T ss_pred EEecCCCChhHHH Confidence 9999766655444 No 98 >PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated Probab=98.73 E-value=4.9e-08 Score=58.11 Aligned_cols=36 Identities=19% Similarity=0.443 Sum_probs=29.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+|..++..++ +.++.......+++ T Consensus 5 li~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~ 42 (170) T PRK05800 5 LVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEM 42 (170) T ss_pred EEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHH Confidence 5899999999999999999876 66777765555544 No 99 >PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae. Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A. Probab=98.73 E-value=3.1e-08 Score=59.24 Aligned_cols=79 Identities=13% Similarity=0.217 Sum_probs=45.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhC----CCcC-----C--HH---HHHHHHHHHHhcC-C-CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASN----RKIV-----P--SE---VTISLIRKEIESS-D-NH 62 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~----~~~~-----~--~~---~~~~~l~~~i~~~-~-~~ 62 (82) +|.|+|-|||||+|+.|.+.+. +.|+++|+++....... .... + .. .....+...+... + +. T Consensus 5 ~LNG~sSSGKSsia~~Lq~~~~~p~~~l~~D~f~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~iaa~a~aG~ 84 (174) T PF07931_consen 5 ILNGPSSSGKSSIARALQERLPEPWLHLSVDTFVDMMPPGRYRPGDGLEPAGDRPDGGPLFRRLYAAMHAAIAAMARAGN 84 (174) T ss_dssp EEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS-GGGGTSTTSEEEETTSEEE-HHHHHHHHHHHHHHHHHHHTT- T ss_pred EEeCCCCCCHHHHHHHHHHhCcCCeEEEecChHHhhcCcccccCCccccccccCCchhHHHHHHHHHHHHHHHHHHhCCC Confidence 5889999999999999999986 67888877776432211 1110 0 11 2233334444333 2 77 Q ss_pred eEEEeCCCCCHHH-HHHH Q 035937 63 KFLINGFPRSEEN-RAAF 79 (82) Q Consensus 63 ~~iidg~p~~~~~-~~~~ 79 (82) ++|+|+...+..+ .+.+ T Consensus 85 ~VIvD~v~~~~~~l~d~l 102 (174) T PF07931_consen 85 NVIVDDVFLGPRWLQDCL 102 (174) T ss_dssp EEEEEE--TTTHHHHHHH T ss_pred CEEEecCccCcHHHHHHH Confidence 8999987666554 4444 No 100 >TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment. Probab=98.73 E-value=2.1e-07 Score=55.59 Aligned_cols=80 Identities=19% Similarity=0.222 Sum_probs=45.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHhhCCCcCCHHHH--HHHHHHHHhcC-C-CCeEEEeCCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIASNRKIVPSEVT--ISLIRKEIESS-D-NHKFLINGFPR 71 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~~~~~~~~~~~~--~~~l~~~i~~~-~-~~~~iidg~p~ 71 (82) +++|+|||||||+++.|+..+ + ..+++. |.++..+..+....+.+.. ...+....... . +..+|+|.... T Consensus 22 ~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~-d~~r~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~VI~d~~~~ 100 (184) T TIGR00455 22 WLTGLSGSGKSTIANALEKKLESKGYRVYVLDG-DNVRHGLNKDLGFSEEDRKENIRRIGEVAKLFVRNGIIVITSFISP 100 (184) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEECC-hHHHhhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEecCCC Confidence 479999999999999999776 2 455665 4555544332222222211 11112111111 2 67788887644 Q ss_pred CHHHHHHHHh Q 035937 72 SEENRAAFER 81 (82) Q Consensus 72 ~~~~~~~~~~ 81 (82) ...+++.+++ T Consensus 101 ~~~~r~~~~~ 110 (184) T TIGR00455 101 YRADRQMVRE 110 (184) T ss_pred CHHHHHHHHH Confidence 4666666543 No 101 >COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism] Probab=98.73 E-value=6.7e-09 Score=61.37 Aligned_cols=38 Identities=26% Similarity=0.493 Sum_probs=29.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) +|+|+||+||||++..+++.+.-.-+..+-++..+... T Consensus 9 ~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~ 46 (179) T COG1618 9 FITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVRE 46 (179) T ss_pred EEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeec Confidence 48999999999999999987764445666666666544 No 102 >PRK14731 coaE dephospho-CoA kinase; Provisional Probab=98.72 E-value=1.8e-08 Score=61.50 Aligned_cols=35 Identities=29% Similarity=0.517 Sum_probs=30.8 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) |+|++||||||+++.|++ +|++.++.+.+.++... T Consensus 10 itG~igsGKSt~~~~l~~-~g~~v~d~D~i~~~~~~ 44 (208) T PRK14731 10 VTGGIGSGKSTVCRFLAE-MGCELFEADRVAKELQV 44 (208) T ss_pred EECCCCCCHHHHHHHHHH-CCCeEEeccHHHHHHcC Confidence 799999999999999975 99999999888777654 No 103 >PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A. Probab=98.72 E-value=4.2e-08 Score=60.38 Aligned_cols=68 Identities=18% Similarity=0.292 Sum_probs=46.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHH--HHHh-hC---------------------CCcCCHHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLR--REIA-SN---------------------RKIVPSEVTISLIRKEI 56 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~--~~~~-~~---------------------~~~~~~~~~~~~l~~~i 56 (82) +|.||+|+|||.+|-.+|+++|.+.++.|.+.. +... .+ ...++.+...+.+...+ T Consensus 5 ~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l~v~Sgrp~~~el~~~~RiyL~~r~l~~G~i~a~ea~~~Li~~v 84 (233) T PF01745_consen 5 LIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPELSVGSGRPTPSELKGTRRIYLDDRPLSDGIINAEEAHERLISEV 84 (233) T ss_dssp EEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGGTTTTT---SGGGTT-EEEES----GGG-S--HHHHHHHHHHHH T ss_pred EEECCCCCChhHHHHHHHHHhCCCEEEecceecccccccccCCCCHHHHcccceeeeccccccCCCcCHHHHHHHHHHHH Confidence 489999999999999999999999999975433 2211 10 33456666677777777 Q ss_pred hcCC-CCeEEEeC Q 035937 57 ESSD-NHKFLING 68 (82) Q Consensus 57 ~~~~-~~~~iidg 68 (82) .+.. +.++|++| T Consensus 85 ~~~~~~~~~IlEG 97 (233) T PF01745_consen 85 NSYSAHGGLILEG 97 (233) T ss_dssp HTTTTSSEEEEEE T ss_pred HhccccCceEEeC Confidence 7776 88999997 No 104 >PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional Probab=98.71 E-value=2.2e-08 Score=71.54 Aligned_cols=35 Identities=31% Similarity=0.587 Sum_probs=33.5 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~ 36 (82) |.|||||||||+|+.||+.+++.|++++.++|... T Consensus 39 idG~~gsGKst~~~~la~~l~~~~~~~g~~yRa~a 73 (863) T PRK12269 39 LDGPAGSGKSSVCRLLASRLGAQCLNTGSFYRAFT 73 (863) T ss_pred EECCCCCCHHHHHHHHHHHhCCcEEeHHHHHHHHH Confidence 78999999999999999999999999999999874 No 105 >PRK00889 adenylylsulfate kinase; Provisional Probab=98.70 E-value=2.6e-07 Score=54.70 Aligned_cols=36 Identities=19% Similarity=0.404 Sum_probs=27.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~~~~~ 37 (82) +|+|+|||||||+|+.|+..+. +.+++.+. +++.+. T Consensus 8 ~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~-~~~~~~ 48 (175) T PRK00889 8 WFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDA-VRTNLS 48 (175) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcc-HHHHHh Confidence 4799999999999999998762 56677744 454443 No 106 >cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside. Probab=98.70 E-value=1.2e-08 Score=61.55 Aligned_cols=34 Identities=24% Similarity=0.347 Sum_probs=30.5 Q ss_pred eecCCCCCHHHHHHHHHHHh-CCceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF-GLTHLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~-~~~~i~~~~~~~~~ 35 (82) |.|+|||||||+|+.|++.+ +..+++++++.... T Consensus 4 i~G~sgsGKTtla~~l~~~~~~~~~i~~Ddf~~~~ 38 (187) T cd02024 4 ISGVTNSGKTTLAKLLQRILPNCCVIHQDDFFKPE 38 (187) T ss_pred EECCCCCCHHHHHHHHHHHcCCCeEEccccccCCc Confidence 78999999999999999998 69999999887653 No 107 >PRK12377 putative replication protein; Provisional Probab=98.69 E-value=6.1e-08 Score=60.82 Aligned_cols=37 Identities=27% Similarity=0.507 Sum_probs=29.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~ 37 (82) +|+|+||+|||++|..++..+ + +.+++..+++..... T Consensus 105 ~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~ 146 (248) T PRK12377 105 VFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHE 146 (248) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHH Confidence 478999999999999998654 2 567888888876543 No 108 >COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair] Probab=98.68 E-value=6.6e-08 Score=63.97 Aligned_cols=31 Identities=26% Similarity=0.342 Sum_probs=26.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~ 31 (82) ++.||||+||||+|+.||...+..+..++.. T Consensus 52 Il~GPPG~GKTTlA~liA~~~~~~f~~~sAv 82 (436) T COG2256 52 ILWGPPGTGKTTLARLIAGTTNAAFEALSAV 82 (436) T ss_pred EEECCCCCCHHHHHHHHHHhhCCceEEeccc Confidence 5899999999999999999988777666433 No 109 >PRK14732 coaE dephospho-CoA kinase; Provisional Probab=98.67 E-value=3.6e-08 Score=59.87 Aligned_cols=36 Identities=28% Similarity=0.383 Sum_probs=31.9 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) |+|++||||||+++.+++ +|+.+++.|++.++.... T Consensus 4 itG~~gsGKst~~~~l~~-~g~~~i~~D~i~~~~~~~ 39 (196) T PRK14732 4 ITGMIGGGKSTALKILEE-LGAFGISADRLAKRYTEP 39 (196) T ss_pred EECCCCccHHHHHHHHHH-CCCEEEecchHHHHHHhc Confidence 799999999999998854 799999999998887664 No 110 >PRK12337 2-phosphoglycerate kinase; Provisional Probab=98.66 E-value=1.5e-07 Score=63.47 Aligned_cols=37 Identities=22% Similarity=0.484 Sum_probs=31.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~ 37 (82) +++|+|||||||+|..||.++++.++-..|.+++.+. T Consensus 259 l~~G~~G~GKSt~a~~LA~~lg~~~ii~tD~iR~~lr 295 (475) T PRK12337 259 LIGGVSGVGKSVLASALAYRLGITRIVSTDAVREVLR 295 (475) T ss_pred EEECCCCCCHHHHHHHHHHHcCCcEEeehhHHHHHHH Confidence 4789999999999999999999986655588777553 No 111 >KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=98.66 E-value=1.3e-07 Score=61.08 Aligned_cols=61 Identities=20% Similarity=0.364 Sum_probs=42.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEe Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLIN 67 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iid 67 (82) ++.||||+|||++|+..|-.-+ +..+|.+|++...+.+ ++.++..+..-+.++. ..-+.|| T Consensus 170 LLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGE-----SEkLVknLFemARe~k-PSIIFiD 232 (439) T KOG0739|consen 170 LLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE-----SEKLVKNLFEMARENK-PSIIFID 232 (439) T ss_pred EEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhcc-----HHHHHHHHHHHHHhcC-CcEEEee Confidence 5899999999999999997766 6678888999998765 3444444444443332 2334444 No 112 >PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B. Probab=98.65 E-value=1.9e-08 Score=62.31 Aligned_cols=25 Identities=32% Similarity=0.592 Sum_probs=21.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) +++||||+||||+|+.+|+.++..+ T Consensus 54 lf~GPPG~GKTTLA~IIA~e~~~~~ 78 (233) T PF05496_consen 54 LFYGPPGLGKTTLARIIANELGVNF 78 (233) T ss_dssp EEESSTTSSHHHHHHHHHHHCT--E T ss_pred EEECCCccchhHHHHHHHhccCCCe Confidence 5899999999999999999988554 No 113 >PRK09825 idnK D-gluconate kinase; Provisional Probab=98.64 E-value=1.5e-07 Score=56.17 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=28.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~ 32 (82) +|+|++||||||+++.++..++..+++.+++. T Consensus 7 ~l~G~sGsGKSTl~~~la~~l~~~~i~gd~~~ 38 (176) T PRK09825 7 ILMGVSGSGKSLIGSKIAALFSAKFIDGDDLH 38 (176) T ss_pred EEECCCCCCHHHHHHHHHHhcCCEEECCcccC Confidence 47999999999999999999998899887754 No 114 >TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group. Probab=98.64 E-value=1.1e-07 Score=59.73 Aligned_cols=21 Identities=38% Similarity=0.665 Sum_probs=18.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.||||+||||+|+.+++.+ T Consensus 46 ll~GppGtGKTtlA~~ia~~l 66 (261) T TIGR02881 46 IFKGNPGTGKTTVARILGKLF 66 (261) T ss_pred EEEcCCCCCHHHHHHHHHHHH Confidence 489999999999999999764 No 115 >PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated Probab=98.64 E-value=1.1e-07 Score=65.51 Aligned_cols=36 Identities=25% Similarity=0.475 Sum_probs=29.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC------ceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL------THLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~------~~i~~~~~~~~~~~ 37 (82) +|+|.|||||||+|+.|++.++. .+++. |.++..+. T Consensus 396 vl~Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~-D~vr~~l~ 437 (568) T PRK05537 396 FFTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDG-DVVRKHLS 437 (568) T ss_pred EEECCCCChHHHHHHHHHHHhhhccCceEEEeCC-cHHHHhcc Confidence 57899999999999999999985 77777 55566543 No 116 >COG0572 Udk Uridine kinase [Nucleotide transport and metabolism] Probab=98.63 E-value=6.2e-08 Score=59.63 Aligned_cols=34 Identities=29% Similarity=0.614 Sum_probs=29.1 Q ss_pred eecCCCCCHHHHHHHHHHHhCC---ceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFGL---THLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~---~~i~~~~~~~~~ 35 (82) |.|++||||||+|+.|++.++. ..++.|+++... T Consensus 13 IaG~SgSGKTTva~~l~~~~~~~~~~~I~~D~YYk~~ 49 (218) T COG0572 13 IAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQ 49 (218) T ss_pred EeCCCCCCHHHHHHHHHHHhCcCcceEeeccccccch Confidence 6899999999999999999984 478888887754 No 117 >PF13173 AAA_14: AAA domain Probab=98.62 E-value=1.8e-07 Score=53.02 Aligned_cols=34 Identities=26% Similarity=0.381 Sum_probs=28.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC----CceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG----LTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~----~~~i~~~~~~~~ 34 (82) +|.||.|+||||+++.+++.+. +.++++++.-.. T Consensus 6 ~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~ 43 (128) T PF13173_consen 6 ILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDR 43 (128) T ss_pred EEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHH Confidence 5899999999999999998764 888888766543 No 118 >PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B .... Probab=98.62 E-value=1.4e-07 Score=55.54 Aligned_cols=79 Identities=23% Similarity=0.245 Sum_probs=41.9 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHh---c--CCCCeEEEeCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIE---S--SDNHKFLINGFP 70 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~---~--~~~~~~iidg~p 70 (82) ||+|.|||||||+|+.|.+++ + ..+++. |.+|..+...- ..+.+...+-++..-+ . ..+..+|+..+- T Consensus 6 wltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDg-D~lR~~l~~dl-~fs~~dR~e~~rr~~~~A~ll~~~G~ivIva~is 83 (156) T PF01583_consen 6 WLTGLSGSGKTTLARALERRLFARGIKVYLLDG-DNLRHGLNADL-GFSKEDREENIRRIAEVAKLLADQGIIVIVAFIS 83 (156) T ss_dssp EEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEH-HHHCTTTTTT---SSHHHHHHHHHHHHHHHHHHHHTTSEEEEE--- T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEecC-cchhhccCCCC-CCCHHHHHHHHHHHHHHHHHHHhCCCeEEEeecc Confidence 689999999999999999776 2 555666 55655443321 1222222221221111 1 125567777664 Q ss_pred CCHHHHHHHHh Q 035937 71 RSEENRAAFER 81 (82) Q Consensus 71 ~~~~~~~~~~~ 81 (82) -..+.+++.++ T Consensus 84 p~~~~R~~~R~ 94 (156) T PF01583_consen 84 PYREDREWARE 94 (156) T ss_dssp -SHHHHHHHHH T ss_pred CchHHHHHHHH Confidence 44566666554 No 119 >PRK08181 transposase; Validated Probab=98.61 E-value=9.7e-08 Score=60.54 Aligned_cols=37 Identities=24% Similarity=0.380 Sum_probs=29.6 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~~~~~~~~~~ 37 (82) +|+||||+|||+++..++.. +.+.+++..+++.+... T Consensus 110 ll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~ 151 (269) T PRK08181 110 LLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQV 151 (269) T ss_pred EEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHH Confidence 58999999999999999842 34778888888887643 No 120 >PRK03846 adenylylsulfate kinase; Provisional Probab=98.60 E-value=4e-07 Score=55.06 Aligned_cols=31 Identities=23% Similarity=0.349 Sum_probs=23.9 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~ 31 (82) +|+|+|||||||+++.|+..+ +..+++.+++ T Consensus 28 ~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~ 63 (198) T PRK03846 28 WFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNV 63 (198) T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeH Confidence 478999999999999999875 3455655443 No 121 >PRK13973 thymidylate kinase; Provisional Probab=98.60 E-value=1.9e-07 Score=57.14 Aligned_cols=37 Identities=30% Similarity=0.552 Sum_probs=31.8 Q ss_pred eecCCCCCHHHHHHHHHHHh---CCceeeh--------HHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNF---GLTHLSA--------GDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~---~~~~i~~--------~~~~~~~~~~ 38 (82) |-|++||||||+++.|++.+ |+.++.+ ++.+|+.+.. T Consensus 8 iEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~~g~~ir~~l~~ 55 (213) T PRK13973 8 FEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAIRHVLLS 55 (213) T ss_pred EEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCchHHHHHHHHcC Confidence 67999999999999999988 7777766 8888887654 No 122 >PRK06526 transposase; Provisional Probab=98.59 E-value=1.3e-07 Score=59.56 Aligned_cols=36 Identities=19% Similarity=0.284 Sum_probs=27.7 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~~~~~~~~~ 36 (82) +|+||||+|||++|..++.. +...+++..+++.+.. T Consensus 102 ll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~ 142 (254) T PRK06526 102 VFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLA 142 (254) T ss_pred EEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHH Confidence 58999999999999988754 3355677777777654 No 123 >PRK11545 gntK gluconate kinase 1; Provisional Probab=98.58 E-value=3.8e-08 Score=58.07 Aligned_cols=29 Identities=24% Similarity=0.376 Sum_probs=26.5 Q ss_pred ecCCCCCHHHHHHHHHHHhCCceeehHHH Q 035937 3 SGGPGSGKGTQCTKIVKNFGLTHLSAGDL 31 (82) Q Consensus 3 ~G~pgsGKtt~a~~l~~~~~~~~i~~~~~ 31 (82) +|+|||||||+++.|++.++..+++.+.+ T Consensus 1 ~G~sGsGKSTla~~la~~l~~~~~~~d~~ 29 (163) T PRK11545 1 MGVSGSGKSAVASEVAHQLHAAFLDGDFL 29 (163) T ss_pred CCCCCCcHHHHHHHHHHHhCCeEEeCccC Confidence 59999999999999999999999999654 No 124 >PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A. Probab=98.58 E-value=3.4e-08 Score=59.15 Aligned_cols=62 Identities=23% Similarity=0.395 Sum_probs=40.0 Q ss_pred CeecCCCCCHHHHHHHHHH-----HhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeCC Q 035937 1 MLSGGPGSGKGTQCTKIVK-----NFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLINGF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~-----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg~ 69 (82) +|.|+||+|||++|..++. .+...+++..+++.......... ...+.+ +.+.. .+.+|+|.+ T Consensus 51 ~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~----~~~~~~-~~l~~--~dlLilDDl 117 (178) T PF01695_consen 51 ILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDG----SYEELL-KRLKR--VDLLILDDL 117 (178) T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCT----THCHHH-HHHHT--SSCEEEETC T ss_pred EEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceecccccccccc----chhhhc-Ccccc--ccEeccccc Confidence 4899999999999999984 34578899999998875431111 111222 23332 467888865 No 125 >COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair] Probab=98.57 E-value=3.9e-07 Score=57.36 Aligned_cols=75 Identities=24% Similarity=0.361 Sum_probs=48.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeC--C-CCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLING--F-PRS 72 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg--~-p~~ 72 (82) ++.|+||+|||++|-+++... | ..++++.+++.+....... ......+.+.+.+ -+..|||. + |.+ T Consensus 109 ~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~----~~~~~~l~~~l~~--~dlLIiDDlG~~~~~ 182 (254) T COG1484 109 VLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDE----GRLEEKLLRELKK--VDLLIIDDIGYEPFS 182 (254) T ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhc----CchHHHHHHHhhc--CCEEEEecccCccCC Confidence 479999999999999888543 3 6778999999988654222 1122223333433 45788884 3 566 Q ss_pred HHHHHHHHh Q 035937 73 EENRAAFER 81 (82) Q Consensus 73 ~~~~~~~~~ 81 (82) ...++.+.+ T Consensus 183 ~~~~~~~~q 191 (254) T COG1484 183 QEEADLLFQ 191 (254) T ss_pred HHHHHHHHH Confidence 656665543 No 126 >KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism] Probab=98.57 E-value=3.7e-07 Score=55.74 Aligned_cols=37 Identities=27% Similarity=0.467 Sum_probs=33.9 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) ++|..+|||||+++.+ +.+|++.++.|.+.|+..+++ T Consensus 6 LTGgiatGKStVs~~f-~~~G~~vIDaD~vaR~vv~PG 42 (225) T KOG3220|consen 6 LTGGIATGKSTVSQVF-KALGIPVIDADVVAREVVEPG 42 (225) T ss_pred eecccccChHHHHHHH-HHcCCcEecHHHHHHHHhcCC Confidence 6899999999999988 599999999999999998864 No 127 >KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair] Probab=98.56 E-value=4.3e-07 Score=63.92 Aligned_cols=61 Identities=23% Similarity=0.365 Sum_probs=43.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC-------CCeEEEe---CCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSD-------NHKFLIN---GFP 70 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~-------~~~~iid---g~p 70 (82) +|+||||.||||+|+.+|+.-||.++.+. ..+..+...+.+.+..++.+.. ...+|+| |-| T Consensus 330 LL~GppGlGKTTLAHViAkqaGYsVvEIN---------ASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~ 400 (877) T KOG1969|consen 330 LLCGPPGLGKTTLAHVIAKQAGYSVVEIN---------ASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP 400 (877) T ss_pred EeecCCCCChhHHHHHHHHhcCceEEEec---------ccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCc Confidence 58999999999999999999999988771 1333444555666666665542 3457776 655 No 128 >PRK06696 uridine kinase; Validated Probab=98.55 E-value=5.9e-08 Score=59.69 Aligned_cols=34 Identities=24% Similarity=0.333 Sum_probs=27.1 Q ss_pred eecCCCCCHHHHHHHHHHHh---CC--ceeehHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF---GL--THLSAGDLLRRE 35 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~---~~--~~i~~~~~~~~~ 35 (82) |.|+|||||||+|+.|++.+ |. .+++++|++... T Consensus 27 I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~~~ 65 (223) T PRK06696 27 IDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHNPR 65 (223) T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccCCH Confidence 78999999999999999988 44 445677776543 No 129 >PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional Probab=98.55 E-value=1.8e-07 Score=61.77 Aligned_cols=52 Identities=29% Similarity=0.533 Sum_probs=38.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC--ceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL--THLSAGDLLRREIASNRKIVPSEVTISLIRKEIE 57 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~--~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~ 57 (82) +|.||||+|||.+|+.+|+.++. ..++.+++......+ ++..+.++...+-. T Consensus 152 lL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGE-----sEk~IR~~F~~A~~ 205 (413) T PLN00020 152 GIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGE-----PGKLIRQRYREAAD 205 (413) T ss_pred EeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCc-----HHHHHHHHHHHHHH Confidence 47899999999999999999984 567777787665443 44555555555543 No 130 >PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction:ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A .... Probab=98.55 E-value=7.2e-08 Score=58.13 Aligned_cols=32 Identities=28% Similarity=0.485 Sum_probs=25.4 Q ss_pred eecCCCCCHHHHHHHHHHHhC---C------ceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG---L------THLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~---~------~~i~~~~~~~ 33 (82) |.|+|||||||+|+.|+..++ . ..++.++... T Consensus 4 I~G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d~~~~ 44 (194) T PF00485_consen 4 IAGPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSLDDFYD 44 (194) T ss_dssp EEESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGGGGBH T ss_pred EECCCCCCHHHHHHHHHHHhCccCcCccceeEEEeeccccc Confidence 789999999999999998886 2 3566665543 No 131 >PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed Probab=98.55 E-value=1.2e-07 Score=61.10 Aligned_cols=31 Identities=23% Similarity=0.355 Sum_probs=28.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~ 31 (82) +|+||+|||||++|..|++.++..++|.|.+ T Consensus 8 ~i~GptgsGKt~la~~la~~~~~~iis~Ds~ 38 (307) T PRK00091 8 VIVGPTASGKTALAIELAKRLNGEIISADSM 38 (307) T ss_pred EEECCCCcCHHHHHHHHHHhCCCcEEecccc Confidence 4899999999999999999999999999773 No 132 >KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones] Probab=98.55 E-value=2.3e-07 Score=59.36 Aligned_cols=38 Identities=18% Similarity=0.410 Sum_probs=29.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee--ehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL--SAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i--~~~~~~~~~~~~ 38 (82) ++.||||+|||.+|+..|++.+..++ --++++.+...+ T Consensus 215 llygppgtgktl~aravanrtdacfirvigselvqkyvge 254 (435) T KOG0729|consen 215 LLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGE 254 (435) T ss_pred EEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhh Confidence 57899999999999999999885554 345777666544 No 133 >cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK). Probab=98.54 E-value=7.6e-08 Score=57.58 Aligned_cols=34 Identities=29% Similarity=0.396 Sum_probs=29.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~ 34 (82) .|.|+|||||||+|+.|++.+ +...++.+++.+. T Consensus 3 ~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~~~ 41 (179) T cd02028 3 GIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYVP 41 (179) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcccC Confidence 378999999999999999885 4678999999974 No 134 >TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity. Probab=98.53 E-value=1e-07 Score=62.21 Aligned_cols=36 Identities=19% Similarity=0.400 Sum_probs=29.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC------CceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG------LTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~------~~~i~~~~~~~~~~ 36 (82) +|+|+|||||||+++.|++.+. +.+++.||++.+.. T Consensus 3 ~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i~~~~ 44 (340) T TIGR03575 3 VLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDIIPEAA 44 (340) T ss_pred EEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccccccc Confidence 4899999999999999986654 55999999995443 No 135 >CHL00181 cbbX CbbX; Provisional Probab=98.53 E-value=4e-07 Score=58.17 Aligned_cols=34 Identities=29% Similarity=0.505 Sum_probs=25.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhC---------CceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG---------LTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~---------~~~i~~~~~~~~ 34 (82) +|.||||+||||+|+.+++.+. +..++.++++.. T Consensus 63 ll~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~ 105 (287) T CHL00181 63 SFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQ 105 (287) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHH Confidence 4789999999999999987641 456666666543 No 136 >PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A. Probab=98.53 E-value=8.5e-08 Score=54.72 Aligned_cols=25 Identities=32% Similarity=0.555 Sum_probs=22.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) +|.|+||+|||++++.+|+.++..+ T Consensus 3 lL~G~~G~GKt~l~~~la~~~~~~~ 27 (139) T PF07728_consen 3 LLVGPPGTGKTTLARELAALLGRPV 27 (139) T ss_dssp EEEESSSSSHHHHHHHHHHHHTCEE T ss_pred EEECCCCCCHHHHHHHHHHHhhcce Confidence 5899999999999999999998555 No 137 >PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B. Probab=98.53 E-value=7.8e-07 Score=49.94 Aligned_cols=69 Identities=19% Similarity=0.307 Sum_probs=41.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh--------C--CceeehH------HHHHHHHhhC----CCcCCHHHHHHHHHHHHhcCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF--------G--LTHLSAG------DLLRREIASN----RKIVPSEVTISLIRKEIESSD 60 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~--------~--~~~i~~~------~~~~~~~~~~----~~~~~~~~~~~~l~~~i~~~~ 60 (82) +|+|+||+|||++++.+++.+ . +.+++.. ++..+....- ....+.+.+.+.+.+.+.... T Consensus 8 ~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~ 87 (131) T PF13401_consen 8 VISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRR 87 (131) T ss_dssp EEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCT T ss_pred EEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcC Confidence 489999999999999999865 3 3344432 2333322211 111334445577777776654 Q ss_pred CCeEEEeCC Q 035937 61 NHKFLINGF 69 (82) Q Consensus 61 ~~~~iidg~ 69 (82) ...+|||.+ T Consensus 88 ~~~lviDe~ 96 (131) T PF13401_consen 88 VVLLVIDEA 96 (131) T ss_dssp EEEEEEETT T ss_pred CeEEEEeCh Confidence 446889976 No 138 >PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional Probab=98.52 E-value=5.5e-07 Score=62.75 Aligned_cols=79 Identities=19% Similarity=0.194 Sum_probs=46.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHH---hc-CC-CCeEEEeCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEI---ES-SD-NHKFLINGFP 70 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i---~~-~~-~~~~iidg~p 70 (82) +++|.|||||||+|+.|++++ ++.+++. |.+|..+.. +....++.....++... .. .+ +..+|+|... T Consensus 464 ~~~G~~gsGKst~a~~l~~~l~~~~~~~~~l~~-D~~r~~l~~-~~~~~~~~r~~~~~~l~~~a~~~~~~G~~Vivda~~ 541 (632) T PRK05506 464 WFTGLSGSGKSTIANLVERRLHALGRHTYLLDG-DNVRHGLNR-DLGFSDADRVENIRRVAEVARLMADAGLIVLVSFIS 541 (632) T ss_pred EecCCCCchHHHHHHHHHHHHHHcCCCEEEEcC-hhhhhccCC-CCCCCHHHHHHHHHHHHHHHHHHHhCCCEEEEECCC Confidence 579999999999999999886 3566777 556654433 23333332222222221 11 12 5667888754 Q ss_pred CCHHHHHHHHh Q 035937 71 RSEENRAAFER 81 (82) Q Consensus 71 ~~~~~~~~~~~ 81 (82) ....+++++++ T Consensus 542 ~~~~~R~~~r~ 552 (632) T PRK05506 542 PFREERELARA 552 (632) T ss_pred CCHHHHHHHHH Confidence 44566666553 No 139 >cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine. Probab=98.52 E-value=8e-08 Score=57.91 Aligned_cols=32 Identities=28% Similarity=0.576 Sum_probs=27.6 Q ss_pred eecCCCCCHHHHHHHHHHHh---CCceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF---GLTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~---~~~~i~~~~~~~ 33 (82) |.|++||||||+++.|+..+ ...+++.+++.. T Consensus 4 i~G~~GsGKSTl~~~l~~~l~~~~~~v~~~D~~~~ 38 (198) T cd02023 4 IAGGSGSGKTTVAEEIIEQLGNPKVVIISQDSYYK 38 (198) T ss_pred EECCCCCCHHHHHHHHHHHhCCCCeEEEEeccccc Confidence 78999999999999999886 377888887764 No 140 >PRK03992 proteasome-activating nucleotidase; Provisional Probab=98.52 E-value=5.7e-07 Score=59.53 Aligned_cols=34 Identities=24% Similarity=0.499 Sum_probs=26.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc--eeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT--HLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~--~i~~~~~~~~ 34 (82) +|+||||+|||++|+.+|...+.. .++..++... T Consensus 169 LL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~ 204 (389) T PRK03992 169 LLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK 204 (389) T ss_pred EEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHh Confidence 579999999999999999988754 4555566544 No 141 >PRK09183 transposase/IS protein; Provisional Probab=98.51 E-value=3.4e-07 Score=57.73 Aligned_cols=35 Identities=26% Similarity=0.283 Sum_probs=25.9 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~ 35 (82) +|+||||+|||+++..++... .+.+++..+++... T Consensus 106 ~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l 145 (259) T PRK09183 106 VLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQL 145 (259) T ss_pred EEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHH Confidence 478999999999999996432 35566766766443 No 142 >TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate. Probab=98.50 E-value=1.3e-06 Score=52.38 Aligned_cols=22 Identities=32% Similarity=0.437 Sum_probs=19.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|.|++||||||+++.|++.++ T Consensus 7 vieG~~GsGKsT~~~~L~~~l~ 28 (195) T TIGR00041 7 VIEGIDGAGKTTQANLLKKLLQ 28 (195) T ss_pred EEECCCCCCHHHHHHHHHHHHH Confidence 4789999999999999998874 No 143 >smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Probab=98.50 E-value=7.2e-08 Score=53.59 Aligned_cols=23 Identities=35% Similarity=0.700 Sum_probs=20.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+|||||||||+++.++..+.. T Consensus 6 ~l~G~~G~GKTtl~~~l~~~~~~ 28 (148) T smart00382 6 LIVGPPGSGKTTLARALARELGP 28 (148) T ss_pred EEECCCCCcHHHHHHHHHhccCC Confidence 48999999999999999977653 No 144 >PRK09087 hypothetical protein; Validated Probab=98.50 E-value=8.4e-07 Score=54.95 Aligned_cols=35 Identities=17% Similarity=0.196 Sum_probs=29.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~ 35 (82) +|+|++|||||++++.+++..+..+++..++..+. T Consensus 48 ~l~G~~GsGKThLl~~~~~~~~~~~i~~~~~~~~~ 82 (226) T PRK09087 48 VLAGPVGSGKTHLASIWREKSDALLIHPNEIGSDA 82 (226) T ss_pred EEECCCCCCHHHHHHHHHHhcCCEEecHHHcchHH Confidence 48999999999999999999999999996544443 No 145 >PRK05480 uridine/cytidine kinase; Provisional Probab=98.49 E-value=7.5e-08 Score=58.52 Aligned_cols=32 Identities=28% Similarity=0.619 Sum_probs=27.0 Q ss_pred eecCCCCCHHHHHHHHHHHhC---CceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG---LTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~---~~~i~~~~~~~ 33 (82) |.|++||||||+++.|++.++ +.+++.++++. T Consensus 11 I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~~~~ 45 (209) T PRK05480 11 IAGGSGSGKTTVASTIYEELGDESIAVIPQDSYYK 45 (209) T ss_pred EECCCCCCHHHHHHHHHHHhCCCceEEEeCCcccc Confidence 789999999999999999883 56678877654 No 146 >PRK07667 uridine kinase; Provisional Probab=98.48 E-value=1.2e-07 Score=57.29 Aligned_cols=35 Identities=20% Similarity=0.262 Sum_probs=29.4 Q ss_pred eecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~ 36 (82) |.|+|||||||+|+.|++.+ +...++.++++.+.. T Consensus 22 I~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~~~~~~ 61 (193) T PRK07667 22 IDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDYIVERN 61 (193) T ss_pred EECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcccchhh Confidence 78999999999999999875 356899999877654 No 147 >PF13521 AAA_28: AAA domain; PDB: 1LW7_A. Probab=98.48 E-value=1.1e-07 Score=55.75 Aligned_cols=36 Identities=25% Similarity=0.490 Sum_probs=25.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN 39 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~ 39 (82) .|+|+||+||||+++.|++. |++++ .+..+.....+ T Consensus 3 ~i~G~~stGKTTL~~~L~~~-g~~~v--~E~ar~~~~~~ 38 (163) T PF13521_consen 3 VITGGPSTGKTTLIEALAAR-GYPVV--PEYAREIIEEG 38 (163) T ss_dssp EEE--TTSHHHHHHHHHHHH-T-EEE----TTHHHHHHS T ss_pred EEECCCCCCHHHHHHHHHHc-CCeEE--eecHHHHHHHh Confidence 48999999999999999988 88877 67777776544 No 148 >PHA02244 ATPase-like protein Probab=98.47 E-value=4.4e-07 Score=59.85 Aligned_cols=33 Identities=27% Similarity=0.514 Sum_probs=28.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~ 33 (82) +|.||||+|||++|+.++..++.+++.+.++.. T Consensus 123 LL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d 155 (383) T PHA02244 123 FLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMD 155 (383) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEEecChH Confidence 578999999999999999999988887765543 No 149 >cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis. Probab=98.47 E-value=1.2e-07 Score=58.48 Aligned_cols=32 Identities=16% Similarity=0.307 Sum_probs=26.2 Q ss_pred eecCCCCCHHHHHHHHHHHhC-------CceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-------LTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-------~~~i~~~~~~~ 33 (82) |.|++||||||+|+.|+..+. ..+++++++.. T Consensus 4 I~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~~ 42 (220) T cd02025 4 IAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFLY 42 (220) T ss_pred eeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCcccC Confidence 789999999999999998762 45677777754 No 150 >PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A. Probab=98.46 E-value=2.8e-07 Score=58.49 Aligned_cols=32 Identities=31% Similarity=0.415 Sum_probs=21.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~ 32 (82) +|+|.|||||||+|+.|++.+ ...+++-+++. T Consensus 5 il~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~ 41 (270) T PF08433_consen 5 ILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLG 41 (270) T ss_dssp EEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH T ss_pred EEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccc Confidence 589999999999999998753 35556654444 No 151 >PTZ00301 uridine kinase; Provisional Probab=98.46 E-value=7.9e-08 Score=58.97 Aligned_cols=33 Identities=33% Similarity=0.550 Sum_probs=25.8 Q ss_pred eecCCCCCHHHHHHHHHHHh----C---CceeehHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF----G---LTHLSAGDLLRR 34 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~----~---~~~i~~~~~~~~ 34 (82) |.|+|||||||+|+.|++++ + ...++.|++.+. T Consensus 8 IaG~SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy~~ 47 (210) T PTZ00301 8 ISGASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYYRD 47 (210) T ss_pred EECCCcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCccC Confidence 78999999999999998765 2 346677777654 No 152 >PRK06835 DNA replication protein DnaC; Validated Probab=98.45 E-value=1.1e-06 Score=57.14 Aligned_cols=36 Identities=22% Similarity=0.321 Sum_probs=29.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~ 36 (82) +|+|++|+|||+++..+|..+ .+.+++..+++.... T Consensus 187 ll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~ 227 (329) T PRK06835 187 LFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILR 227 (329) T ss_pred EEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHH Confidence 589999999999999998653 477888888877654 No 153 >TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP. Probab=98.45 E-value=1.3e-07 Score=56.05 Aligned_cols=22 Identities=23% Similarity=0.312 Sum_probs=19.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+|+|||||||+++.|+..++ T Consensus 5 ~i~G~sGsGKttl~~~l~~~~~ 26 (179) T TIGR02322 5 YVVGPSGAGKDTLLDYARARLA 26 (179) T ss_pred EEECCCCCCHHHHHHHHHHHcC Confidence 4899999999999999998765 No 154 >KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=98.45 E-value=1e-07 Score=62.00 Aligned_cols=38 Identities=21% Similarity=0.594 Sum_probs=29.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC-----------ceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL-----------THLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~-----------~~i~~~~~~~~~~~~ 38 (82) +++||||+|||++|+.||+++.+ .-++...++.++..+ T Consensus 181 LlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFsE 229 (423) T KOG0744|consen 181 LLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFSE 229 (423) T ss_pred EEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHhh Confidence 57999999999999999988642 335566677766554 No 155 >TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis. Probab=98.45 E-value=6e-07 Score=57.24 Aligned_cols=33 Identities=27% Similarity=0.550 Sum_probs=24.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh---------CCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---------GLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---------~~~~i~~~~~~~ 33 (82) +|+||||+||||+|+.+++.+ .+..++.++++. T Consensus 62 ll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~ 103 (284) T TIGR02880 62 SFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVG 103 (284) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhH Confidence 478999999999998887654 244566666654 No 156 >PRK04195 replication factor C large subunit; Provisional Probab=98.45 E-value=9.1e-07 Score=59.94 Aligned_cols=28 Identities=25% Similarity=0.573 Sum_probs=24.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|+||||+||||+|+.+++.+++.++.+ T Consensus 43 LL~GppG~GKTtla~ala~el~~~~iel 70 (482) T PRK04195 43 LLYGPPGVGKTSLAHALANDYGWEVIEL 70 (482) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCEEEE Confidence 5899999999999999999998776655 No 157 >PLN02165 adenylate isopentenyltransferase Probab=98.44 E-value=1.6e-07 Score=61.07 Aligned_cols=31 Identities=19% Similarity=0.437 Sum_probs=28.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~ 31 (82) +|+||+|||||++|..||+.++..+++.|.+ T Consensus 47 vIiGPTGSGKStLA~~LA~~l~~eIIsaDs~ 77 (334) T PLN02165 47 VIMGATGSGKSRLSVDLATRFPSEIINSDKM 77 (334) T ss_pred EEECCCCCcHHHHHHHHHHHcCCceecCChh Confidence 4899999999999999999999999999776 No 158 >PRK13975 thymidylate kinase; Provisional Probab=98.44 E-value=2.3e-07 Score=55.66 Aligned_cols=23 Identities=30% Similarity=0.472 Sum_probs=21.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|.|++||||||+++.|+++++. T Consensus 6 ~ieG~~GsGKtT~~~~L~~~l~~ 28 (196) T PRK13975 6 VFEGIDGSGKTTQAKLLAEKLNA 28 (196) T ss_pred EEECCCCCCHHHHHHHHHHHhCC Confidence 47899999999999999999984 No 159 >PRK10078 ribose 1,5-bisphosphokinase; Provisional Probab=98.43 E-value=9.4e-08 Score=57.27 Aligned_cols=28 Identities=29% Similarity=0.290 Sum_probs=22.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|+||+||||||+++.|+..++..++.. T Consensus 6 ~l~G~sGsGKsTl~~~l~~~~~~~~~~~ 33 (186) T PRK10078 6 WLMGPSGSGKDSLLAALRQREQTQLLVA 33 (186) T ss_pred EEECCCCCCHHHHHHHHhccCCCeEEEc Confidence 4899999999999999998876544443 No 160 >PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation Probab=98.42 E-value=3.1e-06 Score=50.24 Aligned_cols=57 Identities=14% Similarity=0.212 Sum_probs=39.5 Q ss_pred ecCCCCCHHHHHHHHHHHhC-CceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCCCeEEEeC Q 035937 3 SGGPGSGKGTQCTKIVKNFG-LTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESSDNHKFLING 68 (82) Q Consensus 3 ~G~pgsGKtt~a~~l~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~iidg 68 (82) ++.+||||||+|..|++-|+ +.|+..|++- ++ .+...+... .+.+.......+|.|= T Consensus 5 IAtiGCGKTTva~aL~~LFg~wgHvQnDnI~-------~k-~~~~f~~~~-l~~L~~~~~~vViaDR 62 (168) T PF08303_consen 5 IATIGCGKTTVALALSNLFGEWGHVQNDNIT-------GK-RKPKFIKAV-LELLAKDTHPVVIADR 62 (168) T ss_pred ecCCCcCHHHHHHHHHHHcCCCCccccCCCC-------CC-CHHHHHHHH-HHHHhhCCCCEEEEeC Confidence 47899999999999999999 9999998773 22 344443333 3444333356677773 No 161 >TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP. Probab=98.41 E-value=8.7e-07 Score=54.09 Aligned_cols=33 Identities=24% Similarity=0.256 Sum_probs=26.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~ 33 (82) +|+|++|+|||++|+.+++.. .+.+++..++.. T Consensus 42 ll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~ 79 (226) T TIGR03420 42 YLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQ 79 (226) T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHH Confidence 489999999999999998654 366777766643 No 162 >TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. Probab=98.41 E-value=7.2e-07 Score=56.84 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=21.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+||||+|||++|+.+++.++.. T Consensus 34 ll~Gp~G~GKT~la~~ia~~~~~~ 57 (305) T TIGR00635 34 LLYGPPGLGKTTLAHIIANEMGVN 57 (305) T ss_pred EEECCCCCCHHHHHHHHHHHhCCC Confidence 589999999999999999988754 No 163 >PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional Probab=98.41 E-value=9.3e-07 Score=58.81 Aligned_cols=25 Identities=36% Similarity=0.526 Sum_probs=22.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) .|+|++||||||+++.|++.+|... T Consensus 223 vI~G~~gsGKTTL~~~La~~~g~~~ 247 (399) T PRK08099 223 AILGGESSGKSTLVNKLANIFNTTS 247 (399) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCe Confidence 4899999999999999999998664 No 164 >PRK06921 hypothetical protein; Provisional Probab=98.41 E-value=2.4e-06 Score=54.13 Aligned_cols=35 Identities=26% Similarity=0.301 Sum_probs=26.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh----C--CceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF----G--LTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~----~--~~~i~~~~~~~~~ 35 (82) +|+|+||+|||+++..++... + ..+++..+++... T Consensus 121 ~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l 161 (266) T PRK06921 121 ALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDL 161 (266) T ss_pred EEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHH Confidence 489999999999999998642 3 4577777776654 No 165 >PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A .... Probab=98.41 E-value=6e-07 Score=54.56 Aligned_cols=28 Identities=32% Similarity=0.459 Sum_probs=21.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~ 28 (82) ++.||+|+||||.+-+||.++ ....++. T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~ 37 (196) T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLKGKKVALISA 37 (196) T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE T ss_pred EEECCCCCchHhHHHHHHHHHhhccccceeecC Confidence 478999999999888888554 2555666 No 166 >TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine. Probab=98.40 E-value=2.6e-07 Score=59.10 Aligned_cols=30 Identities=17% Similarity=0.325 Sum_probs=27.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~ 30 (82) +|+||+|||||++|..|++.++..++|.|. T Consensus 3 ~i~G~t~~GKs~la~~l~~~~~~~iis~Ds 32 (287) T TIGR00174 3 FIMGPTAVGKSQLAIQLAKKLNAEIISVDS 32 (287) T ss_pred EEECCCCCCHHHHHHHHHHhCCCcEEEech Confidence 489999999999999999999999999976 No 167 >TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below Probab=98.40 E-value=2.4e-07 Score=56.38 Aligned_cols=31 Identities=35% Similarity=0.644 Sum_probs=26.0 Q ss_pred eecCCCCCHHHHHHHHHHHhC---CceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG---LTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~---~~~i~~~~~~ 32 (82) |.|++||||||+++.|+..++ ..+++.++.+ T Consensus 11 I~G~sGsGKSTl~~~l~~~l~~~~~~~i~~D~~~ 44 (207) T TIGR00235 11 IGGGSGSGKTTVARKIYEQLGKLEIVIISQDNYY 44 (207) T ss_pred EECCCCCCHHHHHHHHHHHhcccCCeEecccccc Confidence 789999999999999998765 5677777654 No 168 >COG3911 Predicted ATPase [General function prediction only] Probab=98.39 E-value=3.4e-06 Score=49.61 Aligned_cols=45 Identities=29% Similarity=0.397 Sum_probs=32.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce-eehHHHHHHHHhhCCCcCCH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH-LSAGDLLRREIASNRKIVPS 45 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~-i~~~~~~~~~~~~~~~~~~~ 45 (82) +|+|.||+||||+...|++.=-..+ .-..+++.++...++..+|. T Consensus 13 IltGgpGaGKTtLL~aLa~~Gfatvee~~r~ii~~es~~gg~~lPW 58 (183) T COG3911 13 ILTGGPGAGKTTLLAALARAGFATVEEAGRDIIALESAQGGTALPW 58 (183) T ss_pred EEeCCCCCcHHHHHHHHHHcCceeeccchhhHHHHHHhcCCCcCCc Confidence 5899999999999999975422333 33447888887777666664 No 169 >TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment. Probab=98.39 E-value=2.6e-07 Score=61.83 Aligned_cols=29 Identities=17% Similarity=0.305 Sum_probs=26.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~ 29 (82) +|+||||+|||++|+.||+.++.+++.++ T Consensus 51 LLiGppG~GKT~lAraLA~~l~~~fi~vd 79 (441) T TIGR00390 51 LMIGPTGVGKTEIARRLAKLANAPFIKVE 79 (441) T ss_pred EEECCCCCCHHHHHHHHHHHhCCeEEEee Confidence 58999999999999999999998777775 No 170 >KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=98.39 E-value=1.3e-06 Score=58.13 Aligned_cols=35 Identities=26% Similarity=0.466 Sum_probs=28.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~~~~~ 35 (82) +++||||+|||.+|+++|...+..+ +|...+..+. T Consensus 249 Lm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKw 285 (491) T KOG0738|consen 249 LMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKW 285 (491) T ss_pred eeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhh Confidence 5799999999999999999998444 5555666655 No 171 >PRK07952 DNA replication protein DnaC; Validated Probab=98.39 E-value=2.6e-06 Score=53.44 Aligned_cols=36 Identities=22% Similarity=0.497 Sum_probs=29.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~ 36 (82) +|.|+||+|||+++..++..+ .+.++++.+++.... T Consensus 103 ~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~ 143 (244) T PRK07952 103 IFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMK 143 (244) T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHH Confidence 589999999999999999665 366778888887654 No 172 >COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism] Probab=98.39 E-value=4.2e-07 Score=57.32 Aligned_cols=38 Identities=21% Similarity=0.512 Sum_probs=34.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) ||-|+||+||||+|..+|.++|+.++-..|.+|+.+.. T Consensus 93 LIGGasGVGkStIA~ElA~rLgI~~visTD~IREvlR~ 130 (299) T COG2074 93 LIGGASGVGKSTIAGELARRLGIRSVISTDSIREVLRK 130 (299) T ss_pred EecCCCCCChhHHHHHHHHHcCCceeecchHHHHHHHH Confidence 57899999999999999999999998888999998764 No 173 >COG4639 Predicted kinase [General function prediction only] Probab=98.39 E-value=2.7e-06 Score=50.16 Aligned_cols=78 Identities=23% Similarity=0.206 Sum_probs=45.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhC---CCcCCHHHHHHHHHHHHhcC--CCCeEEEeCCCCCHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASN---RKIVPSEVTISLIRKEIESS--DNHKFLINGFPRSEEN 75 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~i~~~--~~~~~iidg~p~~~~~ 75 (82) ++.|+|||||||.|+.. ......++++++=....... ...-.+..+.+++.+.+++. .++..|+|..-...++ T Consensus 6 vL~G~~~sGKsT~ak~n--~~~~~~lsld~~r~~lg~~~~~e~sqk~~~~~~~~l~~~l~qrl~~Gk~tiidAtn~rr~~ 83 (168) T COG4639 6 VLRGASGSGKSTFAKEN--FLQNYVLSLDDLRLLLGVSASKENSQKNDELVWDILYKQLEQRLRRGKFTIIDATNLRRED 83 (168) T ss_pred EEecCCCCchhHHHHHh--CCCcceecHHHHHHHhhhchhhhhccccHHHHHHHHHHHHHHHHHcCCeEEEEcccCCHHH Confidence 47899999999999842 34577788866544331111 11112223344444444332 1788999988656666 Q ss_pred HHHHH Q 035937 76 RAAFE 80 (82) Q Consensus 76 ~~~~~ 80 (82) +..+. T Consensus 84 r~~l~ 88 (168) T COG4639 84 RRKLI 88 (168) T ss_pred HHHHH Confidence 65544 No 174 >cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain. Probab=98.38 E-value=5.8e-06 Score=48.81 Aligned_cols=29 Identities=31% Similarity=0.471 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~ 29 (82) ++.|+|||||||++..++..+ + ..+++.+ T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D 37 (173) T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAAD 37 (173) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcC Confidence 478999999999999998654 3 4456654 No 175 >PRK05642 DNA replication initiation factor; Validated Probab=98.37 E-value=1.9e-06 Score=53.52 Aligned_cols=34 Identities=24% Similarity=0.238 Sum_probs=27.2 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~~~~~~~ 34 (82) +|+|++|+|||++++.++.. ....+++.++++.. T Consensus 49 ~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~ 87 (234) T PRK05642 49 YLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR 87 (234) T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh Confidence 47899999999999998743 35778888887643 No 176 >TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP. Probab=98.36 E-value=1.3e-07 Score=56.11 Aligned_cols=24 Identities=25% Similarity=0.344 Sum_probs=20.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+||+||||||+++.|++.++.. T Consensus 5 ~l~G~~GsGKsTl~~~L~~~~~~~ 28 (180) T TIGR03263 5 VISGPSGVGKSTLVKALLEEDPNL 28 (180) T ss_pred EEECCCCCCHHHHHHHHHccCccc Confidence 489999999999999999876533 No 177 >KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones] Probab=98.36 E-value=9.9e-07 Score=62.38 Aligned_cols=34 Identities=26% Similarity=0.515 Sum_probs=27.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh--HHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA--GDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~--~~~~~~ 34 (82) +|+||||+|||.+|+++|-.-+++++++ ++++.- T Consensus 348 LL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~ 383 (774) T KOG0731|consen 348 LLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEM 383 (774) T ss_pred EEECCCCCcHHHHHHHHhcccCCceeeechHHHHHH Confidence 5899999999999999999988877766 344443 No 178 >smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain. Probab=98.35 E-value=2.8e-07 Score=60.52 Aligned_cols=23 Identities=22% Similarity=0.316 Sum_probs=20.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|.|||||||||+|+.|++.++- T Consensus 82 ~L~GPPGsGKStla~~La~~l~~ 104 (361) T smart00763 82 YLLGPVGGGKSSLVECLKRGLEE 104 (361) T ss_pred EEECCCCCCHHHHHHHHHHHHhh Confidence 48999999999999999988763 No 179 >PRK08116 hypothetical protein; Validated Probab=98.35 E-value=3.1e-06 Score=53.66 Aligned_cols=36 Identities=25% Similarity=0.330 Sum_probs=29.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~ 36 (82) +|.|+||+|||++|..+++.+ .+.+++..+++.... T Consensus 118 ~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~ 158 (268) T PRK08116 118 LLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIK 158 (268) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHH Confidence 589999999999999998753 366788888877654 No 180 >PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional Probab=98.35 E-value=3.3e-07 Score=61.35 Aligned_cols=29 Identities=17% Similarity=0.305 Sum_probs=25.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~ 29 (82) +|+||||+|||++|+.|++.++.+++.++ T Consensus 54 LliGp~G~GKT~LAr~LAk~l~~~fi~vD 82 (443) T PRK05201 54 LMIGPTGVGKTEIARRLAKLANAPFIKVE 82 (443) T ss_pred EEECCCCCCHHHHHHHHHHHhCChheeec Confidence 58999999999999999999987776664 No 181 >PRK13974 thymidylate kinase; Provisional Probab=98.35 E-value=4.3e-06 Score=51.18 Aligned_cols=22 Identities=36% Similarity=0.442 Sum_probs=19.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) .|.|++||||||+++.|++.+. T Consensus 7 ~~eG~dGsGKsT~~~~l~~~l~ 28 (212) T PRK13974 7 VLEGIDGCGKTTQIDHLSKWLP 28 (212) T ss_pred EEECCCCCCHHHHHHHHHHHHH Confidence 3789999999999999998774 No 182 >cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape. Probab=98.34 E-value=8.2e-07 Score=52.85 Aligned_cols=29 Identities=24% Similarity=0.580 Sum_probs=23.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~ 29 (82) +|+|+||||||++|..++...+ ..|+... T Consensus 3 li~G~~~sGKS~~a~~~~~~~~~~~~y~at~ 33 (169) T cd00544 3 LVTGGARSGKSRFAERLAAELGGPVTYIATA 33 (169) T ss_pred EEECCCCCCHHHHHHHHHHhcCCCeEEEEcc Confidence 5899999999999999987654 4555543 No 183 >CHL00195 ycf46 Ycf46; Provisional Probab=98.34 E-value=3.6e-07 Score=62.13 Aligned_cols=28 Identities=29% Similarity=0.470 Sum_probs=24.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++|+.+|..++.+++.+ T Consensus 263 LL~GPpGTGKTllAkaiA~e~~~~~~~l 290 (489) T CHL00195 263 LLVGIQGTGKSLTAKAIANDWQLPLLRL 290 (489) T ss_pred EEECCCCCcHHHHHHHHHHHhCCCEEEE Confidence 5899999999999999999998776554 No 184 >cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Probab=98.34 E-value=4.5e-07 Score=50.85 Aligned_cols=21 Identities=38% Similarity=0.681 Sum_probs=19.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+||+|||++++.+++.+ T Consensus 23 ~i~G~~G~GKT~l~~~i~~~~ 43 (151) T cd00009 23 LLYGPPGTGKTTLARAIANEL 43 (151) T ss_pred EEECCCCCCHHHHHHHHHHHh Confidence 489999999999999999876 No 185 >COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism] Probab=98.34 E-value=2.9e-07 Score=56.74 Aligned_cols=21 Identities=43% Similarity=0.737 Sum_probs=18.9 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +++|+|||||||+|+.|++.+ T Consensus 5 IlTGyPgsGKTtfakeLak~L 25 (261) T COG4088 5 ILTGYPGSGKTTFAKELAKEL 25 (261) T ss_pred EEecCCCCCchHHHHHHHHHH Confidence 589999999999999999765 No 186 >smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions. Probab=98.34 E-value=6.9e-07 Score=53.48 Aligned_cols=21 Identities=38% Similarity=0.726 Sum_probs=19.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+||+||||+|+++.|.+.+ T Consensus 6 vl~Gpsg~GK~tl~~~L~~~~ 26 (184) T smart00072 6 VLSGPSGVGKGTLLAELIQEI 26 (184) T ss_pred EEECCCCCCHHHHHHHHHhcC Confidence 589999999999999999875 No 187 >KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones] Probab=98.34 E-value=2e-06 Score=54.80 Aligned_cols=39 Identities=15% Similarity=0.427 Sum_probs=31.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASN 39 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~ 39 (82) ++.||||+|||.+++..|.... +..+.-++++.+.+.++ T Consensus 193 llygppg~gktml~kava~~t~a~firvvgsefvqkylgeg 233 (408) T KOG0727|consen 193 LLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEG 233 (408) T ss_pred EEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccC Confidence 5789999999999999997654 55666678887776654 No 188 >PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional Probab=98.34 E-value=3.9e-07 Score=60.82 Aligned_cols=28 Identities=25% Similarity=0.375 Sum_probs=24.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++|+.|++.++.+++.+ T Consensus 112 Ll~Gp~GtGKT~lAr~lA~~l~~pf~~i 139 (412) T PRK05342 112 LLIGPTGSGKTLLAQTLARILDVPFAIA 139 (412) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCceec Confidence 5889999999999999999988666543 No 189 >TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728). Probab=98.33 E-value=4.9e-07 Score=56.97 Aligned_cols=26 Identities=23% Similarity=0.364 Sum_probs=23.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|.|+||+|||++|+.+++.+|.+++ T Consensus 25 LL~G~~GtGKT~lA~~la~~lg~~~~ 50 (262) T TIGR02640 25 HLRGPAGTGKTTLAMHVARKRDRPVM 50 (262) T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCEE Confidence 47899999999999999998886655 No 190 >TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model. Probab=98.33 E-value=4.5e-07 Score=58.89 Aligned_cols=26 Identities=27% Similarity=0.468 Sum_probs=23.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|.|+||+||||+++.+|+.++++++ T Consensus 68 lL~G~pGtGKTtla~~lA~~l~~~~~ 93 (327) T TIGR01650 68 MVQGYHGTGKSTHIEQIAARLNWPCV 93 (327) T ss_pred EEEeCCCChHHHHHHHHHHHHCCCeE Confidence 58999999999999999999997765 No 191 >KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=98.33 E-value=9.7e-07 Score=59.16 Aligned_cols=28 Identities=21% Similarity=0.421 Sum_probs=25.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) ||.||||+||||+..++|..+++.++++ T Consensus 239 LLYGPPGTGKSS~IaAmAn~L~ydIydL 266 (457) T KOG0743|consen 239 LLYGPPGTGKSSFIAAMANYLNYDIYDL 266 (457) T ss_pred eeeCCCCCCHHHHHHHHHhhcCCceEEe Confidence 6899999999999999999999888877 No 192 >PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed Probab=98.32 E-value=1.6e-06 Score=56.14 Aligned_cols=25 Identities=36% Similarity=0.595 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) +|.||||+||||+|+.+|+.++... T Consensus 55 ll~GppG~GKT~la~~ia~~l~~~~ 79 (328) T PRK00080 55 LLYGPPGLGKTTLANIIANEMGVNI 79 (328) T ss_pred EEECCCCccHHHHHHHHHHHhCCCe Confidence 5899999999999999999988644 No 193 >PRK06620 hypothetical protein; Validated Probab=98.32 E-value=4.4e-07 Score=55.79 Aligned_cols=28 Identities=14% Similarity=0.071 Sum_probs=23.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|+||||||||++++.+++..+..+++. T Consensus 48 ~l~Gp~G~GKThLl~a~~~~~~~~~~~~ 75 (214) T PRK06620 48 LIKGPSSSGKTYLTKIWQNLSNAYIIKD 75 (214) T ss_pred EEECCCCCCHHHHHHHHHhccCCEEcch Confidence 5899999999999999998887666554 No 194 >cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP). Probab=98.32 E-value=5.9e-07 Score=53.49 Aligned_cols=37 Identities=22% Similarity=0.408 Sum_probs=27.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh---CCceeeh--------HHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---GLTHLSA--------GDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~~~~i~~--------~~~~~~~~~ 37 (82) .|.|++||||||+++.|++.+ |+.++.. ++.+++... T Consensus 4 ~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~ 51 (200) T cd01672 4 VFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGGTPIGEAIRELLL 51 (200) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCCchHHHHHHHHh Confidence 378999999999999999887 5444433 346666544 No 195 >PLN02840 tRNA dimethylallyltransferase Probab=98.32 E-value=4.4e-07 Score=60.64 Aligned_cols=30 Identities=27% Similarity=0.427 Sum_probs=27.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~ 30 (82) +|.||+||||||++..|+++++..+++.|. T Consensus 25 ~I~GptgsGKTtla~~La~~~~~~iis~Ds 54 (421) T PLN02840 25 VISGPTGAGKSRLALELAKRLNGEIISADS 54 (421) T ss_pred EEECCCCCCHHHHHHHHHHHCCCCeEeccc Confidence 479999999999999999999988888865 No 196 >PRK08939 primosomal protein DnaI; Reviewed Probab=98.31 E-value=2e-06 Score=55.46 Aligned_cols=37 Identities=27% Similarity=0.326 Sum_probs=29.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~ 37 (82) +|.|++|+|||+++..++..+ | ..++.+.+++++... T Consensus 160 ~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~ 201 (306) T PRK08939 160 YLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKN 201 (306) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHH Confidence 489999999999999998664 3 567788888877644 No 197 >TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage. Probab=98.30 E-value=4.7e-06 Score=54.14 Aligned_cols=69 Identities=16% Similarity=0.201 Sum_probs=43.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHhhC----------CCcCCHHHHHHHHHHHHhcCCCCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIASN----------RKIVPSEVTISLIRKEIESSDNHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~~~----------~~~~~~~~~~~~l~~~i~~~~~~~~i 65 (82) .|.|||||||||+|..++... + ..+++..+-........ ..+.+.+....++...+++...+.+| T Consensus 59 eI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~~~lIV 138 (321) T TIGR02012 59 EIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIV 138 (321) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccCCcEEE Confidence 378999999999998876432 2 56777766555433221 22223344455565555554567899 Q ss_pred EeCC Q 035937 66 INGF 69 (82) Q Consensus 66 idg~ 69 (82) ||.. T Consensus 139 IDSv 142 (321) T TIGR02012 139 VDSV 142 (321) T ss_pred Ecch Confidence 9974 No 198 >PRK00771 signal recognition particle protein Srp54; Provisional Probab=98.30 E-value=8.5e-07 Score=59.61 Aligned_cols=74 Identities=23% Similarity=0.368 Sum_probs=40.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHH--------HhhCCC-cC--C-HHHHHHHHHHHHhcCC-CC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRRE--------IASNRK-IV--P-SEVTISLIRKEIESSD-NH 62 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~--------~~~~~~-~~--~-~~~~~~~l~~~i~~~~-~~ 62 (82) +++|++|+||||++..||..+ + ...++. |.+|.. ...-+- .. + .....+++.+.++... .. T Consensus 99 ~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~-D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~~~D 177 (437) T PRK00771 99 MLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA-DTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKKAD 177 (437) T ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC-CCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHhhcCC Confidence 478999999999999998654 3 444555 332221 111111 00 0 1112334455554433 56 Q ss_pred eEEEeCCCCCHHH Q 035937 63 KFLINGFPRSEEN 75 (82) Q Consensus 63 ~~iidg~p~~~~~ 75 (82) .+|||--|+.... T Consensus 178 vVIIDTAGr~~~d 190 (437) T PRK00771 178 VIIVDTAGRHALE 190 (437) T ss_pred EEEEECCCcccch Confidence 7899977666533 No 199 >TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems. Probab=98.30 E-value=1e-05 Score=50.58 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=19.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+|++||||||+++.+++.+. T Consensus 47 ~l~G~~G~GKTtl~~~l~~~l~ 68 (269) T TIGR03015 47 LITGEVGAGKTTLIRNLLKRLD 68 (269) T ss_pred EEEcCCCCCHHHHHHHHHHhcC Confidence 4799999999999999998764 No 200 >TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. Probab=98.30 E-value=5.5e-07 Score=61.15 Aligned_cols=28 Identities=29% Similarity=0.536 Sum_probs=24.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++++.+|...+.+++.+ T Consensus 92 LL~GppGtGKT~la~alA~~~~~~~~~i 119 (495) T TIGR01241 92 LLVGPPGTGKTLLAKAVAGEAGVPFFSI 119 (495) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCeeec Confidence 5899999999999999999988666544 No 201 >cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. Probab=98.30 E-value=5e-06 Score=54.08 Aligned_cols=68 Identities=16% Similarity=0.248 Sum_probs=43.3 Q ss_pred eecCCCCCHHHHHHHHHHH---hC--CceeehHHHHHHHHhhC----------CCcCCHHHHHHHHHHHHhcCCCCeEEE Q 035937 2 LSGGPGSGKGTQCTKIVKN---FG--LTHLSAGDLLRREIASN----------RKIVPSEVTISLIRKEIESSDNHKFLI 66 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~---~~--~~~i~~~~~~~~~~~~~----------~~~~~~~~~~~~l~~~i~~~~~~~~ii 66 (82) |.|||||||||+|-.++.. .+ ..+++..+-+....... ..+.+.+...+++...+.+..-+.+|| T Consensus 60 I~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~~~~lIVI 139 (325) T cd00983 60 IYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRSGAVDLIVV 139 (325) T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhccCCCEEEE Confidence 7899999999999988743 23 66777755444333221 222234445566666665555678999 Q ss_pred eCC Q 035937 67 NGF 69 (82) Q Consensus 67 dg~ 69 (82) |.+ T Consensus 140 DSv 142 (325) T cd00983 140 DSV 142 (325) T ss_pred cch Confidence 973 No 202 >PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A. Probab=98.28 E-value=6.8e-07 Score=53.16 Aligned_cols=21 Identities=33% Similarity=0.727 Sum_probs=18.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+||+||||+.+.+.+.+ T Consensus 3 ~iTG~pG~GKTTll~k~i~~l 23 (168) T PF03266_consen 3 FITGPPGVGKTTLLKKVIEEL 23 (168) T ss_dssp EEES-TTSSHHHHHHHHHHHH T ss_pred EEECcCCCCHHHHHHHHHHHh Confidence 589999999999999999877 No 203 >TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal Probab=98.28 E-value=7.3e-07 Score=58.42 Aligned_cols=27 Identities=26% Similarity=0.474 Sum_probs=23.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLS 27 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~ 27 (82) +|.||||+|||++|+.+++.++..++. T Consensus 160 LL~GppGtGKT~lakaia~~l~~~~~~ 186 (364) T TIGR01242 160 LLYGPPGTGKTLLAKAVAHETNATFIR 186 (364) T ss_pred EEECCCCCCHHHHHHHHHHhCCCCEEe Confidence 579999999999999999988755543 No 204 >TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction. Probab=98.28 E-value=6.7e-07 Score=59.71 Aligned_cols=27 Identities=22% Similarity=0.363 Sum_probs=23.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLS 27 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~ 27 (82) +|.||||+|||++|+.||+.++.++.. T Consensus 120 LL~GP~GsGKT~lAraLA~~l~~pf~~ 146 (413) T TIGR00382 120 LLIGPTGSGKTLLAQTLARILNVPFAI 146 (413) T ss_pred EEECCCCcCHHHHHHHHHHhcCCCeEE Confidence 578999999999999999998866653 No 205 >PRK05439 pantothenate kinase; Provisional Probab=98.27 E-value=5.9e-07 Score=58.03 Aligned_cols=33 Identities=15% Similarity=0.274 Sum_probs=26.9 Q ss_pred eecCCCCCHHHHHHHHHHHhC-------CceeehHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-------LTHLSAGDLLRR 34 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-------~~~i~~~~~~~~ 34 (82) |.|+|||||||+|+.|++.++ ...+++++++.. T Consensus 91 IaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy~~ 130 (311) T PRK05439 91 IAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFLYP 130 (311) T ss_pred EECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccccC Confidence 789999999999999987543 567888887653 No 206 >PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated Probab=98.27 E-value=3.1e-06 Score=56.75 Aligned_cols=30 Identities=23% Similarity=0.412 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~ 30 (82) +|.||+|+||||++..||..+ .+.+++.+. T Consensus 225 ~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~ 261 (424) T PRK05703 225 ALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT 261 (424) T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc Confidence 378999999999888887432 255677754 No 207 >cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion. Probab=98.27 E-value=5.4e-06 Score=47.56 Aligned_cols=33 Identities=21% Similarity=0.344 Sum_probs=24.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~ 33 (82) +|+|+||+||||++..++... ...+++.+.-.. T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~ 40 (165) T cd01120 3 LVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE 40 (165) T ss_pred eEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH Confidence 489999999999999998654 255666654443 No 208 >COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism] Probab=98.27 E-value=6.3e-07 Score=53.84 Aligned_cols=38 Identities=29% Similarity=0.511 Sum_probs=28.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh---CCc--eeehHHHHHHHHhhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---GLT--HLSAGDLLRREIASN 39 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~~~--~i~~~~~~~~~~~~~ 39 (82) |++|.+||||||+|..|.+++ |+. +++ +|-+|.-+..+ T Consensus 27 W~TGLSGsGKSTiA~ale~~L~~~G~~~y~LD-GDnvR~gL~~d 69 (197) T COG0529 27 WFTGLSGSGKSTIANALEEKLFAKGYHVYLLD-GDNVRHGLNRD 69 (197) T ss_pred EeecCCCCCHHHHHHHHHHHHHHcCCeEEEec-ChhHhhcccCC Confidence 689999999999999999775 333 333 37777766543 No 209 >TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Probab=98.26 E-value=2.9e-06 Score=60.02 Aligned_cols=34 Identities=24% Similarity=0.514 Sum_probs=26.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh--HHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA--GDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~--~~~~~~ 34 (82) +|.||||+|||++|+.+|...+..++++ .+++.. T Consensus 491 LL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~ 526 (733) T TIGR01243 491 LLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSK 526 (733) T ss_pred EEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhc Confidence 5789999999999999999888665544 455544 No 210 >PF03215 Rad17: Rad17 cell cycle checkpoint protein Probab=98.26 E-value=8.2e-07 Score=60.79 Aligned_cols=27 Identities=30% Similarity=0.545 Sum_probs=23.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLS 27 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~ 27 (82) +|+|||||||||..+.||+.+++.+.. T Consensus 49 lLtGP~G~GKtttv~~La~elg~~v~E 75 (519) T PF03215_consen 49 LLTGPSGCGKTTTVKVLAKELGFEVQE 75 (519) T ss_pred EEECCCCCCHHHHHHHHHHHhCCeeEE Confidence 589999999999999999999876654 No 211 >PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is:ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A .... Probab=98.26 E-value=2.7e-06 Score=52.71 Aligned_cols=80 Identities=13% Similarity=0.218 Sum_probs=48.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHHHHHHHHhhC-----CCcCC-------HHHHHHHHHHH---HhcCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLRREIASN-----RKIVP-------SEVTISLIRKE---IESSD 60 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~~~~~~~-----~~~~~-------~~~~~~~l~~~---i~~~~ 60 (82) +++|.|+.|||++|+.|++-++ ..+++.++.=|...... ..+-. .++....+.+. +.+.. T Consensus 16 vmVGLPArGKs~ia~kl~ryL~w~g~~~~vFn~g~yRR~~~~~~~~~~ff~p~n~~~~~~R~~~a~~~l~dl~~~l~~~~ 95 (222) T PF01591_consen 16 VMVGLPARGKSYIARKLCRYLNWLGVKTKVFNVGDYRRKLSGAPQDAEFFDPDNEEAKKLREQIAKEALEDLIEWLQEEG 95 (222) T ss_dssp EEESSTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHSS-S-GGGGSTT-HHHHHHHHHHHHHHHHHHHHHHHTS- T ss_pred EEECCCCCCHHHHHHHHHHHHhhcCCCcceeecccceecccccccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhcCC Confidence 4789999999999999996543 67899999888876542 11111 11222222222 22233 Q ss_pred CCeEEEeCCCCCHHHHHHHH Q 035937 61 NHKFLINGFPRSEENRAAFE 80 (82) Q Consensus 61 ~~~~iidg~p~~~~~~~~~~ 80 (82) +..-|+|+.-.|.+.+..+. T Consensus 96 G~VAI~DATN~T~~RR~~l~ 115 (222) T PF01591_consen 96 GQVAIFDATNSTRERRKMLV 115 (222) T ss_dssp -SEEEEES---SHHHHHHHH T ss_pred CeEEEEeCCCCCHHHHHHHH Confidence 66789999977777776654 No 212 >PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional Probab=98.26 E-value=8.5e-07 Score=58.99 Aligned_cols=28 Identities=25% Similarity=0.452 Sum_probs=23.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++|+.+|...+..++.+ T Consensus 183 LL~GppGTGKT~LAkalA~~l~~~fi~i 210 (398) T PTZ00454 183 LLYGPPGTGKTMLAKAVAHHTTATFIRV 210 (398) T ss_pred EEECCCCCCHHHHHHHHHHhcCCCEEEE Confidence 5899999999999999999888665443 No 213 >PRK06761 hypothetical protein; Provisional Probab=98.25 E-value=6.7e-07 Score=57.09 Aligned_cols=23 Identities=26% Similarity=0.437 Sum_probs=20.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|.|+|||||||+++.+++.+.. T Consensus 7 vI~G~~GsGKTTla~~L~~~L~~ 29 (282) T PRK06761 7 IIEGLPGFGKSTTAKMLNDILSQ 29 (282) T ss_pred EEECCCCCCHHHHHHHHHHhcCc Confidence 48999999999999999998864 No 214 >KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=98.25 E-value=4.4e-06 Score=58.23 Aligned_cols=37 Identities=27% Similarity=0.533 Sum_probs=28.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh--HHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA--GDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~--~~~~~~~~~ 37 (82) ++.||||+|||++|+.+|..-+..++++ .+++..+.. T Consensus 472 LlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vG 510 (693) T KOG0730|consen 472 LLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVG 510 (693) T ss_pred EEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcC Confidence 5789999999999999998877665555 566665543 No 215 >PRK08903 DnaA regulatory inactivator Hda; Validated Probab=98.25 E-value=1.4e-06 Score=53.46 Aligned_cols=34 Identities=26% Similarity=0.301 Sum_probs=27.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~ 34 (82) +|+|++|+|||++++.++... .+.+++..++... T Consensus 46 ~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~ 84 (227) T PRK08903 46 YLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLA 84 (227) T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHH Confidence 489999999999999998765 5778888766543 No 216 >PRK06893 DNA replication initiation factor; Validated Probab=98.25 E-value=1.2e-06 Score=54.18 Aligned_cols=29 Identities=17% Similarity=0.317 Sum_probs=24.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~ 29 (82) +|+||||+|||++++.++..+ ...+++.. T Consensus 43 ~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229) T PRK06893 43 YIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH Confidence 478999999999999999764 56677774 No 217 >PRK14087 dnaA chromosomal replication initiation protein; Provisional Probab=98.24 E-value=7.7e-06 Score=55.24 Aligned_cols=36 Identities=17% Similarity=0.348 Sum_probs=28.9 Q ss_pred CeecCCCCCHHHHHHHHHHH-------hCCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN-------FGLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-------~~~~~i~~~~~~~~~~ 36 (82) +|+|++|+|||++++.++.. ..+.+++..+++.+.. T Consensus 145 ~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~ 187 (450) T PRK14087 145 FIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAV 187 (450) T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHH Confidence 48999999999999999863 2356888888877654 No 218 >COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism] Probab=98.24 E-value=9.4e-07 Score=54.22 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=21.7 Q ss_pred eecCCCCCHHHHHHHHHHHhCCce Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) |.|+.|+||||+|+.||++++..+ T Consensus 9 I~G~IG~GKSTLa~~La~~l~~~~ 32 (216) T COG1428 9 IEGMIGAGKSTLAQALAEHLGFKV 32 (216) T ss_pred EecccccCHHHHHHHHHHHhCCce Confidence 679999999999999999999554 No 219 >PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed Probab=98.23 E-value=6.8e-06 Score=58.28 Aligned_cols=30 Identities=30% Similarity=0.345 Sum_probs=24.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~ 30 (82) +|+||||+||||+|+.+++..+..++.+.. T Consensus 56 LL~GPpGtGKTTLA~aIA~~~~~~f~~lna 85 (725) T PRK13341 56 ILYGPPGVGKTTLARIIANHTRAHFSSLNA 85 (725) T ss_pred EEECCCCCCHHHHHHHHHHHhcCcceeehh Confidence 589999999999999999988766655543 No 220 >cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea. Probab=98.22 E-value=4.1e-06 Score=49.68 Aligned_cols=29 Identities=31% Similarity=0.417 Sum_probs=22.1 Q ss_pred CeecCCCCCHHHHHHHHHHH---h--CCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKN---F--GLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~--~~~~i~~~ 29 (82) +|.|+||+|||+++..++.. . ...++++. T Consensus 3 li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e 36 (187) T cd01124 3 LLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLE 36 (187) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECC Confidence 58999999999999888643 2 36677764 No 221 >PRK14086 dnaA chromosomal replication initiation protein; Provisional Probab=98.22 E-value=6.2e-06 Score=57.48 Aligned_cols=36 Identities=19% Similarity=0.208 Sum_probs=29.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~~~~~~~ 36 (82) +|+|++|+|||++++.++... .+.+++..+++.+.. T Consensus 318 ~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~ 360 (617) T PRK14086 318 FIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFI 360 (617) T ss_pred EEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHH Confidence 588999999999999998643 357888888776653 No 222 >TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown. Probab=98.22 E-value=3.3e-06 Score=52.23 Aligned_cols=67 Identities=16% Similarity=0.217 Sum_probs=36.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHh-hC------CCcCCHHHHHHHHHHHHhcCC-CCeEEEeCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIA-SN------RKIVPSEVTISLIRKEIESSD-NHKFLINGF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~-~~------~~~~~~~~~~~~l~~~i~~~~-~~~~iidg~ 69 (82) +|.|+||+||||+|+.++. ...+++.+.-...... .. ...-+.+.+.+.+...-.... .+.+|||-. T Consensus 16 liyG~~G~GKtt~a~~~~~--~~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDsI 90 (220) T TIGR01618 16 LIYGKPGTGKTSTIKYLPG--KTLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDNI 90 (220) T ss_pred EEECCCCCCHHHHHHhcCC--CCEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEEEEecH Confidence 5899999999999999862 2445555432211111 10 222334455555542221222 567888876 No 223 >COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones] Probab=98.21 E-value=2.8e-06 Score=57.55 Aligned_cols=36 Identities=22% Similarity=0.392 Sum_probs=27.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~~~~~~ 36 (82) +|.||||+|||++|+.+|...+..+ ++..+++.... T Consensus 280 Ll~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~v 317 (494) T COG0464 280 LLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWV 317 (494) T ss_pred EEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhcccc Confidence 5899999999999999999766554 44445555443 No 224 >PRK00300 gmk guanylate kinase; Provisional Probab=98.21 E-value=1e-06 Score=53.20 Aligned_cols=22 Identities=32% Similarity=0.481 Sum_probs=19.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+||+||||||+++.|+..++ T Consensus 9 ~i~G~sGsGKstl~~~l~~~~~ 30 (205) T PRK00300 9 VLSGPSGAGKSTLVKALLERDP 30 (205) T ss_pred EEECCCCCCHHHHHHHHHhhCc Confidence 4799999999999999998875 No 225 >PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C .... Probab=98.21 E-value=4.4e-06 Score=51.26 Aligned_cols=69 Identities=26% Similarity=0.322 Sum_probs=41.4 Q ss_pred CeecCCCCCHHHHHHHHH----H--HhCCceeehHHHHHHHHhh----C------------------CC-----cCCHHH Q 035937 1 MLSGGPGSGKGTQCTKIV----K--NFGLTHLSAGDLLRREIAS----N------------------RK-----IVPSEV 47 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~----~--~~~~~~i~~~~~~~~~~~~----~------------------~~-----~~~~~~ 47 (82) +|.|+||||||+++.+++ + ..+..++++++-.++.... + .. ....+. T Consensus 23 li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~~~~~~~~~ 102 (226) T PF06745_consen 23 LISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIGWSPNDLEE 102 (226) T ss_dssp EEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST-TSCCHHH T ss_pred EEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEecccccccccccCHHH Confidence 589999999999998866 2 2446677765433332221 1 00 123344 Q ss_pred HHHHHHHHHhcCCCCeEEEeCC Q 035937 48 TISLIRKEIESSDNHKFLINGF 69 (82) Q Consensus 48 ~~~~l~~~i~~~~~~~~iidg~ 69 (82) +...+.+.++......+|||++ T Consensus 103 l~~~i~~~i~~~~~~~vVIDsl 124 (226) T PF06745_consen 103 LLSKIREAIEELKPDRVVIDSL 124 (226) T ss_dssp HHHHHHHHHHHHTSSEEEEETH T ss_pred HHHHHHHHHHhcCCCEEEEECH Confidence 5566666776665678999964 No 226 >cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines. Probab=98.21 E-value=9.9e-07 Score=50.72 Aligned_cols=22 Identities=36% Similarity=0.682 Sum_probs=19.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+||+||||||+++.|++.+. T Consensus 3 ~i~GpsGsGKstl~~~L~~~~~ 24 (137) T cd00071 3 VLSGPSGVGKSTLLKRLLEEFD 24 (137) T ss_pred EEECCCCCCHHHHHHHHHhcCC Confidence 4799999999999999998754 No 227 >PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A. Probab=98.20 E-value=1.2e-06 Score=54.70 Aligned_cols=21 Identities=33% Similarity=0.537 Sum_probs=18.1 Q ss_pred eecCCCCCHHHHHHHHHHHhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~ 22 (82) ++|||||||||+++.+.+.+. T Consensus 1 ViGpaGSGKTT~~~~~~~~~~ 21 (238) T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLE 21 (238) T ss_dssp -EESTTSSHHHHHHHHHHHHT T ss_pred CCCCCCCCHHHHHHHHHHHHH Confidence 689999999999999997664 No 228 >PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity Probab=98.20 E-value=1.3e-06 Score=48.20 Aligned_cols=21 Identities=33% Similarity=0.643 Sum_probs=18.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.|+||+|||++|+.|++.+ T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l 22 (107) T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDL 22 (107) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999988644 No 229 >cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA. Probab=98.20 E-value=1.3e-06 Score=52.34 Aligned_cols=26 Identities=23% Similarity=0.542 Sum_probs=22.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) .|.|++||||||+++.|++.+++.++ T Consensus 3 ~ieG~~GsGKSTl~~~L~~~~~~~~~ 28 (193) T cd01673 3 VVEGNIGAGKSTLAKELAEHLGYEVV 28 (193) T ss_pred EEECCCCCCHHHHHHHHHHHhCCccc Confidence 37899999999999999998776544 No 230 >TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein. Probab=98.20 E-value=1.8e-05 Score=50.36 Aligned_cols=28 Identities=25% Similarity=0.419 Sum_probs=21.2 Q ss_pred eecCCCCCHHHHHHHHHHHh---C--CceeehH Q 035937 2 LSGGPGSGKGTQCTKIVKNF---G--LTHLSAG 29 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~ 29 (82) ++|++|+||||++..||..+ + ...++.| T Consensus 77 l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D 109 (272) T TIGR00064 77 FVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD 109 (272) T ss_pred EECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC Confidence 67999999999999998654 3 4445553 No 231 >PRK13342 recombination factor protein RarA; Reviewed Probab=98.19 E-value=1.3e-06 Score=58.20 Aligned_cols=28 Identities=29% Similarity=0.337 Sum_probs=23.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|+||||+||||+|+.+++..+..++.+ T Consensus 40 lL~GppGtGKTtLA~~ia~~~~~~~~~l 67 (413) T PRK13342 40 ILWGPPGTGKTTLARIIAGATDAPFEAL 67 (413) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEEEE Confidence 4799999999999999999887555443 No 232 >COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones] Probab=98.19 E-value=5.2e-06 Score=54.13 Aligned_cols=54 Identities=20% Similarity=0.258 Sum_probs=36.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIASNRKIVPSEVTISLIRKEIESS 59 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 59 (82) ++.||.|||||.+|+.||+.+++++--.|.---.+ ...+-++ +..++.+.+++. T Consensus 101 LLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTE----AGYVGED-VENillkLlqaa 154 (408) T COG1219 101 LLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTE----AGYVGED-VENILLKLLQAA 154 (408) T ss_pred EEECCCCCcHHHHHHHHHHHhCCCeeeccccchhh----ccccchh-HHHHHHHHHHHc Confidence 57999999999999999999998887664332222 2233333 355555555544 No 233 >TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA. Probab=98.19 E-value=6.6e-06 Score=58.31 Aligned_cols=33 Identities=15% Similarity=0.495 Sum_probs=26.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC--ceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL--THLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~--~~i~~~~~~~ 33 (82) +++||||+|||++|+.||+.++. ..++++++.. T Consensus 488 lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~ 522 (731) T TIGR02639 488 LFTGPTGVGKTELAKQLAEALGVHLERFDMSEYME 522 (731) T ss_pred EEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhh Confidence 47899999999999999999874 4556555443 No 234 >PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional Probab=98.19 E-value=1.4e-06 Score=58.54 Aligned_cols=26 Identities=31% Similarity=0.508 Sum_probs=22.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|.||||+|||++|+.+|...+..++ T Consensus 221 LL~GPPGTGKT~LAraIA~el~~~fi 246 (438) T PTZ00361 221 ILYGPPGTGKTLLAKAVANETSATFL 246 (438) T ss_pred EEECCCCCCHHHHHHHHHHhhCCCEE Confidence 57999999999999999998875554 No 235 >COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair] Probab=98.19 E-value=1.5e-06 Score=55.72 Aligned_cols=25 Identities=36% Similarity=0.582 Sum_probs=22.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) ++.||||-||||+|+.+|..+|... T Consensus 56 Ll~GPPGlGKTTLA~IIA~Emgvn~ 80 (332) T COG2255 56 LLFGPPGLGKTTLAHIIANELGVNL 80 (332) T ss_pred EeeCCCCCcHHHHHHHHHHHhcCCe Confidence 5899999999999999999998443 No 236 >PRK12723 flagellar biosynthesis regulator FlhF; Provisional Probab=98.19 E-value=2.3e-06 Score=56.84 Aligned_cols=21 Identities=33% Similarity=0.555 Sum_probs=18.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +++||+|+||||++..||..+ T Consensus 178 ~lvGptGvGKTTT~aKLA~~~ 198 (388) T PRK12723 178 ILVGPTGVGKTTTIAKLAAIY 198 (388) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 478999999999999998654 No 237 >PLN02748 tRNA dimethylallyltransferase Probab=98.18 E-value=1.4e-06 Score=59.04 Aligned_cols=34 Identities=21% Similarity=0.413 Sum_probs=29.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH--HHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD--LLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~--~~~~ 34 (82) +|+||+|||||++|..||+.++..+++.|. +++. T Consensus 26 ~i~GptgsGKs~la~~la~~~~~eii~~DsmQVYrg 61 (468) T PLN02748 26 VVMGPTGSGKSKLAVDLASHFPVEIINADSMQVYSG 61 (468) T ss_pred EEECCCCCCHHHHHHHHHHhcCeeEEcCchheeeCC Confidence 489999999999999999999999999974 4443 No 238 >TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model. Probab=98.18 E-value=1.2e-06 Score=56.14 Aligned_cols=32 Identities=16% Similarity=0.328 Sum_probs=24.5 Q ss_pred eecCCCCCHHHHHHHHHHHhC-------CceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-------LTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-------~~~i~~~~~~~ 33 (82) |.|++||||||+|+.|+..+. ...++.+++.. T Consensus 67 IaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~~ 105 (290) T TIGR00554 67 IAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFLH 105 (290) T ss_pred EECCCCCCHHHHHHHHHHHHhhcCCCCceEEEecccccc Confidence 789999999999998865442 45677776654 No 239 >PRK08084 DNA replication initiation factor; Provisional Probab=98.17 E-value=1.5e-06 Score=53.95 Aligned_cols=30 Identities=10% Similarity=0.167 Sum_probs=24.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~ 30 (82) +|+||||+|||++++.++.... ..+++.++ T Consensus 49 ~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235) T PRK08084 49 YLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235) T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH Confidence 5899999999999999886543 56777755 No 240 >KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones] Probab=98.17 E-value=7.3e-06 Score=56.58 Aligned_cols=28 Identities=29% Similarity=0.522 Sum_probs=24.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +++||||+|||.+|+.+|-.-+++++.. T Consensus 341 LLvGPPGTGKTlLARAvAGEA~VPFF~~ 368 (752) T KOG0734|consen 341 LLVGPPGTGKTLLARAVAGEAGVPFFYA 368 (752) T ss_pred EEeCCCCCchhHHHHHhhcccCCCeEec Confidence 5899999999999999998888777654 No 241 >TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006). Probab=98.17 E-value=4.3e-06 Score=55.50 Aligned_cols=36 Identities=19% Similarity=0.276 Sum_probs=28.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~~~~~~~ 36 (82) +|+|+||+|||++++.+++.. .+.+++..++..+.. T Consensus 140 ~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~ 182 (405) T TIGR00362 140 FIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFV 182 (405) T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHH Confidence 489999999999999998643 366788877766543 No 242 >PF05729 NACHT: NACHT domain Probab=98.17 E-value=1.4e-06 Score=50.33 Aligned_cols=21 Identities=43% Similarity=0.729 Sum_probs=18.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.|+||+||||+++.++..+ T Consensus 4 ~I~G~~G~GKStll~~~~~~~ 24 (166) T PF05729_consen 4 WISGEPGSGKSTLLRKLAQQL 24 (166) T ss_pred EEECCCCCChHHHHHHHHHHH Confidence 589999999999999998554 No 243 >PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A. Probab=98.17 E-value=3.2e-06 Score=52.11 Aligned_cols=36 Identities=28% Similarity=0.337 Sum_probs=28.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~~~~~~~ 36 (82) +|.|++|+|||++.+.++..+ .+.|++..++.+... T Consensus 38 ~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~ 80 (219) T PF00308_consen 38 FLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFA 80 (219) T ss_dssp EEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHH T ss_pred EEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHH Confidence 489999999999999997542 367888888776654 No 244 >PRK12402 replication factor C small subunit 2; Reviewed Probab=98.16 E-value=2e-06 Score=55.21 Aligned_cols=32 Identities=25% Similarity=0.587 Sum_probs=25.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-------CceeehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-------LTHLSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-------~~~i~~~~~~ 32 (82) +|.||||+||||+|+.+++.+. +.+++..++. T Consensus 40 ll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~ 78 (337) T PRK12402 40 LVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFF 78 (337) T ss_pred EEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhh Confidence 5899999999999999998763 3566766654 No 245 >PRK09354 recA recombinase A; Provisional Probab=98.16 E-value=1.4e-05 Score=52.49 Aligned_cols=68 Identities=16% Similarity=0.212 Sum_probs=43.7 Q ss_pred eecCCCCCHHHHHHHHHHH---hC--CceeehHHHHHHHHhhC----------CCcCCHHHHHHHHHHHHhcCCCCeEEE Q 035937 2 LSGGPGSGKGTQCTKIVKN---FG--LTHLSAGDLLRREIASN----------RKIVPSEVTISLIRKEIESSDNHKFLI 66 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~---~~--~~~i~~~~~~~~~~~~~----------~~~~~~~~~~~~l~~~i~~~~~~~~ii 66 (82) |.|||||||||+|-.++.. .+ ..+++...-+....... ..+.+.+...+++...+++..-+.+|| T Consensus 65 I~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~~~~lIVI 144 (349) T PRK09354 65 IYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVV 144 (349) T ss_pred EECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcCCCCEEEE Confidence 7899999999999988743 23 66777766554433221 222234445566666665544678999 Q ss_pred eCC Q 035937 67 NGF 69 (82) Q Consensus 67 dg~ 69 (82) |.+ T Consensus 145 DSv 147 (349) T PRK09354 145 DSV 147 (349) T ss_pred eCh Confidence 974 No 246 >PRK10416 signal recognition particle-docking protein FtsY; Provisional Probab=98.15 E-value=8e-06 Score=52.98 Aligned_cols=21 Identities=29% Similarity=0.528 Sum_probs=18.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) .++|||||||||++..||..+ T Consensus 118 ~lvGpnGsGKTTt~~kLA~~l 138 (318) T PRK10416 118 LVVGVNGVGKTTTIGKLAHKY 138 (318) T ss_pred EEECCCCCcHHHHHHHHHHHH Confidence 378999999999999998654 No 247 >TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system. Probab=98.15 E-value=1e-05 Score=58.23 Aligned_cols=34 Identities=18% Similarity=0.365 Sum_probs=27.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~ 34 (82) +++||||+|||.+|+.||+.+ .+..++++++... T Consensus 600 lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~ 638 (852) T TIGR03345 600 LLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEA 638 (852) T ss_pred EEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhh Confidence 589999999999999999876 3567777776544 No 248 >PF13245 AAA_19: Part of AAA domain Probab=98.15 E-value=2e-06 Score=44.94 Aligned_cols=20 Identities=35% Similarity=0.674 Sum_probs=14.3 Q ss_pred eecCCCCCHH-HHHHHHHHHh Q 035937 2 LSGGPGSGKG-TQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKt-t~a~~l~~~~ 21 (82) |.|||||||| |+++.++.-+ T Consensus 15 v~g~pGtGKT~~~~~~i~~l~ 35 (76) T PF13245_consen 15 VQGPPGTGKTTTLAARIAELL 35 (76) T ss_pred EECCCCCCHHHHHHHHHHHHH Confidence 5899999999 5555554433 No 249 >PRK08727 hypothetical protein; Validated Probab=98.15 E-value=1.5e-05 Score=49.52 Aligned_cols=33 Identities=24% Similarity=0.266 Sum_probs=24.6 Q ss_pred CeecCCCCCHHHHHHHHHHH---hC--CceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN---FG--LTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~~--~~~i~~~~~~~ 33 (82) +|+|++|+|||++++.++.. .+ ..+++..++.. T Consensus 45 ~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~ 82 (233) T PRK08727 45 YLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAG 82 (233) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhh Confidence 48999999999999998643 23 46777766543 No 250 >CHL00176 ftsH cell division protein; Validated Probab=98.14 E-value=1.9e-06 Score=60.28 Aligned_cols=28 Identities=29% Similarity=0.459 Sum_probs=24.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++|+.+|...+.+++.+ T Consensus 220 LL~GPpGTGKT~LAralA~e~~~p~i~i 247 (638) T CHL00176 220 LLVGPPGTGKTLLAKAIAGEAEVPFFSI 247 (638) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCeeec Confidence 5899999999999999999888666554 No 251 >PRK15453 phosphoribulokinase; Provisional Probab=98.14 E-value=2.1e-06 Score=54.93 Aligned_cols=33 Identities=21% Similarity=0.322 Sum_probs=26.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC-----CceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~ 33 (82) .|+|.|||||||+++.+++.++ ..+++.|++.+ T Consensus 9 ~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh~ 46 (290) T PRK15453 9 AVTGSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFHR 46 (290) T ss_pred EEECCCCCCHHHHHHHHHHHHhhcCCCeEEEecccccc Confidence 3799999999999999997664 55677776654 No 252 >PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E .... Probab=98.13 E-value=2.2e-06 Score=51.12 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=25.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC------ceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL------THLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~------~~i~~~~~~~ 33 (82) +++||+|+|||.+|+.|++.+.. ..+++.++-. T Consensus 7 ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~ 45 (171) T PF07724_consen 7 LLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSE 45 (171) T ss_dssp EEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCS T ss_pred EEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccc Confidence 58999999999999999988773 4455544443 No 253 >KOG3308 consensus Uncharacterized protein of the uridine kinase family [Nucleotide transport and metabolism] Probab=98.13 E-value=5.7e-06 Score=50.64 Aligned_cols=35 Identities=26% Similarity=0.366 Sum_probs=29.8 Q ss_pred eecCCCCCHHHHHHHHHHHhC-CceeehHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-LTHLSAGDLLRREI 36 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-~~~i~~~~~~~~~~ 36 (82) |.|...|||||+|+.|.+-++ ...|+-+|++.... T Consensus 9 iSG~TnsGKTTLak~l~~~f~~~~lIhqDDFyKp~~ 44 (225) T KOG3308|consen 9 ISGCTNSGKTTLAKSLHRFFPGCSLIHQDDFYKPEN 44 (225) T ss_pred eecccCCCHhHHHHHHHHHccCCeeeccccccCchh Confidence 578889999999999998885 88899888887654 No 254 >PRK07429 phosphoribulokinase; Provisional Probab=98.13 E-value=2.1e-06 Score=55.82 Aligned_cols=31 Identities=26% Similarity=0.433 Sum_probs=26.7 Q ss_pred eecCCCCCHHHHHHHHHHHhC---CceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG---LTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~---~~~i~~~~~~ 32 (82) |.|++||||||+++.|++.++ ...++.+++. T Consensus 13 I~G~SGSGKSTla~~L~~ll~~~~~~vi~~Dd~~ 46 (327) T PRK07429 13 VAGDSGCGKTTFLRGLADLLGEELVTVICTDDYH 46 (327) T ss_pred EECCCCCCHHHHHHHHHhHhccCceEEEEecccc Confidence 789999999999999998887 5677887764 No 255 >PRK14737 gmk guanylate kinase; Provisional Probab=98.12 E-value=1.8e-06 Score=52.10 Aligned_cols=22 Identities=23% Similarity=0.398 Sum_probs=19.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+|||||||||+++.|.+.+. T Consensus 8 vl~GpsG~GK~tl~~~l~~~~~ 29 (186) T PRK14737 8 IISSVAGGGKSTIIQALLEEHP 29 (186) T ss_pred EEECCCCCCHHHHHHHHHhcCC Confidence 4899999999999999988763 No 256 >KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones] Probab=98.12 E-value=2e-06 Score=59.93 Aligned_cols=38 Identities=26% Similarity=0.517 Sum_probs=30.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh--HHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA--GDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~--~~~~~~~~~~ 38 (82) +++||||||||.+|+++|+.-++.++++ .+++..++.+ T Consensus 549 LL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGE 588 (802) T KOG0733|consen 549 LLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGE 588 (802) T ss_pred EEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhh Confidence 5899999999999999998877666555 4777766543 No 257 >TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles. Probab=98.12 E-value=2.5e-05 Score=49.23 Aligned_cols=29 Identities=10% Similarity=0.172 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHH---h--CCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKN---F--GLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~--~~~~i~~~ 29 (82) +|.|+||+|||++|.+++.. . ...++++. T Consensus 40 lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E 73 (259) T TIGR03878 40 NITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE 73 (259) T ss_pred EEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec Confidence 47999999999999988642 2 36677764 No 258 >PLN02348 phosphoribulokinase Probab=98.11 E-value=2.4e-06 Score=56.74 Aligned_cols=31 Identities=29% Similarity=0.459 Sum_probs=26.6 Q ss_pred eecCCCCCHHHHHHHHHHHhC--------------------CceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG--------------------LTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~--------------------~~~i~~~~~~ 32 (82) |.|++||||||+|+.|++.++ ...+++||+. T Consensus 54 IaG~SGSGKSTfA~~L~~~Lg~~~~~~~~~~~~~~~l~~~~~~VI~lDDYh 104 (395) T PLN02348 54 LAADSGCGKSTFMRRLTSVFGGAAKPPKGGNPDSNTLISDTTTVICLDDYH 104 (395) T ss_pred EECCCCCCHHHHHHHHHHHHhhccCCCccccccccccccCceEEEEccccc Confidence 789999999999999998885 2478888875 No 259 >TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. Probab=98.11 E-value=1.2e-05 Score=54.74 Aligned_cols=69 Identities=16% Similarity=0.236 Sum_probs=42.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHHHHHh----hC---------C---------CcCCHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLRREIA----SN---------R---------KIVPSEVTISLIR 53 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~~~~~----~~---------~---------~~~~~~~~~~~l~ 53 (82) +|.|+||+||||++.+++... | ..|++..+-..+... -+ + .....+.....+. T Consensus 267 li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~~~~~~~i~ 346 (484) T TIGR02655 267 LATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGLEDHLQIIK 346 (484) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCChHHHHHHHH Confidence 589999999999999887532 3 667776543333222 11 0 0011133445556 Q ss_pred HHHhcCCCCeEEEeCC Q 035937 54 KEIESSDNHKFLINGF 69 (82) Q Consensus 54 ~~i~~~~~~~~iidg~ 69 (82) +.+++.+.+.+|||++ T Consensus 347 ~~i~~~~~~~vvIDsi 362 (484) T TIGR02655 347 SEIADFKPARIAIDSL 362 (484) T ss_pred HHHHHcCCCEEEEcCH Confidence 6666555678999986 No 260 >TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity. Probab=98.11 E-value=2.7e-06 Score=55.26 Aligned_cols=26 Identities=31% Similarity=0.474 Sum_probs=23.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|+|+||+||||+++.|++.++..++ T Consensus 166 ~~~G~~~~gkstl~~~l~~~~~~~~v 191 (325) T TIGR01526 166 AILGGESTGKSTLVNKLAAVFNTTSA 191 (325) T ss_pred EEECCCCCCHHHHHHHHHHhhCCCEE Confidence 47899999999999999999986663 No 261 >PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional Probab=98.11 E-value=6.3e-06 Score=55.66 Aligned_cols=22 Identities=27% Similarity=0.480 Sum_probs=19.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) ++.||||+|||++|+.++..+. T Consensus 198 il~GppGtGKT~lA~~la~~l~ 219 (459) T PRK11331 198 ILQGPPGVGKTFVARRLAYLLT 219 (459) T ss_pred EEECCCCCCHHHHHHHHHHHhc Confidence 4799999999999999998764 No 262 >PRK00149 dnaA chromosomal replication initiation protein; Reviewed Probab=98.11 E-value=5.7e-06 Score=55.63 Aligned_cols=35 Identities=17% Similarity=0.240 Sum_probs=27.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----C--CceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----G--LTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~--~~~i~~~~~~~~~ 35 (82) +|+|+||+|||++++.++... + +.+++..++..+. T Consensus 152 ~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~ 193 (450) T PRK00149 152 FIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDF 193 (450) T ss_pred EEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHH Confidence 479999999999999998664 2 5578887776554 No 263 >TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle. Probab=98.11 E-value=1.1e-05 Score=54.16 Aligned_cols=32 Identities=38% Similarity=0.663 Sum_probs=23.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh----C--CceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF----G--LTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~----~--~~~i~~~~~~~ 33 (82) +++|++||||||++..||..+ | ...++. |..| T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~-D~~R 140 (428) T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVAC-DLYR 140 (428) T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEec-cccc Confidence 478999999999988887552 3 445666 4443 No 264 >KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones] Probab=98.10 E-value=8.9e-06 Score=52.89 Aligned_cols=36 Identities=25% Similarity=0.516 Sum_probs=28.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~ 36 (82) +|.||||.|||-+|+.++...+ +..++.+.+..... T Consensus 170 ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyi 207 (388) T KOG0651|consen 170 LLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYI 207 (388) T ss_pred EEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhc Confidence 4799999999999999999997 45566666665544 No 265 >cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis. Probab=98.10 E-value=2.5e-06 Score=54.24 Aligned_cols=31 Identities=26% Similarity=0.401 Sum_probs=25.7 Q ss_pred eecCCCCCHHHHHHHHHHHh---CCceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF---GLTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~---~~~~i~~~~~~ 32 (82) |+|++||||||+++.|+..+ +...++.+++. T Consensus 4 I~G~sGsGKSTl~~~L~~ll~~~~~~vi~~Dd~~ 37 (273) T cd02026 4 VAGDSGCGKSTFLRRLTSLFGSDLVTVICLDDYH 37 (273) T ss_pred EECCCCCCHHHHHHHHHHhhCCCceEEEECcccc Confidence 78999999999999999776 45677777664 No 266 >TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity. Probab=98.10 E-value=2.8e-06 Score=48.84 Aligned_cols=24 Identities=29% Similarity=0.631 Sum_probs=21.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|.|+.||||||+++.+++.++.. T Consensus 26 ~l~G~lGaGKTtl~~~l~~~lg~~ 49 (133) T TIGR00150 26 LLKGDLGAGKTTLVQGLLQGLGIQ 49 (133) T ss_pred EEEcCCCCCHHHHHHHHHHHcCCC Confidence 478999999999999999998854 No 267 >PRK10867 signal recognition particle protein; Provisional Probab=98.10 E-value=1.2e-05 Score=54.09 Aligned_cols=33 Identities=33% Similarity=0.500 Sum_probs=23.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh----C--CceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF----G--LTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~----~--~~~i~~~~~~~~ 34 (82) +++|++||||||++..||..+ | ...++. |..|. T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~-D~~R~ 142 (433) T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA-DVYRP 142 (433) T ss_pred EEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc-cccch Confidence 478999999999888887533 4 445666 44443 No 268 >PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A. Probab=98.08 E-value=1.6e-06 Score=49.60 Aligned_cols=26 Identities=35% Similarity=0.663 Sum_probs=18.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|.|+||+||||+++.+|+..+..+. T Consensus 3 Lleg~PG~GKT~la~~lA~~~~~~f~ 28 (131) T PF07726_consen 3 LLEGVPGVGKTTLAKALARSLGLSFK 28 (131) T ss_dssp EEES---HHHHHHHHHHHHHTT--EE T ss_pred eeECCCccHHHHHHHHHHHHcCCcee Confidence 57899999999999999999885544 No 269 >PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional Probab=98.07 E-value=9e-06 Score=54.41 Aligned_cols=28 Identities=29% Similarity=0.440 Sum_probs=21.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~ 28 (82) .|+||+||||||++..||..+ ....++. T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~a 277 (436) T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT 277 (436) T ss_pred EEECCCCCcHHHHHHHHHHHHHHcCCcEEEEec Confidence 379999999999999998544 2445666 No 270 >PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C. Probab=98.07 E-value=1.4e-06 Score=57.51 Aligned_cols=36 Identities=28% Similarity=0.657 Sum_probs=28.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhC----CceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG----LTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~----~~~i~~~~~~~~~~ 36 (82) +|.||||+|||.+|-.+|+.+| |..++.++++..++ T Consensus 54 LiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~ 93 (398) T PF06068_consen 54 LIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEV 93 (398) T ss_dssp EEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC T ss_pred EEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeeccc Confidence 5899999999999999999987 66677777775543 No 271 >PRK14962 DNA polymerase III subunits gamma and tau; Provisional Probab=98.07 E-value=2.7e-06 Score=57.69 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=20.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +++||||+||||+|+.+++.++. T Consensus 40 Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472) T PRK14962 40 IFAGPRGTGKTTVARILAKSLNC 62 (472) T ss_pred EEECCCCCCHHHHHHHHHHHhcc Confidence 57999999999999999988764 No 272 >PRK14088 dnaA chromosomal replication initiation protein; Provisional Probab=98.06 E-value=5.8e-06 Score=55.64 Aligned_cols=36 Identities=19% Similarity=0.311 Sum_probs=28.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGDLLRREI 36 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~~~~~~~ 36 (82) +|+|+||+|||++++.++..+ .+.+++..+++.+.. T Consensus 134 ~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~ 176 (440) T PRK14088 134 FIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLV 176 (440) T ss_pred EEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHH Confidence 589999999999999998653 366788888776653 No 273 >PRK12422 chromosomal replication initiation protein; Provisional Probab=98.06 E-value=1.5e-05 Score=53.84 Aligned_cols=35 Identities=20% Similarity=0.189 Sum_probs=27.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~ 35 (82) +|+|+||+|||++++.++..+ .+.+++..++..+. T Consensus 145 ~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~ 184 (445) T PRK12422 145 YLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHL 184 (445) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHH Confidence 589999999999999999653 36678877665543 No 274 >cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis. Probab=98.06 E-value=2.4e-06 Score=54.31 Aligned_cols=32 Identities=19% Similarity=0.316 Sum_probs=26.5 Q ss_pred eecCCCCCHHHHHHHHHHHhC-----CceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~ 33 (82) |+|++||||||+++.+++.++ ..+++.|++.+ T Consensus 4 ItG~SGSGKTTv~~~l~~~l~~~g~~v~vI~~D~yyr 40 (277) T cd02029 4 VTGSSGAGTTTVKRAFEHIFAREGIHPAVVEGDSFHR 40 (277) T ss_pred EECCCCCCHHHHHHHHHHHHHhcCCceEEEecccccc Confidence 799999999999999997663 56788777666 No 275 >COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones] Probab=98.06 E-value=2.6e-06 Score=59.94 Aligned_cols=31 Identities=35% Similarity=0.620 Sum_probs=26.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~ 31 (82) ++.||||+|||++++.+|+.++ |..+|++-+ T Consensus 354 cLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGv 386 (782) T COG0466 354 CLVGPPGVGKTSLGKSIAKALGRKFVRISLGGV 386 (782) T ss_pred EEECCCCCCchhHHHHHHHHhCCCEEEEecCcc Confidence 4789999999999999999998 667777544 No 276 >PRK14974 cell division protein FtsY; Provisional Probab=98.05 E-value=1.6e-05 Score=52.02 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=17.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +++|+||+||||++..++..+ T Consensus 144 ~~~G~~GvGKTTtiakLA~~l 164 (336) T PRK14974 144 VFVGVNGTGKTTTIAKLAYYL 164 (336) T ss_pred EEEcCCCCCHHHHHHHHHHHH Confidence 379999999999888887543 No 277 >PRK14738 gmk guanylate kinase; Provisional Probab=98.05 E-value=2.6e-06 Score=51.93 Aligned_cols=20 Identities=25% Similarity=0.508 Sum_probs=17.7 Q ss_pred CeecCCCCCHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~ 20 (82) +|+|||||||||+++.|.+. T Consensus 17 vi~GpsG~GK~tl~~~L~~~ 36 (206) T PRK14738 17 VISGPSGVGKDAVLARMRER 36 (206) T ss_pred EEECcCCCCHHHHHHHHHhc Confidence 47999999999999999754 No 278 >KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones] Probab=98.05 E-value=1.9e-05 Score=50.38 Aligned_cols=39 Identities=23% Similarity=0.481 Sum_probs=31.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIASN 39 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~~ 39 (82) ++.||||.|||.+|+..+.... +..+|-++++.....++ T Consensus 185 lLygppgtGktLlaraVahht~c~firvsgselvqk~igeg 225 (404) T KOG0728|consen 185 LLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEG 225 (404) T ss_pred EEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhh Confidence 5789999999999999987655 56677778888776553 No 279 >PRK00411 cdc6 cell division control protein 6; Reviewed Probab=98.05 E-value=3.1e-05 Score=50.91 Aligned_cols=21 Identities=33% Similarity=0.733 Sum_probs=18.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+||+|||++++.+++.+ T Consensus 59 lI~G~~GtGKT~l~~~v~~~l 79 (394) T PRK00411 59 LIYGPPGTGKTTTVKKVFEEL 79 (394) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999998654 No 280 >PRK00698 tmk thymidylate kinase; Validated Probab=98.05 E-value=3.5e-06 Score=50.69 Aligned_cols=21 Identities=29% Similarity=0.397 Sum_probs=19.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.|++||||||+++.|++.+ T Consensus 7 ~ieG~~gsGKsT~~~~L~~~l 27 (205) T PRK00698 7 TIEGIDGAGKSTQIELLKELL 27 (205) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 378999999999999999876 No 281 >PLN03025 replication factor C subunit; Provisional Probab=98.04 E-value=3.4e-06 Score=54.41 Aligned_cols=21 Identities=38% Similarity=0.705 Sum_probs=19.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.||||+||||+|+.+++.+ T Consensus 38 ll~Gp~G~GKTtla~~la~~l 58 (319) T PLN03025 38 ILSGPPGTGKTTSILALAHEL 58 (319) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 579999999999999999875 No 282 >PRK10865 protein disaggregation chaperone; Provisional Probab=98.04 E-value=2.1e-05 Score=56.78 Aligned_cols=21 Identities=29% Similarity=0.552 Sum_probs=19.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+||+|||++++.|+.+. T Consensus 203 lL~G~pGvGKT~l~~~la~~i 223 (857) T PRK10865 203 VLIGEPGVGKTAIVEGLAQRI 223 (857) T ss_pred EEECCCCCCHHHHHHHHHHHh Confidence 589999999999999999876 No 283 >PF13555 AAA_29: P-loop containing region of AAA domain Probab=98.04 E-value=3.9e-06 Score=42.27 Aligned_cols=18 Identities=39% Similarity=0.588 Sum_probs=16.2 Q ss_pred CeecCCCCCHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIV 18 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~ 18 (82) +|+|++||||||+..++. T Consensus 27 li~G~nGsGKSTllDAi~ 44 (62) T PF13555_consen 27 LITGPNGSGKSTLLDAIQ 44 (62) T ss_pred EEECCCCCCHHHHHHHHH Confidence 489999999999998875 No 284 >TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. Probab=98.03 E-value=3.6e-06 Score=57.59 Aligned_cols=23 Identities=26% Similarity=0.518 Sum_probs=20.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+||||+|||++|+.+++.++. T Consensus 220 LLyGPPGTGKT~LAKAlA~eL~~ 242 (512) T TIGR03689 220 LLYGPPGCGKTLIAKAVANSLAQ 242 (512) T ss_pred EEECCCCCcHHHHHHHHHHhhcc Confidence 58999999999999999988753 No 285 >TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus. Probab=98.03 E-value=3.8e-06 Score=59.45 Aligned_cols=27 Identities=30% Similarity=0.527 Sum_probs=23.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLS 27 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~ 27 (82) +|+||||+|||++++.++..++..++. T Consensus 216 LL~GppGtGKT~laraia~~~~~~~i~ 242 (733) T TIGR01243 216 LLYGPPGTGKTLLAKAVANEAGAYFIS 242 (733) T ss_pred EEECCCCCChHHHHHHHHHHhCCeEEE Confidence 589999999999999999998855543 No 286 >PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed Probab=98.03 E-value=4.4e-06 Score=51.59 Aligned_cols=21 Identities=29% Similarity=0.491 Sum_probs=18.7 Q ss_pred eecCCCCCHHHHHHHHHHHhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~ 22 (82) |.|++||||||+++.|+..+. T Consensus 38 i~G~~GsGKTTl~~~L~~~l~ 58 (229) T PRK09270 38 IAGPPGAGKSTLAEFLEALLQ 58 (229) T ss_pred EECCCCCCHHHHHHHHHHHhh Confidence 789999999999999997664 No 287 >TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model. Probab=98.03 E-value=3.1e-05 Score=52.13 Aligned_cols=32 Identities=44% Similarity=0.680 Sum_probs=23.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh---C--CceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF---G--LTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~---~--~~~i~~~~~~~ 33 (82) +++|++||||||++..||..+ | ...++. |.+| T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~-D~~R 140 (429) T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCA-DTFR 140 (429) T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcC-cccc Confidence 478999999999999998654 4 344555 4444 No 288 >PLN02796 D-glycerate 3-kinase Probab=98.03 E-value=4e-06 Score=54.92 Aligned_cols=32 Identities=31% Similarity=0.367 Sum_probs=25.7 Q ss_pred eecCCCCCHHHHHHHHHHHhC-----CceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-----LTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-----~~~i~~~~~~~ 33 (82) |.|++||||||+++.|+..+. ...++++++.. T Consensus 105 I~G~sGSGKSTLa~~L~~lL~~~g~~~g~IsiDdfYL 141 (347) T PLN02796 105 ISAPQGCGKTTLVFALVYLFNATGRRAASLSIDDFYL 141 (347) T ss_pred EECCCCCcHHHHHHHHHHHhcccCCceeEEEECCccc Confidence 689999999999999997664 45677777653 No 289 >PRK14961 DNA polymerase III subunits gamma and tau; Provisional Probab=98.02 E-value=3.8e-06 Score=55.14 Aligned_cols=23 Identities=35% Similarity=0.502 Sum_probs=20.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+||||+||||+|+.+++.++. T Consensus 42 L~~Gp~G~GKTtla~~la~~l~c 64 (363) T PRK14961 42 LLSGTRGVGKTTIARLLAKSLNC 64 (363) T ss_pred EEecCCCCCHHHHHHHHHHHhcC Confidence 58999999999999999998763 No 290 >TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock. Probab=98.01 E-value=4.8e-06 Score=59.32 Aligned_cols=26 Identities=31% Similarity=0.464 Sum_probs=22.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) ++.||||+|||++|+.+|+.++..++ T Consensus 351 ll~GppG~GKT~lAk~iA~~l~~~~~ 376 (775) T TIGR00763 351 CLVGPPGVGKTSLGKSIAKALNRKFV 376 (775) T ss_pred EEECCCCCCHHHHHHHHHHHhcCCeE Confidence 47999999999999999999875554 No 291 >COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription] Probab=98.01 E-value=6.6e-06 Score=54.33 Aligned_cols=37 Identities=24% Similarity=0.583 Sum_probs=30.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC----CceeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG----LTHLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~----~~~i~~~~~~~~~~~ 37 (82) ++.||||+|||.+|-.+|+.+| |.-+|.++++..+++ T Consensus 69 Li~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E~k 109 (450) T COG1224 69 LIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVK 109 (450) T ss_pred EEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeeeeccc Confidence 5789999999999999999997 666777777766544 No 292 >COG1855 ATPase (PilT family) [General function prediction only] Probab=98.01 E-value=3.9e-06 Score=56.82 Aligned_cols=22 Identities=27% Similarity=0.696 Sum_probs=19.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|.|+||+||||+|+.||+-|. T Consensus 267 LIAG~PGaGKsTFaqAlAefy~ 288 (604) T COG1855 267 LIAGAPGAGKSTFAQALAEFYA 288 (604) T ss_pred EEecCCCCChhHHHHHHHHHHH Confidence 5789999999999999998764 No 293 >TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga. Probab=98.00 E-value=2.3e-05 Score=48.69 Aligned_cols=30 Identities=33% Similarity=0.603 Sum_probs=21.6 Q ss_pred CeecCCCCCHHHHHHHHHHH---hC--CceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN---FG--LTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~~--~~~i~~~~ 30 (82) +|.|+||||||++|.+++.. .| ..++++++ T Consensus 25 lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee 59 (237) T TIGR03877 25 LLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE 59 (237) T ss_pred EEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC Confidence 57999999999999876532 23 55666543 No 294 >PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A. Probab=98.00 E-value=4.7e-06 Score=50.43 Aligned_cols=21 Identities=33% Similarity=0.735 Sum_probs=15.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.||||+||||++..+.... T Consensus 21 ~i~GpPGTGKT~~l~~~i~~~ 41 (236) T PF13086_consen 21 LIQGPPGTGKTTTLASIIAQL 41 (236) T ss_dssp EEE-STTSSHHHHHHHHHHHH T ss_pred EEECCCCCChHHHHHHHHHHh Confidence 478999999997666665444 No 295 >KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair] Probab=98.00 E-value=4.2e-06 Score=57.54 Aligned_cols=29 Identities=28% Similarity=0.505 Sum_probs=25.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~ 29 (82) +|+||+||||||..+.|++.+|+.++.-. T Consensus 114 LltGPsGcGKSTtvkvLskelg~~~~Ew~ 142 (634) T KOG1970|consen 114 LLTGPSGCGKSTTVKVLSKELGYQLIEWS 142 (634) T ss_pred EEeCCCCCCchhHHHHHHHhhCceeeeec Confidence 58999999999999999999998776543 No 296 >cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility. Probab=97.99 E-value=5.1e-06 Score=50.39 Aligned_cols=22 Identities=27% Similarity=0.569 Sum_probs=18.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+||+||||||+.+.+...+. T Consensus 5 lI~GptGSGKTTll~~ll~~~~ 26 (198) T cd01131 5 LVTGPTGSGKSTTLAAMIDYIN 26 (198) T ss_pred EEECCCCCCHHHHHHHHHHHhh Confidence 4899999999999998876653 No 297 >COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism] Probab=97.98 E-value=5.6e-06 Score=50.01 Aligned_cols=22 Identities=32% Similarity=0.486 Sum_probs=19.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+||+|+||||+.+.|-+..+ T Consensus 8 vlsgPSG~GKsTl~k~L~~~~~ 29 (191) T COG0194 8 VLSGPSGVGKSTLVKALLEDDK 29 (191) T ss_pred EEECCCCCCHHHHHHHHHhhcC Confidence 4899999999999999987773 No 298 >PRK10865 protein disaggregation chaperone; Provisional Probab=97.97 E-value=4.8e-05 Score=54.98 Aligned_cols=34 Identities=15% Similarity=0.504 Sum_probs=26.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~ 34 (82) +|+||||+|||++|+.|++.+ .+..++++++... T Consensus 602 Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~ 640 (857) T PRK10865 602 LFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEK 640 (857) T ss_pred EEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhh Confidence 478999999999999999765 2566777766543 No 299 >PRK14956 DNA polymerase III subunits gamma and tau; Provisional Probab=97.97 E-value=5.6e-06 Score=56.27 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=21.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+||||+||||+|+.+|+.++.. T Consensus 44 Lf~GP~GtGKTTlAriLAk~Lnce 67 (484) T PRK14956 44 IFFGPRGVGKTTIARILAKRLNCE 67 (484) T ss_pred EEECCCCCCHHHHHHHHHHhcCcc Confidence 589999999999999999988753 No 300 >CHL00206 ycf2 Ycf2; Provisional Probab=97.97 E-value=5.5e-06 Score=63.41 Aligned_cols=33 Identities=15% Similarity=0.259 Sum_probs=27.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc--eeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT--HLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~--~i~~~~~~~ 33 (82) +++||||+|||.+|+++|...+++ .++.++++. T Consensus 1634 LLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~ 1668 (2281) T CHL00206 1634 LVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLD 1668 (2281) T ss_pred EEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhh Confidence 589999999999999999888755 466667764 No 301 >PLN02318 phosphoribulokinase/uridine kinase Probab=97.96 E-value=5.7e-06 Score=57.64 Aligned_cols=31 Identities=19% Similarity=0.349 Sum_probs=26.0 Q ss_pred eecCCCCCHHHHHHHHHHHhC-CceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-LTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-~~~i~~~~~~ 32 (82) |.||+||||||+++.|+..+. ...+++++.. T Consensus 70 IaGpSGSGKTTLAk~LaglLp~vgvIsmDdy~ 101 (656) T PLN02318 70 VAGPSGAGKTVFTEKVLNFMPSIAVISMDNYN 101 (656) T ss_pred EECCCCCcHHHHHHHHHhhCCCcEEEEEccee Confidence 789999999999999998873 5678877753 No 302 >cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. Probab=97.96 E-value=4.3e-05 Score=47.16 Aligned_cols=28 Identities=21% Similarity=0.321 Sum_probs=21.3 Q ss_pred CeecCCCCCHHHHHHHHHHH------hCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKN------FGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~------~~~~~i~~ 28 (82) +|.|+||+|||+++..++.. ....++++ T Consensus 17 lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~ 50 (242) T cd00984 17 IIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL 50 (242) T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC Confidence 47999999999998887632 34666664 No 303 >COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis] Probab=97.96 E-value=8.2e-06 Score=52.70 Aligned_cols=31 Identities=23% Similarity=0.388 Sum_probs=28.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~ 31 (82) +|+||.+||||-+|-.||++++..+||.|.+ T Consensus 7 ~I~GPTAsGKT~lai~LAk~~~~eIIs~DSm 37 (308) T COG0324 7 VIAGPTASGKTALAIALAKRLGGEIISLDSM 37 (308) T ss_pred EEECCCCcCHHHHHHHHHHHcCCcEEecchh Confidence 5899999999999999999999999999754 No 304 >PRK06645 DNA polymerase III subunits gamma and tau; Validated Probab=97.96 E-value=6.1e-06 Score=56.46 Aligned_cols=25 Identities=32% Similarity=0.420 Sum_probs=22.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH 25 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~ 25 (82) +++||||+||||+|+.+|+.++... T Consensus 47 Lf~Gp~G~GKTT~ArilAk~Lnc~~ 71 (507) T PRK06645 47 LLTGIRGVGKTTSARIIAKAVNCSA 71 (507) T ss_pred EEECCCCCCHHHHHHHHHHHhcCcc Confidence 5899999999999999999987643 No 305 >KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones] Probab=97.95 E-value=3.3e-05 Score=55.11 Aligned_cols=51 Identities=24% Similarity=0.385 Sum_probs=36.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH--HHHHHHHhhCCCcCCHHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG--DLLRREIASNRKIVPSEVTISLIRKEI 56 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~i 56 (82) ++.||||+|||-+|+++|-.+.+.++|.. +++.....+ +++-+.++.+++- T Consensus 709 LLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGq-----SE~NVR~VFerAR 761 (953) T KOG0736|consen 709 LLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQ-----SEENVREVFERAR 761 (953) T ss_pred EEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcc-----hHHHHHHHHHHhh Confidence 57899999999999999999998888874 566655443 3344444444443 No 306 >TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA. Probab=97.95 E-value=4e-05 Score=54.44 Aligned_cols=21 Identities=29% Similarity=0.534 Sum_probs=19.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+||||+|||++++.+|++. T Consensus 207 lL~G~pG~GKT~l~~~la~~~ 227 (731) T TIGR02639 207 LLVGEPGVGKTAIAEGLALRI 227 (731) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999999876 No 307 >KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=97.95 E-value=5.9e-06 Score=54.36 Aligned_cols=37 Identities=30% Similarity=0.479 Sum_probs=28.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~~~~~~~ 37 (82) +++||||+|||.+|+++|++.+..+ ++++.+..++.. T Consensus 131 LL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KWfg 169 (386) T KOG0737|consen 131 LLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKWFG 169 (386) T ss_pred eecCCCCchHHHHHHHHHHHcCCCcceeeccccchhhHH Confidence 5799999999999999999988444 555666665543 No 308 >PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional Probab=97.95 E-value=6.8e-06 Score=58.52 Aligned_cols=31 Identities=19% Similarity=0.471 Sum_probs=24.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDL 31 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~ 31 (82) +|+||||+|||++|+.||+.++.++ +++.++ T Consensus 492 Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~ 524 (758) T PRK11034 492 LFAGPTGVGKTEVTVQLSKALGIELLRFDMSEY 524 (758) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCcEEeechhh Confidence 4799999999999999999987444 454444 No 309 >TIGR03499 FlhF flagellar biosynthetic protein FlhF. Probab=97.95 E-value=2.8e-05 Score=49.60 Aligned_cols=30 Identities=27% Similarity=0.453 Sum_probs=22.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-------CCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-------GLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-------~~~~i~~~~ 30 (82) .|+||+||||||++..|+..+ .+.+++.+. T Consensus 198 ~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~ 234 (282) T TIGR03499 198 ALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT 234 (282) T ss_pred EEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc Confidence 378999999999999888543 245677754 No 310 >PRK06067 flagellar accessory protein FlaH; Validated Probab=97.94 E-value=4.4e-05 Score=47.16 Aligned_cols=32 Identities=16% Similarity=0.312 Sum_probs=23.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLL 32 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~ 32 (82) +|.|+||||||+++.+++... ...+++.++-. T Consensus 29 ~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~ 65 (234) T PRK06067 29 LIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTS 65 (234) T ss_pred EEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCH Confidence 478999999999999986432 36666664433 No 311 >COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones] Probab=97.94 E-value=6.7e-06 Score=51.28 Aligned_cols=19 Identities=37% Similarity=0.524 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+||+||||||++..|+-. T Consensus 35 iMGPNGsGKSTLa~~i~G~ 53 (251) T COG0396 35 IMGPNGSGKSTLAYTIMGH 53 (251) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7999999999999999843 No 312 >PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A .... Probab=97.94 E-value=7.6e-06 Score=48.86 Aligned_cols=22 Identities=36% Similarity=0.711 Sum_probs=19.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+||+||||||+++.|.+.++ T Consensus 6 vl~Gpsg~GK~~l~~~L~~~~~ 27 (183) T PF00625_consen 6 VLVGPSGSGKSTLAKRLIQEFP 27 (183) T ss_dssp EEESSTTSSHHHHHHHHHHHST T ss_pred EEECCCCCCHHHHHHHHHHhcc Confidence 4899999999999999987764 No 313 >KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones] Probab=97.94 E-value=2.4e-05 Score=50.87 Aligned_cols=38 Identities=18% Similarity=0.464 Sum_probs=29.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~~~~~~ 38 (82) ++.|+||+|||.+|++.|+... |..+.-++++.+.+.. T Consensus 223 IlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGd 262 (440) T KOG0726|consen 223 ILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGD 262 (440) T ss_pred EEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhcc Confidence 4789999999999999998776 4445556788777654 No 314 >PHA02544 44 clamp loader, small subunit; Provisional Probab=97.93 E-value=8.6e-06 Score=52.17 Aligned_cols=22 Identities=32% Similarity=0.527 Sum_probs=19.6 Q ss_pred eecCCCCCHHHHHHHHHHHhCC Q 035937 2 LSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~ 23 (82) ++||||+||||+++.+++..+. T Consensus 48 l~G~~G~GKT~la~~l~~~~~~ 69 (316) T PHA02544 48 HSPSPGTGKTTVAKALCNEVGA 69 (316) T ss_pred eeCcCCCCHHHHHHHHHHHhCc Confidence 5899999999999999988763 No 315 >PRK04328 hypothetical protein; Provisional Probab=97.92 E-value=8.7e-05 Score=46.53 Aligned_cols=28 Identities=32% Similarity=0.468 Sum_probs=20.7 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~ 28 (82) +|.|+||||||++|.+++.. ....++++ T Consensus 27 li~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ 59 (249) T PRK04328 27 LLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVAL 59 (249) T ss_pred EEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEe Confidence 47999999999999887632 22556665 No 316 >KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=97.92 E-value=2.7e-05 Score=55.26 Aligned_cols=37 Identities=35% Similarity=0.540 Sum_probs=30.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH--HHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG--DLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~--~~~~~~~~ 37 (82) ++.||||+|||.+|..+|...++.++|.. +++.+... T Consensus 705 LLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIG 743 (952) T KOG0735|consen 705 LLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIG 743 (952) T ss_pred EEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhc Confidence 58999999999999999999998888873 56665543 No 317 >PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A. Probab=97.91 E-value=2.3e-05 Score=46.88 Aligned_cols=36 Identities=14% Similarity=0.314 Sum_probs=27.2 Q ss_pred eecCCCCCHHHHHHHHHHHhCCceeehHHHHHHHHhh Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLRREIAS 38 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~~~~~~ 38 (82) |.+..|||++++|+.||+++|+++++- +++.+.... T Consensus 4 Isr~~Gsgg~~Ia~~LA~~Lg~~~~d~-~ii~~~a~~ 39 (179) T PF13189_consen 4 ISRQYGSGGREIAERLAEKLGYPYYDR-EIIEEAAKE 39 (179) T ss_dssp EEE-TTSSHHHHHHHHHHHCT--EE-H-HHHHHCT-- T ss_pred ECCCCCCChHHHHHHHHHHcCCccCCH-HHHHHHHHH Confidence 678899999999999999999999999 888776543 No 318 >cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural Probab=97.91 E-value=1e-05 Score=44.98 Aligned_cols=31 Identities=19% Similarity=0.364 Sum_probs=22.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~~~~ 33 (82) .|.||+||||||+++.+. -+-..+.-+|+.. T Consensus 19 ~I~GpSGsGKSTLl~~l~--~G~i~~~g~di~~ 49 (107) T cd00820 19 LITGDSGIGKTELALELI--KRKHRLVGDDNVE 49 (107) T ss_pred EEEcCCCCCHHHHHHHhh--CCeEEEeeEeHHH Confidence 378999999999999987 3334444445543 No 319 >PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A. Probab=97.91 E-value=7.7e-06 Score=48.18 Aligned_cols=21 Identities=29% Similarity=0.591 Sum_probs=15.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|++|+|||++.+.+.+.+ T Consensus 28 ll~G~~G~GKT~ll~~~~~~~ 48 (185) T PF13191_consen 28 LLTGESGSGKTSLLRALLDRL 48 (185) T ss_dssp EE-B-TTSSHHHHHHHHHHHH T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999887543 No 320 >PRK12726 flagellar biosynthesis regulator FlhF; Provisional Probab=97.91 E-value=7.4e-05 Score=49.86 Aligned_cols=29 Identities=24% Similarity=0.326 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~ 29 (82) +|+||+|+||||++..||..+ ....++.| T Consensus 210 ~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaD 243 (407) T PRK12726 210 SLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTD 243 (407) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC Confidence 378999999999999998544 24556664 No 321 >PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional Probab=97.90 E-value=3.5e-05 Score=54.23 Aligned_cols=24 Identities=29% Similarity=0.517 Sum_probs=20.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) ++.|.||+||||+++.|++.+++. T Consensus 219 ~~vglp~~GKStia~~L~~~l~~~ 242 (664) T PTZ00322 219 IMVGLPGRGKTYVARQIQRYFQWN 242 (664) T ss_pred EecccCCCChhHHHHHHHHHHHhc Confidence 378999999999999999987533 No 322 >PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A. Probab=97.90 E-value=9.8e-06 Score=51.26 Aligned_cols=20 Identities=30% Similarity=0.762 Sum_probs=16.9 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+||||+||||+...|...+ T Consensus 34 iTG~PGaGKSTli~~l~~~~ 53 (266) T PF03308_consen 34 ITGPPGAGKSTLIDALIREL 53 (266) T ss_dssp EEE-TTSSHHHHHHHHHHHH T ss_pred eeCCCCCcHHHHHHHHHHHH Confidence 79999999999999998655 No 323 >COG0714 MoxR-like ATPases [General function prediction only] Probab=97.90 E-value=1.1e-05 Score=52.26 Aligned_cols=26 Identities=31% Similarity=0.649 Sum_probs=22.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|-|+||+|||++++.+|+.++..++ T Consensus 47 ll~G~PG~gKT~la~~lA~~l~~~~~ 72 (329) T COG0714 47 LLEGPPGVGKTLLARALARALGLPFV 72 (329) T ss_pred EEECCCCccHHHHHHHHHHHhCCCeE Confidence 47899999999999999999984443 No 324 >PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B. Probab=97.89 E-value=7.8e-06 Score=50.12 Aligned_cols=22 Identities=27% Similarity=0.511 Sum_probs=17.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) ++.||||+|||++|+.+..-+. T Consensus 26 Ll~GppGtGKTmlA~~l~~lLP 47 (206) T PF01078_consen 26 LLIGPPGTGKTMLARRLPSLLP 47 (206) T ss_dssp EEES-CCCTHHHHHHHHHHCS- T ss_pred EEECCCCCCHHHHHHHHHHhCC Confidence 5899999999999999986543 No 325 >PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional Probab=97.89 E-value=1.1e-05 Score=51.65 Aligned_cols=26 Identities=19% Similarity=0.447 Sum_probs=20.9 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLS 27 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~ 27 (82) +|+|++||||||+++.|. ..|+..++ T Consensus 10 ~i~G~~GsGKtt~~~~l~-~~g~~~~d 35 (288) T PRK05416 10 IVTGLSGAGKSVALRALE-DLGYYCVD 35 (288) T ss_pred EEECCCCCcHHHHHHHHH-HcCCeEEC Confidence 489999999999999995 45655544 No 326 >COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only] Probab=97.88 E-value=9.2e-06 Score=51.93 Aligned_cols=37 Identities=19% Similarity=0.435 Sum_probs=28.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCce--eehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTH--LSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~--i~~~~~~~~~~~ 37 (82) ++.||||+|||.+|+.||.....+. +....++-+... T Consensus 155 LFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG 193 (368) T COG1223 155 LFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG 193 (368) T ss_pred EEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh Confidence 5789999999999999998887555 444566665543 No 327 >KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones] Probab=97.88 E-value=6.3e-06 Score=58.29 Aligned_cols=33 Identities=24% Similarity=0.494 Sum_probs=27.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhC--CceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG--LTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~--~~~i~~~~~~~ 33 (82) .+.||||+|||++++.+|+.+| |..+|.+-+-. T Consensus 442 Cf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tD 476 (906) T KOG2004|consen 442 CFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTD 476 (906) T ss_pred EEeCCCCCCcccHHHHHHHHhCCceEEEecccccc Confidence 3789999999999999999998 77788865543 No 328 >PRK14955 DNA polymerase III subunits gamma and tau; Provisional Probab=97.87 E-value=1.2e-05 Score=53.47 Aligned_cols=23 Identities=30% Similarity=0.381 Sum_probs=21.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +++||||+||||+|+.+|+.+.. T Consensus 42 lf~Gp~G~GKtt~A~~~a~~l~c 64 (397) T PRK14955 42 IFSGLRGVGKTTAARVFAKAVNC 64 (397) T ss_pred EEECCCCCCHHHHHHHHHHHhcC Confidence 57999999999999999998865 No 329 >KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones] Probab=97.87 E-value=3.3e-05 Score=49.62 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=21.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) ++.||||+|||.+|+.-|.+.+..++ T Consensus 209 LmYGPPGTGKTlmARAcAaqT~aTFL 234 (424) T KOG0652|consen 209 LMYGPPGTGKTLMARACAAQTNATFL 234 (424) T ss_pred EeeCCCCCcHHHHHHHHHHhccchHH Confidence 47899999999999999877664443 No 330 >PF13479 AAA_24: AAA domain Probab=97.87 E-value=3.6e-05 Score=47.17 Aligned_cols=27 Identities=26% Similarity=0.438 Sum_probs=20.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~ 30 (82) +|.|+||+||||+|..+ -+..+++++. T Consensus 7 lIyG~~G~GKTt~a~~~---~k~l~id~E~ 33 (213) T PF13479_consen 7 LIYGPPGSGKTTLAASL---PKPLFIDTEN 33 (213) T ss_pred EEECCCCCCHHHHHHhC---CCeEEEEeCC Confidence 58999999999999877 3345666643 No 331 >COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism] Probab=97.86 E-value=1.1e-05 Score=50.08 Aligned_cols=18 Identities=33% Similarity=0.446 Sum_probs=16.3 Q ss_pred CeecCCCCCHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIV 18 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~ 18 (82) .|+||+||||||+.+.|. T Consensus 32 ~iiGpSGSGKSTlLRclN 49 (240) T COG1126 32 VIIGPSGSGKSTLLRCLN 49 (240) T ss_pred EEECCCCCCHHHHHHHHH Confidence 379999999999999885 No 332 >COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms] Probab=97.86 E-value=1.2e-05 Score=50.00 Aligned_cols=17 Identities=35% Similarity=0.462 Sum_probs=16.1 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |+||+||||||+.+.++ T Consensus 36 I~GpSGSGKSTLLniig 52 (226) T COG1136 36 IVGPSGSGKSTLLNLLG 52 (226) T ss_pred EECCCCCCHHHHHHHHh Confidence 79999999999999887 No 333 >cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane. Probab=97.86 E-value=1.2e-05 Score=49.09 Aligned_cols=20 Identities=30% Similarity=0.250 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 35 l~G~nGsGKSTLl~~i~Gl~ 54 (218) T cd03255 35 IVGPSGSGKSTLLNILGGLD 54 (218) T ss_pred EEcCCCCCHHHHHHHHhCCc Confidence 78999999999999998543 No 334 >PRK14957 DNA polymerase III subunits gamma and tau; Provisional Probab=97.86 E-value=1.1e-05 Score=55.59 Aligned_cols=23 Identities=26% Similarity=0.393 Sum_probs=20.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+||||+||||+|+.+|+.++. T Consensus 42 Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546) T PRK14957 42 LFTGTRGVGKTTLGRLLAKCLNC 64 (546) T ss_pred EEECCCCCCHHHHHHHHHHHhCC Confidence 48999999999999999988764 No 335 >COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism] Probab=97.85 E-value=1.1e-05 Score=53.01 Aligned_cols=17 Identities=41% Similarity=0.483 Sum_probs=16.3 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |.||+||||||+.+.|| T Consensus 36 lLGPSGcGKTTlLR~IA 52 (352) T COG3842 36 LLGPSGCGKTTLLRMIA 52 (352) T ss_pred EECCCCCCHHHHHHHHh Confidence 78999999999999998 No 336 >PRK14949 DNA polymerase III subunits gamma and tau; Provisional Probab=97.85 E-value=1.2e-05 Score=58.19 Aligned_cols=24 Identities=21% Similarity=0.401 Sum_probs=21.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+||||+||||+|+.+++.++.. T Consensus 42 LFtGPpGtGKTTLARiLAk~Lnce 65 (944) T PRK14949 42 LFTGTRGVGKTSLARLFAKGLNCE 65 (944) T ss_pred EEECCCCCCHHHHHHHHHHhccCc Confidence 589999999999999999988754 No 337 >cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK). Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space. Probab=97.85 E-value=2e-05 Score=48.49 Aligned_cols=25 Identities=24% Similarity=0.565 Sum_probs=21.7 Q ss_pred eecCCCCCHHHHHHHHHHHhCCcee Q 035937 2 LSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) |-|..||||||+++.|++.++...+ T Consensus 4 iEG~~GsGKSTl~~~L~~~l~~~~~ 28 (219) T cd02030 4 VDGNIASGKGKLAKELAEKLGMKYF 28 (219) T ss_pred EEcCCCCCHHHHHHHHHHHhCCCee Confidence 6799999999999999998876444 No 338 >PRK14963 DNA polymerase III subunits gamma and tau; Provisional Probab=97.85 E-value=1.1e-05 Score=55.23 Aligned_cols=23 Identities=30% Similarity=0.400 Sum_probs=20.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+||||+||||+|+.+++.+.. T Consensus 40 Lf~GppGtGKTTlA~~lA~~l~c 62 (504) T PRK14963 40 LFSGPRGVGKTTTARLIAMAVNC 62 (504) T ss_pred EEECCCCCCHHHHHHHHHHHHhc Confidence 58999999999999999988753 No 339 >PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A. Probab=97.85 E-value=1.1e-05 Score=44.45 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=18.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) ++.|++||||||+.+.|+... T Consensus 3 ~V~G~~g~GKTsLi~~l~~~~ 23 (119) T PF08477_consen 3 VVLGDSGVGKTSLIRRLCGGE 23 (119) T ss_dssp EEECSTTSSHHHHHHHHHHSS T ss_pred EEECcCCCCHHHHHHHHhcCC Confidence 479999999999999998544 No 340 >PRK10733 hflB ATP-dependent metalloprotease; Reviewed Probab=97.85 E-value=1.3e-05 Score=56.21 Aligned_cols=28 Identities=21% Similarity=0.433 Sum_probs=24.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|.||||+|||++++.++...+.+++.+ T Consensus 189 ll~G~~G~GKt~~~~~~a~~~~~~f~~i 216 (644) T PRK10733 189 LMVGPPGTGKTLLAKAIAGEAKVPFFTI 216 (644) T ss_pred EEECCCCCCHHHHHHHHHHHcCCCEEEE Confidence 4799999999999999999988666544 No 341 >COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones] Probab=97.85 E-value=6.3e-05 Score=52.38 Aligned_cols=35 Identities=26% Similarity=0.484 Sum_probs=27.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc--eeehHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT--HLSAGDLLRRE 35 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~--~i~~~~~~~~~ 35 (82) ++.||||+|||.+|++.|-.-+.+ ++|.++++.-. T Consensus 187 lLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf 223 (596) T COG0465 187 LLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 223 (596) T ss_pred eEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh Confidence 478999999999999999887755 45555665544 No 342 >cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase. Probab=97.85 E-value=1.3e-05 Score=48.14 Aligned_cols=21 Identities=38% Similarity=0.638 Sum_probs=18.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|++||||||+.+.|+... T Consensus 29 ~I~G~tGSGKTTll~aL~~~i 49 (186) T cd01130 29 LISGGTGSGKTTLLNALLAFI 49 (186) T ss_pred EEECCCCCCHHHHHHHHHhhc Confidence 489999999999999998654 No 343 >PRK14964 DNA polymerase III subunits gamma and tau; Provisional Probab=97.84 E-value=1.3e-05 Score=54.75 Aligned_cols=23 Identities=30% Similarity=0.377 Sum_probs=20.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +++||+|+||||+|+.+|+.+++ T Consensus 39 Lf~Gp~G~GKTT~ArilAk~LnC 61 (491) T PRK14964 39 LLVGASGVGKTTCARIISLCLNC 61 (491) T ss_pred EEECCCCccHHHHHHHHHHHHcC Confidence 58999999999999999987654 No 344 >PRK14958 DNA polymerase III subunits gamma and tau; Provisional Probab=97.84 E-value=1.3e-05 Score=54.87 Aligned_cols=24 Identities=25% Similarity=0.400 Sum_probs=21.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +++||||+||||+|+.+|+.++.. T Consensus 42 Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509) T PRK14958 42 LFTGTRGVGKTTISRILAKCLNCE 65 (509) T ss_pred EEECCCCCCHHHHHHHHHHHhcCC Confidence 589999999999999999988753 No 345 >PRK14960 DNA polymerase III subunits gamma and tau; Provisional Probab=97.84 E-value=1.3e-05 Score=56.37 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=21.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+||+|+||||+|+.+|+.+++. T Consensus 41 LF~GPpGvGKTTlAriLAK~LnC~ 64 (702) T PRK14960 41 LFTGTRGVGKTTIARILAKCLNCE 64 (702) T ss_pred EEECCCCCCHHHHHHHHHHHhCCC Confidence 589999999999999999998753 No 346 >COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism] Probab=97.84 E-value=1.1e-05 Score=52.78 Aligned_cols=18 Identities=39% Similarity=0.514 Sum_probs=16.8 Q ss_pred CeecCCCCCHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIV 18 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~ 18 (82) .|.||+||||||+.+.+| T Consensus 33 vllGPSGcGKSTlLr~IA 50 (338) T COG3839 33 VLLGPSGCGKSTLLRMIA 50 (338) T ss_pred EEECCCCCCHHHHHHHHh Confidence 478999999999999998 No 347 >KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair] Probab=97.83 E-value=1e-05 Score=53.89 Aligned_cols=28 Identities=29% Similarity=0.394 Sum_probs=21.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC---Cceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG---LTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~---~~~i~~ 28 (82) +++||||+||||+|+.|+..-. +.++++ T Consensus 166 IlWGppG~GKTtlArlia~tsk~~Syrfvel 196 (554) T KOG2028|consen 166 ILWGPPGTGKTTLARLIASTSKKHSYRFVEL 196 (554) T ss_pred EEecCCCCchHHHHHHHHhhcCCCceEEEEE Confidence 5799999999999999985432 445544 No 348 >COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism] Probab=97.83 E-value=1.3e-05 Score=50.22 Aligned_cols=17 Identities=35% Similarity=0.569 Sum_probs=16.1 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |.|++||||||+++.|+ T Consensus 38 ivGeSGsGKSTL~r~l~ 54 (252) T COG1124 38 IVGESGSGKSTLARLLA 54 (252) T ss_pred EEcCCCCCHHHHHHHHh Confidence 68999999999999998 No 349 >TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux. Probab=97.83 E-value=1.4e-05 Score=47.90 Aligned_cols=19 Identities=32% Similarity=0.373 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 23 i~G~nGsGKSTLl~~i~G~ 41 (190) T TIGR01166 23 LLGANGAGKSTLLLHLNGL 41 (190) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 350 >PRK04296 thymidine kinase; Provisional Probab=97.83 E-value=1.3e-05 Score=48.36 Aligned_cols=21 Identities=29% Similarity=0.436 Sum_probs=18.4 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +++|+||+||||.+..++.++ T Consensus 6 litG~~GsGKTT~~l~~~~~~ 26 (190) T PRK04296 6 FIYGAMNSGKSTELLQRAYNY 26 (190) T ss_pred EEECCCCCHHHHHHHHHHHHH Confidence 589999999999998888665 No 351 >COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown] Probab=97.83 E-value=0.00011 Score=46.35 Aligned_cols=78 Identities=14% Similarity=0.175 Sum_probs=44.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhC----------CceeehHHHHHHHHhhC---------CCcCCHHHHHHHHHHHHhcCCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG----------LTHLSAGDLLRREIASN---------RKIVPSEVTISLIRKEIESSDN 61 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~----------~~~i~~~~~~~~~~~~~---------~~~~~~~~~~~~l~~~i~~~~~ 61 (82) ++.|||++||||+.+-||+-.. ...++-..-+-.- ..+ -+...+.--.+-+...+++... T Consensus 141 LiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~-~~gvpq~~~g~R~dVld~cpk~~gmmmaIrsm~P 219 (308) T COG3854 141 LIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGC-LNGVPQHGRGRRMDVLDPCPKAEGMMMAIRSMSP 219 (308) T ss_pred EEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhcc-ccCCchhhhhhhhhhcccchHHHHHHHHHHhcCC Confidence 5799999999999998886432 1122322222110 000 1122222334456667777666 Q ss_pred CeEEEeCCCCCHHHHHHHH Q 035937 62 HKFLINGFPRSEENRAAFE 80 (82) Q Consensus 62 ~~~iidg~p~~~~~~~~~~ 80 (82) ...|+|-+ .+.+++.++. T Consensus 220 EViIvDEI-Gt~~d~~A~~ 237 (308) T COG3854 220 EVIIVDEI-GTEEDALAIL 237 (308) T ss_pred cEEEEecc-ccHHHHHHHH Confidence 77888877 6666666543 No 352 >TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein. Probab=97.82 E-value=1.4e-05 Score=48.72 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 34 i~G~nGsGKSTLl~~l~Gl~ 53 (216) T TIGR00960 34 LVGHSGAGKSTFLKLILGIE 53 (216) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 353 >PLN03046 D-glycerate 3-kinase; Provisional Probab=97.82 E-value=1.4e-05 Score=53.83 Aligned_cols=32 Identities=28% Similarity=0.267 Sum_probs=25.8 Q ss_pred eecCCCCCHHHHHHHHHHHh-----CCceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~ 33 (82) |.|++||||||+++.|...+ ....++++|++. T Consensus 217 IsG~qGSGKSTLa~~L~~lL~~~g~~vgvISiDDfYL 253 (460) T PLN03046 217 FSAPQGCGKTTLVFALDYLFRVTGRKSATLSIDDFYL 253 (460) T ss_pred EECCCCCCHHHHHHHHHHHhcccCCceEEEEECCccC Confidence 78999999999999997554 256788888763 No 354 >cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems. Probab=97.82 E-value=1.4e-05 Score=48.46 Aligned_cols=19 Identities=32% Similarity=0.326 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 32 l~G~nGsGKSTLl~~l~G~ 50 (211) T cd03225 32 IVGPNGSGKSTLLRLLNGL 50 (211) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 355 >cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases. Probab=97.82 E-value=1.4e-05 Score=46.79 Aligned_cols=27 Identities=22% Similarity=0.505 Sum_probs=20.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) +|+|++|+||||+|..|.++ +..+++- T Consensus 18 Li~G~sG~GKStlal~L~~~-g~~lvaD 44 (149) T cd01918 18 LITGPSGIGKSELALELIKR-GHRLVAD 44 (149) T ss_pred EEEcCCCCCHHHHHHHHHHc-CCeEEEC Confidence 58999999999999888664 4554443 No 356 >TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)). Probab=97.82 E-value=3e-05 Score=52.50 Aligned_cols=68 Identities=18% Similarity=0.304 Sum_probs=38.8 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHHhh--C-C------CcCCHHHHHHHHHHHHhcCCCCeEEE Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREIAS--N-R------KIVPSEVTISLIRKEIESSDNHKFLI 66 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~~~--~-~------~~~~~~~~~~~l~~~i~~~~~~~~ii 66 (82) +|.|+||+||||++..++... ...|++..+-..+.... . + ....+ ...+.+.+.+...+.+.+|| T Consensus 98 lI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e-~~~~~I~~~i~~~~~~~vVI 176 (454) T TIGR00416 98 LIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSE-TNWEQICANIEEENPQACVI 176 (454) T ss_pred EEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCC-CCHHHHHHHHHhcCCcEEEE Confidence 478999999999999887533 35577775544433211 1 0 01111 11233444555445667899 Q ss_pred eCC Q 035937 67 NGF 69 (82) Q Consensus 67 dg~ 69 (82) |.+ T Consensus 177 DSI 179 (454) T TIGR00416 177 DSI 179 (454) T ss_pred ecc Confidence 964 No 357 >TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation. Probab=97.82 E-value=9.1e-05 Score=48.44 Aligned_cols=76 Identities=16% Similarity=0.222 Sum_probs=41.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhC----CceeehHHHHHHHHhhC------CC-cCCHHHHHHHHHHHHhcCCCCeEEEeCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG----LTHLSAGDLLRREIASN------RK-IVPSEVTISLIRKEIESSDNHKFLINGF 69 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~----~~~i~~~~~~~~~~~~~------~~-~~~~~~~~~~l~~~i~~~~~~~~iidg~ 69 (82) +|+||+||||||+.+.+..... ...+...|-+....... .+ ........+.+...+.. ...+|+=|. T Consensus 126 li~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~--~pd~i~vgE 203 (343) T TIGR01420 126 LVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALRE--DPDVILIGE 203 (343) T ss_pred EEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhcc--CCCEEEEeC Confidence 5899999999999999886543 34555555433221110 00 00111234556666654 233555566 Q ss_pred CCCHHHHHH Q 035937 70 PRSEENRAA 78 (82) Q Consensus 70 p~~~~~~~~ 78 (82) ++..+-+.. T Consensus 204 ird~~~~~~ 212 (343) T TIGR01420 204 MRDLETVEL 212 (343) T ss_pred CCCHHHHHH Confidence 687665543 No 358 >cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring. Probab=97.81 E-value=1.5e-05 Score=48.40 Aligned_cols=20 Identities=40% Similarity=0.448 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 32 i~G~nGsGKSTLl~~l~G~~ 51 (214) T cd03292 32 LVGPSGAGKSTLLKLIYKEE 51 (214) T ss_pred EECCCCCCHHHHHHHHhcCC Confidence 78999999999999998543 No 359 >PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D .... Probab=97.81 E-value=1.2e-05 Score=45.48 Aligned_cols=21 Identities=29% Similarity=0.384 Sum_probs=18.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) .|+|++||||||+.+.|+..+ T Consensus 15 ~i~G~nGsGKStLl~~l~g~~ 35 (137) T PF00005_consen 15 AIVGPNGSGKSTLLKALAGLL 35 (137) T ss_dssp EEEESTTSSHHHHHHHHTTSS T ss_pred EEEccCCCccccceeeecccc Confidence 379999999999999998544 No 360 >cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.81 E-value=1.5e-05 Score=49.16 Aligned_cols=19 Identities=42% Similarity=0.454 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~G~ 49 (235) T cd03261 31 IIGPSGSGKSTLLRLIVGL 49 (235) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 361 >PRK15455 PrkA family serine protein kinase; Provisional Probab=97.81 E-value=1.2e-05 Score=55.94 Aligned_cols=22 Identities=23% Similarity=0.367 Sum_probs=19.3 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|.||||+||||+++.|++.+. T Consensus 107 ~LvGPpG~GKSsLa~~la~~le 128 (644) T PRK15455 107 YLLGPVGGGKSSLAERLKSLME 128 (644) T ss_pred EEecCCCCCchHHHHHHHHHHH Confidence 4899999999999999997553 No 362 >cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB. Probab=97.81 E-value=0.00017 Score=44.06 Aligned_cols=19 Identities=32% Similarity=0.557 Sum_probs=16.9 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|+||+|||+++..++.. T Consensus 24 I~G~~GsGKT~l~~~ia~~ 42 (226) T cd01393 24 IFGEFGSGKTQLCLQLAVE 42 (226) T ss_pred EeCCCCCChhHHHHHHHHH Confidence 7899999999999998743 No 363 >cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.81 E-value=1.6e-05 Score=48.25 Aligned_cols=19 Identities=37% Similarity=0.424 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~G~ 49 (210) T cd03269 31 LLGPNGAGKTTTIRMILGI 49 (210) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7999999999999999843 No 364 >PRK14969 DNA polymerase III subunits gamma and tau; Provisional Probab=97.80 E-value=1.6e-05 Score=54.64 Aligned_cols=23 Identities=26% Similarity=0.468 Sum_probs=21.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+||||+||||+|+.+++.++. T Consensus 42 Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527) T PRK14969 42 LFTGTRGVGKTTLARILAKSLNC 64 (527) T ss_pred EEECCCCCCHHHHHHHHHHHhcC Confidence 58999999999999999998875 No 365 >TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein. Probab=97.80 E-value=1.6e-05 Score=48.32 Aligned_cols=19 Identities=32% Similarity=0.440 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 33 l~G~nGsGKSTLl~~i~Gl 51 (214) T TIGR02673 33 LTGPSGAGKTTLLKLLYGA 51 (214) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 366 >KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones] Probab=97.80 E-value=2.6e-05 Score=52.69 Aligned_cols=29 Identities=21% Similarity=0.345 Sum_probs=26.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~ 29 (82) +++||.|||||.+|+.||+-+++++.-.| T Consensus 230 LllGPtGsGKTllaqTLAr~ldVPfaIcD 258 (564) T KOG0745|consen 230 LLLGPTGSGKTLLAQTLARVLDVPFAICD 258 (564) T ss_pred EEECCCCCchhHHHHHHHHHhCCCeEEec Confidence 58999999999999999999998887664 No 367 >PRK13695 putative NTPase; Provisional Probab=97.80 E-value=1.8e-05 Score=46.86 Aligned_cols=21 Identities=38% Similarity=0.553 Sum_probs=18.2 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+|||||||+++.++..+ T Consensus 4 ~ltG~~G~GKTTll~~i~~~l 24 (174) T PRK13695 4 GITGPPGVGKTTLVLKIAELL 24 (174) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 489999999999999987554 No 368 >cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.80 E-value=1.6e-05 Score=48.23 Aligned_cols=19 Identities=32% Similarity=0.354 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 30 i~G~nGsGKSTLl~~l~Gl 48 (211) T cd03264 30 LLGPNGAGKTTLMRILATL 48 (211) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 369 >COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism] Probab=97.80 E-value=1.6e-05 Score=50.29 Aligned_cols=31 Identities=29% Similarity=0.361 Sum_probs=23.0 Q ss_pred eecCCCCCHHHHHHHHHHHh----CCceeehHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKNF----GLTHLSAGDLL 32 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~----~~~~i~~~~~~ 32 (82) |.||+||||||+.+.++.-+ |-.+++-.++. T Consensus 33 iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~ 67 (258) T COG1120 33 ILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIA 67 (258) T ss_pred EECCCCCCHHHHHHHHhccCCCCCCEEEECCCchh Confidence 78999999999999998644 34555554443 No 370 >TIGR01223 Pmev_kin_anim phosphomevalonate kinase, animal type. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found. One is this type, found in animals. The other is the ERG8 type, found in plants and fungi (TIGR01219) and in Gram-positive bacteria (TIGR01220). Probab=97.80 E-value=0.00033 Score=42.19 Aligned_cols=80 Identities=19% Similarity=0.268 Sum_probs=52.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC---ceeehHHHHHHHHhhC--------------CCcCCHHHHHH-----------HH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL---THLSAGDLLRREIASN--------------RKIVPSEVTIS-----------LI 52 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~---~~i~~~~~~~~~~~~~--------------~~~~~~~~~~~-----------~l 52 (82) +|+|..+|||-|++..|.++++. ..+++++.+....... .+..+.++..- .+ T Consensus 3 lisGKrksGKD~~a~~l~~~l~~~~~~~vriS~piK~~~A~~~gld~~~Ll~d~~YKE~~R~~mi~w~e~~r~~dp~~F~ 82 (182) T TIGR01223 3 LFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQEHGLNFQRLLDTSTYKEAFRKDMIRWGEEKRQADPGFFC 82 (182) T ss_pred EEecCCCCChHHHHHHHHHhhccccceEEEecHHHHHHHHHHhChhHHHhcCCcccchhhhHHHHHHHHHHHhhCccHHH Confidence 58999999999999999988874 3688888887766532 11111111100 11 Q ss_pred HHHHhcCCCCeEEEeCCCCCHHHHHHHHh Q 035937 53 RKEIESSDNHKFLINGFPRSEENRAAFER 81 (82) Q Consensus 53 ~~~i~~~~~~~~iidg~p~~~~~~~~~~~ 81 (82) +......+...|||++. |...++++|++ T Consensus 83 r~~~~~~~~~v~iIsD~-Rr~~dv~~f~~ 110 (182) T TIGR01223 83 RKIVEGISQPIWLVSDT-RRVSDIQWFRE 110 (182) T ss_pred HHHHhccCCCEEEEeCC-CcccHHHHHHH Confidence 11222223568999999 88899998875 No 371 >cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid Probab=97.80 E-value=1.4e-05 Score=48.55 Aligned_cols=18 Identities=33% Similarity=0.392 Sum_probs=16.7 Q ss_pred CeecCCCCCHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIV 18 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~ 18 (82) +|+||+||||||+.+.++ T Consensus 29 ~ltGpNg~GKSTllr~i~ 46 (199) T cd03283 29 LITGSNMSGKSTFLRTIG 46 (199) T ss_pred EEECCCCCChHHHHHHHH Confidence 489999999999999997 No 372 >cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages. Probab=97.79 E-value=1.7e-05 Score=48.43 Aligned_cols=19 Identities=32% Similarity=0.438 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 33 i~G~nGsGKSTLl~~l~Gl 51 (220) T cd03263 33 LLGHNGAGKTTTLKMLTGE 51 (220) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 373 >cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems. Probab=97.79 E-value=1.7e-05 Score=48.03 Aligned_cols=19 Identities=32% Similarity=0.434 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+||+||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~Gl 49 (205) T cd03226 31 LTGKNGAGKTTLAKILAGL 49 (205) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 374 >cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.79 E-value=1.7e-05 Score=48.47 Aligned_cols=19 Identities=37% Similarity=0.394 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 35 i~G~nGsGKSTLl~~l~Gl 53 (220) T cd03293 35 LVGPSGCGKSTLLRIIAGL 53 (220) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 375 >PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process Probab=97.79 E-value=1.5e-05 Score=46.37 Aligned_cols=19 Identities=42% Similarity=0.525 Sum_probs=17.1 Q ss_pred CeecCCCCCHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~ 19 (82) +|+|++|||||||++.|.. T Consensus 5 mliG~~g~GKTTL~q~L~~ 23 (143) T PF10662_consen 5 MLIGPSGSGKTTLAQALNG 23 (143) T ss_pred EEECCCCCCHHHHHHHHcC Confidence 4799999999999999974 No 376 >cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.79 E-value=1.8e-05 Score=48.13 Aligned_cols=19 Identities=37% Similarity=0.349 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~G~ 49 (213) T cd03259 31 LLGPSGCGKTTLLRLIAGL 49 (213) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 377 >KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair] Probab=97.78 E-value=1.9e-05 Score=51.18 Aligned_cols=28 Identities=21% Similarity=0.472 Sum_probs=23.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeeh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSA 28 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~ 28 (82) ++.||||+|||+.|..+|+.++.+..-- T Consensus 61 LFyGPpGTGKTStalafar~L~~~~~~~ 88 (346) T KOG0989|consen 61 LFYGPPGTGKTSTALAFARALNCEQLFP 88 (346) T ss_pred EeeCCCCCcHhHHHHHHHHHhcCccccc Confidence 5789999999999999998877644433 No 378 >cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.78 E-value=1.8e-05 Score=48.72 Aligned_cols=20 Identities=30% Similarity=0.260 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 36 l~G~nGsGKSTLl~~l~G~~ 55 (233) T cd03258 36 IIGRSGAGKSTLIRCINGLE 55 (233) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 379 >PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A. Probab=97.78 E-value=2.2e-05 Score=44.61 Aligned_cols=24 Identities=33% Similarity=0.627 Sum_probs=20.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) ++.|+-||||||+++.+++.+|.. T Consensus 19 ~L~GdLGaGKTtf~r~l~~~lg~~ 42 (123) T PF02367_consen 19 LLSGDLGAGKTTFVRGLARALGID 42 (123) T ss_dssp EEEESTTSSHHHHHHHHHHHTT-- T ss_pred EEECCCCCCHHHHHHHHHHHcCCC Confidence 478999999999999999988754 No 380 >cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.78 E-value=1.9e-05 Score=48.28 Aligned_cols=19 Identities=32% Similarity=0.394 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 31 i~G~nGsGKSTLl~~i~G~ 49 (220) T cd03265 31 LLGPNGAGKTTTIKMLTTL 49 (220) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 381 >cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed. Probab=97.77 E-value=1.9e-05 Score=47.95 Aligned_cols=19 Identities=37% Similarity=0.389 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~G~ 49 (213) T cd03301 31 LLGPSGCGKTTTLRMIAGL 49 (213) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 382 >TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates. Probab=97.77 E-value=1.9e-05 Score=48.90 Aligned_cols=19 Identities=32% Similarity=0.391 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 33 l~G~nGsGKSTLl~~l~Gl 51 (243) T TIGR02315 33 IIGPSGAGKSTLLRCINRL 51 (243) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999844 No 383 >PRK10787 DNA-binding ATP-dependent protease La; Provisional Probab=97.77 E-value=2e-05 Score=56.35 Aligned_cols=26 Identities=35% Similarity=0.461 Sum_probs=22.8 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCcee Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHL 26 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i 26 (82) +|.||||+||||+++.+++.++..++ T Consensus 353 ~l~GppG~GKTtl~~~ia~~l~~~~~ 378 (784) T PRK10787 353 CLVGPPGVGKTSLGQSIAKATGRKYV 378 (784) T ss_pred EEECCCCCCHHHHHHHHHHHhCCCEE Confidence 47999999999999999998886653 No 384 >cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules. Probab=97.77 E-value=3.8e-05 Score=50.85 Aligned_cols=30 Identities=23% Similarity=0.485 Sum_probs=22.5 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~ 30 (82) +|.|+||+||||++.+++... ...+++..+ T Consensus 86 LI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EE 120 (372) T cd01121 86 LIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEE 120 (372) T ss_pred EEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCc Confidence 478999999999999888543 355666543 No 385 >cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.77 E-value=1.9e-05 Score=48.77 Aligned_cols=19 Identities=32% Similarity=0.324 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+++.|+.. T Consensus 32 i~G~nGsGKSTLl~~l~Gl 50 (241) T cd03256 32 LIGPSGAGKSTLLRCLNGL 50 (241) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 386 >cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. Probab=97.77 E-value=1.8e-05 Score=48.30 Aligned_cols=19 Identities=37% Similarity=0.424 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~Gl 49 (222) T cd03224 31 LLGRNGAGKTTLLKTIMGL 49 (222) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 387 >COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms] Probab=97.77 E-value=0.00012 Score=45.94 Aligned_cols=30 Identities=20% Similarity=0.389 Sum_probs=22.5 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~~~ 30 (82) +|.|+||||||+++.+++.+ ....++++++ T Consensus 27 lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e 61 (260) T COG0467 27 LITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE 61 (260) T ss_pred EEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC Confidence 58999999999999888732 2366676643 No 388 >PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity Probab=97.77 E-value=2e-05 Score=48.22 Aligned_cols=21 Identities=43% Similarity=0.683 Sum_probs=18.7 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.|+|||||||..+.+.+.. T Consensus 2 vv~G~pGsGKSt~i~~~~~~~ 22 (234) T PF01443_consen 2 VVHGVPGSGKSTLIKKLLKDR 22 (234) T ss_pred EEEcCCCCCHHHHHHHHHHhc Confidence 478999999999999998774 No 389 >TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins. Probab=97.77 E-value=0.00011 Score=53.01 Aligned_cols=21 Identities=29% Similarity=0.552 Sum_probs=19.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+||||+|||++++.|+.+. T Consensus 198 lL~G~pGvGKT~l~~~la~~i 218 (852) T TIGR03346 198 VLIGEPGVGKTAIVEGLAQRI 218 (852) T ss_pred EEEcCCCCCHHHHHHHHHHHH Confidence 589999999999999999874 No 390 >TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins. Probab=97.77 E-value=2e-05 Score=47.60 Aligned_cols=20 Identities=35% Similarity=0.263 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+-.+ T Consensus 29 i~G~nGsGKSTLl~~l~G~~ 48 (206) T TIGR03608 29 IIGESGSGKSTLLNIIGLLE 48 (206) T ss_pred EECCCCCCHHHHHHHHhcCC Confidence 78999999999999998543 No 391 >COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism] Probab=97.77 E-value=2e-05 Score=49.52 Aligned_cols=17 Identities=35% Similarity=0.475 Sum_probs=16.2 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |.||+||||||+.+.+| T Consensus 34 ilGpSGcGKSTLLriiA 50 (248) T COG1116 34 ILGPSGCGKSTLLRLIA 50 (248) T ss_pred EECCCCCCHHHHHHHHh Confidence 78999999999999998 No 392 >cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.77 E-value=1.9e-05 Score=48.85 Aligned_cols=19 Identities=42% Similarity=0.385 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+-. T Consensus 33 i~G~nGsGKSTLl~~l~Gl 51 (239) T cd03296 33 LLGPSGSGKTTLLRLIAGL 51 (239) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 393 >cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.76 E-value=2.1e-05 Score=46.75 Aligned_cols=19 Identities=42% Similarity=0.399 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~G~ 49 (178) T cd03229 31 LLGPSGSGKSTLLRCIAGL 49 (178) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999844 No 394 >cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). Probab=97.76 E-value=1.8e-05 Score=48.77 Aligned_cols=19 Identities=37% Similarity=0.352 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~Gl 49 (236) T cd03219 31 LIGPNGAGKTTLFNLISGF 49 (236) T ss_pred EECCCCCCHHHHHHHHcCC Confidence 7899999999999999843 No 395 >TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236). Probab=97.76 E-value=2.2e-05 Score=47.61 Aligned_cols=30 Identities=27% Similarity=0.462 Sum_probs=23.0 Q ss_pred CeecCCCCCHHHHHHHHHHH---h--CCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN---F--GLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~--~~~~i~~~~ 30 (82) .|+|+||||||++|..++.. . ...+++... T Consensus 16 ~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209) T TIGR02237 16 QIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209) T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC Confidence 47999999999999998843 2 366777754 No 396 >PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional Probab=97.76 E-value=2.1e-05 Score=48.55 Aligned_cols=19 Identities=32% Similarity=0.363 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 40 l~G~nGsGKSTLl~~l~Gl 58 (233) T PRK11629 40 IVGSSGSGKSTLLHLLGGL 58 (233) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 397 >TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina. Probab=97.76 E-value=2.1e-05 Score=48.04 Aligned_cols=19 Identities=32% Similarity=0.363 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 36 i~G~nGsGKSTLl~~i~G~ 54 (221) T TIGR02211 36 IVGSSGSGKSTLLHLLGGL 54 (221) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 398 >cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM Probab=97.76 E-value=2.1e-05 Score=47.71 Aligned_cols=19 Identities=37% Similarity=0.326 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 31 l~G~nGsGKSTLl~~l~G~ 49 (213) T cd03262 31 IIGPSGSGKSTLLRCINLL 49 (213) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 399 >cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD). Probab=97.76 E-value=2.2e-05 Score=48.21 Aligned_cols=20 Identities=30% Similarity=0.315 Sum_probs=18.1 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+-.+ T Consensus 31 i~G~nGsGKSTLl~~i~G~~ 50 (227) T cd03260 31 LIGPSGCGKSTLLRLLNRLN 50 (227) T ss_pred EECCCCCCHHHHHHHHHhhc Confidence 78999999999999998655 No 400 >TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA. Probab=97.75 E-value=6.5e-05 Score=48.44 Aligned_cols=22 Identities=41% Similarity=0.665 Sum_probs=19.0 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+|++||||||+.+.|...+. T Consensus 148 li~G~tGsGKTTll~al~~~~~ 169 (308) T TIGR02788 148 IISGGTGSGKTTFLKSLVDEIP 169 (308) T ss_pred EEECCCCCCHHHHHHHHHccCC Confidence 4899999999999999986653 No 401 >PRK09435 membrane ATPase/protein kinase; Provisional Probab=97.75 E-value=2.5e-05 Score=51.00 Aligned_cols=20 Identities=30% Similarity=0.511 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|+|||||||++..|...+ T Consensus 61 i~G~~GaGKSTl~~~l~~~l 80 (332) T PRK09435 61 ITGVPGVGKSTFIEALGMHL 80 (332) T ss_pred EECCCCCCHHHHHHHHHHHH Confidence 78999999999999887543 No 402 >TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins. Probab=97.75 E-value=8.5e-05 Score=53.65 Aligned_cols=33 Identities=12% Similarity=0.369 Sum_probs=26.0 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLR 33 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~ 33 (82) +|.||||+|||++|+.|++.+ .+..++++++.. T Consensus 599 Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~ 636 (852) T TIGR03346 599 LFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYME 636 (852) T ss_pred EEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcc Confidence 489999999999999999765 366677765543 No 403 >cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates. Probab=97.75 E-value=1.9e-05 Score=48.01 Aligned_cols=19 Identities=32% Similarity=0.433 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 30 l~G~nGsGKSTLl~~l~G~ 48 (213) T cd03235 30 IVGPNGAGKSTLLKAILGL 48 (213) T ss_pred EECCCCCCHHHHHHHHcCC Confidence 7899999999999999854 No 404 >PRK10463 hydrogenase nickel incorporation protein HypB; Provisional Probab=97.74 E-value=2.6e-05 Score=50.07 Aligned_cols=20 Identities=40% Similarity=0.569 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|+|||||||+.+.+.+.+ T Consensus 109 l~G~pGsGKTTLl~~l~~~l 128 (290) T PRK10463 109 LVSSPGSGKTTLLTETLMRL 128 (290) T ss_pred EECCCCCCHHHHHHHHHHHh Confidence 78999999999998888664 No 405 >PRK12727 flagellar biosynthesis regulator FlhF; Provisional Probab=97.74 E-value=0.00013 Score=50.48 Aligned_cols=19 Identities=37% Similarity=0.604 Sum_probs=17.0 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++|+||||++..|+.. T Consensus 355 LVGPtGvGKTTtaakLAa~ 373 (559) T PRK12727 355 LVGPTGAGKTTTIAKLAQR 373 (559) T ss_pred EECCCCCCHHHHHHHHHHH Confidence 7899999999999999854 No 406 >KOG1533 consensus Predicted GTPase [General function prediction only] Probab=97.74 E-value=1.3e-05 Score=50.37 Aligned_cols=19 Identities=42% Similarity=0.840 Sum_probs=15.9 Q ss_pred CeecCCCCCHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~ 19 (82) +++|||||||||-+....+ T Consensus 6 vVIGPPgSGKsTYc~g~~~ 24 (290) T KOG1533|consen 6 VVIGPPGSGKSTYCNGMSQ 24 (290) T ss_pred EEEcCCCCCccchhhhHHH Confidence 4899999999998876654 No 407 >PRK13541 cytochrome c biogenesis protein CcmA; Provisional Probab=97.74 E-value=2.4e-05 Score=47.13 Aligned_cols=19 Identities=26% Similarity=0.405 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~G~ 49 (195) T PRK13541 31 IKGANGCGKSSLLRMIAGI 49 (195) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 408 >PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional Probab=97.74 E-value=2.3e-05 Score=47.97 Aligned_cols=18 Identities=33% Similarity=0.494 Sum_probs=16.8 Q ss_pred eecCCCCCHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~ 19 (82) |.|++||||||+.+.|+. T Consensus 18 l~G~NGsGKSTLlk~i~G 35 (213) T PRK15177 18 ILAAPGSGKTTLTRLLCG 35 (213) T ss_pred EECCCCCCHHHHHHHHhC Confidence 789999999999999984 No 409 >cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear. Probab=97.74 E-value=2.4e-05 Score=47.74 Aligned_cols=29 Identities=17% Similarity=0.351 Sum_probs=22.3 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~ 29 (82) +|.|+|||||||+|..++... ...+++.+ T Consensus 23 ~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e 56 (218) T cd01394 23 QVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTE 56 (218) T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECC Confidence 479999999999999998543 35567554 No 410 >PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional Probab=97.74 E-value=2.3e-05 Score=51.91 Aligned_cols=20 Identities=35% Similarity=0.499 Sum_probs=17.8 Q ss_pred CeecCCCCCHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~ 20 (82) +|+||+|+||||++..|+.. T Consensus 141 ~lvGptGvGKTTtiakLA~~ 160 (374) T PRK14722 141 ALMGPTGVGKTTTTAKLAAR 160 (374) T ss_pred EEECCCCCCHHHHHHHHHHH Confidence 47999999999999999864 No 411 >cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium. Probab=97.73 E-value=2.4e-05 Score=48.10 Aligned_cols=19 Identities=42% Similarity=0.424 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~Gl 49 (232) T cd03218 31 LLGPNGAGKTTTFYMIVGL 49 (232) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 412 >TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel. Probab=97.73 E-value=3.1e-05 Score=47.10 Aligned_cols=20 Identities=25% Similarity=0.471 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.+.+.+ T Consensus 6 i~G~~GsGKTTll~~l~~~l 25 (199) T TIGR00101 6 VAGPVGSGKTALIEALTRAL 25 (199) T ss_pred EECCCCCCHHHHHHHHHHhh Confidence 78999999999999888764 No 413 >cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology. Probab=97.73 E-value=2.3e-05 Score=47.01 Aligned_cols=19 Identities=26% Similarity=0.448 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 30 l~G~nGsGKSTLl~~l~Gl 48 (177) T cd03222 30 IVGPNGTGKTTAVKILAGQ 48 (177) T ss_pred EECCCCChHHHHHHHHHcC Confidence 7899999999999999843 No 414 >PRK00440 rfc replication factor C small subunit; Reviewed Probab=97.73 E-value=2.5e-05 Score=49.79 Aligned_cols=21 Identities=29% Similarity=0.713 Sum_probs=19.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+|+||+||||+++.+++.. T Consensus 42 ll~G~~G~GKt~~~~~l~~~l 62 (319) T PRK00440 42 LFAGPPGTGKTTAALALAREL 62 (319) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999999775 No 415 >TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification. Probab=97.73 E-value=2.5e-05 Score=48.25 Aligned_cols=19 Identities=32% Similarity=0.455 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 32 i~G~nGsGKSTLl~~l~G~ 50 (236) T TIGR03864 32 LLGPNGAGKSTLFSLLTRL 50 (236) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 416 >TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA. Probab=97.73 E-value=2.4e-05 Score=48.37 Aligned_cols=19 Identities=37% Similarity=0.525 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~Gl 49 (243) T TIGR01978 31 IMGPNGSGKSTLSKTIAGH 49 (243) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999864 No 417 >cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF. Probab=97.72 E-value=2.4e-05 Score=47.88 Aligned_cols=19 Identities=42% Similarity=0.539 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 36 i~G~nGsGKSTLl~~l~G~ 54 (228) T cd03257 36 LVGESGSGKSTLARAILGL 54 (228) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 418 >TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Probab=97.72 E-value=2.4e-05 Score=48.08 Aligned_cols=19 Identities=26% Similarity=0.328 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 l~G~nGsGKSTLl~~l~G~ 49 (230) T TIGR03410 31 VLGRNGVGKTTLLKTLMGL 49 (230) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999844 No 419 >TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA. Probab=97.72 E-value=2.8e-05 Score=50.06 Aligned_cols=75 Identities=20% Similarity=0.223 Sum_probs=41.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHHHHhh-C------CCcCCHHHHHHHHHHHHhcCCCCeEEEeC Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRREIAS-N------RKIVPSEVTISLIRKEIESSDNHKFLING 68 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~~~~~-~------~~~~~~~~~~~~l~~~i~~~~~~~~iidg 68 (82) +|+|++||||||+++.|.+.. +...+.+.|...-.... + .... ..+.++++..++... .+|+=| T Consensus 136 lI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~--~~~~~~l~~aLR~~p--D~iivG 211 (299) T TIGR02782 136 LVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDA--ISMTRLLKATLRLRP--DRIIVG 211 (299) T ss_pred EEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCC--CCHHHHHHHHhcCCC--CEEEEe Confidence 589999999999999998764 34455555533221111 1 1111 134556666665432 244445 Q ss_pred CCCCHHHHHHH Q 035937 69 FPRSEENRAAF 79 (82) Q Consensus 69 ~p~~~~~~~~~ 79 (82) .-|..+-.+.| T Consensus 212 EiR~~ea~~~l 222 (299) T TIGR02782 212 EVRGGEALDLL 222 (299) T ss_pred ccCCHHHHHHH Confidence 54665444433 No 420 >PRK09519 recA DNA recombination protein RecA; Reviewed Probab=97.72 E-value=0.00014 Score=52.19 Aligned_cols=69 Identities=20% Similarity=0.183 Sum_probs=44.4 Q ss_pred CeecCCCCCHHHHHHHHHHH---h--CCceeehHHHHHHHHhhC----------CCcCCHHHHHHHHHHHHhcCCCCeEE Q 035937 1 MLSGGPGSGKGTQCTKIVKN---F--GLTHLSAGDLLRREIASN----------RKIVPSEVTISLIRKEIESSDNHKFL 65 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~---~--~~~~i~~~~~~~~~~~~~----------~~~~~~~~~~~~l~~~i~~~~~~~~i 65 (82) .|.|+|||||||+|..++.. . ...+++..+-++....+. ....+.+....++...+++..-+.+| T Consensus 64 eI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~~~~~LVV 143 (790) T PRK09519 64 EIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVV 143 (790) T ss_pred EEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhcCCCeEEE Confidence 37899999999999776532 2 367888877666433222 22334455556666666554466799 Q ss_pred EeCC Q 035937 66 INGF 69 (82) Q Consensus 66 idg~ 69 (82) ||+. T Consensus 144 IDSI 147 (790) T PRK09519 144 IDSV 147 (790) T ss_pred Ecch Confidence 9974 No 421 >PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional Probab=97.72 E-value=2.6e-05 Score=47.96 Aligned_cols=19 Identities=26% Similarity=0.427 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 38 i~G~nGsGKSTLl~~l~G~ 56 (225) T PRK10247 38 ITGPSGCGKSTLLKIVASL 56 (225) T ss_pred EECCCCCCHHHHHHHHhcc Confidence 7899999999999999843 No 422 >PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional Probab=97.72 E-value=3.1e-05 Score=46.40 Aligned_cols=20 Identities=25% Similarity=0.456 Sum_probs=17.6 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+++.|...+ T Consensus 11 ivG~sgsGKTTLi~~li~~l 30 (173) T PRK10751 11 IAAWSGTGKTTLLKKLIPAL 30 (173) T ss_pred EECCCCChHHHHHHHHHHHH Confidence 78999999999999988554 No 423 >COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only] Probab=97.71 E-value=2.4e-05 Score=47.18 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=17.3 Q ss_pred CeecCCCCCHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~ 19 (82) .|+||+||||||+.+.+|. T Consensus 33 aitGPSG~GKStllk~va~ 51 (223) T COG4619 33 AITGPSGCGKSTLLKIVAS 51 (223) T ss_pred EEeCCCCccHHHHHHHHHh Confidence 3799999999999999984 No 424 >PRK11248 tauB taurine transporter ATP-binding subunit; Provisional Probab=97.71 E-value=2.7e-05 Score=48.85 Aligned_cols=19 Identities=32% Similarity=0.321 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 32 i~G~nGsGKSTLl~~l~Gl 50 (255) T PRK11248 32 VLGPSGCGKTTLLNLIAGF 50 (255) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 425 >cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.71 E-value=2.8e-05 Score=47.37 Aligned_cols=20 Identities=30% Similarity=0.300 Sum_probs=17.6 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 28 i~G~nGsGKSTLl~~l~G~~ 47 (214) T cd03297 28 IFGASGAGKSTLLRCIAGLE 47 (214) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 426 >cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein. Probab=97.71 E-value=2.8e-05 Score=47.13 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~Gl 49 (208) T cd03268 31 FLGPNGAGKTTTMKIILGL 49 (208) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 427 >PRK11823 DNA repair protein RadA; Provisional Probab=97.71 E-value=5.1e-05 Score=51.28 Aligned_cols=34 Identities=21% Similarity=0.409 Sum_probs=25.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh-----CCceeehHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNF-----GLTHLSAGDLLRR 34 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~-----~~~~i~~~~~~~~ 34 (82) +|.|+||+||||++.+++... ...|++..+-..+ T Consensus 84 lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~q 122 (446) T PRK11823 84 LIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQ 122 (446) T ss_pred EEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHH Confidence 479999999999999988543 3567776554443 No 428 >PRK11124 artP arginine transporter ATP-binding subunit; Provisional Probab=97.71 E-value=2.8e-05 Score=48.19 Aligned_cols=19 Identities=26% Similarity=0.303 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 33 i~G~nGsGKSTLl~~l~G~ 51 (242) T PRK11124 33 LLGPSGAGKSSLLRVLNLL 51 (242) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999844 No 429 >cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein. Probab=97.71 E-value=2.8e-05 Score=47.39 Aligned_cols=19 Identities=32% Similarity=0.363 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 36 i~G~nGsGKSTLl~~l~Gl 54 (218) T cd03266 36 LLGPNGAGKTTTLRMLAGL 54 (218) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 430 >TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. Probab=97.70 E-value=2.7e-05 Score=50.66 Aligned_cols=20 Identities=25% Similarity=0.506 Sum_probs=17.9 Q ss_pred CeecCCCCCHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~ 20 (82) +|+||||+|||++++.+++. T Consensus 44 ~I~G~~GtGKT~l~~~~~~~ 63 (365) T TIGR02928 44 FIYGKTGTGKTAVTKYVMKE 63 (365) T ss_pred EEECCCCCCHHHHHHHHHHH Confidence 48999999999999999864 No 431 >cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt Probab=97.70 E-value=3e-05 Score=45.75 Aligned_cols=19 Identities=21% Similarity=0.445 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+++.++.. T Consensus 32 i~G~nGsGKSTLl~~l~G~ 50 (166) T cd03223 32 ITGPSGTGKSSLFRALAGL 50 (166) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 432 >PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional Probab=97.70 E-value=2.9e-05 Score=47.67 Aligned_cols=20 Identities=35% Similarity=0.328 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 41 i~G~nGsGKSTLl~~i~Gl~ 60 (228) T PRK10584 41 LIGESGSGKSTLLAILAGLD 60 (228) T ss_pred EECCCCCCHHHHHHHHHcCC Confidence 78999999999999998543 No 433 >PRK14250 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.70 E-value=2.8e-05 Score=48.25 Aligned_cols=19 Identities=32% Similarity=0.429 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+++.|+.. T Consensus 34 i~G~nGsGKSTLl~~l~Gl 52 (241) T PRK14250 34 IVGPSGAGKSTLIKLINRL 52 (241) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 434 >PRK14242 phosphate transporter ATP-binding protein; Provisional Probab=97.70 E-value=2.9e-05 Score=48.40 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 37 i~G~nGsGKSTLl~~l~Gl 55 (253) T PRK14242 37 LIGPSGCGKSTFLRCLNRM 55 (253) T ss_pred EECCCCCCHHHHHHHHHhh Confidence 7899999999999999853 No 435 >cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.70 E-value=3e-05 Score=45.88 Aligned_cols=19 Identities=37% Similarity=0.385 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKStLl~~l~G~ 49 (173) T cd03230 31 LLGPNGAGKTTLIKIILGL 49 (173) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 436 >COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning] Probab=97.70 E-value=2.8e-05 Score=47.54 Aligned_cols=20 Identities=35% Similarity=0.509 Sum_probs=17.7 Q ss_pred CeecCCCCCHHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~ 20 (82) +++||+||||||+.+.|... T Consensus 32 fl~GpSGAGKSTllkLi~~~ 51 (223) T COG2884 32 FLTGPSGAGKSTLLKLIYGE 51 (223) T ss_pred EEECCCCCCHHHHHHHHHhh Confidence 58999999999999998744 No 437 >cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.70 E-value=2.9e-05 Score=47.79 Aligned_cols=20 Identities=40% Similarity=0.561 Sum_probs=17.6 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+++.|+-.+ T Consensus 33 i~G~nGsGKSTLl~~l~Gl~ 52 (234) T cd03251 33 LVGPSGSGKSTLVNLIPRFY 52 (234) T ss_pred EECCCCCCHHHHHHHHhccc Confidence 78999999999999998543 No 438 >PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional Probab=97.70 E-value=2.9e-05 Score=48.24 Aligned_cols=19 Identities=37% Similarity=0.300 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 34 i~G~nGsGKSTLl~~l~G~ 52 (250) T PRK11264 34 IIGPSGSGKTTLLRCINLL 52 (250) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 439 >PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A .... Probab=97.70 E-value=2.7e-05 Score=43.02 Aligned_cols=19 Identities=26% Similarity=0.435 Sum_probs=17.4 Q ss_pred CeecCCCCCHHHHHHHHHH Q 035937 1 MLSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~ 19 (82) +|.|+||+||||+.+.|.. T Consensus 3 ~iiG~~~~GKSTlin~l~~ 21 (116) T PF01926_consen 3 AIIGRPNVGKSTLINALTG 21 (116) T ss_dssp EEEESTTSSHHHHHHHHHT T ss_pred EEECCCCCCHHHHHHHHhc Confidence 4789999999999999985 No 440 >cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter. Probab=97.70 E-value=2.9e-05 Score=46.29 Aligned_cols=20 Identities=15% Similarity=0.214 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 31 i~G~nGsGKSTLl~~l~G~~ 50 (182) T cd03215 31 IAGLVGNGQTELAEALFGLR 50 (182) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 441 >cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism. Probab=97.70 E-value=3.1e-05 Score=46.01 Aligned_cols=20 Identities=35% Similarity=0.503 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 33 i~G~nGsGKStLl~~l~G~~ 52 (178) T cd03247 33 LLGRSGSGKSTLLQLLTGDL 52 (178) T ss_pred EECCCCCCHHHHHHHHhccC Confidence 78999999999999998543 No 442 >CHL00095 clpC Clp protease ATP binding subunit Probab=97.70 E-value=0.0001 Score=53.04 Aligned_cols=21 Identities=29% Similarity=0.574 Sum_probs=19.1 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|+||||+|||++++.||... T Consensus 204 lL~G~pGvGKTal~~~la~~i 224 (821) T CHL00095 204 ILIGEPGVGKTAIAEGLAQRI 224 (821) T ss_pred EEECCCCCCHHHHHHHHHHHH Confidence 589999999999999999765 No 443 >TIGR02770 nickel_nikD nickel import ATP-binding protein NikD. This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous. Probab=97.69 E-value=2.8e-05 Score=47.90 Aligned_cols=19 Identities=42% Similarity=0.674 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 17 i~G~nGsGKSTLl~~l~Gl 35 (230) T TIGR02770 17 LVGESGSGKSLTCLAILGL 35 (230) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 444 >PRK05896 DNA polymerase III subunits gamma and tau; Validated Probab=97.69 E-value=3.1e-05 Score=53.97 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=20.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) ++.||+|+||||+|+.+|+.+.. T Consensus 42 Lf~GP~GvGKTTlA~~lAk~L~C 64 (605) T PRK05896 42 IFSGPRGIGKTSIAKIFAKAINC 64 (605) T ss_pred EEECCCCCCHHHHHHHHHHHhcC Confidence 57999999999999999998764 No 445 >PRK14247 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.69 E-value=3e-05 Score=48.28 Aligned_cols=20 Identities=35% Similarity=0.401 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+-.+ T Consensus 34 i~G~nGsGKSTLl~~i~G~~ 53 (250) T PRK14247 34 LMGPSGSGKSTLLRVFNRLI 53 (250) T ss_pred EECCCCCCHHHHHHHHhccC Confidence 78999999999999998543 No 446 >PRK10744 pstB phosphate transporter ATP-binding protein; Provisional Probab=97.69 E-value=3e-05 Score=48.66 Aligned_cols=19 Identities=26% Similarity=0.371 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 44 i~G~nGsGKSTLl~~l~Gl 62 (260) T PRK10744 44 FIGPSGCGKSTLLRTFNRM 62 (260) T ss_pred EECCCCCCHHHHHHHHhcc Confidence 7999999999999999854 No 447 >PRK10908 cell division protein FtsE; Provisional Probab=97.69 E-value=3.1e-05 Score=47.41 Aligned_cols=20 Identities=35% Similarity=0.378 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+-.+ T Consensus 33 i~G~nGsGKSTLl~~l~G~~ 52 (222) T PRK10908 33 LTGHSGAGKSTLLKLICGIE 52 (222) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 448 >TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes. Probab=97.69 E-value=4.1e-05 Score=44.95 Aligned_cols=20 Identities=35% Similarity=0.518 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||++..|.+.+ T Consensus 4 i~G~~gsGKTtl~~~l~~~l 23 (155) T TIGR00176 4 IVGPKNSGKTTLIERLVKAL 23 (155) T ss_pred EECCCCCCHHHHHHHHHHHH Confidence 78999999999999998653 No 449 >cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.69 E-value=3.1e-05 Score=46.57 Aligned_cols=18 Identities=33% Similarity=0.459 Sum_probs=16.8 Q ss_pred eecCCCCCHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~ 19 (82) |+|++||||||+.+.|+- T Consensus 38 l~G~nGsGKSTLl~~l~G 55 (192) T cd03232 38 LMGESGAGKTTLLDVLAG 55 (192) T ss_pred EECCCCCCHHHHHHHHhC Confidence 789999999999999984 No 450 >PRK13764 ATPase; Provisional Probab=97.69 E-value=2.8e-05 Score=54.21 Aligned_cols=22 Identities=27% Similarity=0.696 Sum_probs=19.6 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|+|+|||||||+++.|++.+. T Consensus 261 LIsG~TGSGKTTll~AL~~~i~ 282 (602) T PRK13764 261 LIAGAPGAGKSTFAQALAEFYA 282 (602) T ss_pred EEECCCCCCHHHHHHHHHHHHh Confidence 5899999999999999997664 No 451 >TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase. Probab=97.68 E-value=3.2e-05 Score=47.73 Aligned_cols=19 Identities=37% Similarity=0.377 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 16 i~G~nGsGKSTLl~~l~Gl 34 (230) T TIGR01184 16 LIGHSGCGKSTLLNLISGL 34 (230) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 452 >PTZ00035 Rad51 protein; Provisional Probab=97.68 E-value=7.7e-05 Score=48.81 Aligned_cols=17 Identities=29% Similarity=0.489 Sum_probs=16.1 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |+|+||||||+++..++ T Consensus 123 I~G~~GsGKT~l~~~l~ 139 (337) T PTZ00035 123 LFGEFRTGKTQLCHTLC 139 (337) T ss_pred EECCCCCchhHHHHHHH Confidence 78999999999999987 No 453 >TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se. Probab=97.68 E-value=3.1e-05 Score=48.24 Aligned_cols=20 Identities=30% Similarity=0.444 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 34 i~G~nGsGKSTLl~~l~G~~ 53 (253) T TIGR02323 34 IVGESGSGKSTLLGCLAGRL 53 (253) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 454 >PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional Probab=97.68 E-value=4.5e-05 Score=49.24 Aligned_cols=29 Identities=14% Similarity=0.143 Sum_probs=25.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCceeehHH Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLTHLSAGD 30 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~~i~~~~ 30 (82) +|+||.|||||.+|-.||++. ...||.|. T Consensus 8 ~I~GpTasGKS~LAl~LA~~~-~eIIsaDS 36 (300) T PRK14729 8 FIFGPTAVGKSNILFHFPKGK-AEIINVDS 36 (300) T ss_pred EEECCCccCHHHHHHHHHHhC-CcEEeccH Confidence 489999999999999999994 47888764 No 455 >PRK14274 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.68 E-value=3.3e-05 Score=48.40 Aligned_cols=19 Identities=26% Similarity=0.328 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 43 l~G~nGsGKSTLl~~l~G~ 61 (259) T PRK14274 43 IIGPSGCGKSTFIKTLNLM 61 (259) T ss_pred EECCCCCCHHHHHHHHHhh Confidence 7899999999999999854 No 456 >PRK07994 DNA polymerase III subunits gamma and tau; Validated Probab=97.68 E-value=2.9e-05 Score=54.53 Aligned_cols=24 Identities=29% Similarity=0.446 Sum_probs=21.5 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT 24 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~ 24 (82) +|+|++|+||||+|+.+++.++.. T Consensus 42 Lf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647) T PRK07994 42 LFSGTRGVGKTTIARLLAKGLNCE 65 (647) T ss_pred EEECCCCCCHHHHHHHHHHhhhhc Confidence 589999999999999999988763 No 457 >cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology. Probab=97.68 E-value=3.3e-05 Score=48.36 Aligned_cols=19 Identities=26% Similarity=0.272 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 30 i~G~NGsGKSTLlk~L~G~ 48 (246) T cd03237 30 ILGPNGIGKTTFIKMLAGV 48 (246) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 458 >cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.67 E-value=3.6e-05 Score=45.51 Aligned_cols=20 Identities=30% Similarity=0.551 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.++-.+ T Consensus 33 l~G~nGsGKstLl~~i~G~~ 52 (171) T cd03228 33 IVGPSGSGKSTLLKLLLRLY 52 (171) T ss_pred EECCCCCCHHHHHHHHHcCC Confidence 78999999999999998543 No 459 >PLN02924 thymidylate kinase Probab=97.67 E-value=3.2e-05 Score=47.81 Aligned_cols=21 Identities=48% Similarity=0.662 Sum_probs=19.3 Q ss_pred eecCCCCCHHHHHHHHHHHhC Q 035937 2 LSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~ 22 (82) |.|..||||||+++.|++.+. T Consensus 21 iEGiDGsGKsTq~~~L~~~l~ 41 (220) T PLN02924 21 LEGLDRSGKSTQCAKLVSFLK 41 (220) T ss_pred EECCCCCCHHHHHHHHHHHHH Confidence 689999999999999998875 No 460 >cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.67 E-value=3.4e-05 Score=46.87 Aligned_cols=20 Identities=35% Similarity=0.335 Sum_probs=17.6 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 29 l~G~nGsGKSTLl~~l~gl~ 48 (211) T cd03298 29 IVGPSGSGKSTLLNLIAGFE 48 (211) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 461 >cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in Probab=97.67 E-value=3.3e-05 Score=47.44 Aligned_cols=20 Identities=35% Similarity=0.449 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 38 l~G~nGsGKSTLlk~l~G~~ 57 (226) T cd03234 38 ILGSSGSGKTTLLDAISGRV 57 (226) T ss_pred EECCCCCCHHHHHHHHhCcc Confidence 78999999999999998543 No 462 >cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases. Probab=97.67 E-value=3.3e-05 Score=46.25 Aligned_cols=17 Identities=35% Similarity=0.509 Sum_probs=15.9 Q ss_pred eecCCCCCHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIV 18 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~ 18 (82) |.||+||||||+.+.+. T Consensus 26 l~G~nG~GKSTLl~~il 42 (176) T cd03238 26 VTGVSGSGKSTLVNEGL 42 (176) T ss_pred EECCCCCCHHHHHHHHh Confidence 78999999999999885 No 463 >PRK14267 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.67 E-value=3.3e-05 Score=48.14 Aligned_cols=19 Identities=32% Similarity=0.399 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 35 l~G~nGsGKSTLl~~l~G~ 53 (253) T PRK14267 35 LMGPSGCGKSTLLRTFNRL 53 (253) T ss_pred EECCCCCCHHHHHHHHhcc Confidence 7899999999999999854 No 464 >cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.67 E-value=3.5e-05 Score=47.81 Aligned_cols=19 Identities=42% Similarity=0.473 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 32 i~G~nGsGKSTLl~~l~G~ 50 (242) T cd03295 32 LIGPSGSGKTTTMKMINRL 50 (242) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999844 No 465 >cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra Probab=97.67 E-value=3.7e-05 Score=45.52 Aligned_cols=20 Identities=35% Similarity=0.471 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 33 i~G~nGsGKStLl~~l~G~~ 52 (173) T cd03246 33 IIGPSGSGKSTLARLILGLL 52 (173) T ss_pred EECCCCCCHHHHHHHHHhcc Confidence 78999999999999998543 No 466 >PRK09302 circadian clock protein KaiC; Reviewed Probab=97.66 E-value=0.00021 Score=48.87 Aligned_cols=29 Identities=21% Similarity=0.295 Sum_probs=21.9 Q ss_pred CeecCCCCCHHHHHHHHHHH-----hCCceeehH Q 035937 1 MLSGGPGSGKGTQCTKIVKN-----FGLTHLSAG 29 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~-----~~~~~i~~~ 29 (82) +|.|+||+|||+++..++.. ....++++. T Consensus 277 li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e 310 (509) T PRK09302 277 LVSGATGTGKTLLASKFAEAACRRGERCLLFAFE 310 (509) T ss_pred EEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec Confidence 47899999999999888733 246666664 No 467 >PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed Probab=97.66 E-value=3.5e-05 Score=47.70 Aligned_cols=19 Identities=42% Similarity=0.419 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 32 l~G~nGsGKSTLl~~l~G~ 50 (240) T PRK09493 32 IIGPSGSGKSTLLRCINKL 50 (240) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 468 >PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional Probab=97.66 E-value=3.4e-05 Score=48.61 Aligned_cols=19 Identities=32% Similarity=0.455 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+||+||||||+.+.|+.. T Consensus 40 I~G~nGsGKSTLl~~i~Gl 58 (269) T PRK13648 40 IVGHNGSGKSTIAKLMIGI 58 (269) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999844 No 469 >TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex. Probab=97.66 E-value=0.00012 Score=49.99 Aligned_cols=20 Identities=30% Similarity=0.376 Sum_probs=18.2 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+++.|+.-+ T Consensus 366 IvG~SGsGKSTLl~lL~g~~ 385 (529) T TIGR02868 366 ILGPSGSGKSTLLMLLTGLL 385 (529) T ss_pred EECCCCCCHHHHHHHHhcCC Confidence 78999999999999998665 No 470 >TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein. Probab=97.66 E-value=6.1e-05 Score=52.67 Aligned_cols=37 Identities=19% Similarity=0.169 Sum_probs=27.7 Q ss_pred CeecCCCCCHHHHHHHHHHHhCCc-----------eeehHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGLT-----------HLSAGDLLRREIA 37 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~~-----------~i~~~~~~~~~~~ 37 (82) +++|+||+||||+++.+++.++-. ..+..++++.... T Consensus 41 ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~~~v~~ 88 (608) T TIGR00764 41 LLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRIVEVPA 88 (608) T ss_pred EEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHHHHHHH Confidence 479999999999999999887643 2334566666543 No 471 >cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.66 E-value=3.5e-05 Score=47.29 Aligned_cols=20 Identities=25% Similarity=0.511 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.||+||||||+.+.|+..+ T Consensus 34 i~G~nGsGKSTLl~~l~G~~ 53 (229) T cd03254 34 IVGPTGAGKTTLINLLMRFY 53 (229) T ss_pred EECCCCCCHHHHHHHHhcCc Confidence 78999999999999998543 No 472 >PRK13531 regulatory ATPase RavA; Provisional Probab=97.66 E-value=3.1e-05 Score=52.86 Aligned_cols=22 Identities=27% Similarity=0.430 Sum_probs=19.4 Q ss_pred CeecCCCCCHHHHHHHHHHHhC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG 22 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~ 22 (82) +|.||||+|||++|+.|++..+ T Consensus 43 LL~GpPGTGKT~LAraLa~~~~ 64 (498) T PRK13531 43 FLLGPPGIAKSLIARRLKFAFQ 64 (498) T ss_pred EEECCCChhHHHHHHHHHHHhc Confidence 5899999999999999997653 No 473 >PRK13538 cytochrome c biogenesis protein CcmA; Provisional Probab=97.66 E-value=3.5e-05 Score=46.67 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 32 l~G~nGsGKSTLl~~l~G~ 50 (204) T PRK13538 32 IEGPNGAGKTSLLRILAGL 50 (204) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 474 >PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional Probab=97.66 E-value=3.4e-05 Score=47.57 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 30 l~G~nGsGKSTLl~~l~Gl 48 (232) T PRK10771 30 ILGPSGAGKSTLLNLIAGF 48 (232) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999844 No 475 >cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions. Probab=97.66 E-value=3.4e-05 Score=44.58 Aligned_cols=20 Identities=35% Similarity=0.483 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+.+.|+..+ T Consensus 31 i~G~nGsGKStLl~~l~G~~ 50 (144) T cd03221 31 LVGRNGAGKSTLLKLIAGEL 50 (144) T ss_pred EECCCCCCHHHHHHHHcCCC Confidence 78999999999999998543 No 476 >cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another. Probab=97.66 E-value=3.5e-05 Score=47.61 Aligned_cols=19 Identities=32% Similarity=0.496 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 34 l~G~nGsGKSTLl~~i~G~ 52 (238) T cd03249 34 LVGSSGCGKSTVVSLLERF 52 (238) T ss_pred EEeCCCCCHHHHHHHHhcc Confidence 7899999999999999854 No 477 >PRK14241 phosphate transporter ATP-binding protein; Provisional Probab=97.66 E-value=3.5e-05 Score=48.22 Aligned_cols=19 Identities=26% Similarity=0.405 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 35 i~G~nGsGKSTLl~~laGl 53 (258) T PRK14241 35 FIGPSGCGKSTVLRTLNRM 53 (258) T ss_pred EECCCCCCHHHHHHHHhcc Confidence 7899999999999999853 No 478 >COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion] Probab=97.66 E-value=0.00011 Score=49.03 Aligned_cols=29 Identities=24% Similarity=0.426 Sum_probs=21.8 Q ss_pred eecCCCCCHHHHHHHHHHHhC-------CceeehHH Q 035937 2 LSGGPGSGKGTQCTKIVKNFG-------LTHLSAGD 30 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~~-------~~~i~~~~ 30 (82) |+||.|+||||..-.||.+|. +..+++|. T Consensus 208 LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt 243 (407) T COG1419 208 LVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT 243 (407) T ss_pred EECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc Confidence 789999999887777776654 56677743 No 479 >KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair] Probab=97.66 E-value=3.5e-05 Score=48.70 Aligned_cols=21 Identities=33% Similarity=0.681 Sum_probs=18.6 Q ss_pred CeecCCCCCHHHHHHHHHHHh Q 035937 1 MLSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~ 21 (82) +|.||||+||||.+..||..+ T Consensus 52 iisGpPG~GKTTsi~~LAr~L 72 (333) T KOG0991|consen 52 IISGPPGTGKTTSILCLAREL 72 (333) T ss_pred EeeCCCCCchhhHHHHHHHHH Confidence 579999999999999998754 No 480 >TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA. This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c. Probab=97.66 E-value=3.8e-05 Score=46.31 Aligned_cols=20 Identities=25% Similarity=0.315 Sum_probs=17.7 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 31 i~G~nGsGKSTLl~~l~G~~ 50 (198) T TIGR01189 31 VTGPNGIGKTTLLRILAGLL 50 (198) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 481 >TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein. Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins. Probab=97.66 E-value=3.5e-05 Score=48.03 Aligned_cols=19 Identities=37% Similarity=0.438 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 31 i~G~nGsGKSTLl~~l~G~ 49 (252) T TIGR03005 31 LIGPSGSGKSTILRILMTL 49 (252) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 482 >TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se. Probab=97.66 E-value=3.7e-05 Score=47.10 Aligned_cols=20 Identities=40% Similarity=0.655 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 39 l~G~nGsGKSTLl~~i~G~~ 58 (224) T TIGR02324 39 LSGPSGAGKSTLLKSLYANY 58 (224) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 483 >PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional Probab=97.65 E-value=3.7e-05 Score=47.61 Aligned_cols=19 Identities=37% Similarity=0.412 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 34 l~G~nGsGKSTLl~~l~G~ 52 (241) T PRK10895 34 LLGPNGAGKTTTFYMVVGI 52 (241) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 484 >cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2. Probab=97.65 E-value=3.6e-05 Score=47.40 Aligned_cols=19 Identities=32% Similarity=0.368 Sum_probs=17.1 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 53 i~G~nGsGKSTLl~~l~G~ 71 (224) T cd03220 53 LIGRNGAGKSTLLRLLAGI 71 (224) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999843 No 485 >COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism] Probab=97.65 E-value=3.8e-05 Score=49.58 Aligned_cols=20 Identities=30% Similarity=0.626 Sum_probs=18.1 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|+||+||||+...|...| T Consensus 56 ITG~PGaGKSTli~~L~~~l 75 (323) T COG1703 56 ITGVPGAGKSTLIEALGREL 75 (323) T ss_pred ecCCCCCchHHHHHHHHHHH Confidence 78999999999999998765 No 486 >cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane. Probab=97.65 E-value=3.7e-05 Score=46.91 Aligned_cols=19 Identities=32% Similarity=0.352 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.||+||||||+.+.|+.. T Consensus 35 i~G~nGsGKSTLl~~i~G~ 53 (220) T cd03245 35 IIGRVGSGKSTLLKLLAGL 53 (220) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 487 >PRK14255 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.65 E-value=3.7e-05 Score=47.91 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=16.9 Q ss_pred eecCCCCCHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~ 19 (82) |+|++||||||+++.|+. T Consensus 36 l~G~nGsGKSTLl~~l~G 53 (252) T PRK14255 36 LIGPSGCGKSTYLRTLNR 53 (252) T ss_pred EECCCCCCHHHHHHHHhc Confidence 789999999999999985 No 488 >PRK14951 DNA polymerase III subunits gamma and tau; Provisional Probab=97.65 E-value=3.8e-05 Score=53.74 Aligned_cols=23 Identities=26% Similarity=0.463 Sum_probs=21.1 Q ss_pred CeecCCCCCHHHHHHHHHHHhCC Q 035937 1 MLSGGPGSGKGTQCTKIVKNFGL 23 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~~ 23 (82) +|+|++|+||||+|+.+++.+++ T Consensus 42 Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618) T PRK14951 42 LFTGTRGVGKTTVSRILAKSLNC 64 (618) T ss_pred EEECCCCCCHHHHHHHHHHHhcC Confidence 58999999999999999998875 No 489 >PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional Probab=97.65 E-value=3.7e-05 Score=48.14 Aligned_cols=20 Identities=30% Similarity=0.479 Sum_probs=17.8 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |.|++||||||+++.|+..+ T Consensus 37 i~G~nGsGKSTLl~~l~Gl~ 56 (258) T PRK11701 37 IVGESGSGKTTLLNALSARL 56 (258) T ss_pred EECCCCCCHHHHHHHHhCCC Confidence 78999999999999998543 No 490 >COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription] Probab=97.65 E-value=4.3e-05 Score=46.58 Aligned_cols=31 Identities=26% Similarity=0.586 Sum_probs=21.6 Q ss_pred eecCCCCCHHHHHHHHHHH----hCCceeehHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN----FGLTHLSAGDLLR 33 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~----~~~~~i~~~~~~~ 33 (82) +.||||||||++..++.+. |.+.++.. |++. T Consensus 18 v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~-Di~t 52 (202) T COG0378 18 VGGPPGSGKTALIEKTLRALKDEYKIAVITG-DIYT 52 (202) T ss_pred ecCCCCcCHHHHHHHHHHHHHhhCCeEEEec-eeec Confidence 6799999999988776644 45555544 4443 No 491 >PRK13540 cytochrome c biogenesis protein CcmA; Provisional Probab=97.65 E-value=3.9e-05 Score=46.36 Aligned_cols=19 Identities=37% Similarity=0.422 Sum_probs=17.2 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 32 l~G~nGsGKSTLl~~i~G~ 50 (200) T PRK13540 32 LKGSNGAGKTTLLKLIAGL 50 (200) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 492 >PRK14256 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.65 E-value=3.8e-05 Score=47.89 Aligned_cols=20 Identities=30% Similarity=0.416 Sum_probs=17.9 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+..+ T Consensus 35 i~G~nGsGKSTLl~~l~Gl~ 54 (252) T PRK14256 35 IIGPSGCGKSTVLRSINRMH 54 (252) T ss_pred EECCCCCCHHHHHHHHHhcc Confidence 78999999999999998653 No 493 >PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional Probab=97.65 E-value=3.8e-05 Score=48.36 Aligned_cols=19 Identities=26% Similarity=0.345 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+.. T Consensus 43 I~G~NGsGKSTLlk~l~Gl 61 (257) T PRK11247 43 VVGRSGCGKSTLLRLLAGL 61 (257) T ss_pred EECCCCCCHHHHHHHHhcC Confidence 7899999999999999854 No 494 >PRK14248 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.65 E-value=3.8e-05 Score=48.34 Aligned_cols=18 Identities=39% Similarity=0.506 Sum_probs=16.9 Q ss_pred eecCCCCCHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~ 19 (82) |+|++||||||+.+.|+. T Consensus 52 i~G~nGsGKSTLl~~l~G 69 (268) T PRK14248 52 LIGPSGCGKSTFLRSINR 69 (268) T ss_pred EECCCCCCHHHHHHHHHh Confidence 789999999999999985 No 495 >cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy. Probab=97.64 E-value=3.8e-05 Score=47.40 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=17.6 Q ss_pred eecCCCCCHHHHHHHHHHHh Q 035937 2 LSGGPGSGKGTQCTKIVKNF 21 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~~ 21 (82) |+|++||||||+.+.|+-.+ T Consensus 33 i~G~nGsGKSTLl~~l~Gl~ 52 (237) T cd03252 33 IVGRSGSGKSTLTKLIQRFY 52 (237) T ss_pred EECCCCCCHHHHHHHHhcCc Confidence 78999999999999998543 No 496 >PRK14251 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.64 E-value=3.9e-05 Score=47.76 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=17.4 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+++.|+.. T Consensus 35 i~G~nGsGKSTLl~~l~Gl 53 (251) T PRK14251 35 LIGPSGCGKSTFLRCLNRM 53 (251) T ss_pred EECCCCCCHHHHHHHHhhc Confidence 7899999999999999854 No 497 >cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins. Probab=97.64 E-value=3.9e-05 Score=47.29 Aligned_cols=19 Identities=32% Similarity=0.448 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |+|++||||||+.+.|+-. T Consensus 32 l~G~nGsGKSTLl~~i~Gl 50 (236) T cd03253 32 IVGPSGSGKSTILRLLFRF 50 (236) T ss_pred EECCCCCCHHHHHHHHhcc Confidence 7899999999999999844 No 498 >PRK14262 phosphate ABC transporter ATP-binding protein; Provisional Probab=97.64 E-value=3.9e-05 Score=47.74 Aligned_cols=18 Identities=33% Similarity=0.475 Sum_probs=16.9 Q ss_pred eecCCCCCHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVK 19 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~ 19 (82) |+|++||||||+.+.|+. T Consensus 34 i~G~nGsGKSTLl~~i~G 51 (250) T PRK14262 34 IIGPSGCGKTTLLRSINR 51 (250) T ss_pred EECCCCCCHHHHHHHHhc Confidence 789999999999999984 No 499 >cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters. Probab=97.64 E-value=4.2e-05 Score=45.57 Aligned_cols=19 Identities=26% Similarity=0.371 Sum_probs=17.3 Q ss_pred eecCCCCCHHHHHHHHHHH Q 035937 2 LSGGPGSGKGTQCTKIVKN 20 (82) Q Consensus 2 i~G~pgsGKtt~a~~l~~~ 20 (82) |.|++||||||+.+.|+.. T Consensus 30 l~G~nGsGKStLl~~i~G~ 48 (180) T cd03214 30 ILGPNGAGKSTLLKTLAGL 48 (180) T ss_pred EECCCCCCHHHHHHHHhCC Confidence 7899999999999999854 No 500 >KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones] Probab=97.64 E-value=0.00013 Score=50.63 Aligned_cols=38 Identities=24% Similarity=0.420 Sum_probs=31.2 Q ss_pred CeecCCCCCHHHHHHHHHHHhC---CceeehHHHHHHHHhh Q 035937 1 MLSGGPGSGKGTQCTKIVKNFG---LTHLSAGDLLRREIAS 38 (82) Q Consensus 1 ~i~G~pgsGKtt~a~~l~~~~~---~~~i~~~~~~~~~~~~ 38 (82) ++.||||+|||.+|+++.+-++ =..++-.+++.+...+ T Consensus 260 LLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGe 300 (744) T KOG0741|consen 260 LLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGE 300 (744) T ss_pred EEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcc Confidence 5899999999999999999887 3467777888777654 Done!