Query gi|254780640|ref|YP_003065053.1| hypothetical protein CLIBASIA_02635 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 110
No_of_seqs 107 out of 3860
Neff 5.3
Searched_HMMs 39220
Date Sun May 29 20:59:15 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780640.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK01156 chromosome segregatio 99.9 6.7E-25 1.7E-29 144.3 9.4 83 27-110 1-83 (895)
2 PRK02224 chromosome segregatio 99.9 3.6E-24 9.2E-29 140.7 9.7 83 27-110 1-84 (880)
3 PRK03918 chromosome segregatio 99.9 7.1E-24 1.8E-28 139.2 9.2 83 27-110 1-85 (882)
4 COG0419 SbcC ATPase involved i 99.9 2.3E-22 5.9E-27 131.6 7.7 82 27-109 1-87 (908)
5 cd03279 ABC_sbcCD SbcCD and ot 99.9 9.4E-22 2.4E-26 128.6 9.2 84 27-110 1-92 (213)
6 PRK10246 exonuclease subunit S 99.9 1.1E-21 2.7E-26 128.3 9.4 83 27-109 1-94 (1047)
7 TIGR02168 SMC_prok_B chromosom 99.9 2.9E-22 7.3E-27 131.1 5.3 77 28-104 1-87 (1191)
8 TIGR02169 SMC_prok_A chromosom 99.8 4.3E-20 1.1E-24 120.3 6.2 77 28-104 1-92 (1202)
9 pfam02463 SMC_N RecF/RecN/SMC 99.8 8.6E-20 2.2E-24 118.8 6.5 75 28-102 1-84 (1162)
10 COG1196 Smc Chromosome segrega 99.8 4.1E-19 1.1E-23 115.3 7.8 78 27-104 1-88 (1163)
11 cd03273 ABC_SMC2_euk Eukaryoti 99.7 2.4E-18 6.2E-23 111.5 7.0 58 27-84 1-59 (251)
12 PRK00064 recF recombination pr 99.7 7.9E-18 2E-22 108.9 8.9 73 27-100 1-74 (355)
13 TIGR03185 DNA_S_dndD DNA sulfu 99.7 1.8E-17 4.6E-22 107.1 6.7 52 27-78 1-56 (650)
14 cd03242 ABC_RecF RecF is a rec 99.7 5.5E-17 1.4E-21 104.7 8.1 77 29-106 1-78 (270)
15 TIGR00618 sbcc exonuclease Sbc 99.7 4.3E-17 1.1E-21 105.2 4.7 82 27-108 1-94 (1063)
16 cd03274 ABC_SMC4_euk Eukaryoti 99.7 1.3E-16 3.4E-21 102.8 6.8 75 27-101 1-79 (212)
17 cd03272 ABC_SMC3_euk Eukaryoti 99.7 7.3E-17 1.9E-21 104.1 4.6 49 29-77 1-50 (243)
18 cd03275 ABC_SMC1_euk Eukaryoti 99.6 3.7E-16 9.4E-21 100.6 7.3 79 29-108 1-89 (247)
19 COG1195 RecF Recombinational D 99.6 3.6E-16 9.3E-21 100.6 6.6 64 27-91 1-64 (363)
20 KOG0018 consensus 99.6 2.6E-16 6.6E-21 101.4 5.6 79 26-104 1-82 (1141)
21 cd03239 ABC_SMC_head The struc 99.6 2.7E-16 6.9E-21 101.2 5.7 59 29-87 1-59 (178)
22 cd03276 ABC_SMC6_euk Eukaryoti 99.6 4.2E-15 1.1E-19 95.3 7.5 73 29-102 1-77 (198)
23 TIGR00611 recf DNA replication 99.5 2.7E-15 7E-20 96.2 2.0 75 27-102 1-91 (399)
24 cd03277 ABC_SMC5_euk Eukaryoti 99.5 7.8E-14 2E-18 89.0 9.2 80 28-108 2-85 (213)
25 KOG0996 consensus 99.5 3.7E-14 9.3E-19 90.6 3.9 85 22-106 79-167 (1293)
26 cd03240 ABC_Rad50 The catalyti 99.4 9.8E-13 2.5E-17 83.5 6.6 74 30-103 2-80 (204)
27 KOG0979 consensus 99.4 2.7E-12 6.9E-17 81.2 8.0 77 24-101 17-97 (1072)
28 KOG0250 consensus 99.3 3E-12 7.5E-17 81.1 7.6 80 24-104 37-120 (1074)
29 TIGR00606 rad50 rad50; InterPr 99.3 1.4E-12 3.4E-17 82.8 5.2 66 28-93 2-72 (1328)
30 PRK10869 recombination and rep 99.3 3E-12 7.6E-17 81.1 6.9 72 29-105 2-73 (553)
31 KOG0964 consensus 99.3 1.7E-12 4.2E-17 82.3 4.9 78 27-104 1-86 (1200)
32 COG3593 Predicted ATP-dependen 99.3 2.3E-12 5.8E-17 81.6 4.6 50 27-77 1-50 (581)
33 cd03241 ABC_RecN RecN ATPase i 99.3 8.5E-12 2.2E-16 78.8 6.8 72 29-105 1-72 (276)
34 cd03278 ABC_SMC_barmotin Barmo 99.3 6.7E-12 1.7E-16 79.3 6.1 52 29-80 1-52 (197)
35 COG3950 Predicted ATP-binding 99.2 3.5E-12 8.9E-17 80.7 2.8 51 27-78 1-52 (440)
36 COG0497 RecN ATPase involved i 99.2 3.6E-11 9.1E-16 75.7 6.1 70 29-103 2-71 (557)
37 COG1106 Predicted ATPases [Gen 99.2 1.4E-11 3.5E-16 77.7 3.9 49 29-78 2-50 (371)
38 COG4717 Uncharacterized conser 99.2 2.3E-11 5.8E-16 76.6 4.7 54 27-81 1-55 (984)
39 KOG0933 consensus 99.2 8.2E-12 2.1E-16 78.8 1.8 74 27-100 1-83 (1174)
40 KOG0962 consensus 99.1 2.3E-11 6E-16 76.6 2.7 63 28-90 3-68 (1294)
41 TIGR00634 recN DNA repair prot 99.1 3.4E-11 8.7E-16 75.8 2.2 71 29-104 2-72 (605)
42 COG4637 Predicted ATPase [Gene 98.9 3E-10 7.8E-15 71.0 2.1 46 27-74 1-46 (373)
43 cd03227 ABC_Class2 ABC-type Cl 98.6 6.2E-08 1.6E-12 59.5 4.9 47 31-77 1-48 (162)
44 COG3910 Predicted ATPase [Gene 98.5 7.9E-08 2E-12 58.9 2.8 38 36-75 25-62 (233)
45 COG4938 Uncharacterized conser 98.3 6.6E-07 1.7E-11 54.3 4.0 50 29-80 2-51 (374)
46 PRK04863 mukB cell division pr 98.2 2.9E-06 7.4E-11 51.1 4.7 48 27-75 5-52 (1486)
47 PRK09984 phosphonate/organopho 98.1 6.5E-06 1.6E-10 49.4 5.5 50 26-76 4-56 (262)
48 pfam04310 MukB MukB N-terminal 98.1 4.9E-06 1.3E-10 50.0 4.7 49 27-76 5-53 (227)
49 CHL00131 ycf16 sulfate ABC tra 98.1 7.4E-06 1.9E-10 49.1 5.2 47 25-72 5-54 (252)
50 COG1120 FepC ABC-type cobalami 98.1 8.5E-06 2.2E-10 48.8 5.5 32 45-76 22-54 (258)
51 COG4674 Uncharacterized ABC-ty 98.0 1.9E-06 4.9E-11 52.0 2.0 46 25-71 4-52 (249)
52 cd03234 ABCG_White The White s 98.0 1.1E-05 2.7E-10 48.3 5.8 51 25-75 4-58 (226)
53 PRK11300 livG leucine/isoleuci 98.0 9.6E-06 2.4E-10 48.5 5.2 50 25-75 4-56 (255)
54 PRK13638 cbiO cobalt transport 98.0 8.9E-06 2.3E-10 48.7 5.0 32 44-75 20-52 (271)
55 TIGR00972 3a0107s01c2 phosphat 98.0 9.3E-06 2.4E-10 48.6 5.1 45 31-76 8-53 (248)
56 PRK13543 cytochrome c biogenes 98.0 8.7E-06 2.2E-10 48.7 4.9 52 23-75 8-62 (214)
57 cd03264 ABC_drug_resistance_li 98.0 1.4E-05 3.6E-10 47.7 6.0 41 34-75 10-50 (211)
58 PRK11614 livF leucine/isoleuci 98.0 1.6E-05 4.1E-10 47.4 5.8 50 25-75 4-56 (237)
59 PRK13542 consensus 98.0 1.5E-05 3.8E-10 47.6 5.5 56 20-76 12-70 (224)
60 PRK10253 iron-enterobactin tra 98.0 1.2E-05 3.1E-10 48.0 4.9 33 44-76 26-59 (265)
61 PRK13539 cytochrome c biogenes 98.0 2.4E-05 6.1E-10 46.5 6.4 42 33-75 11-53 (206)
62 PRK13544 consensus 97.9 2.4E-05 6.1E-10 46.5 6.2 43 32-75 9-52 (208)
63 PRK10744 phosphate transporter 97.9 4.6E-05 1.2E-09 45.1 7.5 44 30-74 16-60 (257)
64 PRK13548 hmuV hemin importer A 97.9 1.2E-05 3.1E-10 48.0 4.6 49 26-75 2-53 (257)
65 PRK13547 hmuV hemin importer A 97.9 1.4E-05 3.5E-10 47.7 4.8 31 45-75 21-52 (273)
66 PRK11231 fecE iron-dicitrate t 97.9 3.4E-05 8.6E-10 45.8 6.3 31 45-75 22-53 (255)
67 PRK13541 cytochrome c biogenes 97.9 2.8E-05 7.1E-10 46.2 5.8 32 45-76 20-52 (195)
68 PRK11831 putative ABC transpor 97.9 1.5E-05 3.8E-10 47.5 4.3 50 25-75 7-59 (269)
69 PRK10247 putative ABC transpor 97.9 2.2E-05 5.5E-10 46.7 5.0 51 24-75 5-58 (225)
70 PRK13538 cytochrome c biogenes 97.9 2.2E-05 5.7E-10 46.7 5.1 32 44-75 20-52 (204)
71 TIGR03411 urea_trans_UrtD urea 97.9 2.2E-05 5.7E-10 46.7 5.0 46 28-74 4-52 (242)
72 PRK10908 cell division protein 97.9 2.2E-05 5.6E-10 46.7 5.0 49 27-75 2-53 (222)
73 PRK11701 phnK phosphonates tra 97.9 2E-05 5E-10 47.0 4.7 49 26-75 6-57 (258)
74 PRK03695 vitamin B12-transport 97.9 1.7E-05 4.2E-10 47.3 4.3 45 27-74 2-47 (245)
75 cd03298 ABC_ThiQ_thiamine_tran 97.9 1.7E-05 4.2E-10 47.3 4.2 30 47-76 20-50 (211)
76 PRK10575 iron-hydroxamate tran 97.9 5.2E-05 1.3E-09 44.8 6.6 48 26-74 11-61 (265)
77 PRK09580 sufC cysteine desulfu 97.8 4.4E-05 1.1E-09 45.2 6.1 29 45-73 21-50 (248)
78 PRK09536 btuD corrinoid ABC tr 97.8 3.8E-05 9.6E-10 45.5 5.7 47 28-75 4-53 (409)
79 cd03269 ABC_putative_ATPase Th 97.8 2E-05 5.1E-10 46.9 4.2 32 44-75 19-51 (210)
80 cd03231 ABC_CcmA_heme_exporter 97.8 3.1E-05 8E-10 45.9 5.1 31 45-75 20-51 (201)
81 COG4559 ABC-type hemin transpo 97.8 1.7E-05 4.3E-10 47.3 3.7 44 31-75 8-52 (259)
82 PRK13636 cbiO cobalt transport 97.8 3.1E-05 7.9E-10 45.9 4.9 32 45-76 26-58 (285)
83 COG4604 CeuD ABC-type enteroch 97.8 2.1E-05 5.4E-10 46.8 4.1 33 43-75 19-52 (252)
84 PRK09544 znuC high-affinity zi 97.8 5.3E-05 1.4E-09 44.8 6.0 32 44-75 23-55 (251)
85 TIGR01978 sufC FeS assembly AT 97.8 3.7E-05 9.4E-10 45.6 4.9 40 31-71 7-47 (248)
86 cd03215 ABC_Carb_Monos_II This 97.8 2.6E-05 6.5E-10 46.4 3.8 31 45-75 20-51 (182)
87 PRK13651 cobalt transporter AT 97.8 4.7E-05 1.2E-09 45.1 5.1 31 45-75 27-58 (304)
88 cd03235 ABC_Metallic_Cations A 97.8 4.6E-05 1.2E-09 45.1 5.1 32 44-75 18-50 (213)
89 PRK10771 thiQ thiamine transpo 97.8 5.2E-05 1.3E-09 44.8 5.3 31 46-76 20-51 (233)
90 TIGR03410 urea_trans_UrtE urea 97.8 3.8E-05 9.6E-10 45.5 4.6 31 45-75 20-51 (230)
91 cd03217 ABC_FeS_Assembly ABC-t 97.8 7.1E-05 1.8E-09 44.2 6.0 30 44-73 19-49 (200)
92 PRK10895 putative ABC transpor 97.8 7.7E-05 2E-09 44.0 6.1 31 45-75 23-54 (241)
93 COG3839 MalK ABC-type sugar tr 97.8 5.3E-05 1.4E-09 44.8 5.3 32 44-75 22-54 (338)
94 COG1121 ZnuC ABC-type Mn/Zn tr 97.7 7.6E-05 1.9E-09 44.0 5.9 31 45-75 24-55 (254)
95 PRK11247 ssuB aliphatic sulfon 97.7 8.7E-05 2.2E-09 43.7 6.2 32 45-76 32-64 (257)
96 PRK13652 cbiO cobalt transport 97.7 4.4E-05 1.1E-09 45.2 4.7 32 45-76 24-56 (277)
97 PRK13647 cbiO cobalt transport 97.7 6.7E-05 1.7E-09 44.3 5.6 32 45-76 25-57 (273)
98 COG1131 CcmA ABC-type multidru 97.7 3.2E-05 8.1E-10 45.9 4.0 34 43-76 23-57 (293)
99 PRK13631 cbiO cobalt transport 97.7 4.5E-05 1.1E-09 45.2 4.6 55 21-76 16-78 (320)
100 cd03259 ABC_Carb_Solutes_like 97.7 9.7E-05 2.5E-09 43.5 6.2 41 34-75 10-51 (213)
101 PRK13641 cbiO cobalt transport 97.7 3.6E-05 9.3E-10 45.6 4.0 62 45-106 27-97 (286)
102 cd03232 ABC_PDR_domain2 The pl 97.7 8.1E-05 2.1E-09 43.9 5.8 29 44-72 26-55 (192)
103 cd00267 ABC_ATPase ABC (ATP-bi 97.7 4.6E-05 1.2E-09 45.1 4.5 32 44-75 18-50 (157)
104 COG4913 Uncharacterized protei 97.7 7.2E-05 1.8E-09 44.1 5.4 52 26-78 14-65 (1104)
105 cd03226 ABC_cobalt_CbiO_domain 97.7 3.7E-05 9.5E-10 45.5 3.9 31 45-75 20-51 (205)
106 cd03260 ABC_PstB_phosphate_tra 97.7 0.00012 3E-09 43.1 6.4 31 45-75 20-51 (227)
107 cd03230 ABC_DR_subfamily_A Thi 97.7 0.00011 2.8E-09 43.2 6.2 32 44-75 19-51 (173)
108 TIGR01189 ccmA heme ABC export 97.7 3.7E-05 9.4E-10 45.6 3.8 32 45-76 20-52 (204)
109 PRK13643 cbiO cobalt transport 97.7 6.9E-05 1.8E-09 44.2 5.1 62 45-106 26-96 (288)
110 cd03218 ABC_YhbG The ABC trans 97.7 0.00012 2.9E-09 43.1 6.3 32 44-75 19-51 (232)
111 PRK10619 histidine/lysine/argi 97.7 1E-04 2.5E-09 43.4 5.9 38 36-74 17-55 (257)
112 cd03221 ABCF_EF-3 ABCF_EF-3 E 97.7 0.00011 2.9E-09 43.1 6.2 42 32-74 8-50 (144)
113 cd03224 ABC_TM1139_LivF_branch 97.7 0.00012 3E-09 43.0 6.3 32 44-75 19-51 (222)
114 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 97.7 2.1E-05 5.3E-10 46.8 2.4 40 37-76 32-74 (224)
115 PRK13640 cbiO cobalt transport 97.7 4.4E-05 1.1E-09 45.2 4.0 63 45-107 28-98 (283)
116 PRK13540 cytochrome c biogenes 97.7 0.00013 3.3E-09 42.8 6.4 32 44-75 20-52 (200)
117 cd03213 ABCG_EPDR ABCG transpo 97.7 4.5E-05 1.1E-09 45.2 4.0 30 45-74 29-59 (194)
118 PRK11144 modC molybdate transp 97.7 5E-05 1.3E-09 44.9 4.1 39 37-75 10-49 (352)
119 PRK11248 tauB taurine transpor 97.7 9.8E-05 2.5E-09 43.5 5.6 31 45-75 21-52 (255)
120 TIGR03522 GldA_ABC_ATP gliding 97.7 0.00013 3.3E-09 42.9 6.2 33 44-76 21-54 (301)
121 cd03268 ABC_BcrA_bacitracin_re 97.7 0.00013 3.4E-09 42.8 6.2 32 44-75 19-51 (208)
122 cd03267 ABC_NatA_like Similar 97.7 2.1E-05 5.4E-10 46.8 2.1 31 45-75 41-72 (236)
123 PRK13644 cbiO cobalt transport 97.7 9.2E-05 2.3E-09 43.6 5.4 63 45-107 22-90 (274)
124 PRK13645 cbiO cobalt transport 97.7 3.8E-05 9.6E-10 45.5 3.4 61 45-105 31-101 (289)
125 PRK13648 cbiO cobalt transport 97.7 0.00016 4.2E-09 42.3 6.7 52 24-75 5-60 (269)
126 PRK13650 cbiO cobalt transport 97.7 8.8E-05 2.2E-09 43.7 5.2 63 45-107 24-91 (276)
127 TIGR01188 drrA daunorubicin re 97.7 2.5E-05 6.5E-10 46.4 2.4 40 36-76 7-47 (343)
128 PRK09493 glnQ glutamine ABC tr 97.7 0.00012 3E-09 43.1 5.8 31 45-75 21-52 (240)
129 cd03263 ABC_subfamily_A The AB 97.6 5.5E-05 1.4E-09 44.7 4.0 31 45-75 22-53 (220)
130 PRK13649 cbiO cobalt transport 97.6 6.7E-05 1.7E-09 44.3 4.4 31 45-75 27-58 (280)
131 PRK09700 D-allose transporter 97.6 0.0001 2.6E-09 43.4 5.3 52 22-74 261-313 (510)
132 PRK13546 teichoic acids export 97.6 1.1E-05 2.8E-10 48.2 0.3 39 36-75 36-75 (264)
133 cd03237 ABC_RNaseL_inhibitor_d 97.6 4.8E-05 1.2E-09 45.0 3.6 25 51-75 26-50 (246)
134 TIGR02680 TIGR02680 conserved 97.6 1.2E-05 3.1E-10 48.0 0.4 54 27-81 2-56 (1416)
135 PRK13637 cbiO cobalt transport 97.6 7.6E-05 1.9E-09 44.0 4.5 61 45-105 27-94 (287)
136 PRK13549 xylose transporter AT 97.6 6.7E-05 1.7E-09 44.3 4.1 31 45-75 282-313 (513)
137 cd03299 ABC_ModC_like Archeal 97.6 6.9E-05 1.7E-09 44.2 4.1 31 45-75 19-50 (235)
138 cd03266 ABC_NatA_sodium_export 97.6 6.7E-05 1.7E-09 44.3 4.0 32 44-75 24-56 (218)
139 cd03265 ABC_DrrA DrrA is the A 97.6 0.00014 3.6E-09 42.6 5.7 31 45-75 20-51 (220)
140 cd03296 ABC_CysA_sulfate_impor 97.6 0.0002 5.2E-09 41.9 6.5 41 33-74 11-52 (239)
141 cd03297 ABC_ModC_molybdenum_tr 97.6 7.3E-05 1.9E-09 44.1 4.2 39 37-75 10-48 (214)
142 cd03271 ABC_UvrA_II The excisi 97.6 8.5E-05 2.2E-09 43.8 4.5 28 44-71 14-42 (261)
143 PRK11264 putative amino-acid A 97.6 0.00018 4.5E-09 42.2 6.1 32 44-75 20-52 (248)
144 TIGR01166 cbiO cobalt ABC tran 97.6 3.2E-05 8.2E-10 45.9 2.2 61 46-106 13-80 (190)
145 cd03225 ABC_cobalt_CbiO_domain 97.6 6.4E-05 1.6E-09 44.4 3.7 31 45-75 21-52 (211)
146 cd03257 ABC_NikE_OppD_transpor 97.6 0.00011 2.8E-09 43.2 4.9 31 45-75 25-56 (228)
147 PRK13536 nodulation factor exp 97.6 4.1E-05 1E-09 45.3 2.6 32 45-76 27-59 (306)
148 PRK13639 cbiO cobalt transport 97.6 9.1E-05 2.3E-09 43.6 4.4 31 45-75 22-53 (275)
149 PRK11629 lolD lipoprotein tran 97.6 0.00011 2.9E-09 43.1 4.9 31 45-75 29-60 (233)
150 PRK10762 D-ribose transporter 97.6 0.00012 3E-09 43.0 4.9 30 45-74 272-302 (501)
151 cd03256 ABC_PhnC_transporter A 97.6 5.9E-05 1.5E-09 44.5 3.4 32 45-76 21-53 (241)
152 cd03233 ABC_PDR_domain1 The pl 97.6 7.9E-05 2E-09 43.9 4.0 32 45-76 27-59 (202)
153 TIGR03269 met_CoM_red_A2 methy 97.6 0.00021 5.3E-09 41.8 6.0 32 44-75 303-335 (520)
154 PRK13537 lipooligosaccharide t 97.6 0.00024 6E-09 41.5 6.3 33 44-76 24-57 (304)
155 PRK10851 sulfate/thiosulfate t 97.6 0.00026 6.5E-09 41.4 6.3 31 45-75 22-53 (352)
156 PRK11288 araG L-arabinose tran 97.6 0.0003 7.6E-09 41.0 6.7 44 31-74 257-303 (501)
157 PRK13646 cbiO cobalt transport 97.5 8.6E-05 2.2E-09 43.7 3.7 61 45-105 27-96 (286)
158 COG1122 CbiO ABC-type cobalt t 97.5 0.00025 6.5E-09 41.4 6.1 64 44-107 23-92 (235)
159 COG0411 LivG ABC-type branched 97.5 1E-05 2.6E-10 48.3 -1.1 40 36-75 13-55 (250)
160 cd03219 ABC_Mj1267_LivG_branch 97.5 0.00029 7.3E-09 41.1 6.3 32 44-75 19-51 (236)
161 cd03238 ABC_UvrA The excision 97.5 0.00014 3.6E-09 42.6 4.7 36 36-72 7-43 (176)
162 PRK13635 cbiO cobalt transport 97.5 0.00023 5.9E-09 41.6 5.6 62 45-106 27-93 (279)
163 COG4133 CcmA ABC-type transpor 97.5 9.8E-05 2.5E-09 43.5 3.7 37 39-76 17-54 (209)
164 PRK10938 putative molybdenum t 97.5 0.00033 8.3E-09 40.8 6.3 28 45-72 280-308 (490)
165 COG0410 LivF ABC-type branched 97.5 0.00018 4.6E-09 42.1 5.0 26 50-75 29-54 (237)
166 cd03214 ABC_Iron-Siderophores_ 97.5 0.00019 4.7E-09 42.1 5.1 32 44-75 18-50 (180)
167 PRK13634 cbiO cobalt transport 97.5 8.2E-05 2.1E-09 43.9 3.2 31 45-75 14-45 (276)
168 pfam12128 DUF3584 Protein of u 97.5 0.00015 3.7E-09 42.6 4.4 34 44-79 12-45 (1192)
169 cd03255 ABC_MJ0796_Lo1CDE_FtsE 97.5 9.8E-05 2.5E-09 43.5 3.4 33 44-76 23-56 (218)
170 PRK09473 oppD oligopeptide tra 97.5 0.00024 6.2E-09 41.5 5.4 57 19-76 5-68 (330)
171 cd03290 ABCC_SUR1_N The SUR do 97.5 0.00019 4.8E-09 42.1 4.8 31 45-75 21-52 (218)
172 PRK13632 cbiO cobalt transport 97.5 0.00011 2.8E-09 43.2 3.5 83 24-106 6-96 (273)
173 PRK10584 putative ABC transpor 97.5 0.00014 3.5E-09 42.7 4.0 32 45-76 30-62 (228)
174 cd03216 ABC_Carb_Monos_I This 97.5 0.00041 1.1E-08 40.3 6.3 32 44-75 19-51 (163)
175 cd03293 ABC_NrtD_SsuB_transpor 97.5 0.00011 2.9E-09 43.2 3.4 32 45-76 24-56 (220)
176 TIGR00954 3a01203 Peroxysomal 97.4 7.9E-05 2E-09 43.9 2.6 36 45-80 548-588 (788)
177 PRK10535 macrolide transporter 97.4 0.00023 5.8E-09 41.6 4.9 30 45-74 28-58 (648)
178 PRK13642 cbiO cobalt transport 97.4 0.0002 5.2E-09 41.8 4.7 62 45-106 27-93 (277)
179 PRK13633 cobalt transporter AT 97.4 0.00035 8.9E-09 40.7 5.8 62 45-106 31-98 (281)
180 TIGR00958 3a01208 antigen pept 97.4 0.00014 3.7E-09 42.6 3.7 55 46-101 554-614 (770)
181 PRK10418 nikD nickel transport 97.4 0.00024 6.1E-09 41.5 4.9 32 45-76 23-55 (254)
182 PRK09452 potA putrescine/sperm 97.4 0.0005 1.3E-08 39.9 6.5 48 26-74 17-67 (378)
183 PRK11000 maltose/maltodextrin 97.4 0.00049 1.3E-08 39.9 6.4 30 45-74 23-53 (369)
184 COG0396 sufC Cysteine desulfur 97.4 0.00033 8.5E-09 40.8 5.6 28 44-71 23-51 (251)
185 PRK09700 D-allose transporter 97.4 0.00047 1.2E-08 40.1 6.3 40 34-74 15-55 (510)
186 cd03300 ABC_PotA_N PotA is an 97.4 0.00045 1.2E-08 40.1 6.2 31 45-75 20-51 (232)
187 PRK11124 artP arginine transpo 97.4 0.00051 1.3E-08 39.9 6.4 30 45-74 22-52 (242)
188 cd03236 ABC_RNaseL_inhibitor_d 97.4 0.00012 2.9E-09 43.1 3.0 25 51-75 27-51 (255)
189 cd03289 ABCC_CFTR2 The CFTR su 97.4 0.00049 1.2E-08 40.0 6.2 31 45-75 24-55 (275)
190 cd03244 ABCC_MRP_domain2 Domai 97.4 0.00054 1.4E-08 39.7 6.3 31 45-75 24-55 (221)
191 cd03261 ABC_Org_Solvent_Resist 97.4 0.00042 1.1E-08 40.3 5.6 32 44-75 19-51 (235)
192 PRK11819 putative ABC transpor 97.4 0.0002 5.1E-09 41.9 3.9 25 50-74 350-374 (556)
193 cd03250 ABCC_MRP_domain1 Domai 97.4 0.00022 5.7E-09 41.7 4.1 30 45-74 25-55 (204)
194 cd03223 ABCD_peroxisomal_ALDP 97.4 0.00041 1E-08 40.4 5.3 30 45-74 21-51 (166)
195 PRK10982 galactose/methyl gala 97.4 0.00016 4E-09 42.4 3.1 50 24-74 248-298 (491)
196 cd03247 ABCC_cytochrome_bd The 97.3 0.00027 6.9E-09 41.2 4.1 32 45-76 22-54 (178)
197 PRK11607 potG putrescine trans 97.3 0.0007 1.8E-08 39.2 6.1 51 24-75 17-70 (377)
198 PRK11147 ABC transporter ATPas 97.3 0.00056 1.4E-08 39.7 5.6 26 50-75 345-370 (632)
199 PRK11147 ABC transporter ATPas 97.3 0.00066 1.7E-08 39.3 5.9 29 45-73 23-52 (632)
200 PRK10636 putative ABC transpor 97.3 0.00024 6.1E-09 41.5 3.6 25 50-74 338-362 (638)
201 cd03292 ABC_FtsE_transporter F 97.3 0.00031 7.9E-09 40.9 4.0 32 45-76 21-53 (214)
202 PRK11153 metN DL-methionine tr 97.3 0.00038 9.7E-09 40.5 4.4 31 45-75 25-56 (343)
203 cd03254 ABCC_Glucan_exporter_l 97.3 0.00069 1.8E-08 39.2 5.6 31 45-75 23-54 (229)
204 PRK11650 ugpC glycerol-3-phosp 97.3 0.00031 7.8E-09 41.0 3.8 30 45-74 24-54 (358)
205 TIGR03608 L_ocin_972_ABC putat 97.3 0.00035 8.9E-09 40.7 4.1 32 44-75 17-49 (206)
206 cd03246 ABCC_Protease_Secretio 97.3 0.00029 7.5E-09 41.1 3.7 31 45-75 22-53 (173)
207 cd03228 ABCC_MRP_Like The MRP 97.3 0.00028 7.1E-09 41.2 3.6 31 45-75 22-53 (171)
208 cd03301 ABC_MalK_N The N-termi 97.2 0.00099 2.5E-08 38.4 6.3 31 45-75 20-51 (213)
209 cd03369 ABCC_NFT1 Domain 2 of 97.2 0.0012 3.1E-08 38.0 6.6 32 45-76 28-60 (207)
210 TIGR02315 ABC_phnC phosphonate 97.2 0.00026 6.7E-09 41.3 3.2 32 46-77 23-55 (253)
211 COG1118 CysA ABC-type sulfate/ 97.2 0.00029 7.4E-09 41.1 3.4 50 28-78 6-56 (345)
212 PRK11819 putative ABC transpor 97.2 0.00056 1.4E-08 39.7 4.8 29 45-73 27-56 (556)
213 cd03295 ABC_OpuCA_Osmoprotecti 97.2 0.00068 1.7E-08 39.2 5.1 31 45-75 21-52 (242)
214 PRK11288 araG L-arabinose tran 97.2 0.00048 1.2E-08 40.0 4.3 45 28-73 8-53 (501)
215 cd03245 ABCC_bacteriocin_expor 97.2 0.00045 1.1E-08 40.2 4.0 31 45-75 24-55 (220)
216 TIGR03265 PhnT2 putative 2-ami 97.2 0.0014 3.5E-08 37.7 6.5 42 33-75 13-55 (353)
217 cd03229 ABC_Class3 This class 97.2 0.00098 2.5E-08 38.5 5.7 31 45-75 20-51 (178)
218 KOG0057 consensus 97.2 0.0013 3.3E-08 37.9 6.2 51 45-95 372-426 (591)
219 cd03222 ABC_RNaseL_inhibitor T 97.2 0.00031 8E-09 40.9 3.1 28 48-75 22-50 (177)
220 cd03248 ABCC_TAP TAP, the Tran 97.1 0.00046 1.2E-08 40.1 3.7 31 45-75 34-65 (226)
221 PRK13545 tagH teichoic acids e 97.1 0.00055 1.4E-08 39.7 4.0 32 45-76 44-76 (549)
222 COG0488 Uup ATPase components 97.1 0.0011 2.8E-08 38.2 5.4 26 50-75 348-373 (530)
223 cd03288 ABCC_SUR2 The SUR doma 97.1 0.0021 5.4E-08 36.8 6.9 49 27-75 20-72 (257)
224 cd03253 ABCC_ATM1_transporter 97.1 0.0013 3.3E-08 37.8 5.8 31 45-75 21-52 (236)
225 PRK10636 putative ABC transpor 97.1 0.00043 1.1E-08 40.2 3.0 30 45-74 21-51 (638)
226 cd03251 ABCC_MsbA MsbA is an e 97.1 0.00068 1.7E-08 39.3 4.0 32 45-76 22-54 (234)
227 cd03249 ABC_MTABC3_MDL1_MDL2 M 97.1 0.0007 1.8E-08 39.2 4.0 31 45-75 23-54 (238)
228 COG1129 MglA ABC-type sugar tr 97.0 0.00056 1.4E-08 39.7 3.4 47 28-75 10-59 (500)
229 TIGR03258 PhnT 2-aminoethylpho 97.0 0.0023 5.8E-08 36.6 6.4 31 45-75 25-56 (362)
230 PRK11432 fbpC ferric transport 97.0 0.0021 5.2E-08 36.8 6.1 31 45-75 26-57 (351)
231 cd03270 ABC_UvrA_I The excisio 97.0 0.00062 1.6E-08 39.5 3.4 24 44-67 14-38 (226)
232 PRK10789 putative multidrug tr 97.0 0.0013 3.3E-08 37.8 4.9 45 30-75 314-366 (569)
233 cd03291 ABCC_CFTR1 The CFTR su 97.0 0.00089 2.3E-08 38.7 4.0 44 30-74 38-87 (282)
234 COG1126 GlnQ ABC-type polar am 97.0 0.00047 1.2E-08 40.0 2.5 29 46-74 23-52 (240)
235 COG4555 NatA ABC-type Na+ tran 97.0 0.00081 2.1E-08 38.9 3.7 33 45-77 22-55 (245)
236 PRK10938 putative molybdenum t 97.0 0.0033 8.5E-08 35.8 6.8 31 45-75 23-54 (490)
237 PRK13409 putative ATPase RIL; 97.0 0.0013 3.3E-08 37.8 4.6 25 50-74 365-389 (590)
238 PRK11022 dppD dipeptide transp 96.9 0.0017 4.4E-08 37.2 5.2 33 43-75 25-58 (327)
239 COG5293 Predicted ATPase [Gene 96.9 0.004 1E-07 35.4 7.0 37 44-80 19-66 (591)
240 cd03262 ABC_HisP_GlnQ_permease 96.9 0.0025 6.3E-08 36.5 5.9 31 45-75 20-51 (213)
241 cd03252 ABCC_Hemolysin The ABC 96.9 0.001 2.7E-08 38.3 3.9 31 45-75 22-53 (237)
242 TIGR02673 FtsE cell division A 96.9 0.0012 3E-08 38.1 4.1 40 36-76 14-54 (215)
243 COG3842 PotA ABC-type spermidi 96.9 0.0027 7E-08 36.2 5.9 30 45-74 25-55 (352)
244 PRK11174 cysteine/glutathione 96.9 0.0015 3.9E-08 37.5 4.6 46 30-76 348-401 (588)
245 pfam09818 ABC_ATPase Predicted 96.9 0.0024 6.2E-08 36.5 5.6 50 30-82 226-275 (447)
246 TIGR00929 VirB4_CagE type IV s 96.9 0.00095 2.4E-08 38.5 3.5 30 50-79 516-545 (931)
247 COG1119 ModF ABC-type molybden 96.9 0.00066 1.7E-08 39.3 2.6 26 51-76 58-83 (257)
248 PRK13409 putative ATPase RIL; 96.9 0.00092 2.3E-08 38.6 3.3 26 50-75 99-124 (590)
249 TIGR00968 3a0106s01 sulfate AB 96.9 0.00095 2.4E-08 38.5 3.4 39 35-73 8-49 (241)
250 PRK10261 glutathione transport 96.9 0.002 5E-08 36.9 5.0 31 45-75 344-375 (623)
251 cd03294 ABC_Pro_Gly_Bertaine T 96.9 0.00059 1.5E-08 39.6 2.3 32 45-76 44-76 (269)
252 TIGR02324 CP_lyasePhnL phospho 96.9 0.00073 1.8E-08 39.1 2.8 53 12-75 6-59 (224)
253 PRK10982 galactose/methyl gala 96.9 0.002 5.1E-08 36.9 4.9 32 44-75 17-49 (491)
254 cd03243 ABC_MutS_homologs The 96.8 0.0015 3.8E-08 37.5 3.9 30 45-74 23-53 (202)
255 PRK10762 D-ribose transporter 96.8 0.0021 5.4E-08 36.8 4.6 48 26-74 4-54 (501)
256 PRK13549 xylose transporter AT 96.8 0.004 1E-07 35.4 5.9 48 26-74 5-55 (513)
257 COG3845 ABC-type uncharacteriz 96.8 0.0011 2.7E-08 38.3 3.0 31 42-72 21-52 (501)
258 KOG0064 consensus 96.8 0.0024 6E-08 36.5 4.7 31 44-74 501-532 (728)
259 TIGR03269 met_CoM_red_A2 methy 96.8 0.0017 4.3E-08 37.3 3.9 43 30-73 6-49 (520)
260 PRK13657 cyclic beta-1,2-gluca 96.8 0.0048 1.2E-07 35.0 6.2 32 44-75 354-386 (585)
261 TIGR01420 pilT_fam twitching m 96.8 0.0011 2.9E-08 38.1 3.0 74 24-104 96-174 (350)
262 TIGR00630 uvra excinuclease AB 96.7 0.004 1E-07 35.4 5.6 55 13-70 630-685 (956)
263 COG1117 PstB ABC-type phosphat 96.7 0.0034 8.6E-08 35.8 5.2 47 30-77 13-60 (253)
264 KOG0927 consensus 96.7 0.0037 9.3E-08 35.6 5.4 57 22-78 71-129 (614)
265 PRK10522 multidrug transporter 96.7 0.002 5.2E-08 36.9 4.0 30 45-74 343-373 (547)
266 TIGR02525 plasmid_TraJ plasmid 96.7 0.0016 4E-08 37.4 3.4 33 49-82 148-180 (374)
267 COG1136 SalX ABC-type antimicr 96.7 0.0018 4.5E-08 37.2 3.6 33 44-76 24-57 (226)
268 cd03283 ABC_MutS-like MutS-lik 96.7 0.0019 4.9E-08 37.0 3.8 30 45-74 19-49 (199)
269 PRK10070 glycine betaine trans 96.7 0.0015 3.9E-08 37.5 3.3 32 45-76 48-80 (400)
270 COG0488 Uup ATPase components 96.7 0.0043 1.1E-07 35.2 5.6 33 42-74 20-53 (530)
271 COG4138 BtuD ABC-type cobalami 96.7 0.001 2.6E-08 38.4 2.2 34 51-84 26-59 (248)
272 COG3638 ABC-type phosphate/pho 96.6 0.0054 1.4E-07 34.8 5.8 30 45-74 24-54 (258)
273 COG4988 CydD ABC-type transpor 96.6 0.0037 9.4E-08 35.6 4.8 51 24-75 318-372 (559)
274 cd03280 ABC_MutS2 MutS2 homolo 96.6 0.0025 6.5E-08 36.4 4.0 29 44-72 20-50 (200)
275 COG3096 MukB Uncharacterized p 96.6 0.00049 1.2E-08 40.0 0.2 49 26-75 4-52 (1480)
276 PRK11308 dppF dipeptide transp 96.6 0.002 5E-08 36.9 3.1 31 44-74 34-65 (327)
277 TIGR03415 ABC_choXWV_ATP choli 96.6 0.0022 5.7E-08 36.7 3.4 31 45-75 44-75 (382)
278 TIGR01277 thiQ thiamine ABC tr 96.5 0.0021 5.5E-08 36.7 3.2 28 50-77 24-51 (213)
279 cd03258 ABC_MetN_methionine_tr 96.5 0.006 1.5E-07 34.5 5.4 31 45-75 25-56 (233)
280 PRK10419 nikE nickel transport 96.5 0.0029 7.4E-08 36.1 3.7 30 45-74 32-62 (266)
281 PTZ00243 ABC transporter; Prov 96.5 0.0032 8.2E-08 35.9 3.8 27 45-71 680-707 (1560)
282 cd03285 ABC_MSH2_euk MutS2 hom 96.5 0.0044 1.1E-07 35.2 4.5 35 39-74 17-54 (222)
283 COG4586 ABC-type uncharacteriz 96.5 0.002 5E-08 36.9 2.6 37 38-74 35-74 (325)
284 TIGR02857 CydD ABC transporter 96.5 0.0029 7.5E-08 36.1 3.5 50 26-75 349-403 (570)
285 PRK11160 cysteine/glutathione 96.4 0.0039 1E-07 35.4 4.0 30 45-74 361-391 (575)
286 cd03281 ABC_MSH5_euk MutS5 hom 96.4 0.004 1E-07 35.4 4.0 35 39-74 16-53 (213)
287 KOG0062 consensus 96.4 0.0032 8.2E-08 35.9 3.5 45 27-72 76-128 (582)
288 PRK11176 lipid transporter ATP 96.4 0.0028 7.2E-08 36.2 3.2 31 46-76 363-394 (581)
289 COG1116 TauB ABC-type nitrate/ 96.4 0.01 2.6E-07 33.3 6.1 32 45-76 23-55 (248)
290 COG1101 PhnK ABC-type uncharac 96.4 0.0027 6.8E-08 36.3 3.1 46 29-74 4-56 (263)
291 COG1134 TagH ABC-type polysacc 96.4 0.0038 9.8E-08 35.5 3.8 31 46-76 48-79 (249)
292 PRK10790 putative multidrug tr 96.4 0.0037 9.5E-08 35.6 3.7 30 46-75 362-392 (593)
293 TIGR02142 modC_ABC molybdate A 96.4 0.004 1E-07 35.4 3.8 27 50-76 23-49 (361)
294 TIGR02633 xylG D-xylose ABC tr 96.3 0.0023 5.8E-08 36.6 2.3 41 35-75 9-52 (501)
295 cd03284 ABC_MutS1 MutS1 homolo 96.3 0.0047 1.2E-07 35.1 3.6 30 45-74 23-54 (216)
296 TIGR02533 type_II_gspE general 96.2 0.0028 7E-08 36.2 2.3 26 49-74 244-269 (495)
297 cd03287 ABC_MSH3_euk MutS3 hom 96.2 0.0057 1.4E-07 34.6 3.8 35 39-74 18-55 (222)
298 cd03286 ABC_MSH6_euk MutS6 hom 96.2 0.0046 1.2E-07 35.1 3.2 30 45-74 22-54 (218)
299 pfam00488 MutS_V MutS domain V 96.2 0.0057 1.5E-07 34.6 3.6 30 45-74 34-66 (234)
300 COG4152 ABC-type uncharacteriz 96.2 0.0026 6.7E-08 36.3 1.9 32 45-76 20-54 (300)
301 COG4178 ABC-type uncharacteriz 96.1 0.014 3.5E-07 32.7 5.4 52 24-75 390-444 (604)
302 smart00534 MUTSac ATPase domai 96.1 0.0046 1.2E-07 35.1 2.9 23 52-74 1-23 (185)
303 TIGR02982 heterocyst_DevA ABC 96.1 0.0065 1.7E-07 34.3 3.6 23 51-73 32-54 (220)
304 pfam03193 DUF258 Protein of un 96.1 0.0053 1.3E-07 34.8 3.1 24 48-71 33-56 (161)
305 TIGR00455 apsK adenylylsulfate 96.0 0.0034 8.6E-08 35.8 1.9 38 52-89 21-60 (187)
306 COG4615 PvdE ABC-type sideroph 96.0 0.008 2E-07 33.9 3.8 46 29-74 320-373 (546)
307 PRK12289 ribosome-associated G 96.0 0.0055 1.4E-07 34.7 2.9 24 48-71 169-192 (351)
308 COG1132 MdlB ABC-type multidru 96.0 0.0085 2.2E-07 33.8 3.7 32 45-76 349-381 (567)
309 TIGR00960 3a0501s02 Type II (G 95.9 0.0064 1.6E-07 34.4 2.9 31 45-75 23-54 (216)
310 smart00763 AAA_PrkA PrkA AAA d 95.9 0.0086 2.2E-07 33.7 3.6 27 50-76 78-104 (361)
311 COG3044 Predicted ATPase of th 95.9 0.016 4E-07 32.5 4.8 35 46-80 238-272 (554)
312 smart00382 AAA ATPases associa 95.9 0.0099 2.5E-07 33.4 3.8 29 50-78 2-30 (148)
313 COG3840 ThiQ ABC-type thiamine 95.9 0.011 2.8E-07 33.2 4.0 35 42-76 12-51 (231)
314 COG2274 SunT ABC-type bacterio 95.9 0.011 2.9E-07 33.1 4.0 32 45-76 493-525 (709)
315 PRK10261 glutathione transport 95.8 0.0076 1.9E-07 34.0 2.9 31 45-75 36-67 (623)
316 KOG0065 consensus 95.8 0.0056 1.4E-07 34.7 2.2 25 48-72 814-839 (1391)
317 PRK10078 ribose 1,5-bisphospho 95.8 0.0077 2E-07 34.0 2.9 23 51-73 3-25 (184)
318 TIGR01194 cyc_pep_trnsptr cycl 95.8 0.0077 2E-07 34.0 2.9 25 50-74 368-392 (555)
319 PRK13853 type IV secretion sys 95.8 0.013 3.3E-07 32.9 4.0 29 46-74 419-450 (789)
320 PRK12288 ribosome-associated G 95.8 0.007 1.8E-07 34.2 2.6 24 48-71 205-228 (344)
321 COG4161 ArtP ABC-type arginine 95.8 0.017 4.2E-07 32.3 4.5 46 31-76 2-54 (242)
322 cd03282 ABC_MSH4_euk MutS4 hom 95.7 0.0099 2.5E-07 33.4 3.2 30 45-74 21-53 (204)
323 COG1124 DppF ABC-type dipeptid 95.7 0.023 5.8E-07 31.6 5.0 61 43-103 25-91 (252)
324 COG1162 Predicted GTPases [Gen 95.7 0.0087 2.2E-07 33.7 2.8 25 48-72 162-186 (301)
325 PRK00098 ribosome-associated G 95.7 0.0092 2.4E-07 33.6 2.9 24 48-71 162-185 (298)
326 PRK13830 conjugal transfer pro 95.7 0.016 4.1E-07 32.3 4.1 33 44-76 447-482 (818)
327 KOG0058 consensus 95.6 0.021 5.4E-07 31.8 4.7 31 45-75 488-519 (716)
328 TIGR03375 type_I_sec_LssB type 95.6 0.01 2.6E-07 33.4 3.1 31 45-75 485-516 (694)
329 cd01886 EF-G Elongation factor 95.6 0.031 8E-07 30.9 5.5 29 53-82 2-30 (270)
330 cd01854 YjeQ_engC YjeQ/EngC. 95.6 0.011 2.8E-07 33.2 3.1 24 48-71 159-182 (287)
331 KOG0061 consensus 95.6 0.038 9.6E-07 30.5 5.8 53 24-76 25-82 (613)
332 TIGR02204 MsbA_rel ABC transpo 95.6 0.0094 2.4E-07 33.5 2.7 25 51-75 367-391 (576)
333 TIGR02211 LolD_lipo_ex lipopro 95.5 0.011 2.8E-07 33.2 2.7 22 50-71 31-52 (221)
334 pfam06414 Zeta_toxin Zeta toxi 95.5 0.019 4.8E-07 32.0 3.9 40 49-88 11-50 (191)
335 cd01131 PilT Pilus retraction 95.4 0.014 3.5E-07 32.7 3.1 25 50-74 1-25 (198)
336 COG4185 Uncharacterized protei 95.4 0.004 1E-07 35.4 0.4 36 51-87 3-38 (187)
337 PRK00349 uvrA excinuclease ABC 95.4 0.02 5E-07 31.9 3.9 45 23-70 611-656 (944)
338 PRK13898 type IV secretion sys 95.4 0.021 5.3E-07 31.8 4.0 34 44-77 437-473 (800)
339 PRK00349 uvrA excinuclease ABC 95.4 0.038 9.7E-07 30.5 5.3 40 28-71 7-48 (944)
340 COG1125 OpuBA ABC-type proline 95.4 0.029 7.3E-07 31.1 4.7 40 36-76 13-53 (309)
341 KOG0927 consensus 95.4 0.01 2.6E-07 33.4 2.2 25 51-75 417-441 (614)
342 COG1135 AbcC ABC-type metal io 95.3 0.025 6.5E-07 31.4 4.1 25 50-74 32-56 (339)
343 KOG0059 consensus 95.3 0.0092 2.4E-07 33.6 1.8 46 44-93 584-630 (885)
344 PRK13873 conjugal transfer ATP 95.3 0.024 6.2E-07 31.5 4.0 31 45-75 433-466 (815)
345 KOG0060 consensus 95.3 0.011 2.7E-07 33.3 2.1 52 24-75 431-486 (659)
346 COG1137 YhbG ABC-type (unclass 95.2 0.011 2.7E-07 33.3 2.0 25 44-68 23-48 (243)
347 COG1245 Predicted ATPase, RNas 95.2 0.031 8E-07 30.9 4.3 24 51-74 101-124 (591)
348 pfam00437 GSPII_E Type II/IV s 95.1 0.025 6.3E-07 31.5 3.6 26 50-75 139-164 (283)
349 PRK00440 rfc replication facto 95.1 0.025 6.5E-07 31.4 3.6 27 53-79 40-66 (318)
350 TIGR03015 pepcterm_ATPase puta 95.1 0.023 5.7E-07 31.6 3.2 28 49-76 42-69 (269)
351 KOG0989 consensus 95.0 0.03 7.6E-07 31.0 3.8 28 51-78 58-85 (346)
352 PRK00635 excinuclease ABC subu 95.0 0.046 1.2E-06 30.1 4.8 40 26-68 600-639 (1809)
353 KOG0054 consensus 95.0 0.031 7.8E-07 31.0 3.8 21 51-71 548-568 (1381)
354 PRK00635 excinuclease ABC subu 95.0 0.039 9.8E-07 30.5 4.3 16 51-66 962-977 (1809)
355 PRK13891 conjugal transfer pro 95.0 0.033 8.4E-07 30.8 3.9 33 44-76 479-514 (852)
356 TIGR00630 uvra excinuclease AB 94.9 0.029 7.3E-07 31.1 3.5 38 30-71 5-44 (956)
357 KOG2355 consensus 94.9 0.017 4.4E-07 32.2 2.4 21 51-71 41-61 (291)
358 TIGR02868 CydC ABC transporter 94.9 0.022 5.7E-07 31.6 3.0 54 23-76 356-413 (566)
359 TIGR01192 chvA glucan exporter 94.9 0.072 1.8E-06 29.1 5.5 72 24-97 334-412 (592)
360 COG2805 PilT Tfp pilus assembl 94.8 0.026 6.7E-07 31.3 3.1 51 24-74 95-149 (353)
361 COG1245 Predicted ATPase, RNas 94.8 0.028 7.1E-07 31.2 3.2 25 51-75 368-392 (591)
362 COG3596 Predicted GTPase [Gene 94.8 0.025 6.3E-07 31.4 3.0 22 50-71 38-60 (296)
363 pfam08298 AAA_PrkA PrkA AAA do 94.7 0.032 8.2E-07 30.9 3.3 29 49-77 84-112 (358)
364 KOG0055 consensus 94.7 0.073 1.9E-06 29.1 5.1 31 46-76 374-405 (1228)
365 COG2804 PulE Type II secretory 94.7 0.031 8E-07 30.9 3.1 58 17-74 215-282 (500)
366 cd00009 AAA The AAA+ (ATPases 94.6 0.039 1E-06 30.4 3.6 27 49-75 18-44 (151)
367 PRK10436 hypothetical protein; 94.6 0.034 8.7E-07 30.7 3.2 26 49-74 214-239 (461)
368 cd01129 PulE-GspE PulE/GspE Th 94.6 0.035 9E-07 30.7 3.3 26 49-74 79-104 (264)
369 COG4148 ModC ABC-type molybdat 94.6 0.03 7.6E-07 31.0 2.8 31 45-75 16-49 (352)
370 COG4694 Uncharacterized protei 94.6 0.053 1.3E-06 29.8 4.1 49 28-79 7-55 (758)
371 COG0194 Gmk Guanylate kinase [ 94.5 0.034 8.6E-07 30.8 3.1 25 50-74 4-28 (191)
372 cd04170 EF-G_bact Elongation f 94.5 0.11 2.8E-06 28.2 5.7 30 53-83 2-31 (268)
373 TIGR00956 3a01205 Pleiotropic 94.5 0.022 5.6E-07 31.7 2.0 20 52-71 855-874 (1466)
374 PRK12726 flagellar biosynthesi 94.5 0.058 1.5E-06 29.6 4.2 31 45-75 200-231 (407)
375 cd04169 RF3 RF3 subfamily. Pe 94.4 0.036 9.3E-07 30.6 3.1 27 53-80 5-31 (267)
376 cd04168 TetM_like Tet(M)-like 94.4 0.086 2.2E-06 28.7 4.9 28 53-81 2-29 (237)
377 COG1127 Ttg2A ABC-type transpo 94.4 0.04 1E-06 30.4 3.2 26 50-75 34-59 (263)
378 pfam00625 Guanylate_kin Guanyl 94.4 0.036 9.1E-07 30.6 2.9 24 51-74 2-25 (182)
379 COG0444 DppD ABC-type dipeptid 94.3 0.11 2.8E-06 28.2 5.3 34 42-75 22-56 (316)
380 TIGR03263 guanyl_kin guanylate 94.3 0.039 1E-06 30.4 3.0 24 51-74 2-25 (180)
381 PTZ00265 multidrug resistance 94.3 0.059 1.5E-06 29.5 3.8 30 46-75 1190-1220(1467)
382 TIGR02782 TrbB_P P-type conjug 94.2 0.032 8.2E-07 30.9 2.4 25 52-76 141-165 (315)
383 TIGR02788 VirB11 P-type DNA tr 94.1 0.036 9.1E-07 30.6 2.5 26 50-75 158-183 (328)
384 cd01130 VirB11-like_ATPase Typ 94.1 0.042 1.1E-06 30.3 2.8 24 52-75 27-50 (186)
385 TIGR00955 3a01204 Pigment prec 94.1 0.047 1.2E-06 30.1 3.0 24 51-74 59-82 (671)
386 PRK06731 flhF flagellar biosyn 94.1 0.064 1.6E-06 29.4 3.7 31 46-76 71-101 (270)
387 COG2884 FtsE Predicted ATPase 94.0 0.077 2E-06 29.0 4.0 29 46-74 23-52 (223)
388 KOG0066 consensus 94.0 0.048 1.2E-06 30.0 2.9 24 51-74 614-637 (807)
389 PTZ00243 ABC transporter; Prov 94.0 0.13 3.4E-06 27.8 5.2 30 46-75 1331-1361(1560)
390 TIGR01186 proV glycine betaine 93.9 0.067 1.7E-06 29.3 3.5 31 45-75 13-44 (372)
391 PRK00300 gmk guanylate kinase; 93.9 0.054 1.4E-06 29.8 3.0 25 50-74 7-31 (208)
392 COG1123 ATPase components of v 93.8 0.17 4.2E-06 27.3 5.3 35 42-76 308-343 (539)
393 cd00071 GMPK Guanosine monopho 93.8 0.05 1.3E-06 29.9 2.6 23 52-74 1-23 (137)
394 COG1123 ATPase components of v 93.7 0.095 2.4E-06 28.5 3.9 34 44-77 28-62 (539)
395 PTZ00265 multidrug resistance 93.6 0.12 3E-06 28.0 4.4 30 45-74 405-435 (1467)
396 PRK05399 DNA mismatch repair p 93.6 0.1 2.7E-06 28.3 4.1 34 39-73 591-626 (848)
397 PRK13900 type IV secretion sys 93.6 0.059 1.5E-06 29.6 2.7 25 52-76 162-186 (332)
398 TIGR02538 type_IV_pilB type IV 93.5 0.043 1.1E-06 30.3 2.0 50 21-71 287-348 (577)
399 COG3451 VirB4 Type IV secretor 93.4 0.069 1.8E-06 29.2 2.9 26 51-76 437-462 (796)
400 cd02021 GntK Gluconate kinase 93.4 0.07 1.8E-06 29.2 2.8 24 52-75 1-24 (150)
401 PRK13851 type IV secretion sys 93.3 0.07 1.8E-06 29.2 2.8 25 52-76 164-188 (343)
402 PRK08118 topology modulation p 93.3 0.091 2.3E-06 28.6 3.3 22 53-74 4-25 (167)
403 COG4525 TauB ABC-type taurine 93.3 0.09 2.3E-06 28.6 3.3 33 44-76 24-57 (259)
404 PRK13833 conjugal transfer pro 93.2 0.078 2E-06 28.9 2.9 26 51-76 145-170 (323)
405 COG4167 SapF ABC-type antimicr 93.2 0.1 2.7E-06 28.3 3.6 36 42-77 30-66 (267)
406 pfam00448 SRP54 SRP54-type pro 93.2 0.11 2.8E-06 28.2 3.6 25 50-74 1-25 (196)
407 COG4107 PhnK ABC-type phosphon 93.1 0.098 2.5E-06 28.5 3.3 32 45-76 26-58 (258)
408 cd04104 p47_IIGP_like p47 (47- 93.1 0.072 1.8E-06 29.1 2.6 21 53-73 4-24 (197)
409 PRK12402 replication factor C 93.1 0.11 2.8E-06 28.2 3.5 27 53-79 39-65 (337)
410 cd03114 ArgK-like The function 93.0 0.074 1.9E-06 29.1 2.6 25 53-77 2-26 (148)
411 TIGR01184 ntrCD nitrate ABC tr 93.0 0.12 3E-06 28.1 3.6 44 51-98 12-55 (230)
412 TIGR02528 EutP ethanolamine ut 93.0 0.044 1.1E-06 30.2 1.4 41 53-97 3-46 (144)
413 COG4619 ABC-type uncharacteriz 93.0 0.13 3.3E-06 27.8 3.8 25 51-75 30-54 (223)
414 COG1419 FlhF Flagellar GTP-bin 93.0 0.13 3.4E-06 27.8 3.8 57 46-102 199-267 (407)
415 pfam00308 Bac_DnaA Bacterial d 93.0 0.1 2.6E-06 28.4 3.2 25 51-75 35-59 (219)
416 PRK01889 ribosome-associated G 92.9 0.098 2.5E-06 28.4 3.1 24 48-71 191-215 (353)
417 pfam00485 PRK Phosphoribulokin 92.9 0.1 2.5E-06 28.4 3.1 26 52-77 1-26 (196)
418 PRK11784 tRNA 2-selenouridine 92.8 0.021 5.4E-07 31.8 -0.4 38 35-72 122-159 (333)
419 pfam00004 AAA ATPase family as 92.7 0.091 2.3E-06 28.6 2.7 21 54-74 2-22 (131)
420 COG4608 AppF ABC-type oligopep 92.7 0.17 4.4E-06 27.2 4.0 34 42-75 30-64 (268)
421 cd02028 UMPK_like Uridine mono 92.7 0.12 3E-06 28.0 3.2 25 52-76 1-25 (179)
422 pfam09439 SRPRB Signal recogni 92.6 0.13 3.4E-06 27.8 3.4 22 50-71 3-24 (181)
423 PRK05480 uridine kinase; Provi 92.6 0.16 4E-06 27.4 3.8 27 51-77 7-33 (209)
424 TIGR00176 mobB molybdopterin-g 92.6 0.13 3.2E-06 27.9 3.3 27 52-78 1-27 (165)
425 TIGR00064 ftsY signal recognit 92.6 0.11 2.8E-06 28.2 2.9 28 50-77 82-109 (284)
426 cd02023 UMPK Uridine monophosp 92.6 0.15 3.7E-06 27.6 3.5 27 52-78 1-27 (198)
427 KOG0743 consensus 92.5 0.089 2.3E-06 28.7 2.4 44 52-95 237-285 (457)
428 TIGR02203 MsbA_lipidA lipid A 92.5 0.082 2.1E-06 28.8 2.2 29 46-74 381-412 (603)
429 pfam00350 Dynamin_N Dynamin fa 92.5 0.095 2.4E-06 28.5 2.5 18 54-71 2-19 (168)
430 cd03115 SRP The signal recogni 92.4 0.15 3.9E-06 27.5 3.5 48 52-99 2-59 (173)
431 TIGR02237 recomb_radB DNA repa 92.4 0.093 2.4E-06 28.6 2.4 25 52-76 14-40 (223)
432 cd01890 LepA LepA subfamily. 92.2 0.25 6.3E-06 26.4 4.4 26 53-78 3-28 (179)
433 PRK13768 GTPase; Provisional 92.2 0.17 4.3E-06 27.3 3.5 24 52-75 4-27 (253)
434 KOG0066 consensus 92.2 0.23 5.9E-06 26.6 4.2 26 52-77 292-317 (807)
435 COG0249 MutS Mismatch repair A 92.2 0.2 5.2E-06 26.9 3.9 32 40-72 596-629 (843)
436 PRK13894 conjugal transfer ATP 92.1 0.14 3.6E-06 27.7 3.0 25 51-75 150-174 (320)
437 KOG0054 consensus 92.1 0.32 8.2E-06 25.9 4.9 31 46-76 1161-1192(1381)
438 cd04162 Arl9_Arfrp2_like Arl9/ 92.1 0.11 2.9E-06 28.1 2.5 19 53-71 2-20 (164)
439 PRK09270 frcK putative fructos 92.1 0.18 4.6E-06 27.1 3.5 25 51-75 35-59 (230)
440 PRK04195 replication factor C 92.0 0.12 3.1E-06 28.0 2.6 26 51-76 41-66 (403)
441 smart00072 GuKc Guanylate kina 92.0 0.17 4.2E-06 27.3 3.3 24 50-73 2-25 (184)
442 cd04105 SR_beta Signal recogni 92.0 0.16 4E-06 27.4 3.2 21 52-72 2-22 (203)
443 PRK07261 topology modulation p 92.0 0.15 3.9E-06 27.5 3.1 22 53-74 3-24 (171)
444 PRK00091 miaA tRNA delta(2)-is 91.9 0.22 5.7E-06 26.7 3.8 29 49-77 3-31 (304)
445 TIGR00382 clpX ATP-dependent C 91.9 0.12 3E-06 28.1 2.4 31 44-74 146-176 (452)
446 TIGR02322 phosphon_PhnN phosph 91.8 0.22 5.6E-06 26.7 3.8 28 51-78 2-29 (183)
447 COG4172 ABC-type uncharacteriz 91.8 0.19 4.8E-06 27.1 3.4 70 33-103 296-372 (534)
448 COG0178 UvrA Excinuclease ATPa 91.8 0.44 1.1E-05 25.2 5.3 51 23-76 603-658 (935)
449 PRK05541 adenylylsulfate kinas 91.8 0.22 5.6E-06 26.7 3.7 39 51-89 8-48 (176)
450 COG0529 CysC Adenylylsulfate k 91.8 0.19 4.8E-06 27.0 3.3 37 52-88 25-63 (197)
451 COG0563 Adk Adenylate kinase a 91.7 0.14 3.6E-06 27.6 2.7 25 53-78 3-27 (178)
452 TIGR01187 potA polyamine ABC t 91.7 0.08 2E-06 28.9 1.4 18 55-72 1-18 (331)
453 cd00881 GTP_translation_factor 91.7 0.72 1.8E-05 24.1 6.2 22 53-74 2-23 (189)
454 cd02026 PRK Phosphoribulokinas 91.7 0.19 5E-06 27.0 3.3 27 52-78 1-27 (273)
455 cd01896 DRG The developmentall 91.7 0.47 1.2E-05 25.1 5.3 49 53-109 3-51 (233)
456 COG4598 HisP ABC-type histidin 91.7 0.21 5.3E-06 26.8 3.5 27 50-76 32-58 (256)
457 pfam02456 Adeno_IVa2 Adenoviru 91.6 0.17 4.3E-06 27.3 2.9 22 50-71 87-108 (370)
458 pfam10662 PduV-EutP Ethanolami 91.6 0.15 3.9E-06 27.5 2.7 18 53-70 4-21 (143)
459 cd01891 TypA_BipA TypA (tyrosi 91.5 0.29 7.4E-06 26.1 4.1 24 53-76 5-28 (194)
460 cd01883 EF1_alpha Eukaryotic e 91.5 0.6 1.5E-05 24.5 5.6 27 53-79 2-28 (219)
461 COG0552 FtsY Signal recognitio 91.5 0.22 5.5E-06 26.7 3.4 29 50-78 139-167 (340)
462 TIGR01846 type_I_sec_HlyB type 91.4 0.22 5.5E-06 26.7 3.4 27 51-77 492-518 (703)
463 cd04155 Arl3 Arl3 subfamily. 91.4 0.15 3.8E-06 27.6 2.5 22 50-71 14-35 (173)
464 pfam03205 MobB Molybdopterin g 91.4 0.19 4.9E-06 27.0 3.1 25 52-76 2-26 (122)
465 TIGR03005 ectoine_ehuA ectoine 91.4 0.12 3.2E-06 27.9 2.1 40 31-71 8-51 (256)
466 cd00878 Arf_Arl Arf (ADP-ribos 91.4 0.15 3.9E-06 27.5 2.5 19 53-71 2-20 (158)
467 TIGR01842 type_I_sec_PrtD type 91.3 0.17 4.3E-06 27.3 2.7 26 51-76 357-382 (556)
468 cd04163 Era Era subfamily. Er 91.3 0.23 5.8E-06 26.6 3.4 23 49-71 2-24 (168)
469 COG0572 Udk Uridine kinase [Nu 91.3 0.26 6.7E-06 26.3 3.7 26 52-77 10-35 (218)
470 PRK07429 phosphoribulokinase; 91.3 0.26 6.7E-06 26.3 3.6 28 51-78 9-36 (331)
471 PRK09435 arginine/ornithine tr 91.2 0.22 5.5E-06 26.7 3.2 27 51-77 50-76 (325)
472 TIGR00150 TIGR00150 conserved 91.2 0.21 5.2E-06 26.8 3.1 27 50-76 28-54 (147)
473 TIGR03499 FlhF flagellar biosy 91.1 0.28 7.1E-06 26.2 3.7 25 50-74 194-220 (282)
474 COG4778 PhnL ABC-type phosphon 91.1 0.2 5.2E-06 26.9 3.0 23 51-73 38-60 (235)
475 PRK08356 hypothetical protein; 91.1 0.21 5.4E-06 26.8 3.1 23 51-73 6-28 (195)
476 pfam07728 AAA_5 AAA domain (dy 91.1 0.25 6.4E-06 26.4 3.4 26 53-78 2-27 (139)
477 TIGR00041 DTMP_kinase thymidyl 91.1 0.24 6.1E-06 26.5 3.3 26 51-76 3-28 (211)
478 PRK08233 hypothetical protein; 91.0 0.27 6.8E-06 26.3 3.5 26 51-76 4-29 (182)
479 TIGR01313 therm_gnt_kin carboh 91.0 0.23 5.9E-06 26.6 3.2 39 53-91 1-41 (175)
480 COG0630 VirB11 Type IV secreto 91.0 0.18 4.7E-06 27.1 2.6 28 50-77 143-170 (312)
481 TIGR00750 lao LAO/AO transport 91.0 0.25 6.3E-06 26.4 3.3 25 51-75 39-63 (333)
482 cd04160 Arfrp1 Arfrp1 subfamil 91.0 0.17 4.4E-06 27.2 2.5 20 53-72 2-21 (167)
483 COG5008 PilU Tfp pilus assembl 90.9 0.18 4.7E-06 27.1 2.6 21 50-70 127-147 (375)
484 PRK06217 hypothetical protein; 90.9 0.25 6.4E-06 26.4 3.3 22 53-74 4-25 (185)
485 pfam07726 AAA_3 ATPase family 90.9 0.26 6.6E-06 26.3 3.3 27 53-79 2-28 (131)
486 cd04157 Arl6 Arl6 subfamily. 90.8 0.18 4.7E-06 27.1 2.5 19 53-71 2-20 (162)
487 PRK03846 adenylylsulfate kinas 90.8 0.32 8.1E-06 25.9 3.7 40 50-89 24-65 (198)
488 cd02025 PanK Pantothenate kina 90.8 0.25 6.3E-06 26.4 3.1 24 52-75 1-24 (220)
489 PRK00089 era GTP-binding prote 90.8 0.19 4.8E-06 27.0 2.5 25 47-71 5-29 (296)
490 COG3709 Uncharacterized compon 90.8 0.35 9E-06 25.7 3.9 30 49-78 4-33 (192)
491 pfam00735 Septin Septin. Membe 90.7 0.19 4.8E-06 27.0 2.5 19 53-71 7-25 (280)
492 cd01673 dNK Deoxyribonucleosid 90.7 0.22 5.6E-06 26.7 2.8 23 52-74 1-23 (193)
493 TIGR01070 mutS1 DNA mismatch r 90.6 0.16 4E-06 27.4 2.0 31 39-70 591-623 (863)
494 cd04151 Arl1 Arl1 subfamily. 90.6 0.21 5.4E-06 26.8 2.7 20 53-72 2-21 (158)
495 PRK11545 gntK gluconate kinase 90.6 0.34 8.8E-06 25.7 3.7 28 49-76 7-34 (177)
496 TIGR03346 chaperone_ClpB ATP-d 90.6 0.33 8.4E-06 25.8 3.6 30 51-80 596-625 (852)
497 cd04177 RSR1 RSR1 subgroup. R 90.4 0.38 9.8E-06 25.5 3.9 20 53-72 4-23 (168)
498 pfam00009 GTP_EFTU Elongation 90.4 0.25 6.4E-06 26.4 2.9 23 52-74 5-27 (185)
499 cd00879 Sar1 Sar1 subfamily. 90.4 0.22 5.5E-06 26.7 2.6 21 51-71 20-40 (190)
500 KOG0073 consensus 90.4 0.17 4.4E-06 27.2 2.1 21 52-72 18-38 (185)
No 1
>PRK01156 chromosome segregation protein; Provisional
Probab=99.92 E-value=6.7e-25 Score=144.31 Aligned_cols=83 Identities=27% Similarity=0.464 Sum_probs=76.6
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEECCCE
Q ss_conf 89989999540136831799868986999907986578999999998579775643313331024457412789962855
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~~~~ 106 (110)
|+|.+|++.||++|.+ .+|+|++|+|+|+||||+|||||+|||.|+|||........|.++..+..+.+.+.|++++..
T Consensus 1 M~ik~l~l~nFks~~d-~~i~F~~Gi~~I~G~NGaGKStIldAI~~aL~g~~~~~~~~d~i~~g~~~~~V~l~F~~~~~~ 79 (895)
T PRK01156 1 MIIKRIRLKNFLSHDD-SEIEFDTGINIITGKNGAGKSSIVDAIRFALFTDKRTEKIEDMIKKGKNNLEVELEFRIGGHV 79 (895)
T ss_pred CEEEEEEEECEECCCC-CEEECCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCEEEEEEEEECCEE
T ss_conf 9776999967005778-725179992788899999878999999999778976687898976899846999999999978
Q ss_pred EEEC
Q ss_conf 6739
Q gi|254780640|r 107 YQLK 110 (110)
Q Consensus 107 y~~~ 110 (110)
|+|.
T Consensus 80 y~v~ 83 (895)
T PRK01156 80 YQIR 83 (895)
T ss_pred EEEE
T ss_conf 9999
No 2
>PRK02224 chromosome segregation protein; Provisional
Probab=99.91 E-value=3.6e-24 Score=140.65 Aligned_cols=83 Identities=22% Similarity=0.439 Sum_probs=74.7
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC-HHHHHHCCCCCCCEEEEEECCC
Q ss_conf 899899995401368317998689869999079865789999999985797756433-1333102445741278996285
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH-GDSIKKRSIKTPMPMCMAVPRC 105 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~-~d~i~~~s~~~pi~l~~~v~~~ 105 (110)
|+|.+|+|.||++|.+ .+|+|++|+|+|+||||+|||||+|||.|+|||...+... .+.+...+....+.+.|+..+.
T Consensus 1 M~i~~l~L~nFks~~d-~~i~F~~Gi~~I~G~NGsGKSsIldAI~~aL~g~~~~~~~~~~~i~~g~~~~~V~l~F~~~g~ 79 (880)
T PRK02224 1 MRFKRLYLENFKCYAD-ADLTLEDGVTVIHGLNGSGKSSLLEACFFALYGSKALDFTLADAVTKGAETAKIELGFEHAGG 79 (880)
T ss_pred CEEEEEEEECCCCCCC-CEEECCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCEEEEEEEEECCE
T ss_conf 9777999967015566-668469985899899999889999999999808877888789997679985599999997892
Q ss_pred EEEEC
Q ss_conf 56739
Q gi|254780640|r 106 KYQLK 110 (110)
Q Consensus 106 ~y~~~ 110 (110)
.|.|.
T Consensus 80 ~y~v~ 84 (880)
T PRK02224 80 DYHIE 84 (880)
T ss_pred EEEEE
T ss_conf 89999
No 3
>PRK03918 chromosome segregation protein; Provisional
Probab=99.90 E-value=7.1e-24 Score=139.17 Aligned_cols=83 Identities=29% Similarity=0.442 Sum_probs=72.5
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCC--CHHHHHHCCCCCCCEEEEEECC
Q ss_conf 89989999540136831799868986999907986578999999998579775643--3133310244574127899628
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRK--HGDSIKKRSIKTPMPMCMAVPR 104 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~--~~d~i~~~s~~~pi~l~~~v~~ 104 (110)
|+|.+|+|.||++|.+ ..|+|++|+++|+||||+|||||+|||.|+|||....+. ..+.++..+..+.+.+.|+..+
T Consensus 1 M~i~kl~L~nF~s~~~-~~i~F~~Gi~~I~G~nGsGKStIlDAI~~aL~g~~~~~~~~~~~~~~~~~~~~~V~l~F~~~~ 79 (882)
T PRK03918 1 MKIEELIIKNFRSHSD-TKVEFKSGINLIIGQNGSGKSSLLDAILVGLYWPLKPKDLKKDDFTRIGGSGTEIELTFEKDG 79 (882)
T ss_pred CEEEEEEEECCCCCCC-CEEECCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCEEEEEEEEECC
T ss_conf 9775999966037777-856079992798899999889999999999818988887767888727999659999999899
Q ss_pred CEEEEC
Q ss_conf 556739
Q gi|254780640|r 105 CKYQLK 110 (110)
Q Consensus 105 ~~y~~~ 110 (110)
..|+|.
T Consensus 80 ~~y~i~ 85 (882)
T PRK03918 80 TKYQIH 85 (882)
T ss_pred EEEEEE
T ss_conf 899999
No 4
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=99.87 E-value=2.3e-22 Score=131.61 Aligned_cols=82 Identities=32% Similarity=0.560 Sum_probs=74.5
Q ss_pred EEEEEEEEECEECCCCCEEEE--CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC---CCCHHHHHHCCCCCCCEEEEE
Q ss_conf 899899995401368317998--689869999079865789999999985797756---433133310244574127899
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIE--FADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQR---RKHGDSIKKRSIKTPMPMCMA 101 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~--f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~---~~~~d~i~~~s~~~pi~l~~~ 101 (110)
|++.+|.|.||++|.+ .+++ |..|+|+|+|+||+|||||+|||.|+|||...+ ....+.+......+.+.+.|.
T Consensus 1 M~i~~L~L~Nf~S~~~-~~~~~~f~~gi~lI~G~nGsGKSSIldAI~~ALyG~~~~~~~~~~~~~i~~g~~~~~V~l~F~ 79 (908)
T COG0419 1 MKILRLRLKNFRSFKD-IDIEKLFDSGIFLIVGPNGAGKSSILDAITFALYGKTPRLGAFSLDDLIRAGEKSASVELEFE 79 (908)
T ss_pred CCCCEEEEECCCCCCC-CCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHCCCCCEEEEEEEE
T ss_conf 9860467546656555-622315788837998999997889999999998289877544015589865886079999999
Q ss_pred ECCCEEEE
Q ss_conf 62855673
Q gi|254780640|r 102 VPRCKYQL 109 (110)
Q Consensus 102 v~~~~y~~ 109 (110)
+.+..|+|
T Consensus 80 ~~g~~Y~i 87 (908)
T COG0419 80 VNGKKYRI 87 (908)
T ss_pred ECCEEEEE
T ss_conf 89979999
No 5
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=99.86 E-value=9.4e-22 Score=128.57 Aligned_cols=84 Identities=27% Similarity=0.463 Sum_probs=75.2
Q ss_pred EEEEEEEEECEECCCCCEEEECCC----CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCCCCCCCEE
Q ss_conf 899899995401368317998689----869999079865789999999985797756433----133310244574127
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFAD----HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRSIKTPMPM 98 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~----~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s~~~pi~l 98 (110)
||+.+|+++||++|.+.++|||.+ ++++|.||||+|||||+|||.|+|||+++|..+ .+.++...-.+.+.+
T Consensus 1 Mk~~~L~l~nF~~y~g~~~IDF~~~~~~~lflI~G~nGsGKSTIlDAI~~aLYGk~~r~~~~~~~~~~~~~ge~~aeV~f 80 (213)
T cd03279 1 MKPLKLELKNFGPFREEQVIDFTGLDNNGLFLICGPTGAGKSTILDAITYALYGKTPRYGRQENLRSVFAPGEDTAEVSF 80 (213)
T ss_pred CEEEEEEEECCCCCCCCEEEECCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEEE
T ss_conf 90579999775045897178487678788899988999978899999999983888233664100024456784499999
Q ss_pred EEEECCCEEEEC
Q ss_conf 899628556739
Q gi|254780640|r 99 CMAVPRCKYQLK 110 (110)
Q Consensus 99 ~~~v~~~~y~~~ 110 (110)
.|+++.-+|+|.
T Consensus 81 eF~~g~~~YrV~ 92 (213)
T cd03279 81 TFQLGGKKYRVE 92 (213)
T ss_pred EEEECCEEEEEE
T ss_conf 999778688998
No 6
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=99.86 E-value=1.1e-21 Score=128.30 Aligned_cols=83 Identities=23% Similarity=0.388 Sum_probs=72.3
Q ss_pred EEEEEEEEECEECCCCCEEEECC------CCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC-----HHHHHHCCCCCC
Q ss_conf 89989999540136831799868------9869999079865789999999985797756433-----133310244574
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFA------DHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH-----GDSIKKRSIKTP 95 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~------~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~-----~d~i~~~s~~~p 95 (110)
||+++|+|.||++|.+.++|||. .|+.+|+||||+|||||+|||.|.|||.+++... .+.+......+.
T Consensus 1 MrPl~L~l~~fgsy~~~~~IDFt~~~l~~~gLFlI~G~TGAGKSTIlDAItfALYG~~~r~~~~~~~~~~~~~~~~~~~~ 80 (1047)
T PRK10246 1 MKILSLRLKNLNSLKGEWKIDFTAEPFASNGLFAITGPTGAGKTTLLDAICLALYHETPRLNNVSQSQNDLMTRDTAECL 80 (1047)
T ss_pred CCCEEEEEECCCCCCCCEEEECCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHCCCCCCEE
T ss_conf 95359998550178898467489864566887888899999889999999999589988888877560556228999668
Q ss_pred CEEEEEECCCEEEE
Q ss_conf 12789962855673
Q gi|254780640|r 96 MPMCMAVPRCKYQL 109 (110)
Q Consensus 96 i~l~~~v~~~~y~~ 109 (110)
+.+.|++.+..|++
T Consensus 81 Vel~F~~~g~~Yri 94 (1047)
T PRK10246 81 AEVEFEVKGEAYRA 94 (1047)
T ss_pred EEEEEEECCEEEEE
T ss_conf 99999999989999
No 7
>TIGR02168 SMC_prok_B chromosome segregation protein SMC; InterPro: IPR011890 The SMC (structural maintenance of chromosomes) family of proteins, exist in virtually all organisms including both bacteria and archaea. The SMC proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms and form three types of heterodimer (SMC1SMC3, SMC2SMC4, SMC5SMC6), which are core components of large multiprotein complexes. The best known complexes are cohesin, which is responsible for sister-chromatid cohesion, and condensin, which is required for full chromosome condensation in mitosis. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and share a five-domain structure, with globular N- and C-terminal (IPR003395 from INTERPRO) domains separated by a long (circa 100 nm or 900 residues) coiled coil segment in the centre of which is a globular ''hinge'' domain, characterised by a set of four highly conserved glycine residues that are typical of flexible regions in a protein. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif (XXXXD, where X is any hydrophobic residue), and a LSGG motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases . All SMC proteins appear to form dimers, either forming homodimers with themselves, as in the case of prokaryotic SMC proteins, or heterodimers between different but related SMC proteins. The dimers are arranged in an antiparallel alignment. This orientation brings the N- and C-terminal globular domains (from either different or identical protamers) together, which unites an ATP binding site (Walker A motif) within the N-terminal domain with a Walker B motif (DA box) within the C-terminal domain, to form a potentially functional ATPase. Protein interaction and microscopy data suggest that SMC dimers form a ring-like structure which might embrace DNA molecules. Non-SMC subunits associate with the SMC amino- and carboxy-terminal domains. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. SMCs share not only sequence similarity but also structural similarity with ABC proteins. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression . The smc gene is often associated with scpB (IPR005234 from INTERPRO) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle , , .; GO: 0005515 protein binding, 0005524 ATP binding, 0005694 chromosome.
Probab=99.86 E-value=2.9e-22 Score=131.14 Aligned_cols=77 Identities=26% Similarity=0.497 Sum_probs=61.5
Q ss_pred EEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH----HHH------HHCCCCCCCE
Q ss_conf 998999954013683179986898699990798657899999999857977564331----333------1024457412
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG----DSI------KKRSIKTPMP 97 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~----d~i------~~~s~~~pi~ 97 (110)
+|++|+|.+|++|.|...|+|++|+|.|+||||||||||+|||.|+|+=.+.|.-.+ |-| ++.--.+.|+
T Consensus 1 ~Lk~l~l~GFKSFaD~t~i~F~~g~TgiVGPNGcGKSNi~DAiRWVLGEqSak~LRg~~M~DVIF~Gs~~Rkp~~~AeV~ 80 (1191)
T TIGR02168 1 RLKKLELAGFKSFADPTTINFDKGITGIVGPNGCGKSNIVDAIRWVLGEQSAKALRGGKMEDVIFNGSETRKPLSLAEVE 80 (1191)
T ss_pred CCCEEEECCCCCCCCCEEEEECCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCEEEEE
T ss_conf 96135761210135304786178527986279987001899999860033477734689995563488777657700689
Q ss_pred EEEEECC
Q ss_conf 7899628
Q gi|254780640|r 98 MCMAVPR 104 (110)
Q Consensus 98 l~~~v~~ 104 (110)
|+|...+
T Consensus 81 L~fdN~d 87 (1191)
T TIGR02168 81 LVFDNSD 87 (1191)
T ss_pred EEEECCC
T ss_conf 8885588
No 8
>TIGR02169 SMC_prok_A chromosome segregation protein SMC; InterPro: IPR011891 The SMC (structural maintenance of chromosomes) family of proteins, exist in virtually all organisms including both bacteria and archaea. The SMC proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms and form three types of heterodimer (SMC1SMC3, SMC2SMC4, SMC5SMC6), which are core components of large multiprotein complexes. The best known complexes are cohesin, which is responsible for sister-chromatid cohesion, and condensin, which is required for full chromosome condensation in mitosis. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and share a five-domain structure, with globular N- and C-terminal (IPR003395 from INTERPRO) domains separated by a long (circa 100 nm or 900 residues) coiled coil segment in the centre of which is a globular ''hinge'' domain, characterised by a set of four highly conserved glycine residues that are typical of flexible regions in a protein. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif (XXXXD, where X is any hydrophobic residue), and a LSGG motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases . All SMC proteins appear to form dimers, either forming homodimers with themselves, as in the case of prokaryotic SMC proteins, or heterodimers between different but related SMC proteins. The dimers are arranged in an antiparallel alignment. This orientation brings the N- and C-terminal globular domains (from either different or identical protamers) together, which unites an ATP binding site (Walker A motif) within the N-terminal domain with a Walker B motif (DA box) within the C-terminal domain, to form a potentially functional ATPase. Protein interaction and microscopy data suggest that SMC dimers form a ring-like structure which might embrace DNA molecules. Non-SMC subunits associate with the SMC amino- and carboxy-terminal domains. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. SMCs share not only sequence similarity but also structural similarity with ABC proteins. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression . This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by IPR011890 from INTERPRO. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent ..
Probab=99.81 E-value=4.3e-20 Score=120.25 Aligned_cols=77 Identities=22% Similarity=0.349 Sum_probs=63.4
Q ss_pred EEEEEEEECEECCC-CCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHC----C------C
Q ss_conf 99899995401368-317998689869999079865789999999985797756433----1333102----4------4
Q gi|254780640|r 28 KLLDIEISHFRGFT-EIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKR----S------I 92 (110)
Q Consensus 28 kl~~i~i~nFr~f~-~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~----s------~ 92 (110)
+|.+|++.||++|+ ....|+|.+|+|+|.||||||||||+|||.|+|+..+.+.-. .|.|.+. + .
T Consensus 1 YIe~ie~~nFKSFg~kk~~Ipf~~GFtvIsGPNGSGKSNI~DaiLFaLGl~s~k~~RAe~LsDLi~~gahe~~~~~~~~~ 80 (1202)
T TIGR02169 1 YIEKIELENFKSFGTKKKVIPFLKGFTVISGPNGSGKSNIIDAILFALGLSSSKAMRAERLSDLIFNGAHEAAKNAKSAD 80 (1202)
T ss_pred CCEEEEEECCEEECCCEEEEECCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
T ss_conf 92578872011207871263168888478888888645599999997664102342221052224487422235688996
Q ss_pred CCCCEEEEEECC
Q ss_conf 574127899628
Q gi|254780640|r 93 KTPMPMCMAVPR 104 (110)
Q Consensus 93 ~~pi~l~~~v~~ 104 (110)
.+.|++.|...+
T Consensus 81 ea~V~v~F~nd~ 92 (1202)
T TIGR02169 81 EAEVTVTFKNDD 92 (1202)
T ss_pred EEEEEEEEECCC
T ss_conf 898988872278
No 9
>pfam02463 SMC_N RecF/RecN/SMC N terminal domain. This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.
Probab=99.80 E-value=8.6e-20 Score=118.75 Aligned_cols=75 Identities=23% Similarity=0.362 Sum_probs=58.1
Q ss_pred EEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCC----CCHHHHHHCCCC-----CCCEE
Q ss_conf 998999954013683179986898699990798657899999999857977564----331333102445-----74127
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR----KHGDSIKKRSIK-----TPMPM 98 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~----~~~d~i~~~s~~-----~pi~l 98 (110)
.|.+|+|.||++|.+.+.++|++++|.|+||||+|||+|+|||.|+|.-.+.+. ...|.|.+.+.. +.+++
T Consensus 1 yIk~i~i~gFKSy~~~~~i~f~~gft~IVGpNGSGKSNi~DAI~fVLG~~s~k~lR~~~~~dLI~~g~~~~~~~~A~V~l 80 (1162)
T pfam02463 1 YLKRIEIEGFKSYAKTVILPFSPGFTAIVGPNGSGKSNILDAILFVLGERSAKSLRSERLSDLIHYSKSGAFVNSAEVTI 80 (1162)
T ss_pred CCCEEEEECCCCCCCCEECCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCHHHHCCCCHHHHEECCCCCCCCCEEEEEE
T ss_conf 97479970830899996458999917888999987788999999985997542316015888702899999986689999
Q ss_pred EEEE
Q ss_conf 8996
Q gi|254780640|r 99 CMAV 102 (110)
Q Consensus 99 ~~~v 102 (110)
.|..
T Consensus 81 ~fdn 84 (1162)
T pfam02463 81 TFDN 84 (1162)
T ss_pred EEEC
T ss_conf 9987
No 10
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=99.78 E-value=4.1e-19 Score=115.34 Aligned_cols=78 Identities=24% Similarity=0.390 Sum_probs=66.6
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCCCC------CCC
Q ss_conf 899899995401368317998689869999079865789999999985797756433----1333102445------741
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRSIK------TPM 96 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s~~------~pi 96 (110)
|+|.+|++.||++|.+...++|.+++|.|+||||+|||||+|||.|+|...+.+... .|.|...+.. ..+
T Consensus 1 m~lk~i~l~gFKSF~~~~~i~f~~~~t~IvGPNGSGKSNI~DAi~fVLG~~s~k~lRa~~~~DlIf~g~~~r~~~~~A~V 80 (1163)
T COG1196 1 MYLKRIELKGFKSFADPTEINFSPGFTAIVGPNGSGKSNIVDAIRFVLGEQSAKNLRASKMSDLIFAGSGNRKPANYAEV 80 (1163)
T ss_pred CCEEEEEEECCEECCCCEEEECCCCCEEEECCCCCCHHHHHHHHHHHCCCCCHHHHCCCCCHHHHHCCCCCCCCCCEEEE
T ss_conf 91379998785624783686169996168899988668899999998389502110425726675188987888770389
Q ss_pred EEEEEECC
Q ss_conf 27899628
Q gi|254780640|r 97 PMCMAVPR 104 (110)
Q Consensus 97 ~l~~~v~~ 104 (110)
++.|...+
T Consensus 81 ~l~fdN~d 88 (1163)
T COG1196 81 ELTFDNSD 88 (1163)
T ss_pred EEEEECCC
T ss_conf 99986788
No 11
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=99.75 E-value=2.4e-18 Score=111.50 Aligned_cols=58 Identities=21% Similarity=0.370 Sum_probs=52.3
Q ss_pred EEEEEEEEECEECCCCCEEE-ECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH
Q ss_conf 89989999540136831799-86898699990798657899999999857977564331
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKI-EFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG 84 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i-~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~ 84 (110)
|+|++|+|.+|++|.+.+.+ +|++++|.|+||||+|||+|+|||.|+|.-.+.+.-.+
T Consensus 1 M~ik~i~i~GFKSF~d~T~i~~f~~g~taIVGPNGsGKSNI~DAIrwVLGe~s~k~LRg 59 (251)
T cd03273 1 MHIKEIILDGFKSYATRTVISGFDPQFNAITGLNGSGKSNILDAICFVLGITNLSTVRA 59 (251)
T ss_pred CEEEEEEECCCCCCCCCEEEEECCCCCEEEECCCCCCHHHHHHHHHHHHCCCCHHHHCC
T ss_conf 93669998072267887788505999569999998866889999999975674434121
No 12
>PRK00064 recF recombination protein F; Reviewed
Probab=99.74 E-value=7.9e-18 Score=108.95 Aligned_cols=73 Identities=25% Similarity=0.398 Sum_probs=59.6
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHH-HHHHCCCCCCCEEEE
Q ss_conf 89989999540136831799868986999907986578999999998579775643313-331024457412789
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD-SIKKRSIKTPMPMCM 100 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d-~i~~~s~~~pi~l~~ 100 (110)
|+|.+|++.|||+|.+ .+++|++++|+|+|+||+|||||||||.++..|.+.|....+ .++..+-...+...+
T Consensus 1 M~i~~L~l~nFRn~~~-~~l~~~~~~n~i~G~NGsGKTnlLEAI~~L~~grSfR~~~~~~li~~~~~~~~v~a~~ 74 (355)
T PRK00064 1 MYLTRLSLTDFRNYEE-LDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVVHARV 74 (355)
T ss_pred CEECEEEEECCCCCCC-CEEECCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCCCEEEEEEE
T ss_conf 9708788736559853-4783499808999999888899999999984898888898699972899878999999
No 13
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=99.71 E-value=1.8e-17 Score=107.13 Aligned_cols=52 Identities=23% Similarity=0.523 Sum_probs=48.9
Q ss_pred EEEEEEEEECEECCCCCEEEECC----CCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 89989999540136831799868----98699990798657899999999857977
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFA----DHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~----~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
|+|.+|.|.|||.|.+.++|+|. .++++|.|.||+||||+|+||.|+|||..
T Consensus 1 M~l~~i~l~Nf~~y~g~~~~~~~~~~~k~i~li~G~NG~GKTTll~Ai~~~LYG~~ 56 (650)
T TIGR03185 1 MIIKQLTLENFGAYRGRQTFDLSPSSPKPIILIGGLNGAGKTTLLDAIQLGLYGKR 56 (650)
T ss_pred CEEEEEEEEECEEECCCEEEECCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 96348999706431897136578999998799977999978999999999956951
No 14
>cd03242 ABC_RecF RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters 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 with 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=99.70 E-value=5.5e-17 Score=104.74 Aligned_cols=77 Identities=26% Similarity=0.434 Sum_probs=60.2
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHH-HHHHCCCCCCCEEEEEECCCE
Q ss_conf 989999540136831799868986999907986578999999998579775643313-331024457412789962855
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD-SIKKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d-~i~~~s~~~pi~l~~~v~~~~ 106 (110)
|.+|++.|||+|.+ .+++|++++|+|+|+||+|||||||||.++..|.+.|....+ .++..+-...+...+.-.+..
T Consensus 1 i~~L~l~nFRn~~~-~~l~~~~~~n~i~G~NGsGKTnlLEAI~~ls~grSFR~~~~~~lI~~~~~~~~v~~~~~~~~~~ 78 (270)
T cd03242 1 LKSLELRNFRNYAE-LELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIRWGAEEAKISAVLERQGGE 78 (270)
T ss_pred CCEEEEECCCCCCC-CEEECCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHCCCCCCEEEEEEEEECCCE
T ss_conf 96787647669850-5672499948999999887899999999981799888675588852789858999999989960
No 15
>TIGR00618 sbcc exonuclease SbcC; InterPro: IPR004592 All proteins in this family for which functions are known are part of an exonuclease complex with sbcD homologs. This complex is involved in the initiation of recombination to regulate the levels of palindromic sequences in DNA. SbcC may have nuclease activity that is functionally related to one of the nuclease activities of the RecBCD enzyme (IPR004586 from INTERPRO).; GO: 0004527 exonuclease activity, 0006259 DNA metabolic process.
Probab=99.67 E-value=4.3e-17 Score=105.25 Aligned_cols=82 Identities=27% Similarity=0.446 Sum_probs=65.7
Q ss_pred EEEEEEEEECEECCCCCEEEECCC------CEEEEEECCCCCHHHHHHHHHHHHCCC-CCCCCCHHHHHHC-----CCCC
Q ss_conf 899899995401368317998689------869999079865789999999985797-7564331333102-----4457
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFAD------HLTIVNGQNGYGKSSLSEAIEWLFYGY-TQRRKHGDSIKKR-----SIKT 94 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~------~~~~i~G~Ng~GKStil~ai~~~l~g~-~~~~~~~d~i~~~-----s~~~ 94 (110)
||+.+|.+.||.+|.+...|||.+ ++.+|.|+||+|||||+|||.|+|||. ..+....+...+. +...
T Consensus 1 m~pl~L~lkn~~~y~~~~~~dfT~~~fasl~~f~i~G~tGAGKtsLldAI~yALYGkP~~~~s~~~~~~~~~~~~~~~~~ 80 (1063)
T TIGR00618 1 MKPLKLELKNFTSYKGESVIDFTALGFASLKLFVICGKTGAGKTSLLDAITYALYGKPVPRESEVVASKNSLSRADSEEA 80 (1063)
T ss_pred CCCCEEEECCCCCCCCCCEEECCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 96534764063534576101027887212573677788998354599999998728887751467888754200107877
Q ss_pred CCEEEEEECCCEEE
Q ss_conf 41278996285567
Q gi|254780640|r 95 PMPMCMAVPRCKYQ 108 (110)
Q Consensus 95 pi~l~~~v~~~~y~ 108 (110)
-.++.|+++.--|+
T Consensus 81 ~~~lef~~~~~~yR 94 (1063)
T TIGR00618 81 LAELEFALDTKLYR 94 (1063)
T ss_pred HHHHHHEECCCHHH
T ss_conf 65464013560114
No 16
>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=99.67 E-value=1.3e-16 Score=102.83 Aligned_cols=75 Identities=19% Similarity=0.391 Sum_probs=61.5
Q ss_pred EEEEEEEEECEECCCCCEEE-ECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC---HHHHHHCCCCCCCEEEEE
Q ss_conf 89989999540136831799-8689869999079865789999999985797756433---133310244574127899
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKI-EFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH---GDSIKKRSIKTPMPMCMA 101 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i-~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~---~d~i~~~s~~~pi~l~~~ 101 (110)
|.|.+|+++||++|.+.+.+ +|+++++.|+||||+|||+++|||.|+|.-..++-+. .|.|.+.+...++.-|.+
T Consensus 1 m~Ik~i~l~gFKSf~~~~~i~pf~~~~t~IvGpNGsGKSNiiDAi~fvlG~~a~~lR~~~l~dlI~nS~~~~~~~~~~V 79 (212)
T cd03274 1 LIITKLVLENFKSYAGEQVIGPFHKSFSAIVGPNGSGKSNVIDSMLFVFGFRASKMRQKKLSDLIHNSAGHPNLDSCSV 79 (212)
T ss_pred CEEEEEEECCCCCCCCCEEECCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHEECCCCCCCCCEEEE
T ss_conf 9488999878215789877325799954999999886488899999997232766655125775147789999874799
No 17
>cd03272 ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=99.66 E-value=7.3e-17 Score=104.09 Aligned_cols=49 Identities=29% Similarity=0.518 Sum_probs=45.5
Q ss_pred EEEEEEECEECCCCCEEEE-CCCCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 9899995401368317998-689869999079865789999999985797
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIE-FADHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~-f~~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
|++|+|.+|++|.+...|+ |++++|+|+||||+|||+|+|||+|+|.-.
T Consensus 1 iK~i~i~GFKSf~d~t~i~~f~p~~taIVGpNGsGKSNi~dAIrwVLGe~ 50 (243)
T cd03272 1 IKQVIIQGFKSYKDQTVIEPFSPKHNVVVGRNGSGKSNFFAAIRFVLSDE 50 (243)
T ss_pred CCEEEEECEECCCCCEEECCCCCCCCEEECCCCCCCHHHHHHHHHHHCCC
T ss_conf 94799927005777657314799963798998766043677612565377
No 18
>cd03275 ABC_SMC1_euk Eukaryotic SMC1 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=99.65 E-value=3.7e-16 Score=100.58 Aligned_cols=79 Identities=22% Similarity=0.304 Sum_probs=58.9
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCCC------CCCCEE
Q ss_conf 9899995401368317998689869999079865789999999985797756433----133310244------574127
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRSI------KTPMPM 98 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s~------~~pi~l 98 (110)
|++|++.||++|.+.+.+.|.+++|.|+||||+|||+|+|||.|+|.-.+. .-. .|.|...+. .+.+++
T Consensus 1 lk~l~l~gFKSf~~~~~i~~~~~~t~IvGpNGsGKSNi~DAi~~vlGe~s~-~lR~~~m~DlIf~g~~~~~~~~~A~V~l 79 (247)
T cd03275 1 LKRLELENFKSYKGRHVIGPFDRFTCIIGPNGSGKSNLMDAISFVLGEKSS-HLRSKNLKDLIYRARVGKPDSNSAYVTA 79 (247)
T ss_pred CCEEEECCCCCCCCCEEECCCCCCEEEECCCCCCHHHHHHHHHHHHCCCHH-HHCCCCCCEEEECCCCCCCCCCEEEEEE
T ss_conf 944898075367898685489983799899877658889999999656623-3064561127865887889985489999
Q ss_pred EEEECCCEEE
Q ss_conf 8996285567
Q gi|254780640|r 99 CMAVPRCKYQ 108 (110)
Q Consensus 99 ~~~v~~~~y~ 108 (110)
.+.....+..
T Consensus 80 ~f~n~~~ev~ 89 (247)
T cd03275 80 VYEDDDGEEK 89 (247)
T ss_pred EEECCCCEEE
T ss_conf 9988998599
No 19
>COG1195 RecF Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]
Probab=99.64 E-value=3.6e-16 Score=100.61 Aligned_cols=64 Identities=27% Similarity=0.522 Sum_probs=55.9
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCC
Q ss_conf 89989999540136831799868986999907986578999999998579775643313331024
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRS 91 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s 91 (110)
|.|.++.+.|||+|.+ .+++|++++|+++|+||+||||+||||.++-.|.+.|......+.+..
T Consensus 1 M~l~~L~L~nFRNy~~-~~l~~~p~~nvl~G~NgqGKTNlLEAI~~l~~grS~Rt~~~~~lir~~ 64 (363)
T COG1195 1 MYLLSLLLRNFRNYAE-LDLDLSPGVNVLVGENGQGKTNLLEAIYLLALGRSHRTSRDKELIRTG 64 (363)
T ss_pred CCEEEEEHHHCCCCCC-CEECCCCCCEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHCC
T ss_conf 9103613533178412-000369983799898988628999999997125676530145798618
No 20
>KOG0018 consensus
Probab=99.64 E-value=2.6e-16 Score=101.36 Aligned_cols=79 Identities=28% Similarity=0.406 Sum_probs=67.3
Q ss_pred EEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCC---CCHHHHHHCCCCCCCEEEEEE
Q ss_conf 68998999954013683179986898699990798657899999999857977564---331333102445741278996
Q gi|254780640|r 26 IFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR---KHGDSIKKRSIKTPMPMCMAV 102 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~---~~~d~i~~~s~~~pi~l~~~v 102 (110)
+++|..|+|.||++|.+.+.|-+-+.+|.|+||||+|||+++|||.|+|.-.++.- ...|.|.......|+++.+..
T Consensus 1 ~g~L~~lEieNFKSYkGh~~iGPF~~FTaIIGPNGSGKSNlMDAISFVLGekss~LR~~~lkdLIyg~~i~~~v~l~Y~~ 80 (1141)
T KOG0018 1 MGRLLTLEIENFKSYKGHQVIGPFDRFTAIIGPNGSGKSNLMDAISFVLGEKSSHLRVSHLKDLIYGKPIRKPVTLKYEE 80 (1141)
T ss_pred CCCEEEEEHHCCCCCCCCEEECCCHHCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCHHHEEEC
T ss_conf 98514530101200059644267021115468998762788988899854777545544088886377669850330443
Q ss_pred CC
Q ss_conf 28
Q gi|254780640|r 103 PR 104 (110)
Q Consensus 103 ~~ 104 (110)
++
T Consensus 81 ~d 82 (1141)
T KOG0018 81 GD 82 (1141)
T ss_pred CC
T ss_conf 88
No 21
>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.
Probab=99.64 E-value=2.7e-16 Score=101.25 Aligned_cols=59 Identities=20% Similarity=0.460 Sum_probs=51.7
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHH
Q ss_conf 98999954013683179986898699990798657899999999857977564331333
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSI 87 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i 87 (110)
|++|+|+||++|.+...++|.+++|+|+||||+|||+|+|||.|+|.+...+....+.+
T Consensus 1 ik~i~l~nFksf~~~~~~~~~~~~~~ivG~nGsGKSni~~ai~~~~g~~~~~~~~~~~l 59 (178)
T cd03239 1 IKQITLKNFKSYRDETVVGGSNSFNAIVGPNGSGKSNIVDAICFVLGGKAAKLRRGSLL 59 (178)
T ss_pred CCEEEEECCCCCCCCEEECCCCCEEEEECCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 95899938045689888348998179989998877899999999986642765200135
No 22
>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=99.58 E-value=4.2e-15 Score=95.29 Aligned_cols=73 Identities=23% Similarity=0.375 Sum_probs=59.1
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH----HHHHHCCCCCCCEEEEEE
Q ss_conf 98999954013683179986898699990798657899999999857977564331----333102445741278996
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG----DSIKKRSIKTPMPMCMAV 102 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~----d~i~~~s~~~pi~l~~~v 102 (110)
|.+|++.||++|.. .+++|.+++|+|+|+||+|||+|++||...|.|...-...+ +.++...-...+++....
T Consensus 1 I~~I~l~NFm~h~~-~~~~f~p~lN~IiG~NGsGKSsIl~AI~lgLGgk~~~~~Rg~s~k~fIK~G~~~A~I~I~L~N 77 (198)
T cd03276 1 IESITLKNFMCHRH-LQIEFGPRVNFIVGNNGSGKSAILTALTIGLGGKASDTNRGSSLKDLIKDGESSAKITVTLKN 77 (198)
T ss_pred CCEEEEEEECCCCC-EEEEECCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCEEEEEEEEEC
T ss_conf 94799981335121-389608982899889999889999999986388813365313399998678743899999946
No 23
>TIGR00611 recf DNA replication and repair protein RecF; InterPro: IPR001238 All proteins in this family, including recF, for which functions are known are DNA binding proteins that assist the filamentation of RecA onto DNA for the initiation of recombination or recombinational repair. RecF is involved in DNA metabolism and is required for recombinational DNA repair and for induction of the SOS response , . ; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=99.52 E-value=2.7e-15 Score=96.24 Aligned_cols=75 Identities=24% Similarity=0.379 Sum_probs=62.0
Q ss_pred EEEEEEE---------EECEECCCCCEEEE---CCCCEE-EEEECCCCCH--HHHHHHHHHHHCCCCCCCCCHH-HHHHC
Q ss_conf 8998999---------95401368317998---689869-9990798657--8999999998579775643313-33102
Q gi|254780640|r 27 FKLLDIE---------ISHFRGFTEIQKIE---FADHLT-IVNGQNGYGK--SSLSEAIEWLFYGYTQRRKHGD-SIKKR 90 (110)
Q Consensus 27 ~kl~~i~---------i~nFr~f~~~~~i~---f~~~~~-~i~G~Ng~GK--Stil~ai~~~l~g~~~~~~~~d-~i~~~ 90 (110)
|++.+|. |.+||+|. ..+++ |++++| +|+|+||+|| |+++|||.++-.|.+.|..... .|+..
T Consensus 1 M~~~~L~rPCrCGCkPl~~FRNy~-~v~L~rCvl~p~~Nq~~~G~NgqGKrPTnllEAiy~L~~~rShR~~~~~~lIr~~ 79 (399)
T TIGR00611 1 MYLSRLERPCRCGCKPLKDFRNYD-EVDLERCVLSPGVNQVFVGPNGQGKRPTNLLEAIYYLALGRSHRTSRDKELIRFG 79 (399)
T ss_pred CCCCCCCCCCCCCCCCCCCCCCHH-HCCCHHHCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECC
T ss_conf 923001775556775688877864-5010020117887448876788986407899999998744435442056301127
Q ss_pred CCCCCCEEEEEE
Q ss_conf 445741278996
Q gi|254780640|r 91 SIKTPMPMCMAV 102 (110)
Q Consensus 91 s~~~pi~l~~~v 102 (110)
.-...+.-.++-
T Consensus 80 ~~~~~~~g~~~~ 91 (399)
T TIGR00611 80 AEAAVIEGRVSK 91 (399)
T ss_pred CCEEEEEEEEEE
T ss_conf 861799999980
No 24
>cd03277 ABC_SMC5_euk Eukaryotic SMC5 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=99.52 E-value=7.8e-14 Score=88.96 Aligned_cols=80 Identities=20% Similarity=0.263 Sum_probs=64.0
Q ss_pred EEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCCCCCCCEEEEEEC
Q ss_conf 99899995401368317998689869999079865789999999985797756433----13331024457412789962
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRSIKTPMPMCMAVP 103 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s~~~pi~l~~~v~ 103 (110)
.|.+|++.||.+| +..++.|.+++|+|+||||+|||+|+.||.+.|.|..+-... ++.+++......+++.....
T Consensus 2 ~I~rI~l~NFmty-~~~~~~~gp~lN~IiGpNGSGKSsIv~AI~lgLGG~p~~lgRa~~v~~fVK~G~~~~~iEIeL~~~ 80 (213)
T cd03277 2 SIVRIKLENFVTY-DETEFRPGPSLNMIIGPNGSGKSSIVCAICLGLGGKPKLLGRAKKVGEFVKRGCDEGTIEIELYGN 80 (213)
T ss_pred EEEEEEEEEEECC-EEEEEECCCCEEEEECCCCCCHHHHHHHHHHHHCCCHHHCCCHHHHHHHHHCCCCCEEEEEEEECC
T ss_conf 2899999730011-046995499757998899887899999999881898000452656999985787642899999659
Q ss_pred CCEEE
Q ss_conf 85567
Q gi|254780640|r 104 RCKYQ 108 (110)
Q Consensus 104 ~~~y~ 108 (110)
....+
T Consensus 81 ~~~iq 85 (213)
T cd03277 81 PGNIQ 85 (213)
T ss_pred CCCEE
T ss_conf 99756
No 25
>KOG0996 consensus
Probab=99.46 E-value=3.7e-14 Score=90.60 Aligned_cols=85 Identities=19% Similarity=0.317 Sum_probs=64.6
Q ss_pred CCEEEEEEEEEEEECEECCCCCEEE-ECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC---HHHHHHCCCCCCCE
Q ss_conf 2101689989999540136831799-8689869999079865789999999985797756433---13331024457412
Q gi|254780640|r 22 ARKLIFKLLDIEISHFRGFTEIQKI-EFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH---GDSIKKRSIKTPMP 97 (110)
Q Consensus 22 ~~~~~~kl~~i~i~nFr~f~~~~~i-~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~---~d~i~~~s~~~pi~ 97 (110)
+....+-|.+|.+.||++|.+.+.+ +|++.++.|+||||+|||+++||+.|+|.-...+-+. .+.|++.+...++.
T Consensus 79 ~~~~RL~I~~i~~~NFKSYaG~~ilGPFHksFtaIvGPNGSGKSNVIDsmLFVFGfRA~kiR~~klS~LIh~S~~~~~l~ 158 (1293)
T KOG0996 79 AGGPRLMITEIVVENFKSYAGKQILGPFHKSFTAIVGPNGSGKSNVIDSMLFVFGFRASKIRSKKLSALIHKSDGHPNLQ 158 (1293)
T ss_pred CCCCEEEEHHHHHHHHHHHCCCEEECCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 78880661166654006416864216778773156789988703788999999653276776778999883447899876
Q ss_pred EEEEECCCE
Q ss_conf 789962855
Q gi|254780640|r 98 MCMAVPRCK 106 (110)
Q Consensus 98 l~~~v~~~~ 106 (110)
=|.+--.++
T Consensus 159 SCsV~vhFq 167 (1293)
T KOG0996 159 SCSVEVHFQ 167 (1293)
T ss_pred CEEEEEEEE
T ss_conf 304887643
No 26
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=99.38 E-value=9.8e-13 Score=83.46 Aligned_cols=74 Identities=27% Similarity=0.500 Sum_probs=55.6
Q ss_pred EEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH-----HHHHHCCCCCCCEEEEEEC
Q ss_conf 8999954013683179986898699990798657899999999857977564331-----3331024457412789962
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG-----DSIKKRSIKTPMPMCMAVP 103 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~-----d~i~~~s~~~pi~l~~~v~ 103 (110)
..++|.|||.|.+..+|+|..+++.|+||||+||||++.+|...+.|........ +.....+....+.+.+..+
T Consensus 2 ~~~~~~~~~~~~~~~~i~f~~~itaivG~NGaGKSTLl~~i~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (204)
T cd03240 2 DKLSIRNIRSFHERSEIEFFSPLTLIVGQNGAGKTTIIEALKYALTGELPPNSKGGAHDPKLIREGEVRAQVKLAFENA 80 (204)
T ss_pred CEEEEECCEECCCCCEEEEECCEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHEEEEEEECC
T ss_conf 6389947260277735885088899998999999999999863047722666762231603555676633056775305
No 27
>KOG0979 consensus
Probab=99.36 E-value=2.7e-12 Score=81.24 Aligned_cols=77 Identities=22% Similarity=0.227 Sum_probs=60.3
Q ss_pred EEEEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCCCCCCCEEE
Q ss_conf 016899899995401368317998689869999079865789999999985797756433----1333102445741278
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRSIKTPMPMC 99 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s~~~pi~l~ 99 (110)
...+-|.+|+++||-.| +..++.+.+.+|+|+||||+|||||..||..+|.|...--+. ++++++..-..-+++.
T Consensus 17 f~~GsIvrI~l~NF~Ty-~~~e~~pgpsLNmIiGpNGSGKSSiVcAIcLglgG~Pk~lGRak~VgeyIK~G~~~g~IEI~ 95 (1072)
T KOG0979 17 FPDGSIVRIELHNFLTY-DHTEFLPGPSLNMIIGPNGSGKSSIVCAICLGLGGKPKLLGRAKKVGEYIKRGEDEGYIEIE 95 (1072)
T ss_pred CCCCCEEEEEEEEEEEE-EEEEECCCCCEEEEECCCCCCCHHHHHHHHHHCCCCHHHCCCHHHHHHHHHCCCCCCEEEEE
T ss_conf 89986699997400444-33344378861268778989704889999997279744314355799999647766369999
Q ss_pred EE
Q ss_conf 99
Q gi|254780640|r 100 MA 101 (110)
Q Consensus 100 ~~ 101 (110)
..
T Consensus 96 l~ 97 (1072)
T KOG0979 96 LK 97 (1072)
T ss_pred EE
T ss_conf 96
No 28
>KOG0250 consensus
Probab=99.35 E-value=3e-12 Score=81.06 Aligned_cols=80 Identities=23% Similarity=0.347 Sum_probs=66.8
Q ss_pred EEEEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH----HHHHHCCCCCCCEEE
Q ss_conf 0168998999954013683179986898699990798657899999999857977564331----333102445741278
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG----DSIKKRSIKTPMPMC 99 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~----d~i~~~s~~~pi~l~ 99 (110)
....+|.+|++.||.|.... .|+|.+.+|.|+|+||+|||.|+-||..+|+|..+-...+ |.|+....++.+.+.
T Consensus 37 ~~sG~I~sI~L~NFMCHsnL-~IeFg~~vNfI~G~NGSGKSAIltAl~lglG~rAs~tnRgsslK~lIK~G~~~A~IsIt 115 (1074)
T KOG0250 37 AESGKIESIHLTNFMCHSNL-LIEFGPRVNFIVGNNGSGKSAILTALTLGLGGRASATNRGSSLKDLIKDGCSSAKISIT 115 (1074)
T ss_pred HHCCEEEEEEEEEECCCCCC-EECCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCEEEEEE
T ss_conf 52363899997521033354-10258871376468987489999999986265314565304399999678751489999
Q ss_pred EEECC
Q ss_conf 99628
Q gi|254780640|r 100 MAVPR 104 (110)
Q Consensus 100 ~~v~~ 104 (110)
.+..+
T Consensus 116 L~N~G 120 (1074)
T KOG0250 116 LSNSG 120 (1074)
T ss_pred EECCC
T ss_conf 82577
No 29
>TIGR00606 rad50 rad50; InterPro: IPR004584 Rad50 is involved in recombination, recombinational repair, and/or non-homologous end joining. It is a component of an exonuclease complex with MRE11 homologs. The Saccharomyces cerevisiae Rad50/MRE11 complex possesses single-stranded endonuclease activity and ATP-dependent double-strand-specific exonuclease activity. Rad50 provides an ATP-dependent control of MRE11 by unwinding and repositioning DNA ends into the MRE11 active site. This family is distantly related to the SbcC family of bacterial proteins. When the N- and C-terminal globular regions of Rad50 from Pyrococcus furiosus P58301 from SWISSPROT are co-expressed in Escherichia coli, they spontaneously associate to form a stable complex that possesses ATP-binding and weak ATP-hydrolysing activities. The structure formed is known as the Rad50 catalytic domain (Rad50cd1). In the presence of ATP, two Rad50cd1 molecules interact via their ATP-binding and highly conserved 'signature' motifs to form a dimer. As ATP is buried deep within this dimer interface, the two Rad50cd1 molecules may have to completely disengage after ATP hydrolysis to allow the release of ADP before binding of a new ATP molecule. ATP binding is also accompanied by a 30° rotation of two distinct domains within each Rad50cd1 part of the dimer. This rotation and dimerisation creates a positively charged surface which, potentially, could provide a DNA-binding site capable of accommodating two DNA molecules. The Mre11-docking site within Rad50 has been mapped to two 40-residue heptad-repeat sequences that lie adjacent to the N- and C-terminal ATPase segments. A distinct region within this domain forms a conserved hydrophobic patch that is believed to be the actual Mre11-binding site and lies immediately adjacent to the putative DNA-binding site of Rad50. As Rad50 dimerises in the presence of ATP and forms a stoichiometric complex with Mre11 (one Mre11 subunit binding to one Rad50 subunit), it is possible that the MR complex forms a closely coordinated DNA-binding unit that has the potential to act on two DNA molecules simultaneously. Within this unit, ATP-dependent control of nuclease action might be achieved via Rad50 unwinding or repositioning DNA ends into the active-site of Mre11 . ; GO: 0005524 ATP binding, 0006281 DNA repair, 0030870 Mre11 complex.
Probab=99.34 E-value=1.4e-12 Score=82.76 Aligned_cols=66 Identities=29% Similarity=0.481 Sum_probs=55.3
Q ss_pred EEEEEEEECEECCC----CCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHH-HHHHCCCC
Q ss_conf 99899995401368----31799868986999907986578999999998579775643313-33102445
Q gi|254780640|r 28 KLLDIEISHFRGFT----EIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD-SIKKRSIK 93 (110)
Q Consensus 28 kl~~i~i~nFr~f~----~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d-~i~~~s~~ 93 (110)
++.++.|.+.|+|+ |.+.|+|-.++|+|+||||+||||++|||.|+-+|.-+....+. +++.-.+.
T Consensus 2 ~~~~l~I~GvRS~G~ED~D~~~I~F~SP~T~l~GPNG~GKTT~IE~L~y~~TG~~P~~~K~NtFvH~~~VA 72 (1328)
T TIGR00606 2 KFLKLSILGVRSVGIEDKDKQIIDFLSPLTLLVGPNGAGKTTIIEALKYVTTGDFPPGKKGNTFVHDPKVA 72 (1328)
T ss_pred CCCCEEEEEEEECCCCCCCCCEEEEECCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHH
T ss_conf 43201443322026454444233211660101277887525898754332048898888886000372221
No 30
>PRK10869 recombination and repair protein; Provisional
Probab=99.34 E-value=3e-12 Score=81.05 Aligned_cols=72 Identities=21% Similarity=0.367 Sum_probs=63.2
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEECCC
Q ss_conf 98999954013683179986898699990798657899999999857977564331333102445741278996285
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVPRC 105 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~~~ 105 (110)
|.+|+|.||.-+ +..+++|.+|+|||.|+.|+|||-|++||.+++.+ +...+.++...-+..++..|.+++.
T Consensus 2 L~~L~I~n~alI-~~~~l~f~~Gl~viTGETGAGKSill~al~lllG~----ra~~~~ir~g~~~a~vea~F~~~~~ 73 (553)
T PRK10869 2 LAQLTISNFAIV-RELEIDFQSGMTVITGETGAGKSIAIDALGLCLGG----RAEASMVRPGATRADLCARFSLKDT 73 (553)
T ss_pred CCEEEEEEEEEE-EEEEEECCCCCEEEECCCCCCHHHHHHHHHHHHCC----CCCCCCCCCCCCEEEEEEEEECCCC
T ss_conf 873998305878-98999769998687789998799999999998488----9884646699975999999972887
No 31
>KOG0964 consensus
Probab=99.32 E-value=1.7e-12 Score=82.32 Aligned_cols=78 Identities=19% Similarity=0.348 Sum_probs=59.9
Q ss_pred EEEEEEEEECEECCCCCEEEE-CCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC---HHHHHHCCCCC----CCEE
Q ss_conf 899899995401368317998-689869999079865789999999985797756433---13331024457----4127
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIE-FADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH---GDSIKKRSIKT----PMPM 98 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~-f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~---~d~i~~~s~~~----pi~l 98 (110)
|+|..+-|.|||+|++.+.++ |++..|||+|.||+|||+++.||+|+|.+.-..-+. -..++..+..+ .+++
T Consensus 1 MyIk~ViI~GFrSYrd~tvv~~fSph~NvIVGrNGSGKSNFF~AIrFVLSDey~hLk~E~R~gLlHEGsG~~V~sA~VEI 80 (1200)
T KOG0964 1 MYIKQVIIKGFRSYRDETVVDPFSPHHNVIVGRNGSGKSNFFHAIRFVLSDEYSHLKREERQGLLHEGSGAMVMSASVEI 80 (1200)
T ss_pred CCEEEEEECCCHHHCCCCCCCCCCCCCCEEECCCCCCCHHHHHHHHHHCCCCHHHCCHHHHHHHHHCCCCCCEEEEEEEE
T ss_conf 93577664142111225356788987655864798872125787533012404223889875466258886447887999
Q ss_pred EEEECC
Q ss_conf 899628
Q gi|254780640|r 99 CMAVPR 104 (110)
Q Consensus 99 ~~~v~~ 104 (110)
+|..++
T Consensus 81 vF~nsd 86 (1200)
T KOG0964 81 VFDNSD 86 (1200)
T ss_pred EEECCC
T ss_conf 971764
No 32
>COG3593 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]
Probab=99.30 E-value=2.3e-12 Score=81.62 Aligned_cols=50 Identities=34% Similarity=0.602 Sum_probs=46.5
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 899899995401368317998689869999079865789999999985797
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
|.|.+++|.|||+|.+. ++.|..|+|+++|+|.+|||++||||+.++-+.
T Consensus 1 M~L~~v~I~nFR~i~~l-sl~~~~g~~vlIGeN~~GKsslLdAL~l~l~~~ 50 (581)
T COG3593 1 MHLERVKIKNFRGINRL-SLEFEEGLNVLIGENNSGKSSLLDALRLLLDPE 50 (581)
T ss_pred CCCEEEEECCCCEEEEE-EEEECCCCEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 94206786250015421-045457843797678755278999999970876
No 33
>cd03241 ABC_RecN RecN ATPase involved in DNA repair; 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 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=99.28 E-value=8.5e-12 Score=78.77 Aligned_cols=72 Identities=28% Similarity=0.443 Sum_probs=63.2
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEECCC
Q ss_conf 98999954013683179986898699990798657899999999857977564331333102445741278996285
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVPRC 105 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~~~ 105 (110)
|.+|.|+||--+ +..+++|++|+|+|.|+.|+|||-|+|||.+++.+. ...+.++....+..++.+|.++..
T Consensus 1 L~~L~IkNfalI-d~l~l~F~~GlnVlTGETGAGKSIlidAL~lllG~R----a~~~~IR~g~~~a~vea~F~i~~~ 72 (276)
T cd03241 1 LLELSIKNFALI-EELELDFEEGLTVLTGETGAGKSILLDALSLLLGGR----ASADLIRSGAEKAVVEGVFDISDE 72 (276)
T ss_pred CCEEEEEEEEEE-EEEEEECCCCCEEEECCCCCCHHHHHHHHHHHHCCC----CCCCCCCCCCCEEEEEEEEECCCC
T ss_conf 968999608989-887982599975887899888999999999962899----884533588850899999975996
No 34
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w
Probab=99.28 E-value=6.7e-12 Score=79.30 Aligned_cols=52 Identities=33% Similarity=0.627 Sum_probs=46.2
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 9899995401368317998689869999079865789999999985797756
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~ 80 (110)
|.++|..||+++.|..+++|++|++.|+||||+||||++++|.|++.....+
T Consensus 1 ~~~~~~~~~k~~~d~vsl~ip~GitaIvGpsGsGKSTLl~~i~~~lg~~~~~ 52 (197)
T cd03278 1 LKKLELKGFKSFADKTTIPFPPGLTAIVGPNGSGKSNIIDAIRWVLGEQSAK 52 (197)
T ss_pred CCEEEEECCCCCCCCEEEECCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCE
T ss_conf 9579992870016876997389828999999998899999999874777612
No 35
>COG3950 Predicted ATP-binding protein involved in virulence [General function prediction only]
Probab=99.24 E-value=3.5e-12 Score=80.71 Aligned_cols=51 Identities=31% Similarity=0.598 Sum_probs=45.7
Q ss_pred EEEEEEEEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8998999954013683179986898-699990798657899999999857977
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
|+|.+|.+.|||+|... +|.|+++ .++|+||||+|||++||||..+|.-..
T Consensus 1 mrLrkiSl~nfr~f~~l-ditf~e~~ttIivgpNGsGKTtvLdair~aL~~fi 52 (440)
T COG3950 1 MRLRKISLNNFRCFLNL-DITFGESETTIIVGPNGSGKTTVLDAIRNALNKFI 52 (440)
T ss_pred CCCCHHHHHHHHHHHHC-EEECCCCCEEEEECCCCCCHHHHHHHHHHHHHHHC
T ss_conf 95101004432134300-25417973389987899870159999999987641
No 36
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=99.19 E-value=3.6e-11 Score=75.66 Aligned_cols=70 Identities=24% Similarity=0.453 Sum_probs=60.4
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEEC
Q ss_conf 989999540136831799868986999907986578999999998579775643313331024457412789962
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVP 103 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~ 103 (110)
|.+|.|+||--+. .-+++|.+|+|||.|+.|+|||-|+|||.+++.| +...+.++....+..++..|.++
T Consensus 2 L~~LsIknfaiIe-~L~leF~~GltVlTGETGAGKSIiidAl~lllG~----ra~~~~VR~G~~~a~v~a~F~~~ 71 (557)
T COG0497 2 LLELSIKNFAIIE-ELELEFEKGLTVLTGETGAGKSIIIDALGLLLGG----RADASLVRHGAKRAEVEAIFDLD 71 (557)
T ss_pred CCEEEEEHEEEEE-EEEEECCCCCEEEECCCCCCHHHHHHHHHHHHCC----CCCCCHHCCCCCEEEEEEEECCC
T ss_conf 7377450100102-1224106895686568887566799899997278----77811211788606899985479
No 37
>COG1106 Predicted ATPases [General function prediction only]
Probab=99.19 E-value=1.4e-11 Score=77.71 Aligned_cols=49 Identities=33% Similarity=0.551 Sum_probs=41.6
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 98999954013683179986898699990798657899999999857977
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
|.+++|+|||+|.+.+.-+|. .+++|+|+||+|||+++||+.++..-..
T Consensus 2 I~~~~IkNFkSf~e~~~~~~~-~in~I~G~N~sGKSNlleAl~f~~~~~~ 50 (371)
T COG1106 2 IKSFKIKNFKSFRELELEDFG-KINIIYGANGAGKSNLLEALYFLKGLIS 50 (371)
T ss_pred CEEEEECCCCCHHHHHHCCCC-CEEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf 248995353558774220454-2699986788760699999999997335
No 38
>COG4717 Uncharacterized conserved protein [Function unknown]
Probab=99.18 E-value=2.3e-11 Score=76.64 Aligned_cols=54 Identities=24% Similarity=0.568 Sum_probs=49.9
Q ss_pred EEEEEEEEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf 8998999954013683179986898-699990798657899999999857977564
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGYTQRR 81 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~~~~~ 81 (110)
|+|.+|+|-+|+.|.+. .++|.+. +.+|+|+|.+|||||+-+|.-+|||+..+.
T Consensus 1 MrI~sl~I~gYGKFs~r-~~df~~s~f~vI~G~NEAGKSTl~sFI~smlFGfP~~s 55 (984)
T COG4717 1 MRIQSLEIVGYGKFSER-HFDFGESKFQVIYGENEAGKSTLFSFIHSMLFGFPTSS 55 (984)
T ss_pred CCEEEEEEEECCCHHHH-HHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCC
T ss_conf 91268886401406665-54046784479845763117779999999981788878
No 39
>KOG0933 consensus
Probab=99.17 E-value=8.2e-12 Score=78.85 Aligned_cols=74 Identities=19% Similarity=0.354 Sum_probs=55.4
Q ss_pred EEEEEEEEECEECCCCCEEE-ECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC----HHHHHHCC----CCCCCE
Q ss_conf 89989999540136831799-8689869999079865789999999985797756433----13331024----457412
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKI-EFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH----GDSIKKRS----IKTPMP 97 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i-~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~----~d~i~~~s----~~~pi~ 97 (110)
|.|.+|-|++|++|...+.| +|+|.+|.|.|-||+|||+|||+|.|+|.-..-..-. -|.+.+.. -++.++
T Consensus 1 M~IkeiiLDGFKSYa~rTvI~~fDp~FNAITGlNGSGKSNILDsICFvLGI~nl~~VRA~nlqeLIyk~GQAGiTkAsVs 80 (1174)
T KOG0933 1 MHIKEIILDGFKSYATRTVISGFDPQFNAITGLNGSGKSNILDSICFVLGITNLSQVRASNLQELIYKNGQAGITKASVS 80 (1174)
T ss_pred CCHHHHHHCCHHCCEEEEECCCCCCCCCHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEE
T ss_conf 95055312120010024420488865001205777771478889999982452888888789999984686664257999
Q ss_pred EEE
Q ss_conf 789
Q gi|254780640|r 98 MCM 100 (110)
Q Consensus 98 l~~ 100 (110)
++|
T Consensus 81 VvF 83 (1174)
T KOG0933 81 VVF 83 (1174)
T ss_pred EEE
T ss_conf 996
No 40
>KOG0962 consensus
Probab=99.13 E-value=2.3e-11 Score=76.57 Aligned_cols=63 Identities=27% Similarity=0.464 Sum_probs=53.1
Q ss_pred EEEEEEEECEECCC--CCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH-HHHHHC
Q ss_conf 99899995401368--3179986898699990798657899999999857977564331-333102
Q gi|254780640|r 28 KLLDIEISHFRGFT--EIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG-DSIKKR 90 (110)
Q Consensus 28 kl~~i~i~nFr~f~--~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~-d~i~~~ 90 (110)
.|.++.|.+.|+|. +.+.|+|..++|+|+|+||+|||||++++.++..|..++...+ ..++.-
T Consensus 3 ~i~klsI~GIRSf~~~d~~~i~F~sPlTLIvG~NG~GKTTiIEcLKyatTG~lPpnsk~~~FiHdp 68 (1294)
T KOG0962 3 SIDKLSIRGIRSFDDKDRNTIEFFSPLTLIVGANGTGKTTIIECLKYATTGELPPNSKGGSFIHDP 68 (1294)
T ss_pred HHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCC
T ss_conf 067567621014687665536511770567668887716699998888648489987677777895
No 41
>TIGR00634 recN DNA repair protein RecN; InterPro: IPR004604 DNA repair protein RecN is thought to be DNA damage inducible and involved in recombinational processes. The N-terminal region of most of the bacterial RecN proteins sequenced to date contains an ATP/GTP binding domain within an SMC-like motif. SMC-like domains are involved in chromosomal scaffolding and segregation. It is possible that the function of RecN in homologous recombination is either structural or enzymatic or both. RecN may be involved in the proper positioning of the recombining segments of DNA, ensuring normal recombination. The observation that inactivation of this gene leads to a decreased transformation efficiency, as well as increased sensitivity to DNA-damaging agents, may be due to some defect in chromosomal partitioning or positioning during these recombination-dependent processes . The protein may function presynaptically to process double-stranded breaks to produce 3 single-stranded DNA intermediates during recombination. ; GO: 0005524 ATP binding, 0006281 DNA repair, 0006310 DNA recombination.
Probab=99.09 E-value=3.4e-11 Score=75.76 Aligned_cols=71 Identities=23% Similarity=0.383 Sum_probs=59.2
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEECC
Q ss_conf 9899995401368317998689869999079865789999999985797756433133310244574127899628
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVPR 104 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~~ 104 (110)
|.+|.|+||.-+.. .+++|+.|+|||.|+.|+|||-+++||.+++.+ +...+.++....+..+.-.|....
T Consensus 2 L~~L~I~Nfa~I~~-l~~eF~rGltVLTGETGaGKSm~i~Al~LL~G~----r~~~~~vR~G~~~A~~eg~F~~~~ 72 (605)
T TIGR00634 2 LTELRINNFALIRE-LTVEFERGLTVLTGETGAGKSMIIDALSLLLGQ----RAGASLVRSGENRAVVEGVFTTES 72 (605)
T ss_pred CCEEEEHHHHHHHH-HHHHHHCCCCEEECCCCCCHHHHHHHHHHCCCC----CCCCCEEECCCCCEEEEEEEEECC
T ss_conf 63023045456777-677662687143046455078877669870588----547631233787147898885057
No 42
>COG4637 Predicted ATPase [General function prediction only]
Probab=98.94 E-value=3e-10 Score=71.00 Aligned_cols=46 Identities=28% Similarity=0.628 Sum_probs=39.4
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 899899995401368317998689869999079865789999999985
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
|+|.+|.++|||+|.+. .++.. .+|+|+|.||+||||+++|+.++-
T Consensus 1 ~~l~si~vknyRs~r~l-~lei~-~~nviIGANGaGKSn~~~~l~~l~ 46 (373)
T COG4637 1 MMLVSIKVKNYRSFRSL-DLEIR-RVNVIIGANGAGKSNFYDALRLLA 46 (373)
T ss_pred CCCCHHHHHCCHHHHHC-CCCCC-CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 92100103132258752-56456-357998478776257999999999
No 43
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=98.60 E-value=6.2e-08 Score=59.46 Aligned_cols=47 Identities=32% Similarity=0.542 Sum_probs=39.6
Q ss_pred EEEEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 999954013683179986898-69999079865789999999985797
Q gi|254780640|r 31 DIEISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 31 ~i~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
++.+.+|+.+.-.+.++|+++ +++|.||||+||||++.+|.+.+...
T Consensus 1 ~~~~~~~~~~~vpndi~l~~g~~~iItGpN~sGKSt~Lr~i~l~~~~a 48 (162)
T cd03227 1 KIVLGRFPSYFVPNDVTFGEGSLTIITGPNGSGKSTILDAIGLALGGA 48 (162)
T ss_pred CCCHHCCCCCEECCCEECCCCCEEEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf 901310899750770260898689998998775799999999999986
No 44
>COG3910 Predicted ATPase [General function prediction only]
Probab=98.48 E-value=7.9e-08 Score=58.92 Aligned_cols=38 Identities=42% Similarity=0.599 Sum_probs=31.3
Q ss_pred CEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 4013683179986898699990798657899999999857
Q gi|254780640|r 36 HFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 36 nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
-||.+ +. .++|...+|+|+|+||+||||++|||...+.
T Consensus 25 a~r~l-~~-~LeF~apIT~i~GENGsGKSTLLEaiA~~~~ 62 (233)
T COG3910 25 AFRHL-EE-RLEFRAPITFITGENGSGKSTLLEAIAAGMG 62 (233)
T ss_pred HHHHH-HH-HCCCCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 77755-44-2234686489976898657889999996565
No 45
>COG4938 Uncharacterized conserved protein [Function unknown]
Probab=98.30 E-value=6.6e-07 Score=54.32 Aligned_cols=50 Identities=26% Similarity=0.475 Sum_probs=43.3
Q ss_pred EEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 9899995401368317998689869999079865789999999985797756
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~ 80 (110)
+.++++.||++| ..+.|.+.+ +||++|+|.+|||+.+.+|.....|.+..
T Consensus 2 i~sl~l~nfk~y-~n~~i~l~~-ltVF~G~NssGKSt~iqsl~li~s~l~~s 51 (374)
T COG4938 2 ILSLSLKNFKPY-INGKIILKP-LTVFIGPNSSGKSTTIQSLYLIYSGLTRS 51 (374)
T ss_pred CCEEEECCCCCE-ECCEEEEEC-CEEEECCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 533663475331-245699852-36997678776048999999999764365
No 46
>PRK04863 mukB cell division protein MukB; Provisional
Probab=98.15 E-value=2.9e-06 Score=51.09 Aligned_cols=48 Identities=23% Similarity=0.364 Sum_probs=43.1
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8998999954013683179986898699990798657899999999857
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.|+.++.+-|+.||.-. +++++..+|.+.|.||+||||++-|....|-
T Consensus 5 gk~rSLtLVNwNGffAR-TfdLd~lVttLsGgNGAGKSTtMaAf~taLI 52 (1486)
T PRK04863 5 GKFRSLTLVNWNGFFAR-TFDLDELVTTLSGGNGAGKSTTMAAFVTALI 52 (1486)
T ss_pred CCCCEEEEEEECCEEEE-EEECCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf 54232467634353101-3102442033005888657989999999967
No 47
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=98.10 E-value=6.5e-06 Score=49.36 Aligned_cols=50 Identities=18% Similarity=0.348 Sum_probs=33.5
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 689989999--54013683179986898-6999907986578999999998579
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+.++..|.. .+++-..+ ..++..+| +..|+||||+||||++.+|.-++.+
T Consensus 4 ii~v~~lsk~yg~~~aL~~-isl~i~~GE~~~iiGpNGaGKSTLlk~i~Gll~~ 56 (262)
T PRK09984 4 IIRVEKLAKTFNQHQALHA-VDLNIHHGEMVALLGPSGSGKSTLLRHLSGLITG 56 (262)
T ss_pred EEEEEEEEEEECCEEEECC-EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 5999637999899867745-2789879989999989996099999999756777
No 48
>pfam04310 MukB MukB N-terminal. This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning). The structure of the N-terminal domain consists of an antiparallel six-stranded beta sheet surrounded by one helix on one side and by five helices on the other side. It contains an exposed Walker A loop in an unexpected helix-loop-helix motif (in other proteins, Walker A motifs generally adopt a P loop conformation as part of a strand-loop-helix motif embedded in a conserved topology of alternating helices and (parallel) beta strands).
Probab=98.08 E-value=4.9e-06 Score=49.95 Aligned_cols=49 Identities=22% Similarity=0.333 Sum_probs=43.3
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 89989999540136831799868986999907986578999999998579
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.|..++.+-|+.+|... ++|+++-++.+.|.||+||||++.|....|-.
T Consensus 5 ~k~rSLtlVNwNGffAR-TfdLd~lvttLsG~NGAGKsT~m~Af~talIP 53 (227)
T pfam04310 5 GKFQSLTLINWNGFFAR-TFDIDELVTTLSGGNGAGKSTTMAAFITALIP 53 (227)
T ss_pred CCCCEEEEEEECCEEEE-EEECCEEEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf 55434789856367767-74021026886447876548799999998666
No 49
>CHL00131 ycf16 sulfate ABC transporter protein; Validated
Probab=98.06 E-value=7.4e-06 Score=49.06 Aligned_cols=47 Identities=21% Similarity=0.327 Sum_probs=30.4
Q ss_pred EEEEEEEEEEECEECCC--CCEEEECCCC-EEEEEECCCCCHHHHHHHHHH
Q ss_conf 16899899995401368--3179986898-699990798657899999999
Q gi|254780640|r 25 LIFKLLDIEISHFRGFT--EIQKIEFADH-LTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 25 ~~~kl~~i~i~nFr~f~--~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~ 72 (110)
.+..+..+... |.... +...+++.+| +..|+||||+||||++.+|.-
T Consensus 5 plLev~nl~~~-y~~~~vL~~isl~i~~Gei~aiiG~nGsGKSTL~~~i~G 54 (252)
T CHL00131 5 PILEIKNLKAT-VNETEILKGINLSINAGEIHAIMGPNGSGKSTLSKVIAG 54 (252)
T ss_pred CEEEEEEEEEE-ECCEEEEECCEEEECCCCEEEEECCCCCCHHHHHHHHCC
T ss_conf 66999547999-999998856177887998999999999999999999727
No 50
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=98.06 E-value=8.5e-06 Score=48.77 Aligned_cols=32 Identities=28% Similarity=0.392 Sum_probs=26.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++.+.+ .++.|+||||+||||+|.+|.-++-.
T Consensus 22 s~~i~~G~i~~iiGpNG~GKSTLLk~l~~~l~p 54 (258)
T COG1120 22 SFSIPKGEITGILGPNGSGKSTLLKCLAGLLKP 54 (258)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 688659979999899888999999998656788
No 51
>COG4674 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]
Probab=98.04 E-value=1.9e-06 Score=52.00 Aligned_cols=46 Identities=24% Similarity=0.520 Sum_probs=31.2
Q ss_pred EEEEEEE--EEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 1689989--9995401368317998689-869999079865789999999
Q gi|254780640|r 25 LIFKLLD--IEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 25 ~~~kl~~--i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
.+.++.. +.+.+|+...+. ++...+ .+-+|+||||+||||++|+|.
T Consensus 4 ~iL~~~~vsVsF~GF~Aln~l-s~~v~~Gelr~lIGpNGAGKTT~mD~It 52 (249)
T COG4674 4 IILYLDGVSVSFGGFKALNDL-SFSVDPGELRVLIGPNGAGKTTLMDVIT 52 (249)
T ss_pred CEEEEECEEEEECCEEEEEEE-EEEECCCEEEEEECCCCCCCEEEEEEEC
T ss_conf 258981418987665342003-7886697289998789888505431001
No 52
>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=98.04 E-value=1.1e-05 Score=48.28 Aligned_cols=51 Identities=16% Similarity=0.254 Sum_probs=36.2
Q ss_pred EEEEEEEEEEECEECCC---CCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 16899899995401368---3179986898-699990798657899999999857
Q gi|254780640|r 25 LIFKLLDIEISHFRGFT---EIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 25 ~~~kl~~i~i~nFr~f~---~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+.|+=..++.+++.+.. +...+++.+| ++.|.||||+||||++.+|.-++.
T Consensus 4 ~~~~~~~~~~k~~~~~~~vL~~vs~~i~~Ge~~~ilGpnGsGKSTLl~~i~G~~~ 58 (226)
T cd03234 4 LPWWDVGLKAKNWNKYARILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRVE 58 (226)
T ss_pred EEEEEEEEEEECCCCCEEEEECCEEEEECCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 5775124898807998899889778991880999998999609999999967897
No 53
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=98.02 E-value=9.6e-06 Score=48.50 Aligned_cols=50 Identities=18% Similarity=0.393 Sum_probs=33.3
Q ss_pred EEEEEEEEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 16899899995401368--317998689-8699990798657899999999857
Q gi|254780640|r 25 LIFKLLDIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 25 ~~~kl~~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+..+..+... |.+.. +..+++..+ .+..|+||||+||||++.+|.-++-
T Consensus 4 p~L~v~~l~~~-yg~~~al~~vs~~v~~Gei~~liGpnGaGKSTL~~~i~Gl~~ 56 (255)
T PRK11300 4 PLLKVSGLMMR-FGGLLAVNNVNLEVREQEVVSLIGPNGAGKTTVFNCLTGFYK 56 (255)
T ss_pred CEEEEEEEEEE-ECCEEEECCEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 18999849999-899998804088989997999998999649999999967988
No 54
>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=98.02 E-value=8.9e-06 Score=48.66 Aligned_cols=32 Identities=31% Similarity=0.407 Sum_probs=25.9
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++.+ .++.|+||||+||||++.+|.-++-
T Consensus 20 vsl~i~~Gei~~liGpNGaGKSTLlk~l~Gl~~ 52 (271)
T PRK13638 20 LNLDFSLSPVTGLVGANGCGKSTLFMNLSGLLR 52 (271)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 187983897999999999809999999966888
No 55
>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein; InterPro: IPR005670 This is a family of phosphate transport system permease proteins.; GO: 0005315 inorganic phosphate transmembrane transporter activity, 0015114 phosphate transmembrane transporter activity, 0006817 phosphate transport, 0016020 membrane.
Probab=98.02 E-value=9.3e-06 Score=48.57 Aligned_cols=45 Identities=16% Similarity=0.273 Sum_probs=30.6
Q ss_pred EEEEECEECCCCCEEEECC-CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 9999540136831799868-986999907986578999999998579
Q gi|254780640|r 31 DIEISHFRGFTEIQKIEFA-DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 31 ~i~i~nFr~f~~~~~i~f~-~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++.-.+|....+ ..+++. ..+|.|+||-|+||||+|.+|.-|--=
T Consensus 8 ~~~YG~~~AL~~-i~~~I~~n~vTAlIGPSGCGKSTlLR~lNRMnDl 53 (248)
T TIGR00972 8 SLFYGEKEALKN-INLDIPKNQVTALIGPSGCGKSTLLRSLNRMNDL 53 (248)
T ss_pred EEEECCEEEEEC-CCCEECCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 266164178621-5620037705898778898678999998877640
No 56
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=98.02 E-value=8.7e-06 Score=48.72 Aligned_cols=52 Identities=17% Similarity=0.199 Sum_probs=34.0
Q ss_pred CEEEEEEEEEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 1016899899995401368--317998689-8699990798657899999999857
Q gi|254780640|r 23 RKLIFKLLDIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 23 ~~~~~kl~~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+..+..+... |..-. +...+++.+ .+..|+||||+||||++..|.-++-
T Consensus 8 ~~P~L~~~~ls~~-~~~~~vl~~isf~v~~Ge~~~l~GpNGaGKTTLlr~l~Gl~~ 62 (214)
T PRK13543 8 APPLLAAHALAFS-RNEEPVFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGLLH 62 (214)
T ss_pred CCCEEEEEEEEEE-ECCEEEEECEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 9975999827999-799999826388981898999999999879999999976977
No 57
>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=98.02 E-value=1.4e-05 Score=47.68 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=30.5
Q ss_pred EECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 954013683179986898699990798657899999999857
Q gi|254780640|r 34 ISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 34 i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+.....+ ..+++.+|++.|+||||+||||++..|.-++.
T Consensus 10 y~~~~al~~-vs~~i~~Gi~gllGpNGAGKSTll~~i~Gl~~ 50 (211)
T cd03264 10 YGKKRALDG-VSLTLGPGMYGLLGPNGAGKTTLMRILATLTP 50 (211)
T ss_pred ECCEEEECC-CEEEECCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 999899737-14688897599999998239999999975966
No 58
>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=97.98 E-value=1.6e-05 Score=47.36 Aligned_cols=50 Identities=12% Similarity=0.256 Sum_probs=32.1
Q ss_pred EEEEEEEEEEECEECCCCCEE--EECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 168998999954013683179--98689-8699990798657899999999857
Q gi|254780640|r 25 LIFKLLDIEISHFRGFTEIQK--IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 25 ~~~kl~~i~i~nFr~f~~~~~--i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.++..+... |....-... ++..+ .+..|+||||+||||++..|.-..-
T Consensus 4 ~~L~v~~ls~~-yg~~~~L~~isl~i~~Gei~~liG~NGaGKSTLl~~i~G~~~ 56 (237)
T PRK11614 4 VMLSFDKVSAH-YGKIQALHEVSLHINQGEIVTLIGANGAGKTTLLGTLCGDPR 56 (237)
T ss_pred EEEEEEEEEEE-ECCEEEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 09999618999-899888811278986997999987999759999999967998
No 59
>PRK13542 consensus
Probab=97.98 E-value=1.5e-05 Score=47.56 Aligned_cols=56 Identities=27% Similarity=0.218 Sum_probs=37.5
Q ss_pred CCCCEEEEEEEEEEEECEECC--CCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 002101689989999540136--83179986898-6999907986578999999998579
Q gi|254780640|r 20 YYARKLIFKLLDIEISHFRGF--TEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 20 ~~~~~~~~kl~~i~i~nFr~f--~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..+...++.+..+... |++- -+...++..+| +..|+||||+||||++..|.-++..
T Consensus 12 ~~~~~PlLe~~~ls~~-~g~~~il~~isl~i~~Gei~~liGpNGaGKTTLlk~l~Gll~p 70 (224)
T PRK13542 12 GVAADPVLEARELGFS-RGGRAVFRGIDISLAPGDLLQVMGPNGSGKTSLLRVLSGLMPP 70 (224)
T ss_pred CCCCCCEEEEEEEEEE-ECCEEEEECCEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 8777747999626999-9999988461678759979999999999999999999579788
No 60
>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional
Probab=97.97 E-value=1.2e-05 Score=47.98 Aligned_cols=33 Identities=36% Similarity=0.580 Sum_probs=26.2
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 7998689-86999907986578999999998579
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..++..+ .++.|+||||+||||++.+|.-++..
T Consensus 26 isl~I~~Ge~~~iiGpNGaGKSTLlk~i~Gll~p 59 (265)
T PRK10253 26 LTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLMTP 59 (265)
T ss_pred EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 2889859979999999883999999999749888
No 61
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=97.96 E-value=2.4e-05 Score=46.50 Aligned_cols=42 Identities=21% Similarity=0.206 Sum_probs=29.5
Q ss_pred EEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9954013683179986898-699990798657899999999857
Q gi|254780640|r 33 EISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 33 ~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...+..-+. ..++.+.+| ++.|.|+||+||||++.+|.-++.
T Consensus 11 ~~g~~~il~-~vsf~i~~Gei~~l~G~NGaGKTTLlk~i~Gl~~ 53 (206)
T PRK13539 11 VRGGRVVFS-GLSFTLAAGEALVLTGPNGSGKTTLLRLLAGLLP 53 (206)
T ss_pred EECCEEEEC-CCEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 999999981-5078986994999989999989999999958878
No 62
>PRK13544 consensus
Probab=97.95 E-value=2.4e-05 Score=46.50 Aligned_cols=43 Identities=28% Similarity=0.265 Sum_probs=30.0
Q ss_pred EEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9995401368317998689-8699990798657899999999857
Q gi|254780640|r 32 IEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 32 i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
....+..-+.+ ..+.+.+ .++.|+||||+||||++.+|.-+..
T Consensus 9 ~~yg~k~il~~-vs~~i~~Gei~~l~G~NGsGKSTLl~~i~Gl~~ 52 (208)
T PRK13544 9 CIRNNKVLFSN-LSFTAKQNSLTLVIGNNGSGKTSLLRLLAGLIP 52 (208)
T ss_pred EEECCEEEEEC-CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 99999999944-158982994999999999989999999958806
No 63
>PRK10744 phosphate transporter subunit; Provisional
Probab=97.94 E-value=4.6e-05 Score=45.10 Aligned_cols=44 Identities=23% Similarity=0.473 Sum_probs=29.6
Q ss_pred EEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 899995401368317998689-869999079865789999999985
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+....++....+ ..+++.+ .+..|+||||+||||++..|.-++
T Consensus 16 ls~~yg~~~aL~~-vsl~i~~Ge~~~liG~nGaGKSTLlk~i~gl~ 60 (257)
T PRK10744 16 LNFYYGKFHALKN-INLDIAKNQVTAFIGPSGCGKSTLLRTFNKMY 60 (257)
T ss_pred EEEEECCEEEECC-CEEEECCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 8999699767814-28998899899999999981999999998765
No 64
>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional
Probab=97.94 E-value=1.2e-05 Score=47.99 Aligned_cols=49 Identities=20% Similarity=0.329 Sum_probs=31.2
Q ss_pred EEEEEEEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 6899899995401368--317998689-8699990798657899999999857
Q gi|254780640|r 26 IFKLLDIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+.++..+... |.+.. +..++++.+ .++.|+||||+||||++.+|.-++.
T Consensus 2 ml~v~~ls~~-yg~~~~L~~vsl~i~~Gei~~liGpNGaGKSTLlk~i~Gl~~ 53 (257)
T PRK13548 2 MLEAQNLSVR-LGGKTVLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGELP 53 (257)
T ss_pred EEEEEEEEEE-ECCEEEECCEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 8999618999-999998803378986998999999999879999999856757
No 65
>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional
Probab=97.94 E-value=1.4e-05 Score=47.71 Aligned_cols=31 Identities=26% Similarity=0.384 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+||||+||||++.+|.-.+.
T Consensus 21 sl~i~~Ge~~aliG~nGaGKSTLl~~i~G~l~ 52 (273)
T PRK13547 21 SLRIEPGRVTALLGRNGAGKSTLLKVLAGELT 52 (273)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 88998998999999999769999999956788
No 66
>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional
Probab=97.91 E-value=3.4e-05 Score=45.78 Aligned_cols=31 Identities=29% Similarity=0.478 Sum_probs=25.7
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9986898-699990798657899999999857
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+| ++.|+||||+||||++.+|.-++.
T Consensus 22 sl~i~~Gei~~liGpNGaGKSTLlk~i~Gl~~ 53 (255)
T PRK11231 22 SLSLPTGKITALIGPNGCGKSTLLKCFARLLT 53 (255)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 88998997999999999819999999975988
No 67
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=97.90 E-value=2.8e-05 Score=46.17 Aligned_cols=32 Identities=38% Similarity=0.522 Sum_probs=25.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+.|.+ .+++|.|+||+||||++..|.-++..
T Consensus 20 sl~i~~G~i~~i~G~NGsGKSTLlk~i~Gl~~p 52 (195)
T PRK13541 20 SITFLPSAITYIKGANGCGKSSLLRMIAGIMQP 52 (195)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 778779979999999998199999999679889
No 68
>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional
Probab=97.90 E-value=1.5e-05 Score=47.54 Aligned_cols=50 Identities=16% Similarity=0.231 Sum_probs=32.2
Q ss_pred EEEEEEEEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 16899899995401368--317998689-8699990798657899999999857
Q gi|254780640|r 25 LIFKLLDIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 25 ~~~kl~~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++..+... |.... +...+++.+ .++.|+||||+||||++..|..++-
T Consensus 7 ~~lev~nls~~-yg~~~vL~~is~~i~~Gei~~iiGpnGsGKSTLlk~i~Gl~~ 59 (269)
T PRK11831 7 NLVDMRDVSFT-RGNRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQIA 59 (269)
T ss_pred CCEEEEEEEEE-ECCEEEEECCEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 42899437999-899899947166887998999993999759999999967988
No 69
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=97.89 E-value=2.2e-05 Score=46.73 Aligned_cols=51 Identities=16% Similarity=0.284 Sum_probs=32.4
Q ss_pred EEEEEEEEEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 016899899995401368--317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+.++..+... |..-. +...+++.+ .++.|+||||+||||++..|.-++-
T Consensus 5 ~P~l~~~nvs~~-~~~~~iL~~is~~i~~Ge~~~i~G~sGsGKSTLlk~i~gl~~ 58 (225)
T PRK10247 5 SPLLQLQNVGYL-AGDTKILNNINFSLRAGEFKLITGPSGCGKSTLLKIVASLIS 58 (225)
T ss_pred CCEEEEEEEEEE-ECCEEEEECEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 968999858998-399899945179985996999999999999999999964668
No 70
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=97.88 E-value=2.2e-05 Score=46.65 Aligned_cols=32 Identities=28% Similarity=0.372 Sum_probs=25.6
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||||+||||++..|.-++.
T Consensus 20 vs~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~ 52 (204)
T PRK13538 20 LSFTLNAGELVQIEGPNGAGKTSLLRILAGLAR 52 (204)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 177987998999999999859999999976888
No 71
>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD. 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=97.88 E-value=2.2e-05 Score=46.67 Aligned_cols=46 Identities=20% Similarity=0.333 Sum_probs=29.9
Q ss_pred EEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9989999--5401368317998689-869999079865789999999985
Q gi|254780640|r 28 KLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 28 kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+..+.. .++.... ..+++..+ .+..|+||||+||||++.+|.-++
T Consensus 4 ~v~~ls~~fg~~~al~-~vsl~v~~Gei~~liGpNGaGKSTLl~~i~Gl~ 52 (242)
T TIGR03411 4 YLEGLSVSFDGFKALN-DLSLYVDPGELRVIIGPNGAGKTTMMDVITGKT 52 (242)
T ss_pred EEEEEEEEECCEEEEC-CCEEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 9962599989989874-507898899899999899975999999996795
No 72
>PRK10908 cell division protein FtsE; Provisional
Probab=97.88 E-value=2.2e-05 Score=46.71 Aligned_cols=49 Identities=18% Similarity=0.306 Sum_probs=31.1
Q ss_pred EEEEEEEEECEECCCCCE--EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 899899995401368317--998689-8699990798657899999999857
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQ--KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~--~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+...-.++..-.. ++++.+ .+..|+||||+||||++.+|.-++-
T Consensus 2 i~~~~vsk~y~g~~~~L~~vsl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~ 53 (222)
T PRK10908 2 IRFEHVSKAYLGGRQALQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIER 53 (222)
T ss_pred EEEEEEEEEECCCCEEEECCEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 8999889997899879864387996998999999998079999999965999
No 73
>PRK11701 phnK phosphonates transport ATP-binding protein; Provisional
Probab=97.88 E-value=2e-05 Score=46.96 Aligned_cols=49 Identities=14% Similarity=0.233 Sum_probs=31.3
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 689989999--5401368317998689-8699990798657899999999857
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+..+..+.. .+.... +..+++..+ .+..|+||||+||||++.+|.-++.
T Consensus 6 lL~v~~ls~~yg~~~aL-~~Vs~~v~~GEi~~iiG~nGaGKSTLl~~i~G~~~ 57 (258)
T PRK11701 6 LLSVRGLTKLYGPRKGC-RDVSFDLYPGEVLGIVGESGSGKTTLLNALSARLA 57 (258)
T ss_pred EEEEEEEEEEECCEEEE-CCEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 79997279998997887-12277887997999988899889999999856788
No 74
>PRK03695 vitamin B12-transporter ATPase; Provisional
Probab=97.88 E-value=1.7e-05 Score=47.31 Aligned_cols=45 Identities=29% Similarity=0.372 Sum_probs=29.2
Q ss_pred EEEEEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 899899995401368317998689-869999079865789999999985
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+++..+.+. ++ ..+ .+++..+ .+..|+||||+||||++.+|.-+.
T Consensus 2 l~v~nlsv~-~~-L~~-isl~v~~Ge~v~iiGpNGaGKSTLlk~i~Gl~ 47 (245)
T PRK03695 2 MQLNDVAVS-TR-LGP-LSGEVRAGEILHLVGPNGAGKSTLLARMAGLL 47 (245)
T ss_pred EEEECCCCC-CC-CCC-EEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 799774227-80-507-48999599899999789941999999984668
No 75
>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=97.87 E-value=1.7e-05 Score=47.31 Aligned_cols=30 Identities=33% Similarity=0.420 Sum_probs=24.0
Q ss_pred ECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 8689-86999907986578999999998579
Q gi|254780640|r 47 EFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 47 ~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++.+ .++.|+||||+||||++..|.-+.-.
T Consensus 20 ~i~~Ge~~~ilGpSGsGKSTLl~li~Gl~~p 50 (211)
T cd03298 20 TFAQGEITAIVGPSGSGKSTLLNLIAGFETP 50 (211)
T ss_pred EECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 9889989999999995599999999769998
No 76
>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional
Probab=97.86 E-value=5.2e-05 Score=44.82 Aligned_cols=48 Identities=25% Similarity=0.279 Sum_probs=30.1
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 689989999--54013683179986898-69999079865789999999985
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+..+.+ .+..-. +...+++.+| +..|+||||+||||++.+|..+.
T Consensus 11 ~l~v~nls~~y~~~~vL-~~vsl~i~~Ge~~~liG~NGaGKSTLl~~l~gl~ 61 (265)
T PRK10575 11 TFALRNISFRVPGRTLL-HPLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQ 61 (265)
T ss_pred EEEEEEEEEEECCEEEE-ECEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 39997589998999988-1508898799899999999980999999995688
No 77
>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed
Probab=97.85 E-value=4.4e-05 Score=45.20 Aligned_cols=29 Identities=31% Similarity=0.458 Sum_probs=23.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 998689-86999907986578999999998
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
.+++.+ .+..|+||||+||||++.+|.-+
T Consensus 21 sl~i~~Gei~~iiG~nGaGKSTLl~~i~G~ 50 (248)
T PRK09580 21 NLEVRPGEVHAIMGPNGSGKSTLSATLAGR 50 (248)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf 889849979999999999999999998377
No 78
>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed
Probab=97.85 E-value=3.8e-05 Score=45.54 Aligned_cols=47 Identities=26% Similarity=0.365 Sum_probs=30.7
Q ss_pred EEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9989999--5401368317998689-8699990798657899999999857
Q gi|254780640|r 28 KLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 28 kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++..+.+ .+..-. +...+++.+ .+..|+||||+||||++.+|.-++.
T Consensus 4 ~i~nLs~~yG~~~~L-~~Vsl~I~~GEi~gLIGPNGAGKSTLLk~I~Gll~ 53 (409)
T PRK09536 4 DVSDLDVEFGGTTIL-DGVDLSVREGHLVGVVGPNGAGKTTLLRAMNGLIT 53 (409)
T ss_pred EEEEEEEEECCEEEE-ECEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 999889999999989-25088988998999999987279999999966888
No 79
>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=97.84 E-value=2e-05 Score=46.92 Aligned_cols=32 Identities=19% Similarity=0.195 Sum_probs=26.0
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+| ++.++||||+||||++..|.-++.
T Consensus 19 vs~~v~~Gei~gllG~NGaGKTTll~~i~Gl~~ 51 (210)
T cd03269 19 ISFSVEKGEIFGLLGPNGAGKTTTIRMILGIIL 51 (210)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 267887995999998999849999999960026
No 80
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=97.83 E-value=3.1e-05 Score=45.92 Aligned_cols=31 Identities=29% Similarity=0.336 Sum_probs=25.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+.+ .+..|+||||+||||++.+|.-++-
T Consensus 20 s~~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~ 51 (201)
T cd03231 20 SFTLAAGEALQVTGPNGSGKTTLLRILAGLSP 51 (201)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 78887995999999999999999999966778
No 81
>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.83 E-value=1.7e-05 Score=47.26 Aligned_cols=44 Identities=20% Similarity=0.264 Sum_probs=31.6
Q ss_pred EEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 99995401368317998689-8699990798657899999999857
Q gi|254780640|r 31 DIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 31 ~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++.+.+=+-. +..++++.+ .+..|+||||+||||++.+|.--+.
T Consensus 8 s~~~~Gr~ll-~~vsl~~~pGev~ailGPNGAGKSTlLk~LsGel~ 52 (259)
T COG4559 8 SYSLAGRRLL-DGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELS 52 (259)
T ss_pred EEEEECCEEC-CCCCEECCCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 8984110110-47315416872799988898658889998617637
No 82
>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.82 E-value=3.1e-05 Score=45.94 Aligned_cols=32 Identities=28% Similarity=0.433 Sum_probs=25.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+++..+ .++.|+||||+||||++..|.-++-.
T Consensus 26 sl~I~~Ge~~aiiG~NGaGKSTLl~~i~Gll~p 58 (285)
T PRK13636 26 NINIKKGEVTAILGGNGAGKSTLFQNLNGILKP 58 (285)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 789879989999999998099999999659888
No 83
>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.82 E-value=2.1e-05 Score=46.78 Aligned_cols=33 Identities=27% Similarity=0.395 Sum_probs=27.3
Q ss_pred CEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 17998689-8699990798657899999999857
Q gi|254780640|r 43 IQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 43 ~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...+++++ ++|-|+||||+||||++-.+.-++-
T Consensus 19 ~isl~i~~g~iTs~IGPNGAGKSTLLS~~sRL~~ 52 (252)
T COG4604 19 DVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLK 52 (252)
T ss_pred CCEEEECCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 6145415886368888998648889999998526
No 84
>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed
Probab=97.81 E-value=5.3e-05 Score=44.78 Aligned_cols=32 Identities=28% Similarity=0.355 Sum_probs=25.8
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++.+| +..|+||||+||||++.+|.-++-
T Consensus 23 vs~~i~~Gei~~LiGpNGaGKSTLlk~I~Gl~~ 55 (251)
T PRK09544 23 VSLELKPGKILTLLGPNGAGKSTLVRVVLGLVA 55 (251)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 078987997999998999889999999966888
No 85
>TIGR01978 sufC FeS assembly ATPase SufC; InterPro: IPR010230 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly . The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen . This entry represents SufC, which acts as an ATPase in the SUF system. SufC belongs to the ATP-binding cassette transporter family (IPR003439 from INTERPRO) but is no longer thought to be part of a transporter. The complex is reported as cytosolic or associated with the membrane.; GO: 0005524 ATP binding, 0006810 transport.
Probab=97.79 E-value=3.7e-05 Score=45.57 Aligned_cols=40 Identities=23% Similarity=0.392 Sum_probs=27.3
Q ss_pred EEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 99995401368317998689-869999079865789999999
Q gi|254780640|r 31 DIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 31 ~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
.+++++=+-..+ ..++..+ .+.+|-||||+||||+..+|.
T Consensus 7 hv~~edk~IL~g-vnL~v~~GE~HAiMGPNGsGKSTL~~~ia 47 (248)
T TIGR01978 7 HVSVEDKEILKG-VNLTVKKGEIHAIMGPNGSGKSTLSKTIA 47 (248)
T ss_pred EEEECCEECCCC-CCCCCCCCEEEEEECCCCCCHHHHHHHHH
T ss_conf 888778861678-67621685179986889984788877761
No 86
>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=97.77 E-value=2.6e-05 Score=46.37 Aligned_cols=31 Identities=26% Similarity=0.291 Sum_probs=24.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+ .+..|+|+||+||||++.+|.-++-
T Consensus 20 sl~v~~GEi~~liG~nGaGKSTll~~l~G~~~ 51 (182)
T cd03215 20 SFEVRAGEIVGIAGLVGNGQTELAEALFGLRP 51 (182)
T ss_pred EEEECCCCEEEEECCCCCCCCHHHHHHCCCCC
T ss_conf 78985996999988899992637787669867
No 87
>PRK13651 cobalt transporter ATP-binding subunit; Provisional
Probab=97.77 E-value=4.7e-05 Score=45.06 Aligned_cols=31 Identities=26% Similarity=0.457 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+ .+..|+|+||+||||++..|.-++-
T Consensus 27 sl~I~~GE~v~IiG~nGsGKSTL~k~l~Gll~ 58 (304)
T PRK13651 27 STEINQGEFIAIIGQTGSGKTTFIEHLNALLL 58 (304)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 57985998999987999859999999966999
No 88
>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=97.77 E-value=4.6e-05 Score=45.08 Aligned_cols=32 Identities=34% Similarity=0.398 Sum_probs=25.9
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||||+||||++..|.-++.
T Consensus 18 is~~i~~Ge~~~liGpNGaGKSTllk~i~Gl~~ 50 (213)
T cd03235 18 VSFEVKPGEFLAIVGPNGAGKSTLLKAILGLLK 50 (213)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 278985998999999999869999999976878
No 89
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=97.76 E-value=5.2e-05 Score=44.85 Aligned_cols=31 Identities=23% Similarity=0.301 Sum_probs=24.7
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 98689-86999907986578999999998579
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++..+ .+..|+||||+||||++.+|.-++-.
T Consensus 20 l~i~~GE~v~iiG~nGaGKSTLl~~i~Gll~p 51 (233)
T PRK10771 20 LTVERGEQVAILGPSGAGKSTLLNLIAGFLTP 51 (233)
T ss_pred EEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 89889989999999998199999999659999
No 90
>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=97.76 E-value=3.8e-05 Score=45.54 Aligned_cols=31 Identities=32% Similarity=0.485 Sum_probs=24.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+||||+||||++.+|.-+..
T Consensus 20 s~~v~~Gei~~liGpNGaGKSTL~~~i~Gl~~ 51 (230)
T TIGR03410 20 SLEVPKGEVTCVLGRNGVGKTTLLKTLMGLLP 51 (230)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 77999997999999999409999999977999
No 91
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=97.76 E-value=7.1e-05 Score=44.16 Aligned_cols=30 Identities=27% Similarity=0.372 Sum_probs=24.1
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHH
Q ss_conf 79986898-6999907986578999999998
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~ 73 (110)
..+++.+| +..|+||||+||||++..|.-.
T Consensus 19 vsl~v~~Gei~~iiGpnGaGKSTLl~~i~G~ 49 (200)
T cd03217 19 VNLTIKKGEVHALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHCCC
T ss_conf 0568879989999968999999999997077
No 92
>PRK10895 putative ABC transporter ATP-binding protein YhbG; Provisional
Probab=97.76 E-value=7.7e-05 Score=43.97 Aligned_cols=31 Identities=16% Similarity=0.190 Sum_probs=25.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||||+||||++.+|.-++-
T Consensus 23 sl~i~~Gei~~liGpNGaGKSTLl~~i~Gl~~ 54 (241)
T PRK10895 23 SLTVNSGEIVGLLGPNGAGKTTTFYMVVGIVP 54 (241)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 78983997999988999869999999967888
No 93
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=97.76 E-value=5.3e-05 Score=44.77 Aligned_cols=32 Identities=28% Similarity=0.425 Sum_probs=25.6
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+.+|+||+|+||||+|..|..+.-
T Consensus 22 i~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe~ 54 (338)
T COG3839 22 VNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEE 54 (338)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 268974797999989998888999999968877
No 94
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=97.75 E-value=7.6e-05 Score=44.01 Aligned_cols=31 Identities=35% Similarity=0.456 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+.+ .++.|+||||+||||++.+|.-++-
T Consensus 24 ~l~v~~G~~~~iiGPNGaGKSTLlK~iLGll~ 55 (254)
T COG1121 24 SLSVEKGEITALIGPNGAGKSTLLKAILGLLK 55 (254)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 89974896899999988888999999967876
No 95
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=97.75 E-value=8.7e-05 Score=43.71 Aligned_cols=32 Identities=25% Similarity=0.349 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+||||+||||++..|.-+...
T Consensus 32 s~~I~~GEiv~LiG~nGaGKSTLlr~i~Gl~~p 64 (257)
T PRK11247 32 DLHIPAGQFVAVVGRSGCGKSTLLRLLAGLETP 64 (257)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 758879989999989988899999999658988
No 96
>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.74 E-value=4.4e-05 Score=45.20 Aligned_cols=32 Identities=25% Similarity=0.251 Sum_probs=25.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++..+ .+..|+||||+||||++..|.-++-.
T Consensus 24 s~~i~~Ge~~aliG~NGaGKSTLl~~i~Gll~p 56 (277)
T PRK13652 24 NFIAGRKQRIAVIGPNGAGKSTLFKHFNGILKP 56 (277)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 879989989999999994799999999669999
No 97
>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.74 E-value=6.7e-05 Score=44.27 Aligned_cols=32 Identities=25% Similarity=0.388 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .++.|+||||+||||++..|.-++..
T Consensus 25 s~~i~~Ge~~aiiG~NGsGKSTLl~~l~Gl~~p 57 (273)
T PRK13647 25 SLVIPEGSKTAILGPNGAGKSTLLLHLNGIYTA 57 (273)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 789889989999999997599999999669888
No 98
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=97.74 E-value=3.2e-05 Score=45.89 Aligned_cols=34 Identities=24% Similarity=0.221 Sum_probs=27.2
Q ss_pred CEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 179986898-6999907986578999999998579
Q gi|254780640|r 43 IQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 43 ~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
...+++.+| ++.+.||||+||||++.+|.-..-.
T Consensus 23 ~vs~~i~~Gei~gllG~NGAGKTTllk~l~Gl~~p 57 (293)
T COG1131 23 GVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKP 57 (293)
T ss_pred EEEEEEECCEEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 04999828959999899999899999999679778
No 99
>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.73 E-value=4.5e-05 Score=45.17 Aligned_cols=55 Identities=18% Similarity=0.303 Sum_probs=34.1
Q ss_pred CCCEEEEEEEEEEEECEECC-----C--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 02101689989999540136-----8--317998689-86999907986578999999998579
Q gi|254780640|r 21 YARKLIFKLLDIEISHFRGF-----T--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 21 ~~~~~~~kl~~i~i~nFr~f-----~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-...+++++..+.. .|..= . +...+++.. .+..|+|+||+||||++.+|.-++-.
T Consensus 16 m~~d~ilevknLs~-~Y~~~~~~~~~AL~~Is~~i~~Ge~vaIIG~nGsGKSTL~~~l~Gll~p 78 (320)
T PRK13631 16 LSDDIILRVKNLYC-VFDEKQENELVALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLIKS 78 (320)
T ss_pred CCCCCEEEEECCEE-EECCCCCCEEEEEECCEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 99881699925599-9699997727986164558859989999949998499999999758889
No 100
>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=97.73 E-value=9.7e-05 Score=43.47 Aligned_cols=41 Identities=20% Similarity=0.270 Sum_probs=28.9
Q ss_pred EECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 954013683179986898-699990798657899999999857
Q gi|254780640|r 34 ISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 34 i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+.....+ .++++.+| +..|+||||+||||++.+|.-+.-
T Consensus 10 yg~~~al~~-vs~~i~~Gei~~iiGpnGaGKSTl~~~i~Gl~~ 51 (213)
T cd03259 10 YGSVRALDD-LSLTVEPGEFLALLGPSGCGKTTLLRLIAGLER 51 (213)
T ss_pred ECCEEEECC-CEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 999999846-177988998999999999739999999975999
No 101
>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.73 E-value=3.6e-05 Score=45.61 Aligned_cols=62 Identities=19% Similarity=0.372 Sum_probs=36.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHH-------HHCCCCCCCEEEEEECCCE
Q ss_conf 998689-869999079865789999999985797756-4331333-------1024457412789962855
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSI-------KKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i-------~~~s~~~pi~l~~~v~~~~ 106 (110)
.+++.+ .+..|+|+||+||||++..|.-++-..+=. .-.+..+ .-......+-++|--|..+
T Consensus 27 sl~I~~Ge~~~iiG~nGsGKSTLl~~l~Gll~P~sG~V~i~G~~i~~~~~~~~~~~~r~~vg~vfQ~p~~q 97 (286)
T PRK13641 27 SFELEDGSFVALIGHTGSGKSTLMQHFNALLKPSSGKITIAGYHITPETSNKNLKDLRKKVGLVFQFPEAQ 97 (286)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCEEEEECCEECCCCCCHHHHHHHHHHEEEEEECCCCC
T ss_conf 67986999999999998399999999965989885499999899976665557999985154897665101
No 102
>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=97.72 E-value=8.1e-05 Score=43.86 Aligned_cols=29 Identities=24% Similarity=0.275 Sum_probs=23.2
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHH
Q ss_conf 79986898-699990798657899999999
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~ 72 (110)
.++++.+| ++.|+||||+||||++..|.-
T Consensus 26 is~~i~~Ge~~~llGpnGaGKSTLl~~l~g 55 (192)
T cd03232 26 ISGYVKPGTLTALMGESGAGKTTLLDVLAG 55 (192)
T ss_pred CEEEEECCEEEEEECCCCCCHHHHHHHHHC
T ss_conf 388992883999999999988999999837
No 103
>cd00267 ABC_ATPase 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=97.72 E-value=4.6e-05 Score=45.11 Aligned_cols=32 Identities=31% Similarity=0.434 Sum_probs=26.5
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .++.|+||||+||||++.+|..++.
T Consensus 18 i~~~i~~Ge~~~i~G~nGaGKSTLl~~l~gl~~ 50 (157)
T cd00267 18 VSLTLKAGEIVALVGPNGSGKSTLLRAIAGLLK 50 (157)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 178987997999987889998999999958847
No 104
>COG4913 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.71 E-value=7.2e-05 Score=44.13 Aligned_cols=52 Identities=27% Similarity=0.396 Sum_probs=43.7
Q ss_pred EEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 68998999954013683179986898699990798657899999999857977
Q gi|254780640|r 26 IFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
-|+|.+|++-|++.|. ...++..-+=.++.|.-|+||||++|||..+|....
T Consensus 14 ~FRL~~iqliNWGTF~-T~~~~~T~~G~LvTG~~GSGKSTLIDAITavLlP~~ 65 (1104)
T COG4913 14 QFRLSRIQLINWGTFH-TVDIPVTREGILVTGGSGSGKSTLIDAITAVLLPQG 65 (1104)
T ss_pred CEEEEEEEEEECCCCC-EEEEEEECCCEEEECCCCCCCHHHHHHHHHHHCCCC
T ss_conf 6146677885024431-246667516457746888870109998999845322
No 105
>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=97.71 E-value=3.7e-05 Score=45.55 Aligned_cols=31 Identities=23% Similarity=0.490 Sum_probs=25.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||||+||||++.+|.-++-
T Consensus 20 sl~i~~Gei~~iiG~nGaGKSTLl~~i~Gl~~ 51 (205)
T cd03226 20 SLDLYAGEIIALTGKNGAGKTTLAKILAGLIK 51 (205)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 78886998999988999989999999956857
No 106
>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=97.70 E-value=0.00012 Score=43.06 Aligned_cols=31 Identities=26% Similarity=0.426 Sum_probs=25.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .++.|+||||+||||++..|..++.
T Consensus 20 sl~i~~Ge~~~iiG~SGsGKSTll~~i~gL~~ 51 (227)
T cd03260 20 SLDIPKGEITALIGPSGCGKSTLLRLLNRLND 51 (227)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 67887998999999999819999999974450
No 107
>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=0.00011 Score=43.21 Aligned_cols=32 Identities=25% Similarity=0.277 Sum_probs=26.0
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++.+| +..|+|+||+||||++..|.-++.
T Consensus 19 vsl~i~~Gei~gl~G~NGaGKSTLl~~i~Gl~~ 51 (173)
T cd03230 19 ISLTVEKGEIYGLLGPNGAGKTTLIKIILGLLK 51 (173)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 087887993999987899799999999976857
No 108
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA; InterPro: IPR005895 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family contains the cytochrome c biogenesis protein encoded by ccmA in bacteria and one arabidopsis protein, possibly encoded by an organelle. Bacterial c-type cytochromes 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 post-translational pathway includes the transport of a 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 functions 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.; GO: 0005215 transporter activity, 0017004 cytochrome complex assembly, 0030288 outer membrane-bounded periplasmic space.
Probab=97.70 E-value=3.7e-05 Score=45.58 Aligned_cols=32 Identities=25% Similarity=0.361 Sum_probs=25.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.|++.. +..+|.||||+||||+|.-|.-++-.
T Consensus 20 ~F~l~aGe~l~v~GpNG~GKTtLLR~LAGL~~P 52 (204)
T TIGR01189 20 SFTLNAGEALQVEGPNGIGKTTLLRILAGLLRP 52 (204)
T ss_pred EEEEECCCEEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 345407827898606987357899999850588
No 109
>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.70 E-value=6.9e-05 Score=44.21 Aligned_cols=62 Identities=19% Similarity=0.371 Sum_probs=35.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHH-HH-------HHCCCCCCCEEEEEECCCE
Q ss_conf 998689-86999907986578999999998579775643313-33-------1024457412789962855
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD-SI-------KKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d-~i-------~~~s~~~pi~l~~~v~~~~ 106 (110)
.++..+ .++.|+|+||+||||++..|.-++-...-+-..++ .+ .-......+-++|--|+.+
T Consensus 26 sl~I~~Ge~vaiiG~nGsGKSTLl~~l~Gll~p~~G~V~~~~~~i~~~~~~~~~~~~~~~vG~VfQ~p~~q 96 (288)
T PRK13643 26 DLEVKKGSYTALIGHTGSGKSTLLQHLNGLLQPTEGKVTVGDIVVSSTSKQKEIKPVRKKVGVVFQFPESQ 96 (288)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCHHHHHHHHHHCEEEEEECCCCC
T ss_conf 67985998999999999479999999974888888569999998568773544798775179999777320
No 110
>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=97.70 E-value=0.00012 Score=43.10 Aligned_cols=32 Identities=22% Similarity=0.188 Sum_probs=25.6
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++..+| +..|.||||+||||++..|.-++.
T Consensus 19 vs~~v~~Gei~~llGpNGAGKSTll~~i~Gl~~ 51 (232)
T cd03218 19 VSLSVKQGEIVGLLGPNGAGKTTTFYMIVGLVK 51 (232)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 067989995999999999619999999977999
No 111
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=97.70 E-value=1e-04 Score=43.41 Aligned_cols=38 Identities=18% Similarity=0.302 Sum_probs=27.0
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 401368317998689-869999079865789999999985
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+..-..+ .++++.+ .+..|+||||+||||++.+|..+.
T Consensus 17 ~~~vl~~-isl~i~~Gei~~iiG~sGsGKSTLl~~i~gl~ 55 (257)
T PRK10619 17 EHEVLKG-VSLQANAGDVISIIGSSGSGKSTFLRCINFLE 55 (257)
T ss_pred CEEEECC-CEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 9888736-06688799799999899981999999996599
No 112
>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=97.70 E-value=0.00011 Score=43.11 Aligned_cols=42 Identities=19% Similarity=0.082 Sum_probs=28.4
Q ss_pred EEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9995401368317998689-869999079865789999999985
Q gi|254780640|r 32 IEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 32 i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
....+-.-+ +...+++.+ .+..|+||||+||||++.+|.-.+
T Consensus 8 ~~y~~~~vl-~~is~~i~~ge~~~l~G~NGsGKTTl~~~l~G~~ 50 (144)
T cd03221 8 KTYGGKLLL-KDISLTINPGDRIGLVGRNGAGKSTLLKLIAGEL 50 (144)
T ss_pred EEECCEEEE-EEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 999999999-6348998799999999899984999999984898
No 113
>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=97.69 E-value=0.00012 Score=43.05 Aligned_cols=32 Identities=25% Similarity=0.411 Sum_probs=25.3
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++..+ .+..|+||||+||||++.+|.-++-
T Consensus 19 vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~ 51 (222)
T cd03224 19 VSLTVPEGEIVALLGRNGAGKTTLLKTIMGLLP 51 (222)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 089988998999999999859999999977988
No 114
>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=97.69 E-value=2.1e-05 Score=46.82 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=28.1
Q ss_pred EECCCCCE--EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 01368317--998689-86999907986578999999998579
Q gi|254780640|r 37 FRGFTEIQ--KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 37 Fr~f~~~~--~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
|..+.-.. +++..+ .+..|+|+||+||||++..|.-++-.
T Consensus 32 ~G~~~AL~~isf~i~~GeivgilG~NGaGKSTLl~~i~Gl~~p 74 (224)
T cd03220 32 VGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIYPP 74 (224)
T ss_pred CCCEEEECCEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 2896987670789838989999979998199999999758777
No 115
>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.69 E-value=4.4e-05 Score=45.17 Aligned_cols=63 Identities=21% Similarity=0.355 Sum_probs=38.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCC--CC--CCHHHHHH---CCCCCCCEEEEEECCCEE
Q ss_conf 998689-86999907986578999999998579775--64--33133310---244574127899628556
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQ--RR--KHGDSIKK---RSIKTPMPMCMAVPRCKY 107 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~--~~--~~~d~i~~---~s~~~pi~l~~~v~~~~y 107 (110)
.+++.+ .+..|+|+||+||||++..|.-++..... .. -.+..+.. ......+-++|--|+.++
T Consensus 28 sl~I~~Ge~vaiiG~nGsGKSTL~~~l~Gll~P~~~~~G~i~~~g~~i~~~~~~~lr~~vg~VfQ~P~~q~ 98 (283)
T PRK13640 28 SFSIPRGSWTALIGHNGSGKSTISKLINGLLLPDDNPKSKITVDGITLTAKTVWDIREKVGIVFQNPDNQF 98 (283)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEECCEECCCCCHHHHHHCEEEEEECCCCCC
T ss_conf 86998999999999999879999999964037888861799999999996798899626189986887618
No 116
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=97.69 E-value=0.00013 Score=42.82 Aligned_cols=32 Identities=28% Similarity=0.393 Sum_probs=25.3
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||||+||||++..|.-++-
T Consensus 20 is~~i~~G~i~~l~G~NGaGKSTLlkli~Gl~~ 52 (200)
T PRK13540 20 ISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLLN 52 (200)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 278987997999988999879999999977858
No 117
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=97.68 E-value=4.5e-05 Score=45.15 Aligned_cols=30 Identities=30% Similarity=0.271 Sum_probs=23.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.+ .++.|.||||+||||++.+|.-.+
T Consensus 29 s~~v~~Gei~~ilGpnGaGKSTLl~~l~Gl~ 59 (194)
T cd03213 29 SGKAKPGELTAIMGPSGAGKSTLLNALAGRR 59 (194)
T ss_pred EEEEECCEEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 8899088199999899951999999985777
No 118
>PRK11144 modC molybdate transporter ATP-binding protein; Provisional
Probab=97.68 E-value=5e-05 Score=44.91 Aligned_cols=39 Identities=23% Similarity=0.294 Sum_probs=27.5
Q ss_pred EECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 01368317998689-8699990798657899999999857
Q gi|254780640|r 37 FRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 37 Fr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
|+.|.=...++..+ .++.|+||||+||||++.+|.-+..
T Consensus 10 ~g~f~ldv~l~i~~g~i~~l~GpsGaGKTTLl~~iaGl~~ 49 (352)
T PRK11144 10 LGQLCLTVNLTLPAQGITAIFGRSGAGKTSLINLISGLTR 49 (352)
T ss_pred ECCEEEEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 8999999999988998999999999629999999976899
No 119
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=97.67 E-value=9.8e-05 Score=43.45 Aligned_cols=31 Identities=26% Similarity=0.425 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+||||+||||++.+|.-++-
T Consensus 21 sl~i~~Ge~~~lvGpnGaGKSTLl~~i~Gl~~ 52 (255)
T PRK11248 21 NLTLESGELLVVLGPSGCGKTTLLNLIAGFVP 52 (255)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 77986998999999998469999999975998
No 120
>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=97.67 E-value=0.00013 Score=42.86 Aligned_cols=33 Identities=24% Similarity=0.186 Sum_probs=26.0
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 79986898-6999907986578999999998579
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++..+| +..++||||+||||++..|.-++..
T Consensus 21 vsf~v~~Gei~gllGpNGAGKTTl~~~l~Gl~~p 54 (301)
T TIGR03522 21 VSFEAQKGRIVGFLGPNGAGKSTTMKIITGYLPP 54 (301)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 0678859819999999998199999999679568
No 121
>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=97.67 E-value=0.00013 Score=42.80 Aligned_cols=32 Identities=22% Similarity=0.199 Sum_probs=25.9
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++.+| +..+.||||+||||++..|.-++-
T Consensus 19 vs~~v~~Gei~gllG~NGaGKSTLl~~i~Gl~~ 51 (208)
T cd03268 19 ISLHVKKGEIYGFLGPNGAGKTTTMKIILGLIK 51 (208)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 166886981999999999999999999957837
No 122
>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, 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 the single ATP-binding protein and the single intergral membrane protein.
Probab=97.67 E-value=2.1e-05 Score=46.79 Aligned_cols=31 Identities=19% Similarity=0.283 Sum_probs=25.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..++||||+||||++..|.-++.
T Consensus 41 sf~i~~Gei~gLlGpNGaGKSTllk~l~Gl~~ 72 (236)
T cd03267 41 SFTIEKGEIVGFIGPNGAGKTTTLKILSGLLQ 72 (236)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 57884895999999998309999999964948
No 123
>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.67 E-value=9.2e-05 Score=43.59 Aligned_cols=63 Identities=19% Similarity=0.290 Sum_probs=36.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCC-CCHHHH----HHCCCCCCCEEEEEECCCEE
Q ss_conf 998689-8699990798657899999999857977564-331333----10244574127899628556
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR-KHGDSI----KKRSIKTPMPMCMAVPRCKY 107 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~-~~~d~i----~~~s~~~pi~l~~~v~~~~y 107 (110)
.+++.+ .+..|+|+||+||||++..|.-++-...=+- -.+-.+ .....+..+-++|-.|+.++
T Consensus 22 sl~i~~Ge~vaiiG~nGsGKSTL~~~l~Gll~P~~G~I~v~G~d~~~~~~~~~~r~~ig~vfQ~p~~q~ 90 (274)
T PRK13644 22 NLVIKKGEYIGIIGKNGSGKSTLALHLNGLLRPQKGKVLVSGIDTGDFSKLQGIRKLVGIVFQNPETQF 90 (274)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCHHHHHHHHHEEEEEECCCCCC
T ss_conf 779848999999999998099999999706858887299999987870567999873179965821103
No 124
>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.67 E-value=3.8e-05 Score=45.53 Aligned_cols=61 Identities=21% Similarity=0.368 Sum_probs=35.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHH--------H-HHHCCCCCCCEEEEEECCC
Q ss_conf 998689-86999907986578999999998579775643313--------3-3102445741278996285
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGD--------S-IKKRSIKTPMPMCMAVPRC 105 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d--------~-i~~~s~~~pi~l~~~v~~~ 105 (110)
.+++.+ .+..|+|+||+||||++..|.-++-...-+-..++ . -.-......+-++|-.|..
T Consensus 31 sl~i~~Ge~~aIiG~nGsGKSTL~~~l~Gll~p~~G~v~~~~~~i~~~~~~~~~~~~~r~~vG~vfQ~P~~ 101 (289)
T PRK13645 31 SLTFKKNKVTCVIGTTGSGKSTMIQLTNGLIISETGQTIVGDYAIPANLKKIKEVKRLRKEIGLVFQFPEY 101 (289)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCCCHHHHHHHHCCEEEEEECCCC
T ss_conf 88988998999999999579999999965988999859999998347653155789976367999667764
No 125
>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.67 E-value=0.00016 Score=42.33 Aligned_cols=52 Identities=15% Similarity=0.224 Sum_probs=31.4
Q ss_pred EEEEEEEEEEEEC--EECC-CCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 0168998999954--0136-8317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEISH--FRGF-TEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i~n--Fr~f-~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++.+..+...- -..+ -+...+++.+ .+..|+|+||+||||++..|.-+..
T Consensus 5 ~~~I~~~nvsf~Y~~~~~~~L~~is~~i~~Ge~vaiiG~sGsGKSTLl~ll~Gl~~ 60 (269)
T PRK13648 5 NSVIVFKNVSFQYQSDASFTLKDVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIEK 60 (269)
T ss_pred CCEEEEEEEEEEECCCCCEEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 96799986799918999635664589985998999999999979999999964979
No 126
>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.66 E-value=8.8e-05 Score=43.69 Aligned_cols=63 Identities=21% Similarity=0.303 Sum_probs=37.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHHH---HCCCCCCCEEEEEECCCEE
Q ss_conf 998689-869999079865789999999985797756-43313331---0244574127899628556
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSIK---KRSIKTPMPMCMAVPRCKY 107 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i~---~~s~~~pi~l~~~v~~~~y 107 (110)
++++.+ .+..|+|+||+||||++..|.-++-...=. .-.+..+. .......+-++|--|+..+
T Consensus 24 sl~i~~GE~vaivG~nGsGKSTL~~~l~Gll~p~~G~I~i~G~~i~~~~~~~lr~~ig~VfQ~p~~~~ 91 (276)
T PRK13650 24 SFHVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESGSIIIDGDLLTEENVWEIRHKIGMVFQNPDNQF 91 (276)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCEEEEECCEECCCCCHHHHHHCEEEEEECCCHHC
T ss_conf 87998998999999999879999999973889886089999999986776887641469976720105
No 127
>TIGR01188 drrA daunorubicin resistance ABC transporter, ATP-binding protein; InterPro: IPR005894 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family contains the daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. In other words it functions as an ATP dependent antiporter. .
Probab=97.66 E-value=2.5e-05 Score=46.39 Aligned_cols=40 Identities=18% Similarity=0.258 Sum_probs=28.9
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 401368317998689-86999907986578999999998579
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+|... +...++-.. .+..+.||||+||||.+.-|.-++-.
T Consensus 7 ~f~AV-dgv~f~V~~G~vfGfLGPNGAGKTTti~mLtTll~P 47 (343)
T TIGR01188 7 DFKAV-DGVNFKVREGEVFGFLGPNGAGKTTTIRMLTTLLKP 47 (343)
T ss_pred CEEEE-CCCCCEECCCEEEEEECCCCCCHHHHHHHHCCCCCC
T ss_conf 63561-254205306248997687998513356341025579
No 128
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=97.66 E-value=0.00012 Score=43.06 Aligned_cols=31 Identities=26% Similarity=0.415 Sum_probs=24.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+ .+..|+||||+||||++.+|.-+..
T Consensus 21 s~~i~~Ge~~~liG~nGsGKSTll~~i~Gl~~ 52 (240)
T PRK09493 21 DLNIDQGEVVVIIGPSGSGKSTLLRCINKLEE 52 (240)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 78987998999999999809999999963899
No 129
>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=97.65 E-value=5.5e-05 Score=44.71 Aligned_cols=31 Identities=16% Similarity=0.211 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+||||+||||++..|.-++.
T Consensus 22 s~~i~~Gei~~llG~NGaGKSTLl~~i~Gl~~ 53 (220)
T cd03263 22 SLNVYKGEIFGLLGHNGAGKTTTLKMLTGELR 53 (220)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 88984995999998999739999999966987
No 130
>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.64 E-value=6.7e-05 Score=44.27 Aligned_cols=31 Identities=26% Similarity=0.436 Sum_probs=25.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .++.|+|+||+||||++..|.-++-
T Consensus 27 sl~i~~Ge~~aiiG~nGsGKSTLl~~l~Gl~~ 58 (280)
T PRK13649 27 NLDILDGSYTAFIGHTGSGKSTIMQLLNGLHV 58 (280)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 68987998999995999869999999966999
No 131
>PRK09700 D-allose transporter ATP-binding protein; Provisional
Probab=97.64 E-value=0.0001 Score=43.40 Aligned_cols=52 Identities=12% Similarity=0.156 Sum_probs=35.5
Q ss_pred CCEEEEEEEEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 21016899899995401368317998689-869999079865789999999985
Q gi|254780640|r 22 ARKLIFKLLDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 22 ~~~~~~kl~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
....++++..+.-.+++.+ +...++..+ .+..|.|+||+||||++.+|.-+.
T Consensus 261 ~~~~~l~v~~l~~~~~~~l-~~vsf~v~~GEi~gl~G~nGsGKsTL~~~l~Gl~ 313 (510)
T PRK09700 261 AHETVFEVRNVTSRDRKKV-RDISFSVCRGEILGFAGLVGSGRTELMNCLFGVD 313 (510)
T ss_pred CCCCEEEEECCCCCCCCCE-EEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 7871799946525788865-4335787488189997688862889999981988
No 132
>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional
Probab=97.64 E-value=1.1e-05 Score=48.19 Aligned_cols=39 Identities=26% Similarity=0.309 Sum_probs=27.3
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 401368317998689-8699990798657899999999857
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.|....+ .+++..+ .+..|+||||+||||++..|.-++-
T Consensus 36 ~f~AL~d-Vsf~i~~GEivgllG~NGaGKSTLlk~I~Gl~~ 75 (264)
T PRK13546 36 TFFALDD-ISLKAYEGDVIGLVGINGSGKSTLSNIIGGSLS 75 (264)
T ss_pred EEEEECC-CEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 8999527-078885998999998998619999999967988
No 133
>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=97.63 E-value=4.8e-05 Score=45.00 Aligned_cols=25 Identities=20% Similarity=0.365 Sum_probs=21.7
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++.|+||||+||||++..|.-++-
T Consensus 26 Eiv~liGpNGaGKSTLlk~l~Gll~ 50 (246)
T cd03237 26 EVIGILGPNGIGKTTFIKMLAGVLK 50 (246)
T ss_pred CEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 8999997999769999999977878
No 134
>TIGR02680 TIGR02680 conserved hypothetical protein TIGR02680; InterPro: IPR013496 Proteins in this entry are encoded within a conserved gene four-gene neighbourhood found sporadically in a phylogenetically broad range of bacteria including: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). These proteins average over 1400 amino acids in length..
Probab=97.63 E-value=1.2e-05 Score=47.98 Aligned_cols=54 Identities=20% Similarity=0.329 Sum_probs=44.6
Q ss_pred EEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC-CCCCCC
Q ss_conf 8998999954013683179986898699990798657899999999857-977564
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY-GYTQRR 81 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~-g~~~~~ 81 (110)
|++++.=|-||--| |.++|.|.+|--++-|.||+|||-.|+.+-=+|+ |.-.+.
T Consensus 2 W~phRaGl~n~w~Y-D~qeF~F~dGrLLLRG~NGaGKSK~L~lLLPfLlDg~l~P~ 56 (1416)
T TIGR02680 2 WRPHRAGLVNLWYY-DEQEFAFRDGRLLLRGNNGAGKSKVLELLLPFLLDGKLRPS 56 (1416)
T ss_pred CCCHHHHHHHHHHC-CCCCEEECCCEEECCCCCCCCHHHHHHHHHHHHCCCCCCCC
T ss_conf 97346668885412-46613533850422678986289999865102116356887
No 135
>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.63 E-value=7.6e-05 Score=44.00 Aligned_cols=61 Identities=25% Similarity=0.383 Sum_probs=35.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCC-CCHHHH-----HHCCCCCCCEEEEEECCC
Q ss_conf 998689-8699990798657899999999857977564-331333-----102445741278996285
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR-KHGDSI-----KKRSIKTPMPMCMAVPRC 105 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~-~~~d~i-----~~~s~~~pi~l~~~v~~~ 105 (110)
.++..+ .+..|+|+||+||||++..|.-++-..+=.- -.+-.+ ........+-++|-.|..
T Consensus 27 sl~i~~GE~v~iiG~nGsGKSTLl~~l~GLl~p~~G~V~i~G~~i~~~~~~~~~~r~~iG~VfQ~P~~ 94 (287)
T PRK13637 27 NIEIEDGEFVALIGHTGSGKSTLIQHLNGLLKPTSGKIIIDGVDITDKKVKLSDIRKKVGLVFQYPEY 94 (287)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCCCHHHHHHCEEEEEECCCC
T ss_conf 76987998999999999399999999973998887269999999878886778887417899617520
No 136
>PRK13549 xylose transporter ATP-binding subunit; Provisional
Probab=97.62 E-value=6.7e-05 Score=44.28 Aligned_cols=31 Identities=13% Similarity=0.235 Sum_probs=23.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++... .+..|+|+||+||||++.+|.-++-
T Consensus 282 sf~v~~GEi~gi~G~nGsGKsTLl~~L~Gl~~ 313 (513)
T PRK13549 282 SFSLRRGEILGIAGLVGAGRTELVQCLFGAYP 313 (513)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 57886884899747988658999999838988
No 137
>cd03299 ABC_ModC_like Archeal protein closely related to ModC. 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=97.62 E-value=6.9e-05 Score=44.23 Aligned_cols=31 Identities=29% Similarity=0.402 Sum_probs=24.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+||||+||||++.+|.-+..
T Consensus 19 s~~v~~Ge~~~iiGpSGsGKSTLlr~i~Gl~~ 50 (235)
T cd03299 19 SLEVERGDYFVILGPTGSGKSVLLETIAGFIK 50 (235)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 87988998999999996359999999974999
No 138
>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=97.61 E-value=6.7e-05 Score=44.29 Aligned_cols=32 Identities=22% Similarity=0.226 Sum_probs=25.7
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+| +..+.||||+||||++..|.-++-
T Consensus 24 vs~~i~~Gei~gllG~NGaGKSTllk~i~Gl~~ 56 (218)
T cd03266 24 VSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLLE 56 (218)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 278985982999999999849999999977977
No 139
>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=97.61 E-value=0.00014 Score=42.65 Aligned_cols=31 Identities=19% Similarity=0.239 Sum_probs=25.1
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9986898-699990798657899999999857
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+| +..+.||||+||||++..|.-++-
T Consensus 20 s~~v~~Gei~gllGpNGAGKSTll~~i~Gl~~ 51 (220)
T cd03265 20 SFRVRRGEIFGLLGPNGAGKTTTIKMLTTLLK 51 (220)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 67988983999999998719999999976978
No 140
>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=97.61 E-value=0.0002 Score=41.88 Aligned_cols=41 Identities=22% Similarity=0.381 Sum_probs=28.9
Q ss_pred EEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 995401368317998689-869999079865789999999985
Q gi|254780640|r 33 EISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 33 ~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
...++....+ .++++.+ .+..|+||||+||||++..|.-+.
T Consensus 11 ~yg~~~~l~~-is~~v~~Ge~~~iiGpSGsGKSTll~~i~Gl~ 52 (239)
T cd03296 11 RFGDFVALDD-VSLDIPSGELVALLGPSGSGKTTLLRLIAGLE 52 (239)
T ss_pred EECCEEEECC-CEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 9999899866-38698899899999999977999999997699
No 141
>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=97.61 E-value=7.3e-05 Score=44.09 Aligned_cols=39 Identities=28% Similarity=0.332 Sum_probs=27.5
Q ss_pred EECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 013683179986898699990798657899999999857
Q gi|254780640|r 37 FRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 37 Fr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
|+.|.=..+++.+..+..|+||+|+||||++..|.-+.-
T Consensus 10 ~g~f~l~i~f~i~ge~~~iiGpSGsGKSTll~~i~GL~~ 48 (214)
T cd03297 10 LPDFTLKIDFDLNEEVTGIFGASGAGKSTLLRCIAGLEK 48 (214)
T ss_pred ECCEEEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 899999999862997999999997359999999984999
No 142
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; 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=97.61 E-value=8.5e-05 Score=43.77 Aligned_cols=28 Identities=36% Similarity=0.398 Sum_probs=22.1
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 7998689-869999079865789999999
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
..+++.+ .++.|+||||+||||++.++-
T Consensus 14 vsl~i~~G~~~aIiG~sGsGKSTLl~~~L 42 (261)
T cd03271 14 IDVDIPLGVLTCVTGVSGSGKSSLINDTL 42 (261)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHH
T ss_conf 58898899999998799986999999998
No 143
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=97.60 E-value=0.00018 Score=42.18 Aligned_cols=32 Identities=25% Similarity=0.375 Sum_probs=25.2
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||||+||||++.+|..+..
T Consensus 20 vsl~i~~Ge~~aliG~sGsGKSTLl~~l~gl~~ 52 (248)
T PRK11264 20 IDLEVKPGEVVAIIGPSGSGKTTLLRCINLLEQ 52 (248)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 177987998999999999809999999975899
No 144
>TIGR01166 cbiO cobalt ABC transporter, ATP-binding protein; InterPro: IPR005876 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. This superfamily includes two groups, one which catalyses 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 drives both the process of uptake and efflux.; GO: 0006824 cobalt ion transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=97.59 E-value=3.2e-05 Score=45.88 Aligned_cols=61 Identities=20% Similarity=0.260 Sum_probs=36.8
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCC-H---HHHHH--CCCCCCCEEEEEECCCE
Q ss_conf 98689-869999079865789999999985797756433-1---33310--24457412789962855
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH-G---DSIKK--RSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~-~---d~i~~--~s~~~pi~l~~~v~~~~ 106 (110)
+.+.. .++.+.|+||+||||++.-+.-.|=..+=+-.. + ++-++ ...++.+.+||=-|+.+
T Consensus 13 ~~~~~G~~~aLlG~NGaGKsTLl~~LnG~LrP~~G~v~~dG~~l~YsrkgL~~~R~~V~~VfQdPDDQ 80 (190)
T TIGR01166 13 FAVERGEVLALLGANGAGKSTLLLHLNGLLRPQSGKVLLDGEPLDYSRKGLLEVRQRVGLVFQDPDDQ 80 (190)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHHCCCCCCCCCEEEECCEECCCCCHHHHHHCCEEEEEEECHHHH
T ss_conf 02205716898728998578998874367779755587678540357244675250300376263442
No 145
>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=97.59 E-value=6.4e-05 Score=44.37 Aligned_cols=31 Identities=26% Similarity=0.444 Sum_probs=24.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||||+||||++..|.-++-
T Consensus 21 sl~i~~Gei~~iiG~nGaGKSTLlk~i~Gl~~ 52 (211)
T cd03225 21 SLTIKKGEFVLIVGPNGSGKSTLLRLLNGLLG 52 (211)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 78884997999988999989999999964677
No 146
>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=97.59 E-value=0.00011 Score=43.22 Aligned_cols=31 Identities=29% Similarity=0.342 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+||||+||||++.+|.-++-
T Consensus 25 sl~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~ 56 (228)
T cd03257 25 SFSIKKGETLGLVGESGSGKSTLARAILGLLK 56 (228)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 78986998999999999869999999972898
No 147
>PRK13536 nodulation factor exporter subunit NodI; Provisional
Probab=97.59 E-value=4.1e-05 Score=45.35 Aligned_cols=32 Identities=25% Similarity=0.220 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+++..+ .+..+.||||+||||++..|.-++-.
T Consensus 27 s~~v~~Gei~gllGpNGAGKSTli~~l~Gl~~p 59 (306)
T PRK13536 27 SFTVASGECFGLLGPNGAGKSTIARMILGMTSP 59 (306)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 778859969999999898099999999679578
No 148
>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.58 E-value=9.1e-05 Score=43.62 Aligned_cols=31 Identities=23% Similarity=0.322 Sum_probs=25.3
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9986898-699990798657899999999857
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+| ++.|+|+||+||||++..|.-++-
T Consensus 22 sl~I~~Ge~vaiiG~nGsGKSTLl~~l~Gll~ 53 (275)
T PRK13639 22 NFKAEEGEMIAILGPNGAGKSTLFLHFNGILK 53 (275)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 88998998999999999649999999973989
No 149
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=97.58 E-value=0.00011 Score=43.12 Aligned_cols=31 Identities=23% Similarity=0.333 Sum_probs=24.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+||||+||||++..|..+..
T Consensus 29 s~~i~~GE~v~iiG~sGsGKSTLl~~i~Gl~~ 60 (233)
T PRK11629 29 SFSIGEGEMMAIVGSSGSGKSTLLHLLGGLDT 60 (233)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 89988998999999999409999999966999
No 150
>PRK10762 D-ribose transporter ATP binding protein; Provisional
Probab=97.58 E-value=0.00012 Score=43.03 Aligned_cols=30 Identities=17% Similarity=0.264 Sum_probs=22.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+++... .+..|+|+||+||||++.+|.-++
T Consensus 272 s~~v~~GEi~gi~G~nGsGKsTL~~~l~Gl~ 302 (501)
T PRK10762 272 SFTLRKGEILGVSGLMGAGRTELMKVLYGAL 302 (501)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 4476688189966788876889999981876
No 151
>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=97.58 E-value=5.9e-05 Score=44.54 Aligned_cols=32 Identities=22% Similarity=0.326 Sum_probs=26.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+||||+||||++..|..++-.
T Consensus 21 sl~i~~Ge~~~iiGpsGsGKSTLl~~i~gl~~p 53 (241)
T cd03256 21 SLSINPGEFVALIGPSGAGKSTLLRCLNGLVEP 53 (241)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 889999989999999983399999999749999
No 152
>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (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=97.58 E-value=7.9e-05 Score=43.91 Aligned_cols=32 Identities=25% Similarity=0.220 Sum_probs=24.7
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 9986898-6999907986578999999998579
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+...+| ++.|.||||+||||++.+|.-.+-+
T Consensus 27 s~~i~~Gei~~llG~nGsGKSTLl~~l~G~~~~ 59 (202)
T cd03233 27 SGVVKPGEMVLVLGRPGSGCSTLLKALANRTEG 59 (202)
T ss_pred EEEECCCEEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 889809849999989999889999998378789
No 153
>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2. The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.
Probab=97.57 E-value=0.00021 Score=41.84 Aligned_cols=32 Identities=25% Similarity=0.389 Sum_probs=23.8
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++..+ .+..|.|+||+||||++.+|.-++.
T Consensus 303 vs~~v~~GEi~gi~G~nGsGKsTL~k~l~Gl~~ 335 (520)
T TIGR03269 303 VSLEVKEGEIFGIVGTSGAGKTTLSKIIAGVLE 335 (520)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 068972896899987888878999999948878
No 154
>PRK13537 lipooligosaccharide transporter ATP-binding subunit; Provisional
Probab=97.57 E-value=0.00024 Score=41.54 Aligned_cols=33 Identities=18% Similarity=0.071 Sum_probs=25.9
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 79986898-6999907986578999999998579
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++..+| +..+.||||+||||++..|.-++..
T Consensus 24 vs~~V~~Gei~gllGpNGAGKTTli~~l~Gl~~p 57 (304)
T PRK13537 24 LSFHVQPGECFGLLGPNGAGKTTTLKMLLGLTHP 57 (304)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 1778869959999999897299999999779568
No 155
>PRK10851 sulfate/thiosulfate transporter subunit; Provisional
Probab=97.56 E-value=0.00026 Score=41.37 Aligned_cols=31 Identities=23% Similarity=0.335 Sum_probs=24.9
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9986898-699990798657899999999857
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+| +..|+||||+||||++..|.-+.-
T Consensus 22 sl~i~~GE~~~llGpSGsGKSTLlr~iaGL~~ 53 (352)
T PRK10851 22 SLDIPSGQMVALLGPSGSGKTTLLRIIAGLEH 53 (352)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 76999998999999998469999999976999
No 156
>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional
Probab=97.56 E-value=0.0003 Score=41.04 Aligned_cols=44 Identities=16% Similarity=0.154 Sum_probs=28.2
Q ss_pred EEEEECEECCC--CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 99995401368--317998689-869999079865789999999985
Q gi|254780640|r 31 DIEISHFRGFT--EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 31 ~i~i~nFr~f~--~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.|+.+-. +..+++... .+..|+|+||+||||++.+|.-++
T Consensus 257 ~l~~~~l~~~~~~~~vsl~v~~GEivgivG~nGsGKSTL~k~L~Gl~ 303 (501)
T PRK11288 257 RLRLKGLKGPGLREPISFAVRRGEIVGFFGLVGAGRSELMKLLYGAT 303 (501)
T ss_pred EEEEEECCCCCCCCCEEEEEECCEEEEEECCCCCCHHHHHHHHCCCC
T ss_conf 79998503787456634787088399975688864879999843874
No 157
>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.54 E-value=8.6e-05 Score=43.73 Aligned_cols=61 Identities=26% Similarity=0.378 Sum_probs=36.0
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCCCCCCC-CHHHHHH-------CCCCCCCEEEEEECCC
Q ss_conf 9986898-6999907986578999999998579775643-3133310-------2445741278996285
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGYTQRRK-HGDSIKK-------RSIKTPMPMCMAVPRC 105 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~-~~d~i~~-------~s~~~pi~l~~~v~~~ 105 (110)
.+++.+| +..|+|+||+||||++..|.-++-..+=.-. .+-.+.. +.....+-++|-.|..
T Consensus 27 sl~I~~Ge~~aiiG~nGsGKSTLl~~l~GLl~p~~G~I~~~g~~i~~~~~~~~~~~~r~~ig~VfQ~P~~ 96 (286)
T PRK13646 27 NTEFEQGKYYAIVGQTGSGKSTLIQNINALLKPTTGTVTVDDITITHKTKDKYIRPVRKRIGMVFQFPES 96 (286)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCHHHHHHHHHHCEEEEEECCHH
T ss_conf 7798699899999999981999999997078888875999989875557467899987408999988402
No 158
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=97.53 E-value=0.00025 Score=41.38 Aligned_cols=64 Identities=17% Similarity=0.222 Sum_probs=42.9
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCCCCCC-CCHHH----HHHCCCCCCCEEEEEECCCEE
Q ss_conf 79986898-699990798657899999999857977564-33133----310244574127899628556
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGYTQRR-KHGDS----IKKRSIKTPMPMCMAVPRCKY 107 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~~~~~-~~~d~----i~~~s~~~pi~l~~~v~~~~y 107 (110)
..+.+.++ .++|+|+||+||||++..+.-++...+-.- -.+.. ..-..+...+.++|-.|+.+.
T Consensus 23 v~~~i~~Ge~~~i~G~nGsGKSTL~~~l~GLl~p~~G~v~~~g~~~~~~~~~~~~~~~vG~VfQnpd~q~ 92 (235)
T COG1122 23 VSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGEVLVDGLDTSSEKSLLELRQKVGLVFQNPDDQL 92 (235)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHCCCCCCCCCEEEECCCCCCCHHHHHHHHCCEEEEEECHHHCE
T ss_conf 3389878989999889998899999995376768898488778133100218876312169999711261
No 159
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=97.53 E-value=1e-05 Score=48.34 Aligned_cols=40 Identities=28% Similarity=0.485 Sum_probs=28.2
Q ss_pred CEECCCCCEE--EECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 4013683179--98689-8699990798657899999999857
Q gi|254780640|r 36 HFRGFTEIQK--IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 36 nFr~f~~~~~--i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.|+++.-... ++..+ .++.++||||+||||++..|.-++-
T Consensus 13 ~FGGl~Al~~Vsl~v~~Gei~~LIGPNGAGKTTlfNlitG~~~ 55 (250)
T COG0411 13 RFGGLTAVNDVSLEVRPGEIVGLIGPNGAGKTTLFNLITGFYK 55 (250)
T ss_pred ECCCEEEEECEEEEECCCEEEEEECCCCCCCEEEEEEECCCCC
T ss_conf 5177899704147873872899988998882456653236405
No 160
>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=97.53 E-value=0.00029 Score=41.13 Aligned_cols=32 Identities=22% Similarity=0.280 Sum_probs=25.3
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++..+ .+..|+|+||+||||++.+|.-++.
T Consensus 19 vsl~i~~Gei~gliG~nGaGKSTL~~~i~Gl~~ 51 (236)
T cd03219 19 VSFSVRPGEIHGLIGPNGAGKTTLFNLISGFLR 51 (236)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 389988998999998999739999999967987
No 161
>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=97.52 E-value=0.00014 Score=42.64 Aligned_cols=36 Identities=22% Similarity=0.359 Sum_probs=25.5
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 401368317998689-8699990798657899999999
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~ 72 (110)
|-....+ ..+++.+ .++.|+||||+||||++.++.+
T Consensus 7 ~~~aL~~-isl~i~~Ge~~~iiG~nGsGKSTLl~~~~~ 43 (176)
T cd03238 7 NVHNLQN-LDVSIPLNVLVVVTGVSGSGKSTLVNEGLY 43 (176)
T ss_pred CEECCCC-EEEEECCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf 5354675-487888998999999999989999998887
No 162
>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.51 E-value=0.00023 Score=41.58 Aligned_cols=62 Identities=18% Similarity=0.291 Sum_probs=35.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHH---HHCCCCCCCEEEEEECCCE
Q ss_conf 998689-869999079865789999999985797756-4331333---1024457412789962855
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSI---KKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i---~~~s~~~pi~l~~~v~~~~ 106 (110)
.+++.+ .+..|+|+||+||||++.+|.-++....=. .-.+..+ ....+...+.++|--|+..
T Consensus 27 sl~i~~GE~vaivG~nGsGKSTL~k~l~Gl~~p~~G~I~i~G~~i~~~~~~~lr~~ig~VfQ~P~~~ 93 (279)
T PRK13635 27 SFSVYEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAGTITVGGMVLSEETVWDVRKQIGMVFQNPDNQ 93 (279)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCHHHHHHHEEEEECCHHHH
T ss_conf 7688799899999999965999999997288888964999999998578799974366882185652
No 163
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=9.8e-05 Score=43.45 Aligned_cols=37 Identities=22% Similarity=0.379 Sum_probs=28.0
Q ss_pred CCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 368317998689-86999907986578999999998579
Q gi|254780640|r 39 GFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 39 ~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-|.+. .+.|.+ ...+|.|+||+||||++..|.-++-.
T Consensus 17 lf~~L-~f~l~~Ge~~~i~G~NG~GKTtLLRilaGLl~p 54 (209)
T COG4133 17 LFSDL-SFTLNAGEALQITGPNGAGKTTLLRILAGLLRP 54 (209)
T ss_pred EECCE-EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 21230-478748877999899987588999999712687
No 164
>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional
Probab=97.50 E-value=0.00033 Score=40.84 Aligned_cols=28 Identities=29% Similarity=0.264 Sum_probs=22.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 998689-8699990798657899999999
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~ 72 (110)
++++.. .+..|+|+||+||||++.+|.-
T Consensus 280 s~~v~~GE~~~i~G~nGsGKSTLl~~l~G 308 (490)
T PRK10938 280 SWQVNPGEHWQIVGPNGAGKSTLLSLITG 308 (490)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHC
T ss_conf 78983898899986788879999999808
No 165
>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=97.50 E-value=0.00018 Score=42.12 Aligned_cols=26 Identities=31% Similarity=0.442 Sum_probs=22.1
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++.++|+||+||||++.+|.-+.-
T Consensus 29 Geiv~llG~NGaGKTTlLkti~Gl~~ 54 (237)
T COG0410 29 GEIVALLGRNGAGKTTLLKTIMGLVR 54 (237)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 98899989998888999999858987
No 166
>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=97.50 E-value=0.00019 Score=42.07 Aligned_cols=32 Identities=25% Similarity=0.371 Sum_probs=25.8
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||||+||||++.+|.-++.
T Consensus 18 is~~i~~Ge~~~liG~nGsGKTTLl~~i~G~~~ 50 (180)
T cd03214 18 LSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLK 50 (180)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 377886997999998999889999999957989
No 167
>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.50 E-value=8.2e-05 Score=43.85 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=25.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+|+||+||||++..|.-++-
T Consensus 14 sl~i~~Ge~vaiiG~sGsGKSTLl~~l~GLl~ 45 (276)
T PRK13634 14 NVSIPSGSYVAIIGHTGSGKSTLLQHLNGLLK 45 (276)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 77998998999999999699999999974999
No 168
>pfam12128 DUF3584 Protein of unknown function (DUF3584). This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 943 to 1234 amino acids in length. There are two conserved sequence motifs: GKT and YLP.
Probab=97.49 E-value=0.00015 Score=42.59 Aligned_cols=34 Identities=32% Similarity=0.548 Sum_probs=26.8
Q ss_pred EEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 799868986999907986578999999998579775
Q gi|254780640|r 44 QKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 44 ~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
.+++++ |-+-|+|-||+||||++.||- +|||..+
T Consensus 12 aEl~ld-Gnt~~~GTnG~GKTTlLRlIp-~FYga~p 45 (1192)
T pfam12128 12 NELDLD-GHTNICGTNAAGKTTLQRLIP-LFYGEYP 45 (1192)
T ss_pred EEEECC-CCEEEECCCCCCHHHHHHHHH-HHCCCCH
T ss_conf 577337-872574488886999998999-7528975
No 169
>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=97.48 E-value=9.8e-05 Score=43.46 Aligned_cols=33 Identities=21% Similarity=0.276 Sum_probs=26.4
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 7998689-86999907986578999999998579
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..+++.+ .+..|.||||+||||++.+|..++-.
T Consensus 23 isl~i~~Ge~~~iiG~sGsGKTTll~~i~Gl~~p 56 (218)
T cd03255 23 VSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRP 56 (218)
T ss_pred EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 2899869989999999998699999999669999
No 170
>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional
Probab=97.47 E-value=0.00024 Score=41.47 Aligned_cols=57 Identities=18% Similarity=0.211 Sum_probs=39.0
Q ss_pred CCCCCEEEEEEEEEEEECEECC------CCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 1002101689989999540136------8317998689-86999907986578999999998579
Q gi|254780640|r 19 SYYARKLIFKLLDIEISHFRGF------TEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 19 ~~~~~~~~~kl~~i~i~nFr~f------~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+....+.+..+.+|.+. |+.- .+..++++.+ .+..|+|+||+||||++.+|.-++..
T Consensus 5 ~~~~~pplLeV~nL~v~-f~~~~g~v~av~~Vsf~i~~GEilgivGeSGsGKSTl~~~i~gll~~ 68 (330)
T PRK09473 5 ETATVPLLLDVKDLRVT-FSTPDGDVTAVNDLNFSLRAGETLGIVGESGSGKSQTAFALMGLLAA 68 (330)
T ss_pred CCCCCCCEEEEECEEEE-ECCCCCCEEEEECCEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 88998847999565999-64899528986674768889989999868987799999999768888
No 171
>cd03290 ABCC_SUR1_N The SUR domain 1. The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=97.47 E-value=0.00019 Score=42.05 Aligned_cols=31 Identities=42% Similarity=0.440 Sum_probs=24.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+|+||+||||++.+|.-++.
T Consensus 21 nl~i~~Ge~~~IvG~sGsGKSTLl~~l~g~~~ 52 (218)
T cd03290 21 NIRIPTGQLTMIVGQVGCGKSSLLLAILGEMQ 52 (218)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 99986999999999999809999999855565
No 172
>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.47 E-value=0.00011 Score=43.19 Aligned_cols=83 Identities=17% Similarity=0.249 Sum_probs=43.7
Q ss_pred EEEEEEEEEEEEC--EEC-CCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHHHH---CCCCCC
Q ss_conf 0168998999954--013-68317998689-869999079865789999999985797756-433133310---244574
Q gi|254780640|r 24 KLIFKLLDIEISH--FRG-FTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSIKK---RSIKTP 95 (110)
Q Consensus 24 ~~~~kl~~i~i~n--Fr~-f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i~~---~s~~~p 95 (110)
.+.+++.++...= -.. --+...+++.+ .+..|+|+||+||||++..|.-++-...=. .-.+..+.+ ......
T Consensus 6 ~~~Ie~~nvsf~Y~~~~~~~L~~isl~i~~Ge~vaivG~nGsGKSTLlk~l~Gll~p~~G~I~v~G~~i~~~~~~~~~~~ 85 (273)
T PRK13632 6 SVAIKFENVSFSYTEEFPNALKNVSFTINEGEYVAILGHNGSGKSTISKILTGLLKPQSGEIKIFGITISKENLKYLRKK 85 (273)
T ss_pred CCEEEEEEEEEECCCCCCCEEEEEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCHHHHHHH
T ss_conf 40599986899829998560664288984998999999999869999999973877888759999999996898998743
Q ss_pred CEEEEEECCCE
Q ss_conf 12789962855
Q gi|254780640|r 96 MPMCMAVPRCK 106 (110)
Q Consensus 96 i~l~~~v~~~~ 106 (110)
+-++|-.|+.+
T Consensus 86 ig~VfQ~Pd~q 96 (273)
T PRK13632 86 IGIIFQNPDNQ 96 (273)
T ss_pred EEEEEECCCHH
T ss_conf 56998771020
No 173
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=97.46 E-value=0.00014 Score=42.72 Aligned_cols=32 Identities=25% Similarity=0.301 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+|+||+||||++..|.-+...
T Consensus 30 sl~i~~GE~v~ivG~sGsGKSTLl~~i~Gl~~p 62 (228)
T PRK10584 30 ELVVKRGETIALIGESGSGKSTLLAILAGLDDG 62 (228)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 889999989999999985899999999669999
No 174
>cd03216 ABC_Carb_Monos_I This family represents the domain I 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. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the 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=97.45 E-value=0.00041 Score=40.32 Aligned_cols=32 Identities=25% Similarity=0.396 Sum_probs=25.5
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 79986898-699990798657899999999857
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++.+| +..|+||||+||||++..|.-++.
T Consensus 19 vsl~i~~Gei~~lvG~nGaGKSTl~~~i~Gl~~ 51 (163)
T cd03216 19 VSLSVRRGEVHALLGENGAGKSTLMKILSGLYK 51 (163)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 488987998999998899899999999957768
No 175
>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=97.45 E-value=0.00011 Score=43.15 Aligned_cols=32 Identities=25% Similarity=0.337 Sum_probs=25.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+||||+||||++..|.-++-.
T Consensus 24 sl~i~~Ge~~~iiGpsGsGKSTLl~~i~Gl~~p 56 (220)
T cd03293 24 SLSVEEGEFVALVGPSGCGKSTLLRIIAGLERP 56 (220)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 889879989999999995799999999759998
No 176
>TIGR00954 3a01203 Peroxysomal long chain fatty acyl transporter; InterPro: IPR005283 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). The members of this family are integral membrane proteins and they are involved in the import of activated long-chain fatty acids from the cytosol to the peroxisomal matrix. ; GO: 0005524 ATP binding, 0006810 transport, 0016021 integral to membrane.
Probab=97.45 E-value=7.9e-05 Score=43.93 Aligned_cols=36 Identities=36% Similarity=0.614 Sum_probs=26.2
Q ss_pred EEECC---CCEEEEEECCCCCHHHHHHHHHHHH--CCCCCC
Q ss_conf 99868---9869999079865789999999985--797756
Q gi|254780640|r 45 KIEFA---DHLTIVNGQNGYGKSSLSEAIEWLF--YGYTQR 80 (110)
Q Consensus 45 ~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l--~g~~~~ 80 (110)
.++|- ..-.+|+||||+|||||...|.-++ ||...+
T Consensus 548 klPflqGsG~~lLi~GPNGCGKSSLFRiLGeLWP~~g~~nk 588 (788)
T TIGR00954 548 KLPFLQGSGNHLLICGPNGCGKSSLFRILGELWPVYGKNNK 588 (788)
T ss_pred CCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCCCC
T ss_conf 35512158876687688998647899998643023578974
No 177
>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional
Probab=97.45 E-value=0.00023 Score=41.62 Aligned_cols=30 Identities=23% Similarity=0.371 Sum_probs=23.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.+ .+..|+||||+||||++..|.-+.
T Consensus 28 sl~i~~Ge~v~i~G~nGsGKSTll~~l~gl~ 58 (648)
T PRK10535 28 SLTIYAGEMVAIVGASGSGKSTLMNILGCLD 58 (648)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 9999899899999999962999999995699
No 178
>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=97.45 E-value=0.0002 Score=41.85 Aligned_cols=62 Identities=21% Similarity=0.380 Sum_probs=36.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHHH---HCCCCCCCEEEEEECCCE
Q ss_conf 998689-869999079865789999999985797756-43313331---024457412789962855
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSIK---KRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i~---~~s~~~pi~l~~~v~~~~ 106 (110)
++++.+ .+..|+|+||+||||++..|.-++....=. .-.+..+. .......+-++|--|..+
T Consensus 27 s~~i~~Ge~~aiiG~sGsGKSTL~~~l~Gl~~~~~G~I~~~G~~i~~~~~~~~r~~ig~VfQ~p~~~ 93 (277)
T PRK13642 27 SFSITKGEWVSIIGQNGSGKSTTARLIDGLFEEFEGIVKIDGERLTAENVWNLRRKIGMVFQNPDNQ 93 (277)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCHHHHHCCCEEEEECCCCC
T ss_conf 7998899899999999968999999996389988848999999998578888851768999897632
No 179
>PRK13633 cobalt transporter ATP-binding subunit; Provisional
Probab=97.44 E-value=0.00035 Score=40.70 Aligned_cols=62 Identities=21% Similarity=0.377 Sum_probs=35.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCC-CCH-HHH---HHCCCCCCCEEEEEECCCE
Q ss_conf 998689-8699990798657899999999857977564-331-333---1024457412789962855
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR-KHG-DSI---KKRSIKTPMPMCMAVPRCK 106 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~-~~~-d~i---~~~s~~~pi~l~~~v~~~~ 106 (110)
.+++.+ .+..|+|+||+||||++..|.-++....=.- -.+ +.. ........+-++|-.|...
T Consensus 31 sl~i~~GE~v~iiG~nGsGKSTL~r~l~gl~~P~~G~I~i~G~~~~~~~~~~~~r~~ig~vfQ~P~~~ 98 (281)
T PRK13633 31 NLEVKKGEFLVILGHNGSGKSTIAKHMNALLLPSEGKVYVDGLDTSDEENLWDIRNKAGMVFQNPDNQ 98 (281)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCHHHHHHHHHCEEEEEECCCCC
T ss_conf 76887998999999999849999999975887888569999998788566999873608986688642
No 180
>TIGR00958 3a01208 antigen peptide transporter 2; InterPro: IPR005293 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Proteins of this family are involved in the transport of antigens from the cytoplasm to a membrane-bound compartment for association with MHC class I molecules.; GO: 0005215 transporter activity, 0006810 transport.
Probab=97.43 E-value=0.00014 Score=42.62 Aligned_cols=55 Identities=13% Similarity=0.218 Sum_probs=33.3
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCC-----CCHHHHHHCCCCCCCEEEEE
Q ss_conf 98689-8699990798657899999999857977564-----33133310244574127899
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRR-----KHGDSIKKRSIKTPMPMCMA 101 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~-----~~~d~i~~~s~~~pi~l~~~ 101 (110)
+..++ .++.++||||+||||+.--|+-+.-. +... ..-...+++-+.+.+.++-=
T Consensus 554 Ft~~PG~vvALVGPsGsGKStvaaLL~n~Y~P-t~G~vLlDg~Pl~~y~H~YLH~~V~~VgQ 614 (770)
T TIGR00958 554 FTLEPGEVVALVGPSGSGKSTVAALLQNLYQP-TGGQVLLDGVPLSQYDHHYLHRQVALVGQ 614 (770)
T ss_pred EEECCCEEEEEECCCCCCHHHHHHHHHHCCCC-CCCEEEECCCCHHHHCCEECCCEEEEEEC
T ss_conf 36538625998658998399999999855789-86568776846133265010002543320
No 181
>PRK10418 nikD nickel transporter ATP-binding protein; Provisional
Probab=97.43 E-value=0.00024 Score=41.51 Aligned_cols=32 Identities=19% Similarity=0.221 Sum_probs=25.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+|+||+||||++.++.-++..
T Consensus 23 sl~v~~Ge~~aiiG~SGsGKStl~k~llgll~~ 55 (254)
T PRK10418 23 SLTLQRGRVLALVGGSGSGKSLTCAAALGILPA 55 (254)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 728989999999999987899999999579988
No 182
>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed
Probab=97.43 E-value=0.0005 Score=39.91 Aligned_cols=48 Identities=15% Similarity=0.191 Sum_probs=30.4
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 689989999--5401368317998689-869999079865789999999985
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
++++..+.. .+.... +...++..+ .+..|+||||+||||++..|.-+.
T Consensus 17 ~i~l~~lsk~yg~~~aL-~~vsl~I~~GE~~~llGpSGsGKSTLlr~iaGl~ 67 (378)
T PRK09452 17 LIELRGISKSFDGKEVI-SNLDLTINNGEFLTLLGPSGCGKTTVLRLIAGFE 67 (378)
T ss_pred EEEEEEEEEEECCEEEE-ECCEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 79999599999999999-3627799999899999899976999999997699
No 183
>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional
Probab=97.43 E-value=0.00049 Score=39.95 Aligned_cols=30 Identities=27% Similarity=0.459 Sum_probs=24.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++..+ .+..|+||||+||||++..|.-+.
T Consensus 23 sl~i~~Ge~~~llGpsG~GKSTllr~i~Gl~ 53 (369)
T PRK11000 23 NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE 53 (369)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 8898799899999999736999999997799
No 184
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=0.00033 Score=40.79 Aligned_cols=28 Identities=29% Similarity=0.475 Sum_probs=22.4
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 7998689-869999079865789999999
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
..+.+.+ -+.+|.||||+||||+..+|.
T Consensus 23 vnL~v~~GEvhaiMGPNGsGKSTLa~~i~ 51 (251)
T COG0396 23 VNLTVKEGEVHAIMGPNGSGKSTLAYTIM 51 (251)
T ss_pred CCEEECCCCEEEEECCCCCCHHHHHHHHH
T ss_conf 41467598289998899878899999972
No 185
>PRK09700 D-allose transporter ATP-binding protein; Provisional
Probab=97.42 E-value=0.00047 Score=40.06 Aligned_cols=40 Identities=18% Similarity=0.314 Sum_probs=27.5
Q ss_pred EECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 95401368317998689-869999079865789999999985
Q gi|254780640|r 34 ISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 34 i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..+..... ...+++.+ .+..|+|+||+||||++.+|.-++
T Consensus 15 fg~~~aL~-~vsl~i~~GEi~~liG~nGaGKSTL~~~l~G~~ 55 (510)
T PRK09700 15 FGPVHALK-SVNLTVYPGEIHALLGENGAGKSTLMKVLSGIH 55 (510)
T ss_pred ECCEEEEC-CEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 89998976-628899899699998999972999999983799
No 186
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. 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=97.42 E-value=0.00045 Score=40.12 Aligned_cols=31 Identities=19% Similarity=0.333 Sum_probs=24.5
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||||+||||++..|.-+.-
T Consensus 20 sl~v~~Ge~~~iiGpSGsGKSTllr~i~Gl~~ 51 (232)
T cd03300 20 SLDIKEGEFFTLLGPSGCGKTTLLRLIAGFET 51 (232)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 74887998999999999839999999977999
No 187
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=97.41 E-value=0.00051 Score=39.88 Aligned_cols=30 Identities=27% Similarity=0.413 Sum_probs=23.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++..+ .+..|+||||+||||++..|.-+.
T Consensus 22 sl~i~~Ge~~~iiG~nGaGKSTLl~~l~gl~ 52 (242)
T PRK11124 22 TLDCPQGETLVLLGPSGAGKSSLLRVLNLLE 52 (242)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 7788799899999999971999999996588
No 188
>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 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, RLIs 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=97.41 E-value=0.00012 Score=43.09 Aligned_cols=25 Identities=24% Similarity=0.270 Sum_probs=21.7
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+..|+||||+||||++..|.-++-
T Consensus 27 Ei~gLiGpNGaGKSTLlk~i~Gll~ 51 (255)
T cd03236 27 QVLGLVGPNGIGKSTALKILAGKLK 51 (255)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 0999989999709999999967986
No 189
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=97.40 E-value=0.00049 Score=39.97 Aligned_cols=31 Identities=26% Similarity=0.308 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+.+ ....|+|+||+||||++.+|.-++.
T Consensus 24 sf~I~~Ge~vaIvG~sGsGKSTLl~lL~gl~~ 55 (275)
T cd03289 24 SFSISPGQRVGLLGRTGSGKSTLLSAFLRLLN 55 (275)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 79987999999999999979999999960357
No 190
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=97.39 E-value=0.00054 Score=39.74 Aligned_cols=31 Identities=29% Similarity=0.255 Sum_probs=24.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|+||+||||++..|.-++-
T Consensus 24 sl~i~~Ge~v~ivG~sGsGKSTLl~ll~gl~~ 55 (221)
T cd03244 24 SFSIKPGEKVGIVGRTGSGKSSLLLALFRLVE 55 (221)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 89986998999999999989999999967971
No 191
>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=97.38 E-value=0.00042 Score=40.31 Aligned_cols=32 Identities=25% Similarity=0.355 Sum_probs=25.3
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++..+ .+..|+||||+||||++.+|..+.-
T Consensus 19 isl~i~~Ge~~~iiG~SGsGKSTll~~i~gL~~ 51 (235)
T cd03261 19 VDLDVRRGEILAIIGPSGSGKSTLLRLIVGLLR 51 (235)
T ss_pred EEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 064887998999999999729999999975999
No 192
>PRK11819 putative ABC transporter ATP-binding protein; Reviewed
Probab=97.37 E-value=0.0002 Score=41.90 Aligned_cols=25 Identities=32% Similarity=0.288 Sum_probs=20.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.....|+|+||+||||++.+|.-.+
T Consensus 350 Ge~iaivG~NGsGKSTLlk~l~G~~ 374 (556)
T PRK11819 350 GGIVGIIGPNGAGKSTLFKMITGQE 374 (556)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 8247898898775889999983865
No 193
>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=97.36 E-value=0.00022 Score=41.67 Aligned_cols=30 Identities=33% Similarity=0.394 Sum_probs=23.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.+ .++.|+|+||+||||++..|.-++
T Consensus 25 sl~i~~Ge~~~IvG~sGsGKSTLl~~i~G~~ 55 (204)
T cd03250 25 NLEVPKGELVAIVGPVGSGKSSLLSALLGEL 55 (204)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHCCCC
T ss_conf 8997699899999999985899999981895
No 194
>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=97.35 E-value=0.00041 Score=40.35 Aligned_cols=30 Identities=33% Similarity=0.495 Sum_probs=23.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.+ ....|+|+||+||||++.+|.-++
T Consensus 21 sl~i~~Ge~v~i~G~sGsGKSTLl~~l~Gl~ 51 (166)
T cd03223 21 SFEIKPGDRLLITGPSGTGKSSLFRALAGLW 51 (166)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHCCCC
T ss_conf 8898899999999589998899999986987
No 195
>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional
Probab=97.35 E-value=0.00016 Score=42.44 Aligned_cols=50 Identities=8% Similarity=0.145 Sum_probs=30.1
Q ss_pred EEEEEEEEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 016899899995401368317998689-869999079865789999999985
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
...+.+..+.-.+-..+ +..+++..+ .+..|+|+||+||||++.+|.-+.
T Consensus 248 ~~~l~~~~l~~~~~~~l-~~vsf~v~~GEivgl~G~nGsGKsTL~~~l~Gl~ 298 (491)
T PRK10982 248 EVILEVRNLTSLRQPSI-RDVSFDLHKGEILGIAGLVGAKRTDIVETLFGIR 298 (491)
T ss_pred CEEEEEECCCCCCCCCE-EEEEEEEECCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 61799952323788742-0267999689689977899997889999981986
No 196
>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=97.32 E-value=0.00027 Score=41.24 Aligned_cols=32 Identities=22% Similarity=0.286 Sum_probs=25.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+|+||+||||++..|.-.+..
T Consensus 22 ~l~i~~Ge~~aivG~sGsGKSTLl~~l~G~~~p 54 (178)
T cd03247 22 SLELKQGEKIALLGRSGSGKSTLLQLLTGDLKP 54 (178)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHHCCCC
T ss_conf 899869999999999987599999999861766
No 197
>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional
Probab=97.31 E-value=0.0007 Score=39.20 Aligned_cols=51 Identities=12% Similarity=0.179 Sum_probs=31.7
Q ss_pred EEEEEEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 01689989999--5401368317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++.+..+.- .+.... +...++..+ .+..|+||||+||||++..|.-++.
T Consensus 17 tPliev~nlsk~y~~~~al-~~vsl~I~~GE~~~llGpsGsGKSTllr~i~Gl~~ 70 (377)
T PRK11607 17 TPLLEIRNLTKSFDGQHAV-DDVSLTIYKGEIFALLGASGCGKSTLLRMLAGFEQ 70 (377)
T ss_pred CCEEEEEEEEEEECCEEEE-CCCEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 8779998589999999999-05187999998999999998489999999976999
No 198
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=97.31 E-value=0.00056 Score=39.66 Aligned_cols=26 Identities=23% Similarity=0.276 Sum_probs=21.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.....|+|+||+||||++..|.-.+-
T Consensus 345 Ge~ialvG~NGsGKSTLlk~l~G~l~ 370 (632)
T PRK11147 345 GDKIALIGPNGCGKTTLLKLMLGQLQ 370 (632)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 87799988988427799998606668
No 199
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=97.30 E-value=0.00066 Score=39.30 Aligned_cols=29 Identities=28% Similarity=0.413 Sum_probs=22.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 998689-86999907986578999999998
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
.+.+.+ ....|+|+||+||||++.+|.-.
T Consensus 23 sl~I~~Ge~vgLVG~NGsGKSTLl~iL~G~ 52 (632)
T PRK11147 23 ELHIEDNERVCLVGRNGAGKSTLMKILSGE 52 (632)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf 599989989999999998799999998389
No 200
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=97.30 E-value=0.00024 Score=41.50 Aligned_cols=25 Identities=28% Similarity=0.287 Sum_probs=20.6
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.....|+|+||+||||++..|.-.+
T Consensus 338 GeriaIvG~NGsGKSTLlk~L~G~l 362 (638)
T PRK10636 338 GSRIGLLGRNGAGKSTLIKLLAGEL 362 (638)
T ss_pred CCEEEEECCCCCCHHHHHHHHCCCC
T ss_conf 8479997478713889999972887
No 201
>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=97.27 E-value=0.00031 Score=40.95 Aligned_cols=32 Identities=25% Similarity=0.277 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ .+..|+||||+||||++..|.-+...
T Consensus 21 sl~i~~Ge~v~i~GpSGsGKSTLl~~i~gl~~p 53 (214)
T cd03292 21 NISISAGEFVFLVGPSGAGKSTLLKLIYKEELP 53 (214)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 779859989999979995399999999629898
No 202
>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional
Probab=97.27 E-value=0.00038 Score=40.50 Aligned_cols=31 Identities=26% Similarity=0.340 Sum_probs=24.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+|+||+||||++.+|..+.-
T Consensus 25 sl~I~~Gei~giIG~SGaGKSTLlr~i~gL~~ 56 (343)
T PRK11153 25 SLHVPAGQIYGVIGASGAGKSTLIRCVNLLER 56 (343)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 88998998999999999869999999965999
No 203
>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=97.26 E-value=0.00069 Score=39.22 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=24.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|+||+||||++..|.-++-
T Consensus 23 nl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~ 54 (229)
T cd03254 23 NFSIKPGETVAIVGPTGAGKTTLINLLMRFYD 54 (229)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 99987999999999999809999999966866
No 204
>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional
Probab=97.26 E-value=0.00031 Score=40.98 Aligned_cols=30 Identities=30% Similarity=0.505 Sum_probs=24.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++..+ .+..|+||||+||||++..|.-+.
T Consensus 24 sl~i~~Ge~~~llGpsG~GKTTllr~iaGl~ 54 (358)
T PRK11650 24 DLDVADGEFIVLVGPSGCGKSTLLRMVAGLE 54 (358)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 7798899899999998636999999997699
No 205
>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=97.26 E-value=0.00035 Score=40.68 Aligned_cols=32 Identities=25% Similarity=0.385 Sum_probs=25.4
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+||+|+||||++..|..+..
T Consensus 17 vsl~i~~Ge~~~i~GpSGsGKSTLL~~i~gl~~ 49 (206)
T TIGR03608 17 LNLTIEKGKMVAIVGESGSGKSTLLNIIGLLEK 49 (206)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 077986998999987999709999999975999
No 206
>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=97.26 E-value=0.00029 Score=41.08 Aligned_cols=31 Identities=26% Similarity=0.316 Sum_probs=24.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|+||+||||++..|.-++-
T Consensus 22 ~l~i~~G~~vaIvG~sGsGKSTLl~ll~gl~~ 53 (173)
T cd03246 22 SFSIEPGESLAIIGPSGSGKSTLARLILGLLR 53 (173)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 99985999999999999809999999966666
No 207
>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=97.26 E-value=0.00028 Score=41.17 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=25.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|+||+||||++.+|.-++-
T Consensus 22 sl~i~~Ge~i~ivG~sGsGKSTLl~ll~gl~~ 53 (171)
T cd03228 22 SLTIKPGEKVAIVGPSGSGKSTLLKLLLRLYD 53 (171)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 89985998999999999839999999976775
No 208
>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=97.24 E-value=0.00099 Score=38.42 Aligned_cols=31 Identities=26% Similarity=0.416 Sum_probs=24.5
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+||+|+||||++..|.-+..
T Consensus 20 sl~v~~Ge~~~i~GpSG~GKSTlLr~iaGl~~ 51 (213)
T cd03301 20 NLDIADGEFVVLLGPSGCGKTTTLRMIAGLEE 51 (213)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 77986998999999998809999999976999
No 209
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=97.23 E-value=0.0012 Score=37.97 Aligned_cols=32 Identities=22% Similarity=0.243 Sum_probs=25.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ ....|+|+||+||||++.+|.-++..
T Consensus 28 sl~i~~Ge~v~ivG~sGsGKSTLl~ll~g~~~p 60 (207)
T cd03369 28 SFKVKAGEKIGIVGRTGAGKSTLILALFRFLEA 60 (207)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 889869999999999998799999999987288
No 210
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein; InterPro: IPR012693 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). 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.; GO: 0005524 ATP binding, 0015416 phosphonate transmembrane-transporting ATPase activity, 0015716 phosphonate transport, 0016020 membrane.
Probab=97.23 E-value=0.00026 Score=41.32 Aligned_cols=32 Identities=34% Similarity=0.471 Sum_probs=26.3
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 98689-869999079865789999999985797
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+++++ .+.+|+||-|+||||+|..|.-+-.|.
T Consensus 23 l~i~~GE~~~~IG~SGAGKSTLLR~iNrL~~Gd 55 (253)
T TIGR02315 23 LEINPGEFVAVIGPSGAGKSTLLRCINRLVEGD 55 (253)
T ss_pred CEEECCEEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 434165179997378872679998775302688
No 211
>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=97.22 E-value=0.00029 Score=41.08 Aligned_cols=50 Identities=20% Similarity=0.258 Sum_probs=34.7
Q ss_pred EEEEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 99899995401368317998689-8699990798657899999999857977
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
...+-.+..|..+.+ .+++..+ .+..+.||||+||||+|..|.-+.....
T Consensus 6 ~~~~~~~~~~~a~~d-i~l~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~p~~ 56 (345)
T COG1118 6 NNVKKRFGAFGALDD-ISLDIKSGELVALLGPSGAGKSTLLRIIAGLETPDA 56 (345)
T ss_pred HHHHHHCCCCCCCCC-CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCCCC
T ss_conf 011332155421146-315506886899977898767889999857577887
No 212
>PRK11819 putative ABC transporter ATP-binding protein; Reviewed
Probab=97.22 E-value=0.00056 Score=39.67 Aligned_cols=29 Identities=31% Similarity=0.323 Sum_probs=22.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 998689-86999907986578999999998
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
++.+.+ ....|+|+||+||||++.+|.-.
T Consensus 27 sl~i~~Ge~vgLvG~NGaGKSTLlriLaG~ 56 (556)
T PRK11819 27 SLSFFPGAKIGVLGLNGAGKSTLLRIMAGV 56 (556)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf 899968989999999997199999998479
No 213
>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=97.21 E-value=0.00068 Score=39.24 Aligned_cols=31 Identities=26% Similarity=0.458 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+||+|+||||++..|.-++-
T Consensus 21 sl~i~~Ge~~~ilGpSG~GKSTllr~i~gl~~ 52 (242)
T cd03295 21 NLEIAKGEFLVLIGPSGSGKTTTMKMINRLIE 52 (242)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 76886998999999999569999999975999
No 214
>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional
Probab=97.21 E-value=0.00048 Score=40.02 Aligned_cols=45 Identities=16% Similarity=0.219 Sum_probs=30.7
Q ss_pred EEEEEEEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHH
Q ss_conf 998999954013683179986898-6999907986578999999998
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~ 73 (110)
+=.+....+.... +..++++.+| +..|+|+||+||||++.+|.-.
T Consensus 8 ~~l~k~f~~~~aL-~~vsl~i~~Ge~~~lvG~nGaGKSTL~~~l~G~ 53 (501)
T PRK11288 8 DGIGKTFPGVKAL-DDISFDVRAGQVHALMGENGAGKSTLLKILSGN 53 (501)
T ss_pred EEEEEEECCEEEE-CCEEEEECCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf 8389999999987-765899889819999899998199999998479
No 215
>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=97.19 E-value=0.00045 Score=40.16 Aligned_cols=31 Identities=23% Similarity=0.351 Sum_probs=24.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|+||+||||++.+|.-++-
T Consensus 24 sl~i~~G~~v~ivG~sGsGKSTLl~ll~gl~~ 55 (220)
T cd03245 24 SLTIRAGEKVAIIGRVGSGKSTLLKLLAGLYK 55 (220)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 99987999999999999859999999967254
No 216
>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transport system, ATP-binding protein component. This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.
Probab=97.19 E-value=0.0014 Score=37.74 Aligned_cols=42 Identities=19% Similarity=0.324 Sum_probs=28.4
Q ss_pred EEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 995401368317998689-8699990798657899999999857
Q gi|254780640|r 33 EISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 33 ~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...++....+ ..++..+ .+..|.||+|+||||+|.+|.-+..
T Consensus 13 ~~g~~~al~~-v~l~v~~Ge~~~llGpSG~GKtTlLr~iaGl~~ 55 (353)
T TIGR03265 13 RFGAFTALKD-ISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLER 55 (353)
T ss_pred EECCEEEECC-CEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 9899988866-486998999999999995359999999976999
No 217
>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=97.18 E-value=0.00098 Score=38.46 Aligned_cols=31 Identities=26% Similarity=0.339 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||+|+||||++..|.-+.-
T Consensus 20 s~~i~~Ge~~~ivGpSG~GKSTllr~i~Gl~~ 51 (178)
T cd03229 20 SLNIEAGEIVALLGPSGSGKSTLLRCIAGLEE 51 (178)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 76988998999999999839999999985999
No 218
>KOG0057 consensus
Probab=97.17 E-value=0.0013 Score=37.87 Aligned_cols=51 Identities=18% Similarity=0.257 Sum_probs=31.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHH---HHHCCCCCC
Q ss_conf 998689-869999079865789999999985797756433133---310244574
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDS---IKKRSIKTP 95 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~---i~~~s~~~p 95 (110)
.++.+. .-..|+|+||+|||||+.+|--++-....-.-.+.. +..++++..
T Consensus 372 sf~I~kGekVaIvG~nGsGKSTilr~LlrF~d~sG~I~IdG~dik~~~~~SlR~~ 426 (591)
T KOG0057 372 SFTIPKGEKVAIVGSNGSGKSTILRLLLRFFDYSGSILIDGQDIKEVSLESLRQS 426 (591)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCEEECCEEHHHHCHHHHHHH
T ss_conf 5886489789897899987889999999974468859998733765075776522
No 219
>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=97.17 E-value=0.00031 Score=40.93 Aligned_cols=28 Identities=18% Similarity=0.297 Sum_probs=22.6
Q ss_pred CCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 689-8699990798657899999999857
Q gi|254780640|r 48 FAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 48 f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++ .+..|+||||+||||++..|.-++.
T Consensus 22 v~~GEiv~ilGpNGaGKSTllk~i~G~l~ 50 (177)
T cd03222 22 VKEGEVIGIVGPNGTGKTTAVKILAGQLI 50 (177)
T ss_pred CCCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 58998999989999999999999968867
No 220
>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules. Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.
Probab=97.14 E-value=0.00046 Score=40.08 Aligned_cols=31 Identities=23% Similarity=0.413 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+.+ ....|+|+||+||||++..|.-++.
T Consensus 34 s~~i~~Ge~vaIvG~sGsGKSTL~~ll~gl~~ 65 (226)
T cd03248 34 SFTLHPGEVTALVGPSGSGKSTVVALLENFYQ 65 (226)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 89982999999999999849999999964546
No 221
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=97.13 E-value=0.00055 Score=39.70 Aligned_cols=32 Identities=31% Similarity=0.398 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++..+ ....|+|+||+||||++..|.-++..
T Consensus 44 SFeV~kGE~vGIIG~NGAGKSTLLKiIaGI~~P 76 (549)
T PRK13545 44 SFEVPEGEIVGIVGLNGSGKSTLSNLIAGVTMP 76 (549)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 578648989999889999899999999689889
No 222
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=97.12 E-value=0.0011 Score=38.23 Aligned_cols=26 Identities=27% Similarity=0.281 Sum_probs=20.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..-..|+||||+||||++..|.-.+.
T Consensus 348 gdrIaiiG~NG~GKSTLlk~l~g~~~ 373 (530)
T COG0488 348 GDRIAIVGPNGAGKSTLLKLLAGELG 373 (530)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 98899989998778999999852135
No 223
>cd03288 ABCC_SUR2 The SUR domain 2. The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=97.11 E-value=0.0021 Score=36.77 Aligned_cols=49 Identities=24% Similarity=0.222 Sum_probs=31.2
Q ss_pred EEEEEEEEE--CE-ECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 899899995--40-1368317998689-8699990798657899999999857
Q gi|254780640|r 27 FKLLDIEIS--HF-RGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 27 ~kl~~i~i~--nF-r~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+.+. += +..-+...+++.+ ....|+|+||+||||++.+|.-++-
T Consensus 20 I~~~nvsf~Y~~~~~~vL~~inl~I~~Ge~vaIvG~sGsGKSTL~~ll~gl~~ 72 (257)
T cd03288 20 IKIHDLCVRYENNLKPVLKHVKAYIKPGQKVGICGRTGSGKSSLSLAFFRMVD 72 (257)
T ss_pred EEEEEEEEEECCCCCCCEECEEEEECCCCEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 99998999939899573105389987999999999999819999999960566
No 224
>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=97.11 E-value=0.0013 Score=37.82 Aligned_cols=31 Identities=16% Similarity=0.298 Sum_probs=24.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+.+.+ ....|+|+||+||||++..|.-++.
T Consensus 21 sl~i~~Ge~v~ivG~sGsGKSTLl~ll~gl~~ 52 (236)
T cd03253 21 SFTIPAGKKVAIVGPSGSGKSTILRLLFRFYD 52 (236)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHCCCCC
T ss_conf 89986999999999999989999999743854
No 225
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=97.08 E-value=0.00043 Score=40.22 Aligned_cols=30 Identities=23% Similarity=0.271 Sum_probs=22.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
++.+.+ ....|+|+||+||||++..|.-.+
T Consensus 21 sl~I~~Ge~vgLVG~NGsGKSTLlklL~G~~ 51 (638)
T PRK10636 21 TATINPGQKVGLVGKNGCGKSTLLALLKNEI 51 (638)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHCCCC
T ss_conf 7999899899998899988999999980899
No 226
>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=97.07 E-value=0.00068 Score=39.26 Aligned_cols=32 Identities=22% Similarity=0.372 Sum_probs=24.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+ ....|+|++|+||||++..|.-++-.
T Consensus 22 nl~i~~Ge~i~IvG~sGsGKSTLl~ll~gl~~p 54 (234)
T cd03251 22 SLDIPAGETVALVGPSGSGKSTLVNLIPRFYDV 54 (234)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 899879999999989998299999999667667
No 227
>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=97.06 E-value=0.0007 Score=39.18 Aligned_cols=31 Identities=19% Similarity=0.407 Sum_probs=24.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|++|+||||++..|.-++-
T Consensus 23 sl~i~~G~~iaIvG~sGsGKSTLl~ll~gl~~ 54 (238)
T cd03249 23 SLTIPPGKTVALVGSSGCGKSTVVSLLERFYD 54 (238)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 89976999999999999989999999823861
No 228
>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]
Probab=97.05 E-value=0.00056 Score=39.65 Aligned_cols=47 Identities=23% Similarity=0.451 Sum_probs=31.0
Q ss_pred EEEEEEEECEECCCCCEEEECC--C-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 9989999540136831799868--9-8699990798657899999999857
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFA--D-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~--~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++..|. +.|.+..-...++|+ + .+..+.|+||+||||++..|.-+.-
T Consensus 10 ~~~~i~-K~FggV~AL~~v~l~v~~GEV~aL~GeNGAGKSTLmKiLsGv~~ 59 (500)
T COG1129 10 ELRGIS-KSFGGVKALDGVSLTVRPGEVHALLGENGAGKSTLMKILSGVYP 59 (500)
T ss_pred EEECCE-EECCCCEEECCEEEEEECCEEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 885727-88489503314023783772899966888889999999728615
No 229
>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT. This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.
Probab=97.03 E-value=0.0023 Score=36.61 Aligned_cols=31 Identities=29% Similarity=0.443 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+ .+..|+||+|+||||++..|.-+.-
T Consensus 25 sl~i~~GE~~~llGpSG~GKTTlLr~iaGL~~ 56 (362)
T TIGR03258 25 SLEIEAGELLALIGKSGCGKTTLLRAIAGFVK 56 (362)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 71999998999999997459999999977767
No 230
>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional
Probab=97.03 E-value=0.0021 Score=36.84 Aligned_cols=31 Identities=16% Similarity=0.298 Sum_probs=24.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|.||+|+||||++.+|.-+..
T Consensus 26 sl~i~~Ge~~~llGpSG~GKTTlLr~iaGl~~ 57 (351)
T PRK11432 26 DLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEK 57 (351)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 74988998999999996499999999976999
No 231
>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; 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=97.02 E-value=0.00062 Score=39.46 Aligned_cols=24 Identities=33% Similarity=0.655 Sum_probs=19.1
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHH
Q ss_conf 7998689-86999907986578999
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLS 67 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil 67 (110)
..+++.+ .++.|+|+||+||||++
T Consensus 14 Vsl~i~~Ge~~aIvG~nGsGKSTL~ 38 (226)
T cd03270 14 VDVDIPRNKLVVITGVSGSGKSSLA 38 (226)
T ss_pred EEEEECCCCEEEEECCCCCHHHHHH
T ss_conf 4899859989999878996098983
No 232
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=96.99 E-value=0.0013 Score=37.84 Aligned_cols=45 Identities=27% Similarity=0.459 Sum_probs=29.1
Q ss_pred EEEEEECEECCCCC-------EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 89999540136831-------7998689-8699990798657899999999857
Q gi|254780640|r 30 LDIEISHFRGFTEI-------QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 30 ~~i~i~nFr~f~~~-------~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++..+|+ |.+. ..+.+.+ ....|+|++|+||||++..|.-++-
T Consensus 314 i~~~~~~f~-Y~~~~~~vL~~isl~I~~Ge~vaIVG~SGsGKSTLl~LL~g~y~ 366 (569)
T PRK10789 314 LDVNIRQFC-YPQTDHPALENVNFTLKPGQMLGICGPTGSGKSTLLSLIQRHFD 366 (569)
T ss_pred EEEEEEEEE-CCCCCCCHHCCCCCEECCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 699987885-48998422307656888997899879999987999999997764
No 233
>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=96.99 E-value=0.00089 Score=38.65 Aligned_cols=44 Identities=18% Similarity=0.249 Sum_probs=29.7
Q ss_pred EEEEEECEECCCCC-----EEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 89999540136831-----7998689-869999079865789999999985
Q gi|254780640|r 30 LDIEISHFRGFTEI-----QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 30 ~~i~i~nFr~f~~~-----~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+|+++|+ +|.+. ..+.+.+ ....|+|+||+||||++..|.-++
T Consensus 38 ~~i~f~~v-sf~~~pVLk~Isf~I~~Ge~vaIVG~sGSGKSTLl~lL~gl~ 87 (282)
T cd03291 38 NNLFFSNL-CLVGAPVLKNINLKIEKGEMLAITGSTGSGKTSLLMLILGEL 87 (282)
T ss_pred CCEEEECC-CCCCCCEEECEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 97897458-989896141648998499999999999981999999995787
No 234
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.98 E-value=0.00047 Score=40.05 Aligned_cols=29 Identities=24% Similarity=0.430 Sum_probs=23.4
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 98689-869999079865789999999985
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
++..+ .+.+|+||.|+||||+|..|..+=
T Consensus 23 l~v~~Gevv~iiGpSGSGKSTlLRclN~LE 52 (240)
T COG1126 23 LSVEKGEVVVIIGPSGSGKSTLLRCLNGLE 52 (240)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 167389789998999998889999997786
No 235
>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]
Probab=96.97 E-value=0.00081 Score=38.86 Aligned_cols=33 Identities=30% Similarity=0.379 Sum_probs=26.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 998689-869999079865789999999985797
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+++-.+ .++.|.|+||+||||+|.-|.-+|-..
T Consensus 22 SF~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~ 55 (245)
T COG4555 22 SFEAEEGEITGLLGENGAGKTTLLRMIATLLIPD 55 (245)
T ss_pred EEEECCCEEEEEECCCCCCCHHHHHHHHHHCCCC
T ss_conf 5785066499987689887123799999832588
No 236
>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional
Probab=96.97 E-value=0.0033 Score=35.79 Aligned_cols=31 Identities=26% Similarity=0.295 Sum_probs=24.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+|+||+||||++.+|.-.+.
T Consensus 23 sl~i~~Ge~~~LvG~NGaGKSTL~k~l~G~l~ 54 (490)
T PRK10938 23 SLTLNAGDSWAFVGSNGSGKSALARALAGELP 54 (490)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 98998998999997999779999999956998
No 237
>PRK13409 putative ATPase RIL; Provisional
Probab=96.95 E-value=0.0013 Score=37.82 Aligned_cols=25 Identities=20% Similarity=0.409 Sum_probs=19.4
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..+..|+|+||+||||++..|.-.+
T Consensus 365 GEiigIvG~NGaGKTTLlKiLaG~l 389 (590)
T PRK13409 365 GEVIGIVGPNGIGKTTFVKLLAGVL 389 (590)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 7489998888887899999982887
No 238
>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional
Probab=96.95 E-value=0.0017 Score=37.23 Aligned_cols=33 Identities=27% Similarity=0.197 Sum_probs=26.1
Q ss_pred CEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 17998689-8699990798657899999999857
Q gi|254780640|r 43 IQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 43 ~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..++++.+ .+..|+|+||+||||++.+|.-++.
T Consensus 25 ~Vsf~i~~GEilgivGeSGsGKSTl~~~ilgll~ 58 (327)
T PRK11022 25 RISYSVKQGEVVGIVGESGSGKSVSSLAIMGLID 58 (327)
T ss_pred CEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 4187988999999999998789999999974889
No 239
>COG5293 Predicted ATPase [General function prediction only]
Probab=96.94 E-value=0.004 Score=35.39 Aligned_cols=37 Identities=35% Similarity=0.539 Sum_probs=31.8
Q ss_pred EEEECCCCEEEEEEC-----------CCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 799868986999907-----------9865789999999985797756
Q gi|254780640|r 44 QKIEFADHLTIVNGQ-----------NGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 44 ~~i~f~~~~~~i~G~-----------Ng~GKStil~ai~~~l~g~~~~ 80 (110)
.++.|.+|+|++.|+ ||-||||+++.|.|+|.+...|
T Consensus 19 k~vkFnpGlNIVlae~red~~~~~~tnglGKSTlie~i~Fclg~ti~r 66 (591)
T COG5293 19 KPVKFNPGLNIVLAEIREDENRKKDTNGLGKSTLIELIDFCLGSTIDR 66 (591)
T ss_pred CEEEECCCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCC
T ss_conf 504207983488521137655432246854666999999984450101
No 240
>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=96.93 E-value=0.0025 Score=36.46 Aligned_cols=31 Identities=26% Similarity=0.419 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ .+..|+||.|+||||++..|..+.-
T Consensus 20 sl~i~~Ge~~~ivGpSGsGKSTLL~~i~gL~~ 51 (213)
T cd03262 20 DLTVKKGEVVVIIGPSGSGKSTLLRCINLLEE 51 (213)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 75988998999999998449999999981999
No 241
>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=96.92 E-value=0.001 Score=38.31 Aligned_cols=31 Identities=23% Similarity=0.480 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.+ ....|+|++|+||||++..|.-++.
T Consensus 22 s~~i~~G~~vaivG~sGsGKSTll~ll~gl~~ 53 (237)
T cd03252 22 SLRIKPGEVVGIVGRSGSGKSTLTKLIQRFYV 53 (237)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 89987999999999999859999999967765
No 242
>TIGR02673 FtsE cell division ATP-binding protein FtsE; InterPro: IPR005286 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). FtsE is an ABC transporter ATP-binding protein. This protein and its permease partner FtsX, localize to the cell division site. In a number of species, the ftsEX gene pair is located next to ftsY, which encodes the signal recognition particle-docki ng protein.; GO: 0005524 ATP binding, 0051301 cell division.
Probab=96.91 E-value=0.0012 Score=38.05 Aligned_cols=40 Identities=13% Similarity=0.259 Sum_probs=28.5
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 401368317998689-86999907986578999999998579
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++....+ .++.+.+ ++..++||-|+||||+|--|...+..
T Consensus 14 ~~~aL~~-v~l~i~kG~F~FLtG~SGAGKttLLKLl~~~~~P 54 (215)
T TIGR02673 14 GVEALHD-VSLHIRKGEFLFLTGPSGAGKTTLLKLLYGALTP 54 (215)
T ss_pred CCHHHCC-CCEEECCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 8511327-6447527740788727786178999999852698
No 243
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=96.91 E-value=0.0027 Score=36.22 Aligned_cols=30 Identities=20% Similarity=0.350 Sum_probs=23.8
Q ss_pred EEECCCC-EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9986898-69999079865789999999985
Q gi|254780640|r 45 KIEFADH-LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++..+| +..+.||.|+||||+|..|.-+-
T Consensus 25 sl~i~~Gef~tlLGPSGcGKTTlLR~IAGfe 55 (352)
T COG3842 25 SLDIKKGEFVTLLGPSGCGKTTLLRMIAGFE 55 (352)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 4454488689998998888899999996777
No 244
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=96.91 E-value=0.0015 Score=37.46 Aligned_cols=46 Identities=22% Similarity=0.273 Sum_probs=28.8
Q ss_pred EEEEEECEE-CCCCCE------EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 899995401-368317------998689-86999907986578999999998579
Q gi|254780640|r 30 LDIEISHFR-GFTEIQ------KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 30 ~~i~i~nFr-~f~~~~------~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++++|+. .|.+.. .+++.+ ....|+|++|+||||++..|.- ++.
T Consensus 348 ~~i~~~~v~f~~~~~~~vL~~is~~i~~Ge~vaIVG~SGsGKSTl~~LL~g-~~p 401 (588)
T PRK11174 348 VTIEAKDLEILSPDGKTLAGPLNFTLPAGQRVALVGPSGAGKTSLLNALLG-FLP 401 (588)
T ss_pred CEEEEEEEEEECCCCCEECCCEEEEECCCCEEEEECCCCCCHHHHHHHHHH-HCC
T ss_conf 649999779957999851036469974997899989998649999999987-289
No 245
>pfam09818 ABC_ATPase Predicted ATPase of the ABC class. Members of this family include various bacterial predicted ABC class ATPases.
Probab=96.91 E-value=0.0024 Score=36.49 Aligned_cols=50 Identities=24% Similarity=0.304 Sum_probs=37.3
Q ss_pred EEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf 89999540136831799868986999907986578999999998579775643
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRK 82 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~ 82 (110)
.++++-|=+...+ +-...|+|+|+|.+-.||||+|+||+...|.......
T Consensus 226 v~~~lP~~g~v~G---MGIp~GITlIvGGGyHGKSTLL~Ale~GVYnHipGDG 275 (447)
T pfam09818 226 VEIELPNGGTVSG---MGIPKGITLIVGGGYHGKSTLLEALERGVYDHIPGDG 275 (447)
T ss_pred EEEECCCCCEEEE---CCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCCCC
T ss_conf 9998899985564---5647766999789877678899999827777788998
No 246
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family; InterPro: IPR004346 This family includes the Helicobacter pylori protein CagE (see examples), which together with other proteins from the cag pathogenicity island (PAI), encodes a type IV transporter secretion system. The precise role of CagE is not known, but studies in animal models have shown that it is essential for pathogenesis in Helicobacter pylori induced gastritis and peptic ulceration . Indeed, the expression of the cag PAI has been shown to be essential for stimulating human gastric epithelial cell apoptosis in vitro . Similar type IV transport systems are also found in other bacteria. This family includes proteins from the trb and Vir conjugal transfer systems in Agrobacterium tumefaciens and homologues of VirB proteins from other species.; GO: 0005524 ATP binding.
Probab=96.90 E-value=0.00095 Score=38.52 Aligned_cols=30 Identities=23% Similarity=0.275 Sum_probs=26.5
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 986999907986578999999998579775
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
-|-|+|+|++|+|||++|..|..-+..+..
T Consensus 516 ~GhT~IfG~~G~GKTtLl~fL~a~~~ky~~ 545 (931)
T TIGR00929 516 LGHTLIFGPTGSGKTTLLNFLLAQLQKYKP 545 (931)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHHHCCCC
T ss_conf 387778888898469999999999742488
No 247
>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]
Probab=96.88 E-value=0.00066 Score=39.30 Aligned_cols=26 Identities=23% Similarity=0.188 Sum_probs=20.5
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.--+|+|+||+||||++.-+..-.+.
T Consensus 58 e~W~I~G~NGsGKTTLL~ll~~~~~p 83 (257)
T COG1119 58 EHWAIVGPNGAGKTTLLSLLTGEHPP 83 (257)
T ss_pred CCEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 84799888987789999999612588
No 248
>PRK13409 putative ATPase RIL; Provisional
Probab=96.88 E-value=0.00092 Score=38.59 Aligned_cols=26 Identities=27% Similarity=0.333 Sum_probs=22.6
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+..|+|+||+||||++..|.-.+-
T Consensus 99 G~v~GLiG~NGaGKST~lkILsG~l~ 124 (590)
T PRK13409 99 GKVTGILGPNGIGKSTAVKILSGELI 124 (590)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 87899889999989999999958714
No 249
>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein; InterPro: IPR005666 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). These proteins are involved in the transmembrane transport of sulphate and thiosulphate.; GO: 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0016020 membrane.
Probab=96.88 E-value=0.00095 Score=38.52 Aligned_cols=39 Identities=28% Similarity=0.512 Sum_probs=29.9
Q ss_pred ECEECCCCCEEEECC--C-CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 540136831799868--9-86999907986578999999998
Q gi|254780640|r 35 SHFRGFTEIQKIEFA--D-HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 35 ~nFr~f~~~~~i~f~--~-~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
+.|+.|.-...|+|. + .++.+.||.|+||||+|..|.-+
T Consensus 8 K~fG~f~al~~v~l~v~~G~lvaLLGPSGSGKsTLLR~iAGL 49 (241)
T TIGR00968 8 KRFGSFQALDDVDLEVPTGSLVALLGPSGSGKSTLLRVIAGL 49 (241)
T ss_pred CCCCCEEEEEEEEEEECCCEEEEEECCCCCCHHHHHHHHHCC
T ss_conf 144854775345557438527985468987378999998357
No 250
>PRK10261 glutathione transporter ATP-binding protein; Provisional
Probab=96.88 E-value=0.002 Score=36.94 Aligned_cols=31 Identities=23% Similarity=0.283 Sum_probs=23.5
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++++.+ .+..|+|+||+||||+..+|.-++-
T Consensus 344 sf~i~~GE~l~lvG~sGsGKSTl~r~l~gl~~ 375 (623)
T PRK10261 344 SFDLWPGETLSLVGESGSGKSTTGRALLRLVE 375 (623)
T ss_pred CCCCCCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 00358995899976787668999999856646
No 251
>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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=96.88 E-value=0.00059 Score=39.56 Aligned_cols=32 Identities=25% Similarity=0.456 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++..+ .+..|+||.|+||||++.+|..+.-.
T Consensus 44 sl~i~~GE~~~ivG~SGsGKSTLLr~i~GL~~p 76 (269)
T cd03294 44 SLDVREGEIFVIMGLSGSGKSTLLRCINRLIEP 76 (269)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 758889999999989984899999999759999
No 252
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL; InterPro: IPR012701 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 IPR005769 from INTERPRO is the permease, IPR005770 from INTERPRO is the phosphonates binding protein, and IPR012693 from INTERPRO 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 lyase complex. This protein (PhnL) and the adjacent-encoded PhnK (IPR012700 from INTERPRO) resemble transporter ATP-binding proteins but are suggested, based on mutagenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se ..
Probab=96.88 E-value=0.00073 Score=39.10 Aligned_cols=53 Identities=19% Similarity=0.228 Sum_probs=32.9
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 014222110021016899899995401368317998689-8699990798657899999999857
Q gi|254780640|r 12 CLSKSLTSYYARKLIFKLLDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 12 ~l~~~~~~~~~~~~~~kl~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++++..-|.-+.+. +.=+ +..++.... ...++.|+.|+||||||-+|+.-.-
T Consensus 6 ~l~KtF~LHqqgG~~-------LpVl----~~v~l~V~aGEcv~L~G~SGaGKSTlLk~lYaNYl 59 (224)
T TIGR02324 6 NLSKTFTLHQQGGVR-------LPVL----KNVSLTVNAGECVALSGPSGAGKSTLLKSLYANYL 59 (224)
T ss_pred CCCCCEEHHHCCCEE-------EEEC----CCCEEEEECCCEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 562003302007865-------0000----67437873673588536888767899997663047
No 253
>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional
Probab=96.85 E-value=0.002 Score=36.90 Aligned_cols=32 Identities=22% Similarity=0.396 Sum_probs=25.6
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++.+ .+..|+|+||+||||++.+|.-++-
T Consensus 17 vsl~i~~Gei~~liG~nGsGKSTL~~~l~Gl~~ 49 (491)
T PRK10982 17 VNLKVRPHSIHALMGENGAGKSTLLKCLFGIYQ 49 (491)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 388998996999989999819999999956988
No 254
>cd03243 ABC_MutS_homologs 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 also possess 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 sliding clamps, and recognition of specific DNA stru
Probab=96.80 E-value=0.0015 Score=37.55 Aligned_cols=30 Identities=27% Similarity=0.391 Sum_probs=24.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.|++++ .+.+|.|||.+|||+++.++....
T Consensus 23 di~l~~~~~~iiTGpN~sGKSt~lkti~l~~ 53 (202)
T cd03243 23 DINLGSGRLLLITGPNMGGKSTYLRSIGLAV 53 (202)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 2886798289998998875399999999999
No 255
>PRK10762 D-ribose transporter ATP binding protein; Provisional
Probab=96.79 E-value=0.0021 Score=36.77 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=30.6
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 689989999--5401368317998689-869999079865789999999985
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.++..+.. .+.... +..+++..+ .+..|+|+||+||||++.+|.-++
T Consensus 4 il~v~~l~k~y~~~~aL-~~vsl~i~~Gei~~liG~nGaGKSTL~~~l~G~~ 54 (501)
T PRK10762 4 LLQLKGIDKAFPGVKAL-SGAALNVYPGRVMALVGENGAGKSTLMKVLTGIY 54 (501)
T ss_pred EEEEEEEEEEECCEEEE-CCEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 59996359999999988-5547899899699998999982999999995799
No 256
>PRK13549 xylose transporter ATP-binding subunit; Provisional
Probab=96.78 E-value=0.004 Score=35.40 Aligned_cols=48 Identities=17% Similarity=0.395 Sum_probs=30.8
Q ss_pred EEEEEEEEE--ECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 689989999--5401368317998689-869999079865789999999985
Q gi|254780640|r 26 IFKLLDIEI--SHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 26 ~~kl~~i~i--~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.++..+.. .+.... +..+++..+ .+..|+|+||+||||++.+|.-++
T Consensus 5 ll~v~~l~~~~g~~~aL-~~vsl~i~~Ge~~~lvG~nGsGKSTL~~~l~Gl~ 55 (513)
T PRK13549 5 LLEMKNITKTFGGVKAL-DNISLRVRAGEIVSLCGENGAGKSTLMKVLSGVY 55 (513)
T ss_pred HEEEEEEEEEECCEEEE-CCEEEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 87996179998999997-5638998899799998999972999999995678
No 257
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=96.77 E-value=0.0011 Score=38.26 Aligned_cols=31 Identities=23% Similarity=0.319 Sum_probs=23.3
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 317998689-8699990798657899999999
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~ 72 (110)
+...+++.+ -+..+.|+||+||||++..|.-
T Consensus 21 d~V~l~v~~GeIHaLLGENGAGKSTLm~iL~G 52 (501)
T COG3845 21 DDVSLSVKKGEIHALLGENGAGKSTLMKILFG 52 (501)
T ss_pred CCEEEEECCCCEEEEECCCCCCHHHHHHHHHC
T ss_conf 76124563774899960688779999999847
No 258
>KOG0064 consensus
Probab=96.77 E-value=0.0024 Score=36.54 Aligned_cols=31 Identities=29% Similarity=0.433 Sum_probs=23.3
Q ss_pred EEEECCCC-EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 79986898-69999079865789999999985
Q gi|254780640|r 44 QKIEFADH-LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 44 ~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l 74 (110)
-+++.++| --+|.||||+||||+...|.-+.
T Consensus 501 Ltf~i~~G~hLLItGPNGCGKSSLfRILggLW 532 (728)
T KOG0064 501 LTFQIEPGMHLLITGPNGCGKSSLFRILGGLW 532 (728)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 15874588269987899765889999986447
No 259
>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2. The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.
Probab=96.77 E-value=0.0017 Score=37.28 Aligned_cols=43 Identities=16% Similarity=0.196 Sum_probs=29.9
Q ss_pred EEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 899995401368317998689-86999907986578999999998
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
.+....+..... ...+++.+ .+..|+|+||+||||++.+|.-+
T Consensus 6 ls~~fg~~~aL~-~vsl~i~~Gei~~LvG~sGsGKSTL~~~l~Gl 49 (520)
T TIGR03269 6 LTKKFDGKEVLK-NISFTIEEGEVLGILGRSGAGKSVLMHVLRGM 49 (520)
T ss_pred EEEEECCEEEEC-CEEEEECCCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf 999989999886-71779999989999999996999999999651
No 260
>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional
Probab=96.76 E-value=0.0048 Score=34.98 Aligned_cols=32 Identities=25% Similarity=0.357 Sum_probs=25.3
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 7998689-8699990798657899999999857
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++++ ....|+|++|+||||++..|.-++-
T Consensus 354 isl~i~~Ge~vaiVG~SGsGKSTL~~LL~gly~ 386 (585)
T PRK13657 354 VSFEAKPGQTVAIVGPTGAGKSTLINLLHRVFD 386 (585)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 038975998899988989869999999860157
No 261
>TIGR01420 pilT_fam twitching motility protein; InterPro: IPR006321 These represent 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 do not have type IV pili but have related structures for DNA uptake and natural transformation. ; GO: 0005524 ATP binding, 0006810 transport.
Probab=96.76 E-value=0.0011 Score=38.13 Aligned_cols=74 Identities=20% Similarity=0.304 Sum_probs=45.4
Q ss_pred EEEEEEEEEEEECEECCCCCEEE--EC---CCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEE
Q ss_conf 01689989999540136831799--86---89869999079865789999999985797756433133310244574127
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQKI--EF---ADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPM 98 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~~i--~f---~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l 98 (110)
...||++.-+|-.|...+=...+ ++ +.|+.++.||.||||||-|-|+-=-+.- ...-+=-++.-|++.
T Consensus 96 a~vlR~ip~~Ip~fe~LGLP~~v~~~~a~~~~GLiLVTGPTGSGKSTTlAsmIDyIN~-------~~~~HIiTIEDPIEy 168 (350)
T TIGR01420 96 ALVLRLIPSKIPTFEELGLPRPVLRELAERPRGLILVTGPTGSGKSTTLASMIDYINK-------NKAGHIITIEDPIEY 168 (350)
T ss_pred HHHHHHCCCCCCCHHHCCCCHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHC-------CCCCCCEEEECCEEE
T ss_conf 4232311534621666379878999998366993898768898678999999978740-------388882563177314
Q ss_pred EEEECC
Q ss_conf 899628
Q gi|254780640|r 99 CMAVPR 104 (110)
Q Consensus 99 ~~~v~~ 104 (110)
+|.--+
T Consensus 169 vh~~~~ 174 (350)
T TIGR01420 169 VHKNKR 174 (350)
T ss_pred EECCCE
T ss_conf 104770
No 262
>TIGR00630 uvra excinuclease ABC, A subunit; InterPro: IPR004602 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products . The UvrC protein contain 4 conserved regions: a central region which interact with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0009380 excinuclease repair complex.
Probab=96.73 E-value=0.004 Score=35.41 Aligned_cols=55 Identities=16% Similarity=0.239 Sum_probs=43.6
Q ss_pred CCCCCCCCCCCEE-EEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHH
Q ss_conf 1422211002101-689989999540136831799868986999907986578999999
Q gi|254780640|r 13 LSKSLTSYYARKL-IFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAI 70 (110)
Q Consensus 13 l~~~~~~~~~~~~-~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai 70 (110)
++-|.....+++- ++.|....-+|.+.. + .+|++.. +|+|.|.-||||||++.=+
T Consensus 630 I~vP~~R~~~~g~r~l~~~gA~~nNLK~i-~-v~iPLG~-~t~iTGVSGSGKSTLind~ 685 (956)
T TIGR00630 630 IEVPKERRKGNGKRVLTLKGARENNLKNI-T-VSIPLGL-FTCITGVSGSGKSTLINDT 685 (956)
T ss_pred CCCCCCCCCCCCCEEEEEEECCCCCCCCC-E-EEECCCE-EEEEECCCCCCHHHHHHHH
T ss_conf 36763112588955999842010564021-1-7740771-7999744587457779999
No 263
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=96.72 E-value=0.0034 Score=35.76 Aligned_cols=47 Identities=19% Similarity=0.340 Sum_probs=32.1
Q ss_pred EEEEEECEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 899995401368317998689-869999079865789999999985797
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.++...++....+- .+++.+ .+|.++||.|+||||+|..+.-|---.
T Consensus 13 l~~yYg~~~aL~~i-~l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~ 60 (253)
T COG1117 13 LNLYYGDKHALKDI-NLDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLI 60 (253)
T ss_pred EEEEECCHHHHCCC-CEECCCCCEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 05898741123157-2214578069988898867888999987541156
No 264
>KOG0927 consensus
Probab=96.72 E-value=0.0037 Score=35.59 Aligned_cols=57 Identities=19% Similarity=0.064 Sum_probs=36.3
Q ss_pred CCEEEEEEEEEEEECEECCC-CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 21016899899995401368-317998689-8699990798657899999999857977
Q gi|254780640|r 22 ARKLIFKLLDIEISHFRGFT-EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 22 ~~~~~~kl~~i~i~nFr~f~-~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
...-.+|+.++.+.-.+-+- ....+++.. .-..|+|+||+||||+|.+|.-......
T Consensus 71 ~~s~dvk~~sls~s~~g~~l~kd~~~El~~g~rygLiG~nG~Gkst~L~~i~~~e~P~p 129 (614)
T KOG0927 71 PISRDVKIESLSLSFHGVELIKDVTLELNRGRRYGLIGPNGSGKSTFLRAIAGREVPIP 129 (614)
T ss_pred CCCCCCEEEEEEECCCCCEEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCCCC
T ss_conf 66333132244311478114641047862786489976799737689988753778998
No 265
>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional
Probab=96.71 E-value=0.002 Score=36.88 Aligned_cols=30 Identities=30% Similarity=0.492 Sum_probs=23.2
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+++ ..+.|+||+|+||||++..|.-+.
T Consensus 343 sl~i~~Ge~vaiVG~SGsGKSTL~~LL~r~y 373 (547)
T PRK10522 343 NLTIKRGELLFLIGGNGSGKSTLAMLLTGLY 373 (547)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 4798599889998999997799999982896
No 266
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ; InterPro: IPR013364 Proteins in this entry are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase (IPR013363 from INTERPRO) of a type-IV secretion-like system of the obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii..
Probab=96.70 E-value=0.0016 Score=37.41 Aligned_cols=33 Identities=30% Similarity=0.336 Sum_probs=25.9
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf 8986999907986578999999998579775643
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRK 82 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~ 82 (110)
.+|+-+|+|+.||||||++-||+ =++|++.+.+
T Consensus 148 ~~GLGLiCG~TGSGKSTl~AaiY-~~~l~t~pdR 180 (374)
T TIGR02525 148 KAGLGLICGETGSGKSTLAAAIY-RHCLETYPDR 180 (374)
T ss_pred CCCCEEECCCCCCCHHHHHHHHH-HHHCCCCCCC
T ss_conf 03780221778972899999999-9850748897
No 267
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=96.70 E-value=0.0018 Score=37.17 Aligned_cols=33 Identities=24% Similarity=0.302 Sum_probs=26.8
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 7998689-86999907986578999999998579
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..+++.+ .+..|.||.|+||||+|..|..+.-.
T Consensus 24 v~l~i~~Ge~vaI~GpSGSGKSTLLniig~ld~p 57 (226)
T COG1136 24 VNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLDKP 57 (226)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 2588749989999899999899999999646678
No 268
>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=96.69 E-value=0.0019 Score=36.99 Aligned_cols=30 Identities=23% Similarity=0.326 Sum_probs=23.6
Q ss_pred EEECC-CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 99868-9869999079865789999999985
Q gi|254780640|r 45 KIEFA-DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~-~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++++ +++.+|.|||.+|||+++.++....
T Consensus 19 di~l~~~~~~iiTGpN~~GKSt~Lk~i~l~~ 49 (199)
T cd03283 19 DIDMEKKNGILITGSNMSGKSTFLRTIGVNV 49 (199)
T ss_pred CEEECCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 2576798589998999986599999999999
No 269
>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional
Probab=96.69 E-value=0.0015 Score=37.47 Aligned_cols=32 Identities=19% Similarity=0.413 Sum_probs=25.4
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++..+ .+.+|+||.|+||||++..|..+.-.
T Consensus 48 sl~I~~GEi~~ivG~SGsGKSTLlr~i~gL~~P 80 (400)
T PRK10070 48 SLAIEEGEIFVIMGLSGSGKSTMVRLLNRLIEP 80 (400)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCCC
T ss_conf 768879999999999984699999999759998
No 270
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=96.69 E-value=0.0043 Score=35.22 Aligned_cols=33 Identities=24% Similarity=0.263 Sum_probs=25.3
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 317998689-869999079865789999999985
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+...+.+.+ .-..++|+||+||||++.+|.-.+
T Consensus 20 ~~~~l~~~~G~riGLvG~NGaGKSTLLkilaG~~ 53 (530)
T COG0488 20 ENVSLTLNPGERIGLVGRNGAGKSTLLKILAGEL 53 (530)
T ss_pred CCCCEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 4784076899889998999898899999982997
No 271
>COG4138 BtuD ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]
Probab=96.66 E-value=0.001 Score=38.37 Aligned_cols=34 Identities=26% Similarity=0.308 Sum_probs=26.6
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCH
Q ss_conf 8699990798657899999999857977564331
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHG 84 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~ 84 (110)
.+--++||||+||||++.++.-+..+..+-.-.+
T Consensus 26 e~~HliGPNGaGKSTLLA~lAGm~~~sGsi~~~G 59 (248)
T COG4138 26 EILHLVGPNGAGKSTLLARMAGMTSGSGSIQFAG 59 (248)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCCCCCEEEECC
T ss_conf 0799987898658899999847788884279888
No 272
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=96.64 E-value=0.0054 Score=34.75 Aligned_cols=30 Identities=27% Similarity=0.489 Sum_probs=23.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++.+ .+..|+|+.|+||||++..|..+.
T Consensus 24 nl~I~~GE~VaiIG~SGaGKSTLLR~lngl~ 54 (258)
T COG3638 24 NLEINQGEMVAIIGPSGAGKSTLLRSLNGLV 54 (258)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 6775798689998788886899999986665
No 273
>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.0037 Score=35.58 Aligned_cols=51 Identities=18% Similarity=0.301 Sum_probs=32.1
Q ss_pred EEEEEEEEEEEECEE---CCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 016899899995401---368317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEISHFR---GFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr---~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++.+++.++.+.-=. ...+. .+.+.+ ..++|+|++|+||||++.+|.-++-
T Consensus 318 ~~ei~~~~l~~~y~~g~~~l~~l-~~t~~~g~~talvG~SGaGKSTLl~lL~G~~~ 372 (559)
T COG4988 318 PIEISLENLSFRYPDGKPALSDL-NLTIKAGQLTALVGASGAGKSTLLNLLLGFLA 372 (559)
T ss_pred CCEEEECCEEEECCCCCCCCCCC-EEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 74666021478558998556671-06754896799988999978999999847577
No 274
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and 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 also possess 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 sliding clamps, a
Probab=96.62 E-value=0.0025 Score=36.38 Aligned_cols=29 Identities=17% Similarity=0.396 Sum_probs=22.9
Q ss_pred EEEECCC--CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 7998689--8699990798657899999999
Q gi|254780640|r 44 QKIEFAD--HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 44 ~~i~f~~--~~~~i~G~Ng~GKStil~ai~~ 72 (110)
..+.+++ .+.+|.|||.+||||++.++..
T Consensus 20 Ndi~l~~~~~~~iiTGpN~sGKSt~lk~i~l 50 (200)
T cd03280 20 LDIQLGENKRVLVITGPNAGGKTVTLKTLGL 50 (200)
T ss_pred CEEEECCCCEEEEEECCCCCCCHHHHHHHHH
T ss_conf 2589779933999988987750999999999
No 275
>COG3096 MukB Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=96.60 E-value=0.00049 Score=39.97 Aligned_cols=49 Identities=22% Similarity=0.335 Sum_probs=41.6
Q ss_pred EEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 68998999954013683179986898699990798657899999999857
Q gi|254780640|r 26 IFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..|..++++-|+-+|... ++|+++-++.+.|.||+||||-+.|..-.|-
T Consensus 4 RGKfrSLTliNWNGFFAR-TFDlDeLVTTLSGGNGAGKSTTMA~FvTALI 52 (1480)
T COG3096 4 RGKFRSLTLINWNGFFAR-TFDLDELVTTLSGGNGAGKSTTMAAFVTALI 52 (1480)
T ss_pred CCCCCEEEEEECCCHHHH-HCCHHHHHHHCCCCCCCCCCCHHHHHHHHHC
T ss_conf 665433567602432444-2448888886037888762004999999975
No 276
>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional
Probab=96.56 E-value=0.002 Score=36.92 Aligned_cols=31 Identities=23% Similarity=0.370 Sum_probs=24.0
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 7998689-869999079865789999999985
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+++..+ .+..|+|++|+||||++.+|..+.
T Consensus 34 Vsl~i~~GE~lgiVGeSGsGKSTL~~~l~gl~ 65 (327)
T PRK11308 34 VSFNLERGKTLAVVGESGCGKSTLARLLTMIE 65 (327)
T ss_pred EEEEECCCCEEEEECCCCHHHHHHHHHHHCCC
T ss_conf 06798899999999998319999999995699
No 277
>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein. Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.
Probab=96.56 E-value=0.0022 Score=36.66 Aligned_cols=31 Identities=29% Similarity=0.453 Sum_probs=24.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+.+|+||.|+||||++.+|..+.-
T Consensus 44 sl~I~~GEi~~lvGpSGsGKSTLLr~i~GL~~ 75 (382)
T TIGR03415 44 SLDIEEGEICVLMGLSGSGKSSLLRAVNGLNP 75 (382)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 74887998999999997349999999975999
No 278
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein; InterPro: IPR005968 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Thiamine pyrophosphate (TPP) is a required cofactor synthesized de novo in Salmonella typhimurium. The primary role for TPP is in central metabolism as an electron carrier and nucleophile for such enzymes as pyruvate dehydrogenase (1.2.4.1 from EC), acetolactate synthase (4.1.3.18 from EC), and alpha-ketoglutarate dehydrogenase (1.2.4.2 from EC). Despite its importance in cellular physiology, neither the de novo biosynthetic pathway nor the salvage systems for thiamine are fully understood in any organism. The model describes thiamine ABC transporter, ATP-binding protein, believed to be involved in the specific translocation of thiamine and its phosphoesters across the inner membrane The protein belongs to the larger ABC transport system which consists of at least three components: the inner membrane permease; thiamine binding protein and an ATP-binding subunit. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found. It has been experimentally demonstrated that mutants in the various steps in the de novo synthesis of thiamine and its biologically active form, namely thiamine pyrophosphate can be exogenously supplemented with thiamine, thiamine monophosphate or thiamine pyrophosphate. ; GO: 0005524 ATP binding, 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=96.55 E-value=0.0021 Score=36.75 Aligned_cols=28 Identities=25% Similarity=0.262 Sum_probs=23.9
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 9869999079865789999999985797
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.....|.||-|+||||+|.-|.-+++.-
T Consensus 24 Ge~VAi~GpSGAGKSTLLnLiAGF~~Pa 51 (213)
T TIGR01277 24 GERVAILGPSGAGKSTLLNLIAGFLEPA 51 (213)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 7768887589862788987786404776
No 279
>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=96.52 E-value=0.006 Score=34.53 Aligned_cols=31 Identities=26% Similarity=0.324 Sum_probs=24.6
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ .+..|+|+.|+||||++..|..+..
T Consensus 25 sl~i~~Ge~~~ivG~SGsGKSTllr~i~gL~~ 56 (233)
T cd03258 25 SLSVPKGEIFGIIGRSGAGKSTLIRCINGLER 56 (233)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 88999999999988980589999999967999
No 280
>PRK10419 nikE nickel transporter ATP-binding protein; Provisional
Probab=96.52 E-value=0.0029 Score=36.11 Aligned_cols=30 Identities=23% Similarity=0.356 Sum_probs=23.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++..+ .+..|+|++|+||||++.+|.-+.
T Consensus 32 s~~i~~GE~l~ivGeSGsGKSTL~r~i~gl~ 62 (266)
T PRK10419 32 SLTLKSGETVALLGRSGCGKSTLARLLVGLE 62 (266)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCC
T ss_conf 7588899899999999977999999996699
No 281
>PTZ00243 ABC transporter; Provisional
Probab=96.50 E-value=0.0032 Score=35.88 Aligned_cols=27 Identities=33% Similarity=0.543 Sum_probs=21.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 998689-869999079865789999999
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
.+.+.. .+++|+|+-|+||||+|.||.
T Consensus 680 nl~v~~G~L~~IvG~vGSGKSSLL~aiL 707 (1560)
T PTZ00243 680 SVSVPRGKLTVVLGATGSGKSTLLQSLL 707 (1560)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHH
T ss_conf 5886599789998999987999999996
No 282
>cd03285 ABC_MSH2_euk MutS2 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 sliding c
Probab=96.48 E-value=0.0044 Score=35.18 Aligned_cols=35 Identities=23% Similarity=0.381 Sum_probs=25.7
Q ss_pred CCCCCEEEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 368317998689---869999079865789999999985
Q gi|254780640|r 39 GFTEIQKIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 39 ~f~~~~~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.|.. ..+.++. .+.+|.|||.+|||+++..+....
T Consensus 17 ~~Vp-Ndi~l~~~~~~i~iiTGpN~sGKSt~lk~i~l~~ 54 (222)
T cd03285 17 AFIP-NDVTLTRGKSRFLIITGPNMGGKSTYIRQIGVIV 54 (222)
T ss_pred CEEC-CEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 7777-6689768982599998999887189999999999
No 283
>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=96.47 E-value=0.002 Score=36.92 Aligned_cols=37 Identities=30% Similarity=0.449 Sum_probs=25.5
Q ss_pred ECCCCCEEEECC--C-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 136831799868--9-869999079865789999999985
Q gi|254780640|r 38 RGFTEIQKIEFA--D-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 38 r~f~~~~~i~f~--~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+++..-+.|.|+ + .+..++|+||+||||.+.-+.-.+
T Consensus 35 ~~~~AVqdisf~IP~G~ivgflGaNGAGKSTtLKmLTGll 74 (325)
T COG4586 35 RSIEAVQDISFEIPKGEIVGFLGANGAGKSTTLKMLTGLL 74 (325)
T ss_pred HHHHHHHEEEEECCCCCEEEEECCCCCCCHHHHHHHHCCC
T ss_conf 4302655114534898689887588886033398973860
No 284
>TIGR02857 CydD ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD; InterPro: IPR014216 The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain and a C-terminal ATP-binding domain. In Escherichia 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 the 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 entry are all either found in the gammaproteobacterial context, or the CydABCD context. All members of this entry scoring above the trusted cut off at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature, based on this operon in Bacillus subtilis, assigns cydC to the third gene in the operon, where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologues in this family in accordance with the precedence of publication of the E. coli name, CydD..
Probab=96.46 E-value=0.0029 Score=36.06 Aligned_cols=50 Identities=14% Similarity=0.141 Sum_probs=31.1
Q ss_pred EEEEEEEEEECEECC----CCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 689989999540136----8317998689-8699990798657899999999857
Q gi|254780640|r 26 IFKLLDIEISHFRGF----TEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f----~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...+..+++.--.+= -+..++.+++ .++.|+|+-|+||||++++|.-+.-
T Consensus 349 ~l~~~~v~~~y~~G~~~pa~~~~sf~~~pG~~vAl~G~SGaGKSTLL~lLLGf~~ 403 (570)
T TIGR02857 349 SLEFEGVSVAYAPGRDEPALRPVSFTVEPGERVALVGPSGAGKSTLLNLLLGFVE 403 (570)
T ss_pred EEEEEEEEEECCCCCHHHCCCCCCEEECCCCEEEEEECCCCCHHHHHHHHHCCCC
T ss_conf 0788751686278880103788541663870488862799978899999971576
No 285
>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=96.45 E-value=0.0039 Score=35.45 Aligned_cols=30 Identities=20% Similarity=0.394 Sum_probs=23.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+.+ ....|+||+|+||||++..|.-++
T Consensus 361 sl~i~~Ge~vaiVG~SGsGKSTL~~LL~r~y 391 (575)
T PRK11160 361 SLQIKAGEKVALLGRTGCGKSTLLQLLTRAW 391 (575)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 5897699889998899975999999986236
No 286
>cd03281 ABC_MSH5_euk MutS5 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 sliding c
Probab=96.43 E-value=0.004 Score=35.39 Aligned_cols=35 Identities=20% Similarity=0.433 Sum_probs=26.3
Q ss_pred CCCCCEEEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 368317998689---869999079865789999999985
Q gi|254780640|r 39 GFTEIQKIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 39 ~f~~~~~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.|.. ..+.+.+ .+.+|.|||.+|||+++.++....
T Consensus 16 ~~Vp-Ndi~l~~~~~~~~iiTGpN~gGKSt~lkti~l~~ 53 (213)
T cd03281 16 SFVP-NDTEIGGGGPSIMVITGPNSSGKSVYLKQVALIV 53 (213)
T ss_pred CEEC-CEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 6467-6589779982599998999876599999999999
No 287
>KOG0062 consensus
Probab=96.43 E-value=0.0032 Score=35.86 Aligned_cols=45 Identities=33% Similarity=0.296 Sum_probs=30.2
Q ss_pred EEEEEEEEECEECCCCCEEEECC-CCE-------EEEEECCCCCHHHHHHHHHH
Q ss_conf 89989999540136831799868-986-------99990798657899999999
Q gi|254780640|r 27 FKLLDIEISHFRGFTEIQKIEFA-DHL-------TIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 27 ~kl~~i~i~nFr~f~~~~~i~f~-~~~-------~~i~G~Ng~GKStil~ai~~ 72 (110)
.+-..|.+.+|--..+...+ +. .++ ..++|+||+||||+|.||.-
T Consensus 76 ~~~~Di~~~~fdLa~G~k~L-L~~a~L~L~~GrRYGLvGrNG~GKsTLLRaia~ 128 (582)
T KOG0062 76 GKSKDIHIDNFDLAYGGKIL-LNKANLTLSRGRRYGLVGRNGIGKSTLLRAIAN 128 (582)
T ss_pred CCCCCEEEEEEEEEECCHHH-HCCCCEEEECCCCCCEECCCCCCHHHHHHHHHH
T ss_conf 66642142114323341112-147855563152432147898758999999984
No 288
>PRK11176 lipid transporter ATP-binding/permease protein; Provisional
Probab=96.43 E-value=0.0028 Score=36.16 Aligned_cols=31 Identities=16% Similarity=0.356 Sum_probs=24.2
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 98689-86999907986578999999998579
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+++.+ ....|+|++|+||||++..|.-++..
T Consensus 363 l~I~~G~~vaiVG~SGsGKSTL~~LL~gly~p 394 (581)
T PRK11176 363 FKIPAGKTVALVGRSGSGKSTIANLLTRFYDI 394 (581)
T ss_pred CCCCCCCEEECCCCCCCCHHHHHHHHHHHCCC
T ss_conf 35799944312289998678999999853667
No 289
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=96.42 E-value=0.01 Score=33.32 Aligned_cols=32 Identities=25% Similarity=0.319 Sum_probs=24.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++..+ .+..|+||.|+||||++..|.-+...
T Consensus 23 ~L~v~~GEfvsilGpSGcGKSTLLriiAGL~~p 55 (248)
T COG1116 23 NLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKP 55 (248)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 358779979999899978899999999687877
No 290
>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=96.42 E-value=0.0027 Score=36.27 Aligned_cols=46 Identities=33% Similarity=0.390 Sum_probs=29.6
Q ss_pred EEEEEEECEECCCCC------EEEECC-CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 989999540136831------799868-9869999079865789999999985
Q gi|254780640|r 29 LLDIEISHFRGFTEI------QKIEFA-DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 29 l~~i~i~nFr~f~~~------~~i~f~-~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+..++..-|+++.+. .+++.. ..+.+|+|.||+||||++.+|.--+
T Consensus 4 ~~~~~~~f~~g~~~ek~~l~~~sL~I~~g~FvtViGsNGAGKSTlln~iaG~l 56 (263)
T COG1101 4 LSNATKTFFKGTPLEKRALNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGDL 56 (263)
T ss_pred CCCCEEEECCCCHHHHHHHHCCCEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 20242343279805778872375122478469997679863888888860750
No 291
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=96.41 E-value=0.0038 Score=35.49 Aligned_cols=31 Identities=29% Similarity=0.361 Sum_probs=23.2
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 98689-86999907986578999999998579
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+++.+ ....|+|+||+||||++.-|.-....
T Consensus 48 f~i~~Ge~vGiiG~NGaGKSTLlkliaGi~~P 79 (249)
T COG1134 48 FEIYKGERVGIIGHNGAGKSTLLKLIAGIYKP 79 (249)
T ss_pred EEEECCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 88607989989878998589999999587179
No 292
>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=96.40 E-value=0.0037 Score=35.56 Aligned_cols=30 Identities=20% Similarity=0.393 Sum_probs=23.9
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98689-8699990798657899999999857
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++.+ ....|+|++|+||||++..|.-+..
T Consensus 362 ~~I~~Ge~vaIVG~SGsGKSTL~~LL~rly~ 392 (593)
T PRK10790 362 LSVPSRNFVALVGHTGSGKSTLASLLMGYYP 392 (593)
T ss_pred CCCCCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 0448997899879998868999999998556
No 293
>TIGR02142 modC_ABC molybdate ABC transporter, ATP-binding protein; InterPro: IPR011868 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulphate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulphate transporter rather than by a specific molybdate transporter.; GO: 0005524 ATP binding, 0015098 molybdate ion transmembrane transporter activity, 0015689 molybdate ion transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=96.39 E-value=0.004 Score=35.40 Aligned_cols=27 Identities=30% Similarity=0.347 Sum_probs=23.9
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 986999907986578999999998579
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.|+|.|+|.-|+||||++.+|.-+.-.
T Consensus 23 ~GvtAlFG~SGsGKTtli~~iaGL~rp 49 (361)
T TIGR02142 23 QGVTALFGRSGSGKTTLIRLIAGLTRP 49 (361)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCC
T ss_conf 406871258997078999998731675
No 294
>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein; InterPro: IPR013455 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Several bacterial species use the enzymes xylose isomerase and xylulokinase for xylose utilisation. This entry represents the ATP-binding cassette (ABC) subunit of the known, or predicted, high-affinity xylose ABC transporter used for xylose import. The genes encoding these proteins, which closely resemble other sugar transport ABC transporter genes, are typically found near xylose utilisation enzymes and regulatory proteins. .
Probab=96.33 E-value=0.0023 Score=36.63 Aligned_cols=41 Identities=24% Similarity=0.485 Sum_probs=28.4
Q ss_pred ECEECCCCCEEE--ECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 540136831799--8689-8699990798657899999999857
Q gi|254780640|r 35 SHFRGFTEIQKI--EFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 35 ~nFr~f~~~~~i--~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+.|.+.+-...| ...+ .+.-++|+||+||||++..|..+..
T Consensus 9 K~Fg~VkAl~~i~l~~~~GE~v~LCGENG~GKSTLMK~L~g~yP 52 (501)
T TIGR02633 9 KTFGGVKALDGIDLKLRAGEIVSLCGENGAGKSTLMKVLSGVYP 52 (501)
T ss_pred CCCCCEEEECCEEEEEECCCEEEECCCCCCCHHHHHHHHHCCCC
T ss_conf 03676764223168861671788047688846789998833466
No 295
>cd03284 ABC_MutS1 MutS1 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 sliding clam
Probab=96.27 E-value=0.0047 Score=35.05 Aligned_cols=30 Identities=20% Similarity=0.368 Sum_probs=23.4
Q ss_pred EEECC--CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 99868--9869999079865789999999985
Q gi|254780640|r 45 KIEFA--DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~--~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.++ ..+.+|.|||.+|||+++.++....
T Consensus 23 di~l~~~~~~~iiTGpN~sGKSt~Lk~igl~~ 54 (216)
T cd03284 23 DTELDPERQILLITGPNMAGKSTYLRQVALIA 54 (216)
T ss_pred EEEECCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 68978984599998998774599999999999
No 296
>TIGR02533 type_II_gspE general secretory pathway protein E; InterPro: IPR013369 GspE, the E protein of the type II secretion system, is also referred to as the main terminal branch of the general secretion pathway. ; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=96.24 E-value=0.0028 Score=36.20 Aligned_cols=26 Identities=23% Similarity=0.281 Sum_probs=20.9
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 89869999079865789999999985
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.|+.++.||.||||||-|-|----|
T Consensus 244 pHGIiLVTGPTGSGKtTTLYaaL~~L 269 (495)
T TIGR02533 244 PHGIILVTGPTGSGKTTTLYAALSRL 269 (495)
T ss_pred CCCEEEECCCCCCCHHHHHHHHHHHH
T ss_conf 89618841778985258899999863
No 297
>cd03287 ABC_MSH3_euk MutS3 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 sliding c
Probab=96.21 E-value=0.0057 Score=34.65 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=25.6
Q ss_pred CCCCCEEEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 368317998689---869999079865789999999985
Q gi|254780640|r 39 GFTEIQKIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 39 ~f~~~~~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.|.. ..+.+++ .+.+|.|||.+|||+++.++....
T Consensus 18 ~~Vp-Ndi~l~~~~~~~~iiTGpN~~GKSt~lk~i~l~~ 55 (222)
T cd03287 18 SFVP-NDIHLSAEGGYCQIITGPNMGGKSSYIRQVALIT 55 (222)
T ss_pred CEEC-CEEEECCCCCEEEEEECCCCCCCHHHHHHHHHHH
T ss_conf 7687-7479768884489997899887289999999999
No 298
>cd03286 ABC_MSH6_euk MutS6 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 sliding c
Probab=96.18 E-value=0.0046 Score=35.10 Aligned_cols=30 Identities=20% Similarity=0.368 Sum_probs=23.8
Q ss_pred EEECC---CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 99868---9869999079865789999999985
Q gi|254780640|r 45 KIEFA---DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.++ ..+.+|.|||.+|||+++.++....
T Consensus 22 di~l~~~~~~~~iiTGpN~sGKSt~lk~i~l~~ 54 (218)
T cd03286 22 DVDLGATSPRILVLTGPNMGGKSTLLRTVCLAV 54 (218)
T ss_pred EEEECCCCCEEEEEECCCCCCCHHHHHHHHHHH
T ss_conf 688679974089998999887389999999999
No 299
>pfam00488 MutS_V MutS domain V. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam01624, pfam05188, pfam05192 and pfam05190. The mutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with domain V of Thermus aquaticus MutS, which contains a Walker A motif, and is structurally similar to the ATPase domain of ABC transporters.
Probab=96.17 E-value=0.0057 Score=34.63 Aligned_cols=30 Identities=17% Similarity=0.389 Sum_probs=23.2
Q ss_pred EEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689---869999079865789999999985
Q gi|254780640|r 45 KIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+++ .+.+|.|||.+|||+.+.++....
T Consensus 34 di~l~~~~~~~~iiTGpN~sGKSt~Lk~igl~~ 66 (234)
T pfam00488 34 DVSLGKERSRILLITGPNMGGKSTYLRQVALIV 66 (234)
T ss_pred EEEECCCCEEEEEEECCCCCCCHHHHHHHHHHH
T ss_conf 589779961699997887776199999999999
No 300
>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=96.16 E-value=0.0026 Score=36.32 Aligned_cols=32 Identities=28% Similarity=0.298 Sum_probs=24.5
Q ss_pred EEECC--C-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 99868--9-86999907986578999999998579
Q gi|254780640|r 45 KIEFA--D-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~--~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++|. + .+..+.|+||+||||.+.-|.-++-.
T Consensus 20 ~isf~v~~G~i~GllG~NGAGKTTtfRmILglle~ 54 (300)
T COG4152 20 NISFEVPPGEIFGLLGPNGAGKTTTFRMILGLLEP 54 (300)
T ss_pred CEEEEECCCEEEEEECCCCCCCCCHHHHHHCCCCC
T ss_conf 41366548717876658889732339998645786
No 301
>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]
Probab=96.12 E-value=0.014 Score=32.71 Aligned_cols=52 Identities=19% Similarity=0.247 Sum_probs=35.8
Q ss_pred EEEEEEEEEEEEC--EECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 0168998999954--01368317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEISH--FRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i~n--Fr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.-.+.++++++.. -+...+...+++.+ +-.+|.|++|+||||++.||.-+..
T Consensus 390 ~~~i~~~nl~l~~p~~~~ll~~l~~~v~~G~~llI~G~SG~GKTsLlRaiaGLWP 444 (604)
T COG4178 390 DHGITLENLSLRTPDGQTLLSELNFEVRPGERLLITGESGAGKTSLLRALAGLWP 444 (604)
T ss_pred CCEEEEEEEEEECCCCCEEECCCEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 6505885436777998742146526547998799878999878899999964585
No 302
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=96.10 E-value=0.0046 Score=35.09 Aligned_cols=23 Identities=26% Similarity=0.410 Sum_probs=19.5
Q ss_pred EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 69999079865789999999985
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.+|.|||.+|||+++.++....
T Consensus 1 v~iiTGpN~sGKSt~lk~i~l~~ 23 (185)
T smart00534 1 VVIITGPNMGGKSTYLRQVGLIV 23 (185)
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
T ss_conf 98997999884899999999999
No 303
>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family; InterPro: IPR014324 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents the ATP-binding subunit DevA, found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The ABC transporter encoded by the devBCA operon is induced by nitrogen deficiency and is necessary for the formation of the laminated layer which envelops heterocysts , . It is thought to be involved in the export of either the heterocyst-specific glycolipids found in the laminated layer, or an enzyme essential for their formation..
Probab=96.07 E-value=0.0065 Score=34.33 Aligned_cols=23 Identities=35% Similarity=0.553 Sum_probs=19.8
Q ss_pred CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 86999907986578999999998
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
-+.++.||-|+||||+|.-|-.+
T Consensus 32 EiViltGPSGSGKTTLLtLiG~L 54 (220)
T TIGR02982 32 EIVILTGPSGSGKTTLLTLIGGL 54 (220)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
T ss_conf 47984378898468899988762
No 304
>pfam03193 DUF258 Protein of unknown function, DUF258.
Probab=96.07 E-value=0.0053 Score=34.79 Aligned_cols=24 Identities=33% Similarity=0.577 Sum_probs=21.6
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 689869999079865789999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+.+..++++|+-|+||||++.+|.
T Consensus 33 l~~k~sv~~G~SGVGKSTLiN~L~ 56 (161)
T pfam03193 33 LKGKTSVLAGQSGVGKSTLLNALL 56 (161)
T ss_pred HCCCEEEEECCCCCCHHHHHHHHC
T ss_conf 679859998899988999998856
No 305
>TIGR00455 apsK adenylylsulfate kinase; InterPro: IPR002891 Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulphate. 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.
Probab=96.03 E-value=0.0034 Score=35.77 Aligned_cols=38 Identities=24% Similarity=0.350 Sum_probs=28.1
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC--CCCCCHHHHHH
Q ss_conf 699990798657899999999857977--56433133310
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT--QRRKHGDSIKK 89 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~--~~~~~~d~i~~ 89 (110)
+-=|+|.-|+|||||..|++-.|+-.. .-.-.||.++.
T Consensus 21 vlWlTGLSGsGKsTiA~Al~~~L~~~G~~~~~LDGDnvR~ 60 (187)
T TIGR00455 21 VLWLTGLSGSGKSTIANALEKKLEKKGYRVYVLDGDNVRH 60 (187)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECCCEEEC
T ss_conf 9851168856357999999999996697499975863424
No 306
>COG4615 PvdE ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]
Probab=96.02 E-value=0.008 Score=33.88 Aligned_cols=46 Identities=24% Similarity=0.326 Sum_probs=29.9
Q ss_pred EEEEEEECEECCCCCEEEECC--------CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 989999540136831799868--------9869999079865789999999985
Q gi|254780640|r 29 LLDIEISHFRGFTEIQKIEFA--------DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 29 l~~i~i~nFr~f~~~~~i~f~--------~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
...|++.|-|==.+...+... ..+..|+|.||+||||++--+.-+.
T Consensus 320 ~~~lelrnvrfay~~~~FhvgPiNl~ikrGelvFliG~NGsGKST~~~LLtGL~ 373 (546)
T COG4615 320 WKTLELRNVRFAYQDNAFHVGPINLTIKRGELVFLIGGNGSGKSTLAMLLTGLY 373 (546)
T ss_pred CCCCEEEEEEECCCCCCCEECCEEEEEECCCEEEEECCCCCCHHHHHHHHHHCC
T ss_conf 452013200203676552115613687337389998889963889999997066
No 307
>PRK12289 ribosome-associated GTPase; Reviewed
Probab=96.00 E-value=0.0055 Score=34.70 Aligned_cols=24 Identities=38% Similarity=0.630 Sum_probs=21.5
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 689869999079865789999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+.+.++++.|+.|.||||++.+|.
T Consensus 169 L~~k~tv~~G~SGVGKSSLIN~L~ 192 (351)
T PRK12289 169 LRNKITVVAGPSGVGKSSLINRLI 192 (351)
T ss_pred HCCCEEEEECCCCCCHHHHHHHHC
T ss_conf 759869998179887889887637
No 308
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=95.95 E-value=0.0085 Score=33.77 Aligned_cols=32 Identities=22% Similarity=0.322 Sum_probs=24.7
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+.+.+ ....|+|++|+||||++..|.-++-.
T Consensus 349 s~~i~~Ge~vaiVG~sGsGKSTl~~LL~r~~~~ 381 (567)
T COG1132 349 SFSIEPGEKVAIVGPSGSGKSTLIKLLLRLYDP 381 (567)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 277548987888558888578999999861588
No 309
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein; InterPro: IPR013505 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). FtsE is an ABC transporter ATP-binding protein. This protein and its permease partner FtsX, localize to the cell division site. In a number of species, the ftsEX gene pair is located next to ftsY, which encodes the signal recognition particle-docki ng protein.; GO: 0005524 ATP binding, 0051301 cell division.
Probab=95.91 E-value=0.0064 Score=34.39 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=23.3
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
++...+ .+.-|+|+-|+||||+|.-|.-+--
T Consensus 23 ~~~~~kGem~fL~GHSGaGKST~lkLi~~~~~ 54 (216)
T TIGR00960 23 TFHIDKGEMVFLVGHSGAGKSTLLKLILGIEK 54 (216)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 47853850799856888607899999985228
No 310
>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=95.90 E-value=0.0086 Score=33.72 Aligned_cols=27 Identities=30% Similarity=0.321 Sum_probs=23.3
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 986999907986578999999998579
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+.+-++.||+|+||||+.+.|.-.|=.
T Consensus 78 k~IllL~GPvGsGKStl~~~Lk~~lE~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 569999889988779999999999998
No 311
>COG3044 Predicted ATPase of the ABC class [General function prediction only]
Probab=95.89 E-value=0.016 Score=32.45 Aligned_cols=35 Identities=26% Similarity=0.273 Sum_probs=28.7
Q ss_pred EECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 98689869999079865789999999985797756
Q gi|254780640|r 46 IEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 46 i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~ 80 (110)
+....++++|.|+|-.||||+++||+-.-+.....
T Consensus 238 mgIp~git~ItG~nfhGKTTLl~Aie~gvdnHipG 272 (554)
T COG3044 238 MGIPQGITLITGGNFHGKTTLLTAIERGVDNHIPG 272 (554)
T ss_pred CCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCCCC
T ss_conf 67775338985587666268999997254446889
No 312
>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=95.88 E-value=0.0099 Score=33.43 Aligned_cols=29 Identities=21% Similarity=0.311 Sum_probs=25.0
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 98699990798657899999999857977
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
....+|+||.|+|||+++.++...+....
T Consensus 2 ~~~ill~G~~GsGKTtl~~~la~~~~~~~ 30 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG 30 (148)
T ss_pred CCEEEEECCCCHHHHHHHHHHHHHHCCCC
T ss_conf 97899999997029999999998726689
No 313
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=95.87 E-value=0.011 Score=33.17 Aligned_cols=35 Identities=23% Similarity=0.272 Sum_probs=26.8
Q ss_pred CCEEEECC-----CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 31799868-----986999907986578999999998579
Q gi|254780640|r 42 EIQKIEFA-----DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 42 ~~~~i~f~-----~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+...++|+ ..++.|.||.|+||||++.-|.-+...
T Consensus 12 ~~~~~~fdl~v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P 51 (231)
T COG3840 12 GHLPMRFDLTVPAGEIVAILGPSGAGKSTLLNLIAGFETP 51 (231)
T ss_pred CCCEEEEEEEECCCCEEEEECCCCCCHHHHHHHHHHCCCC
T ss_conf 7500788876067857999778886578899998742477
No 314
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=95.87 E-value=0.011 Score=33.15 Aligned_cols=32 Identities=25% Similarity=0.376 Sum_probs=24.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++++ ....|+|++|+||||++..+.-+...
T Consensus 493 sL~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p 525 (709)
T COG2274 493 SLEIPPGEKVAIVGRSGSGKSTLLKLLLGLYKP 525 (709)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 277679988999879999889999998367888
No 315
>PRK10261 glutathione transporter ATP-binding protein; Provisional
Probab=95.81 E-value=0.0076 Score=34.01 Aligned_cols=31 Identities=23% Similarity=0.297 Sum_probs=25.1
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++..+ .+..|+|+||+||||++.+|.-++-
T Consensus 36 Sf~v~~GE~vaLvGeSGSGKSTl~~~l~gll~ 67 (623)
T PRK10261 36 SFSLQRGETLAIVGESGSGKSVTALALMRLLE 67 (623)
T ss_pred EEEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 76988998999998999789999999977987
No 316
>KOG0065 consensus
Probab=95.80 E-value=0.0056 Score=34.67 Aligned_cols=25 Identities=32% Similarity=0.530 Sum_probs=20.8
Q ss_pred CCCC-EEEEEECCCCCHHHHHHHHHH
Q ss_conf 6898-699990798657899999999
Q gi|254780640|r 48 FADH-LTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 48 f~~~-~~~i~G~Ng~GKStil~ai~~ 72 (110)
|.+| +|.+.|++|+||||+||.|.-
T Consensus 814 ~kPG~LTALMG~SGAGKTTLLdvLA~ 839 (1391)
T KOG0065 814 FKPGVLTALMGESGAGKTTLLDVLAG 839 (1391)
T ss_pred ECCCCEEEHHCCCCCCHHHHHHHHHC
T ss_conf 64783640124778765779999856
No 317
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=95.80 E-value=0.0077 Score=33.99 Aligned_cols=23 Identities=35% Similarity=0.420 Sum_probs=19.8
Q ss_pred CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 86999907986578999999998
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
.+.+|.||-|+|||||+.++.--
T Consensus 3 ~LivvsgPSGaGK~Tli~~l~~~ 25 (184)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQR 25 (184)
T ss_pred EEEEEECCCCCCHHHHHHHHHHC
T ss_conf 09999899869999999999844
No 318
>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter; InterPro: IPR005898 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. This model describes a family of cyclic peptide transporters in bacteria. Syringomycin is an amphipathic, cyclic lipodepsipeptide when inserted into host causes formation of channels, permeable to a variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.; GO: 0005524 ATP binding, 0015197 peptide transporter activity, 0015833 peptide transport, 0016021 integral to membrane.
Probab=95.80 E-value=0.0077 Score=33.98 Aligned_cols=25 Identities=36% Similarity=0.583 Sum_probs=20.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++.-|+|.||+||||+...+.-+.
T Consensus 368 G~~VyIVG~NGCGK~TL~K~l~GLY 392 (555)
T TIGR01194 368 GDLVYIVGENGCGKSTLIKLLLGLY 392 (555)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHCC
T ss_conf 5289996488973899999997258
No 319
>PRK13853 type IV secretion system protein VirB4; Provisional
Probab=95.78 E-value=0.013 Score=32.87 Aligned_cols=29 Identities=24% Similarity=0.186 Sum_probs=23.1
Q ss_pred EECC---CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9868---9869999079865789999999985
Q gi|254780640|r 46 IEFA---DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 46 i~f~---~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
++|+ -|-++|+||.|+|||+++.+|...+
T Consensus 419 fn~H~~d~GHt~I~G~TGsGKTtll~fL~aq~ 450 (789)
T PRK13853 419 YIPHEHDVGMTAIFGPIGRGKTTLMTFILAML 450 (789)
T ss_pred EECCCCCCCCEEEECCCCCCHHHHHHHHHHHH
T ss_conf 63787887744887899998899999999999
No 320
>PRK12288 ribosome-associated GTPase; Reviewed
Probab=95.77 E-value=0.007 Score=34.19 Aligned_cols=24 Identities=42% Similarity=0.624 Sum_probs=21.6
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 689869999079865789999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+.+..++++|+.|.||||++.+|.
T Consensus 205 L~~ktsvf~GqSGVGKSSLiN~L~ 228 (344)
T PRK12288 205 LTGRISIFVGQSGVGKSSLINALL 228 (344)
T ss_pred HCCCEEEEEECCCCCHHHHHHHCC
T ss_conf 767859998068767888876107
No 321
>COG4161 ArtP ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]
Probab=95.75 E-value=0.017 Score=32.31 Aligned_cols=46 Identities=24% Similarity=0.349 Sum_probs=30.7
Q ss_pred EEEEECEECCCCCE----EEECC---CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 99995401368317----99868---986999907986578999999998579
Q gi|254780640|r 31 DIEISHFRGFTEIQ----KIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 31 ~i~i~nFr~f~~~~----~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+|.++|..+|.+.. .|.|+ ....++.||.|+||||++..+..+-..
T Consensus 2 sirv~~in~~yg~~q~lfdi~l~~~~getlvllgpsgagkssllr~lnlle~p 54 (242)
T COG4161 2 SIQLNGINCFYGAHQALFDITLDCPEGETLVLLGPSGAGKSSLLRVLNLLEMP 54 (242)
T ss_pred CEEECCCCCCCCCCCEEEEEEECCCCCCEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf 25876631123521200355322688977999778887646799998887178
No 322
>cd03282 ABC_MSH4_euk MutS4 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 sliding c
Probab=95.72 E-value=0.0099 Score=33.43 Aligned_cols=30 Identities=30% Similarity=0.403 Sum_probs=23.2
Q ss_pred EEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689---869999079865789999999985
Q gi|254780640|r 45 KIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+.+ .+.+|.|||.+|||+++..+....
T Consensus 21 di~l~~~~~~~~iITGpN~gGKSt~Lktigl~~ 53 (204)
T cd03282 21 DIYLTRGSSRFHIITGPNMSGKSTYLKQIALLA 53 (204)
T ss_pred EEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 688669972599998999887199999999999
No 323
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=95.69 E-value=0.023 Score=31.62 Aligned_cols=61 Identities=20% Similarity=0.291 Sum_probs=36.5
Q ss_pred CEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCC-CCCHHHH----HHCCCCCCCEEEEEEC
Q ss_conf 17998689-869999079865789999999985797756-4331333----1024457412789962
Q gi|254780640|r 43 IQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR-RKHGDSI----KKRSIKTPMPMCMAVP 103 (110)
Q Consensus 43 ~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~-~~~~d~i----~~~s~~~pi~l~~~v~ 103 (110)
...+++.+ ....|+|+.|+||||+..+|.-+.-...=. .-.+... +.+....+++++|--|
T Consensus 25 ~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~~G~~~~~~~~~~~~~~~VQmVFQDp 91 (252)
T COG1124 25 NVSLEIERGETLGIVGESGSGKSTLARLLAGLEKPSSGSILLDGKPLAPKKRAKAFYRPVQMVFQDP 91 (252)
T ss_pred CEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCCCCCCCCCCHHHCCCEEEEECCC
T ss_conf 3259964897899984898988899999956567888628988840576653033304506995187
No 324
>COG1162 Predicted GTPases [General function prediction only]
Probab=95.68 E-value=0.0087 Score=33.70 Aligned_cols=25 Identities=40% Similarity=0.561 Sum_probs=22.2
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHHH
Q ss_conf 6898699990798657899999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~~ 72 (110)
+.++++++.|+.|.||||++.+|.-
T Consensus 162 l~~~~svl~GqSGVGKSSLiN~L~p 186 (301)
T COG1162 162 LAGKITVLLGQSGVGKSTLINALLP 186 (301)
T ss_pred HCCCEEEEECCCCCCHHHHHHHHCC
T ss_conf 5588499988887769998874172
No 325
>PRK00098 ribosome-associated GTPase; Reviewed
Probab=95.66 E-value=0.0092 Score=33.58 Aligned_cols=24 Identities=42% Similarity=0.685 Sum_probs=21.4
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 689869999079865789999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+....+++.|+.|.||||++.+|.
T Consensus 162 l~~k~sv~~G~SGVGKSSLiN~L~ 185 (298)
T PRK00098 162 LAGKVTVLAGQSGVGKSTLLNALV 185 (298)
T ss_pred HCCCEEEEECCCCCCHHHHHHHHC
T ss_conf 579869998789887888887607
No 326
>PRK13830 conjugal transfer protein TrbE; Provisional
Probab=95.66 E-value=0.016 Score=32.35 Aligned_cols=33 Identities=27% Similarity=0.334 Sum_probs=26.0
Q ss_pred EEEECC---CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 799868---986999907986578999999998579
Q gi|254780640|r 44 QKIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..++|+ -|-++|+||.|+|||+++.+|...+--
T Consensus 447 f~fN~H~~dvGHtlIiGpTGsGKTvll~fl~aq~~k 482 (818)
T PRK13830 447 FRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRR 482 (818)
T ss_pred EEEECCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 356278898650589899999889999999999864
No 327
>KOG0058 consensus
Probab=95.65 E-value=0.021 Score=31.79 Aligned_cols=31 Identities=16% Similarity=0.354 Sum_probs=23.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++.++ .++.++||+|+||||+..-|+-+.-
T Consensus 488 sfti~pGe~vALVGPSGsGKSTiasLL~rfY~ 519 (716)
T KOG0058 488 SFTIRPGEVVALVGPSGSGKSTIASLLLRFYD 519 (716)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 46407997799988999888999999997368
No 328
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=95.64 E-value=0.01 Score=33.36 Aligned_cols=31 Identities=23% Similarity=0.314 Sum_probs=23.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++++ ....|+|++|+||||++..|.-++-
T Consensus 485 sl~i~~Ge~vaIvG~sGsGKSTL~kll~Gl~~ 516 (694)
T TIGR03375 485 SLTIRPGEKVAIIGRIGSGKSTLLKLLLGLYQ 516 (694)
T ss_pred HHEECCCCEEEEEECCCCCHHHHHHHHCCCCC
T ss_conf 11887997899980589878899998556758
No 329
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=95.64 E-value=0.031 Score=30.93 Aligned_cols=29 Identities=17% Similarity=0.186 Sum_probs=22.3
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf 999907986578999999998579775643
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQRRK 82 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~~~ 82 (110)
..|+|+-|+||||+.||+.+. .|...|..
T Consensus 2 iai~gH~gaGKTtL~EalL~~-ag~i~r~G 30 (270)
T cd01886 2 IGIIAHIDAGKTTTTERILYY-TGRIHKIG 30 (270)
T ss_pred EEEEECCCCCHHHHHHHHHHH-CCCCCCCC
T ss_conf 899968999988999999986-68735581
No 330
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=95.61 E-value=0.011 Score=33.22 Aligned_cols=24 Identities=33% Similarity=0.555 Sum_probs=21.3
Q ss_pred CCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 689869999079865789999999
Q gi|254780640|r 48 FADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+.+..+++.|+.|.||||++.+|.
T Consensus 159 l~~k~~v~~G~SGvGKSSLiN~L~ 182 (287)
T cd01854 159 LKGKTSVLVGQSGVGKSTLINALL 182 (287)
T ss_pred HCCCEEEEECCCCCCHHHHHHHHC
T ss_conf 479889998899888899998746
No 331
>KOG0061 consensus
Probab=95.59 E-value=0.038 Score=30.53 Aligned_cols=53 Identities=23% Similarity=0.243 Sum_probs=33.2
Q ss_pred EEEEEEEEEEEECE----ECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 01689989999540----13683179986898-6999907986578999999998579
Q gi|254780640|r 24 KLIFKLLDIEISHF----RGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 24 ~~~~kl~~i~i~nF----r~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
...|+-..+...+. +..-....-.+.+| +..|.||-|+||||+++||..-..+
T Consensus 25 ~~~~~~~~~~~~~~~~~~k~iL~~vsg~~~~Gel~AimG~SGsGKtTLL~~Lagr~~~ 82 (613)
T KOG0061 25 KLSFRNLTLSSKEKSKKTKTILKGVSGTAKPGELLAIMGPSGSGKTTLLNALAGRLNG 82 (613)
T ss_pred EEEEEEEEEECCCCCCCCCEEECCCEEEEECCEEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 5676427987157886500432187799867868999768887799999999577887
No 332
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein; InterPro: IPR011918 This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins ..
Probab=95.58 E-value=0.0094 Score=33.55 Aligned_cols=25 Identities=24% Similarity=0.368 Sum_probs=21.1
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...-|+||-|+|||||++-|.-++-
T Consensus 367 EtvAlVGPSGAGKSTlf~LLLRFYD 391 (576)
T TIGR02204 367 ETVALVGPSGAGKSTLFQLLLRFYD 391 (576)
T ss_pred CEEEEECCCCCHHHHHHHHHHHCCC
T ss_conf 6588766887627999999986048
No 333
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein; InterPro: IPR011924 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents LolD, a member of the ABC transporter family. 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 the residue immediately following the 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. Excluded from this entry are homologs from the archaeal genus Methanosarcina .; GO: 0005524 ATP binding, 0006810 transport, 0016020 membrane.
Probab=95.48 E-value=0.011 Score=33.23 Aligned_cols=22 Identities=27% Similarity=0.492 Sum_probs=19.0
Q ss_pred CCEEEEEECCCCCHHHHHHHHH
Q ss_conf 9869999079865789999999
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~ 71 (110)
..++.|+|.-|+||||+|.-|.
T Consensus 31 GE~~~IvG~SGSGKSTLLHlLG 52 (221)
T TIGR02211 31 GEIVAIVGSSGSGKSTLLHLLG 52 (221)
T ss_pred CCEEEEECCCCCCHHHHHHHHH
T ss_conf 6337987367871689999873
No 334
>pfam06414 Zeta_toxin Zeta toxin. This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid.
Probab=95.45 E-value=0.019 Score=32.03 Aligned_cols=40 Identities=25% Similarity=0.293 Sum_probs=28.0
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHH
Q ss_conf 8986999907986578999999998579775643313331
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIK 88 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~ 88 (110)
.|...++.|++|+|||++...+.--+.+.....-+.|.++
T Consensus 11 ~Pkai~laG~pGAGKS~~~~~~~~~~~~~~~v~In~D~~r 50 (191)
T pfam06414 11 RPVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDELR 50 (191)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHCCCCCCEEECCHHHH
T ss_conf 9879999579988889999999875378993897135878
No 335
>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=95.44 E-value=0.014 Score=32.71 Aligned_cols=25 Identities=32% Similarity=0.384 Sum_probs=21.7
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.|+.+|.|+.|+||||.+.|+.-.+
T Consensus 1 ~GliLitG~TGSGKTTtl~all~~i 25 (198)
T cd01131 1 RGLVLVTGPTGSGKSTTLAAMIDYI 25 (198)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 9389998999997999999999853
No 336
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.44 E-value=0.004 Score=35.42 Aligned_cols=36 Identities=31% Similarity=0.306 Sum_probs=25.2
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHH
Q ss_conf 8699990798657899999999857977564331333
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSI 87 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i 87 (110)
.+.++-|+||+||||+...+..-+-+ ....-+.|.+
T Consensus 3 ~l~IvaG~NGsGKstv~~~~~~~~~~-~~~~VN~D~i 38 (187)
T COG4185 3 RLDIVAGPNGSGKSTVYASTLAPLLP-GIVFVNADEI 38 (187)
T ss_pred EEEEEECCCCCCCEEEEECCCHHHCC-CEEEECHHHH
T ss_conf 58999668888732543102322148-7599877998
No 337
>PRK00349 uvrA excinuclease ABC subunit A; Reviewed
Probab=95.43 E-value=0.02 Score=31.94 Aligned_cols=45 Identities=27% Similarity=0.440 Sum_probs=32.9
Q ss_pred CEEEEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHH-HHH
Q ss_conf 101689989999540136831799868986999907986578999-999
Q gi|254780640|r 23 RKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLS-EAI 70 (110)
Q Consensus 23 ~~~~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil-~ai 70 (110)
+.-+..|.....+|.++. + .+|+.. -+++|.|.-|+||||++ |.|
T Consensus 611 ~~~~l~l~~a~~~NLk~v-~-v~iPlg-~lt~VtGvSGSGKStLi~~~l 656 (944)
T PRK00349 611 NGKFLKLKGARENNLKNV-D-VEIPLG-KFTCVTGVSGSGKSTLINETL 656 (944)
T ss_pred CCCEEEECCCCCCCCCCC-C-EEECCC-CEEEEECCCCCCHHHHHHHHH
T ss_conf 875486258302058876-4-354389-668996147886379999999
No 338
>PRK13898 type IV secretion system ATPase VirB4; Provisional
Probab=95.43 E-value=0.021 Score=31.81 Aligned_cols=34 Identities=21% Similarity=0.215 Sum_probs=26.7
Q ss_pred EEEECC---CCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 799868---9869999079865789999999985797
Q gi|254780640|r 44 QKIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 44 ~~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
..++|+ -|-++|+|+.|+|||+++.+|...+.-.
T Consensus 437 y~fNfH~~d~GHtlI~G~TGsGKTtl~~fL~aq~~ky 473 (800)
T PRK13898 437 FYFNFHVRDVGHTLIIGPTGAGKTVLMNFLCAQAMKF 473 (800)
T ss_pred EEEECCCCCCCCEEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf 7986745987756998999998999999999998754
No 339
>PRK00349 uvrA excinuclease ABC subunit A; Reviewed
Probab=95.42 E-value=0.038 Score=30.51 Aligned_cols=40 Identities=25% Similarity=0.475 Sum_probs=26.7
Q ss_pred EEEEEEEECEECCCCCEEEECC-CCEEEEEECCCCCHHHH-HHHHH
Q ss_conf 9989999540136831799868-98699990798657899-99999
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFA-DHLTIVNGQNGYGKSSL-SEAIE 71 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~-~~~~~i~G~Ng~GKSti-l~ai~ 71 (110)
.|.-...+|.+++ ++++. ..++||.|+-|+||||+ +|-|.
T Consensus 7 ~i~GAr~hNLKni----~v~IP~~klvViTGvSGSGKSSLAFDTly 48 (944)
T PRK00349 7 VIRGAREHNLKNI----DLDIPRDKLVVITGLSGSGKSSLAFDTIY 48 (944)
T ss_pred EEECCCCCCCCCE----EECCCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf 9933450467761----24357998899988988868999988788
No 340
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=95.41 E-value=0.029 Score=31.13 Aligned_cols=40 Identities=15% Similarity=0.292 Sum_probs=29.1
Q ss_pred CEECCCCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 401368317998689-86999907986578999999998579
Q gi|254780640|r 36 HFRGFTEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 36 nFr~f~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
|.... +...+.+.+ .+.+++||.|+||||.|.-|.-++-.
T Consensus 13 ~~~av-~~v~l~I~~gef~vliGpSGsGKTTtLkMINrLiep 53 (309)
T COG1125 13 NKKAV-DDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRLIEP 53 (309)
T ss_pred CCEEE-EEEEEEECCCEEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 73233-222577659728999878997578799999605588
No 341
>KOG0927 consensus
Probab=95.36 E-value=0.01 Score=33.39 Aligned_cols=25 Identities=32% Similarity=0.303 Sum_probs=20.9
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.-+-++||||+||||+|.-+.+.+-
T Consensus 417 srvAlVGPNG~GKsTLlKl~~gdl~ 441 (614)
T KOG0927 417 SRVALVGPNGAGKSTLLKLITGDLQ 441 (614)
T ss_pred CCEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 4224766898764666788750346
No 342
>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=95.30 E-value=0.025 Score=31.38 Aligned_cols=25 Identities=32% Similarity=0.348 Sum_probs=21.7
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..+..|+|..|+||||++..|..+=
T Consensus 32 GeI~GIIG~SGAGKSTLiR~iN~Le 56 (339)
T COG1135 32 GEIFGIIGYSGAGKSTLLRLINLLE 56 (339)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 8689997488886788999985657
No 343
>KOG0059 consensus
Probab=95.29 E-value=0.0092 Score=33.58 Aligned_cols=46 Identities=22% Similarity=0.218 Sum_probs=31.9
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCC
Q ss_conf 7998689-8699990798657899999999857977564331333102445
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIK 93 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~ 93 (110)
..+.+.+ ....+.|+||+||||++. ++.|..+...-...+...+..
T Consensus 584 ls~~V~~gecfGLLG~NGAGKTT~f~----mltG~~~~tsG~a~i~g~si~ 630 (885)
T KOG0059 584 LSFAVPPGECFGLLGVNGAGKTTTFK----MLTGETKPTSGEALIKGHDIT 630 (885)
T ss_pred EEEEECCCCEEEEECCCCCCCEEEHH----HHHCCCCCCCCEEEECCCCCC
T ss_conf 07867687468884588886202032----550887776532886045444
No 344
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=95.29 E-value=0.024 Score=31.49 Aligned_cols=31 Identities=29% Similarity=0.384 Sum_probs=24.0
Q ss_pred EEECC---CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 99868---98699990798657899999999857
Q gi|254780640|r 45 KIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++|+ -|-++|+||.|+|||+++..|...+-
T Consensus 433 ~fN~H~gdvGHtlI~GpTGsGKTvll~~l~~q~~ 466 (815)
T PRK13873 433 RLSLHVGDVGHTLVVGPTGAGKSVLLALMALQFR 466 (815)
T ss_pred EEECCCCCCCCEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 8766468876438978899989999999999986
No 345
>KOG0060 consensus
Probab=95.28 E-value=0.011 Score=33.27 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=33.4
Q ss_pred EEEEEEEEEEEECEEC-C--CCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 0168998999954013-6--8317998689-8699990798657899999999857
Q gi|254780640|r 24 KLIFKLLDIEISHFRG-F--TEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~-f--~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
-..+++.++.+..=-+ - .+.-+++..+ .--+|.||||+||||++.++.-+..
T Consensus 431 Dn~i~~e~v~l~tPt~g~~lie~Ls~~V~~g~~LLItG~sG~GKtSLlRvlggLWp 486 (659)
T KOG0060 431 DNAIEFEEVSLSTPTNGDLLIENLSLEVPSGQNLLITGPSGCGKTSLLRVLGGLWP 486 (659)
T ss_pred CCEEEEEEEEECCCCCCCEEEEEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 64589631011089998656321005705897599978998763689999853251
No 346
>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]
Probab=95.22 E-value=0.011 Score=33.28 Aligned_cols=25 Identities=24% Similarity=0.314 Sum_probs=18.5
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHH
Q ss_conf 7998689-869999079865789999
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSE 68 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ 68 (110)
.++.... .+..+.||||+||||.+.
T Consensus 23 Vsl~v~~GEiVGLLGPNGAGKTT~Fy 48 (243)
T COG1137 23 VSLEVNSGEIVGLLGPNGAGKTTTFY 48 (243)
T ss_pred EEEEECCCCEEEEECCCCCCCEEEEE
T ss_conf 56887278589887788888515899
No 347
>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]
Probab=95.17 E-value=0.031 Score=30.93 Aligned_cols=24 Identities=25% Similarity=0.317 Sum_probs=13.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 869999079865789999999985
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+..|+|+||.||||.+..|.--+
T Consensus 101 ~V~GilG~NGiGKsTalkILaGel 124 (591)
T COG1245 101 KVVGILGPNGIGKSTALKILAGEL 124 (591)
T ss_pred CEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 479987689765788999974760
No 348
>pfam00437 GSPII_E Type II/IV secretion system protein. This family contains both type II and type IV pathway secretion proteins from bacteria. VirB11 ATPase is a subunit of the Agrobacterium tumefaciens transfer DNA (T-DNA) transfer system, a type IV secretion pathway required for delivery of T-DNA and effector proteins to plant cells during infection.
Probab=95.10 E-value=0.025 Score=31.45 Aligned_cols=26 Identities=27% Similarity=0.261 Sum_probs=22.4
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+..+|.|+.|+||||++.|+.-.+.
T Consensus 139 ~~~ilIsG~TGSGKTT~l~all~~i~ 164 (283)
T pfam00437 139 RGNILVSGGTGSGKTTLLYALLNEIN 164 (283)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 97599988999988999999998408
No 349
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.07 E-value=0.025 Score=31.38 Aligned_cols=27 Identities=26% Similarity=0.388 Sum_probs=24.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 999907986578999999998579775
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
-+++||.|+||||+..++.--++|.+.
T Consensus 40 lLf~GppG~GKTt~a~~la~~l~~~~~ 66 (318)
T PRK00440 40 LLFAGPPGTGKTTAALALARELYGEYW 66 (318)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf 988895998899999999999769864
No 350
>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=95.05 E-value=0.023 Score=31.64 Aligned_cols=28 Identities=18% Similarity=0.318 Sum_probs=23.6
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 8986999907986578999999998579
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+++.+|+|+-|+|||+++.++.--+-.
T Consensus 42 ~~g~~lltGe~GtGKTtllr~l~~~l~~ 69 (269)
T TIGR03015 42 REGFILITGEVGAGKTTLIRNLLKRLDQ 69 (269)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 8965999729989889999999984593
No 351
>KOG0989 consensus
Probab=95.02 E-value=0.03 Score=31.04 Aligned_cols=28 Identities=21% Similarity=0.166 Sum_probs=25.2
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8699990798657899999999857977
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
..-+++||+|+||||-.-|+.-.++|..
T Consensus 58 p~~LFyGPpGTGKTStalafar~L~~~~ 85 (346)
T KOG0989 58 PHYLFYGPPGTGKTSTALAFARALNCEQ 85 (346)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 6078668999867689999999855742
No 352
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=95.01 E-value=0.046 Score=30.07 Aligned_cols=40 Identities=30% Similarity=0.498 Sum_probs=24.4
Q ss_pred EEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHH
Q ss_conf 6899899995401368317998689869999079865789999
Q gi|254780640|r 26 IFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSE 68 (110)
Q Consensus 26 ~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ 68 (110)
++.|.....+|.++. + .+|++. -++++.|.-|+||||++.
T Consensus 600 ~i~i~ga~~nNLk~i-~-v~iPlg-~l~~VTGVSGSGKSTLi~ 639 (1809)
T PRK00635 600 TLTLSHATIHNLKDL-T-ISLPLG-RLTVVTGVSGSGKSSLIN 639 (1809)
T ss_pred EEEEECCCCCCCCCC-C-EEECCC-CEEEEECCCCCCHHHHHH
T ss_conf 389804652169875-5-350698-789995889999788488
No 353
>KOG0054 consensus
Probab=95.00 E-value=0.031 Score=30.98 Aligned_cols=21 Identities=52% Similarity=0.547 Sum_probs=15.4
Q ss_pred CEEEEEECCCCCHHHHHHHHH
Q ss_conf 869999079865789999999
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~ 71 (110)
.++.|+|+-|+||||++.||.
T Consensus 548 ~lvaVvG~vGsGKSSLL~AiL 568 (1381)
T KOG0054 548 QLVAVVGPVGSGKSSLLSAIL 568 (1381)
T ss_pred CEEEEECCCCCCHHHHHHHHH
T ss_conf 889998999888899999996
No 354
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=94.99 E-value=0.039 Score=30.47 Aligned_cols=16 Identities=44% Similarity=0.630 Sum_probs=8.8
Q ss_pred CEEEEEECCCCCHHHH
Q ss_conf 8699990798657899
Q gi|254780640|r 51 HLTIVNGQNGYGKSSL 66 (110)
Q Consensus 51 ~~~~i~G~Ng~GKSti 66 (110)
.++||.|.-|+||||+
T Consensus 962 kLvViTGvSGSGKSSL 977 (1809)
T PRK00635 962 ALTAITGPSASGKHSL 977 (1809)
T ss_pred CEEEEECCCCCCHHHH
T ss_conf 6699978988868999
No 355
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=94.96 E-value=0.033 Score=30.81 Aligned_cols=33 Identities=21% Similarity=0.173 Sum_probs=25.5
Q ss_pred EEEECC---CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 799868---986999907986578999999998579
Q gi|254780640|r 44 QKIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..++|+ -|-++|+||.|+|||+++..+..-+--
T Consensus 479 f~fN~Hv~DvGHTlIiGpTGaGKTvll~fL~aQ~~r 514 (852)
T PRK13891 479 FRLNLHVRDLGHTFMFGPTGAGKSTHLGIIAAQLRR 514 (852)
T ss_pred EEEECCCCCCCCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 478545688664078789999889999999999744
No 356
>TIGR00630 uvra excinuclease ABC, A subunit; InterPro: IPR004602 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products . The UvrC protein contain 4 conserved regions: a central region which interact with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases.; GO: 0009381 excinuclease ABC activity, 0006289 nucleotide-excision repair, 0009380 excinuclease repair complex.
Probab=94.95 E-value=0.029 Score=31.12 Aligned_cols=38 Identities=29% Similarity=0.501 Sum_probs=26.0
Q ss_pred EEEEEECEECCCCCEEEECC-CCEEEEEECCCCCHHHH-HHHHH
Q ss_conf 89999540136831799868-98699990798657899-99999
Q gi|254780640|r 30 LDIEISHFRGFTEIQKIEFA-DHLTIVNGQNGYGKSSL-SEAIE 71 (110)
Q Consensus 30 ~~i~i~nFr~f~~~~~i~f~-~~~~~i~G~Ng~GKSti-l~ai~ 71 (110)
.=..-+|.++. .++|. +.+.||.|.-||||||+ +|-|+
T Consensus 5 ~GARehNLKNI----~v~~Pr~~lVViTG~SGSGKSSLAFDTiY 44 (956)
T TIGR00630 5 RGAREHNLKNI----DVEIPRDKLVVITGLSGSGKSSLAFDTIY 44 (956)
T ss_pred EECCCCCCCCE----EEECCCCCEEEEECCCCCCCHHHHHHHHH
T ss_conf 00200177330----34138986699974568861545654676
No 357
>KOG2355 consensus
Probab=94.94 E-value=0.017 Score=32.21 Aligned_cols=21 Identities=29% Similarity=0.512 Sum_probs=18.4
Q ss_pred CEEEEEECCCCCHHHHHHHHH
Q ss_conf 869999079865789999999
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~ 71 (110)
.-.+++|.||+||||++..+.
T Consensus 41 sRcLlVGaNGaGKtTlLKiLs 61 (291)
T KOG2355 41 SRCLLVGANGAGKTTLLKILS 61 (291)
T ss_pred CEEEEEECCCCCHHHHHHHHC
T ss_conf 647998058875454698865
No 358
>TIGR02868 CydC ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydC; InterPro: IPR014223 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents CydC, a member of a heterodimeric ATP-binding cassette-type transporter (ABC transporter). It is involved in the export of glutathione from the cytoplasm to the periplasm and is required for the assembly of both cytochrome c and cytochrome bd , , .; GO: 0042626 ATPase activity coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane.
Probab=94.93 E-value=0.022 Score=31.65 Aligned_cols=54 Identities=19% Similarity=0.214 Sum_probs=33.0
Q ss_pred CEEEEEEEEEEEECEECC---CCCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 101689989999540136---8317998689-86999907986578999999998579
Q gi|254780640|r 23 RKLIFKLLDIEISHFRGF---TEIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 23 ~~~~~kl~~i~i~nFr~f---~~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..+..++..+....=.+= -+..+++..+ .-.-|+|+.|+||||++..|.-++-.
T Consensus 356 ~~p~L~~~~ls~~~pg~~~~vl~~V~L~l~~G~r~Ai~G~SG~GKsTLL~~L~G~l~P 413 (566)
T TIGR02868 356 DKPTLELRDLSVGYPGAPPNVLDGVSLDLPPGERVAILGPSGSGKSTLLATLAGLLDP 413 (566)
T ss_pred CCCEEEEEEEEEECCCCCHHHHCCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 8750789877652698734654278641138860898668876578999999840289
No 359
>TIGR01192 chvA glucan exporter ATP-binding protein; InterPro: IPR005896 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family contains glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. In general, this protein is in some ways implicated in osmo-regulation and is suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bacterial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmo-adaptaion are related. ; GO: 0005215 transporter activity, 0006810 transport.
Probab=94.91 E-value=0.072 Score=29.13 Aligned_cols=72 Identities=13% Similarity=0.304 Sum_probs=41.7
Q ss_pred EEEEEEEEEEEECEECCCCCEEEECC---CCEEEEEECCCCCHHHHHHHHHHHHCCCCCC----CCCHHHHHHCCCCCCC
Q ss_conf 01689989999540136831799868---9869999079865789999999985797756----4331333102445741
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQKIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFYGYTQR----RKHGDSIKKRSIKTPM 96 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~g~~~~----~~~~d~i~~~s~~~pi 96 (110)
.+-|+=.+-++-|=.. +-..+.|. .....|+||.|+||||++.-|+-+.-...=. ..+-..+.+.|++..+
T Consensus 334 ~v~F~~i~f~FaNs~Q--GV~dvSF~~KAG~TvAIVGPTGAGKTTLiNLLQRVydP~~G~I~IDG~~I~~v~r~SLR~s~ 411 (592)
T TIGR01192 334 AVEFRDITFEFANSSQ--GVFDVSFEAKAGQTVAIVGPTGAGKTTLINLLQRVYDPKVGQILIDGIDINTVTRESLRKSI 411 (592)
T ss_pred EEEEEEEEECCCCCCC--CCEEEEEEEECCCEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEECCEEHHHHCHHHHHHHH
T ss_conf 7888753104787668--83000366524756898778997178998877531069865488724240010347788788
Q ss_pred E
Q ss_conf 2
Q gi|254780640|r 97 P 97 (110)
Q Consensus 97 ~ 97 (110)
.
T Consensus 412 A 412 (592)
T TIGR01192 412 A 412 (592)
T ss_pred H
T ss_conf 7
No 360
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.85 E-value=0.026 Score=31.30 Aligned_cols=51 Identities=24% Similarity=0.290 Sum_probs=33.1
Q ss_pred EEEEEEEEEEEECEECCCCCE----EEECCCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 016899899995401368317----998689869999079865789999999985
Q gi|254780640|r 24 KLIFKLLDIEISHFRGFTEIQ----KIEFADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 24 ~~~~kl~~i~i~nFr~f~~~~----~i~f~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
...+|++.-++-.|....-.. -.+-+.|+.++.||.|+||||-+-|+---+
T Consensus 95 a~vlR~Ip~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTTlAamId~i 149 (353)
T COG2805 95 ALVLRLIPSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYI 149 (353)
T ss_pred EEEEECCCCCCCCHHHCCCCHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 7997616766899878199779999982879669986799996787999999998
No 361
>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]
Probab=94.84 E-value=0.028 Score=31.19 Aligned_cols=25 Identities=20% Similarity=0.356 Sum_probs=20.8
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+..+.||||.||||+..-|.-.+-
T Consensus 368 EvigilGpNgiGKTTFvk~LAG~ik 392 (591)
T COG1245 368 EVIGILGPNGIGKTTFVKLLAGVIK 392 (591)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 4899988887546779999856625
No 362
>COG3596 Predicted GTPase [General function prediction only]
Probab=94.84 E-value=0.025 Score=31.43 Aligned_cols=22 Identities=36% Similarity=0.554 Sum_probs=19.6
Q ss_pred CCEEE-EEECCCCCHHHHHHHHH
Q ss_conf 98699-99079865789999999
Q gi|254780640|r 50 DHLTI-VNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 50 ~~~~~-i~G~Ng~GKStil~ai~ 71 (110)
+++|+ |.|..|+||||++.||-
T Consensus 38 ~pvnvLi~G~TG~GKSSliNALF 60 (296)
T COG3596 38 EPVNVLLMGATGAGKSSLINALF 60 (296)
T ss_pred CCEEEEEECCCCCCHHHHHHHHH
T ss_conf 86158974377776889999997
No 363
>pfam08298 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=94.73 E-value=0.032 Score=30.86 Aligned_cols=29 Identities=31% Similarity=0.324 Sum_probs=23.9
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 89869999079865789999999985797
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
...+-++.||+|+|||+|.+.|.-.|-..
T Consensus 84 ~kqIllL~GPVGsGKSsl~e~LK~glE~y 112 (358)
T pfam08298 84 RKQILYLLGPVGGGKSSLAERLKKLLELV 112 (358)
T ss_pred CEEEEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf 10589997789877589999999872058
No 364
>KOG0055 consensus
Probab=94.70 E-value=0.073 Score=29.08 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=21.2
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 98689-86999907986578999999998579
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+...+ ....++|++|+||||++.-|+-+.-.
T Consensus 374 l~i~~G~~valVG~SGsGKST~i~LL~RfydP 405 (1228)
T KOG0055 374 LKIPSGQTVALVGPSGSGKSTLIQLLARFYDP 405 (1228)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 98279988999889998799999999972688
No 365
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.66 E-value=0.031 Score=30.92 Aligned_cols=58 Identities=24% Similarity=0.437 Sum_probs=33.2
Q ss_pred CCCCCCCEEEEEEEEEEEECE--E--CCCCCEE------EECCCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 211002101689989999540--1--3683179------98689869999079865789999999985
Q gi|254780640|r 17 LTSYYARKLIFKLLDIEISHF--R--GFTEIQK------IEFADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 17 ~~~~~~~~~~~kl~~i~i~nF--r--~f~~~~~------i~f~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
++..++-++.++|..-.-..+ - ++...+. +.=..|+.++.||.|+||||.|.+..--+
T Consensus 215 lP~~~GEkvVlRil~~~~~~l~l~~Lg~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 215 LPTFYGEKVVLRILDKDQVILDLEKLGMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred CCCCCCCEEEEEEECCCCCCCCHHHHCCCHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 78877857899983331246888783899889999999972897089996899998899999999986
No 366
>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=94.64 E-value=0.039 Score=30.43 Aligned_cols=27 Identities=26% Similarity=0.430 Sum_probs=23.2
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 898699990798657899999999857
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
...-.+|+||-|+|||++..+|.+.+.
T Consensus 18 ~~~~ill~GppGtGKT~la~~ia~~~~ 44 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLARAIANELF 44 (151)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf 998089989999886599999999712
No 367
>PRK10436 hypothetical protein; Provisional
Probab=94.60 E-value=0.034 Score=30.73 Aligned_cols=26 Identities=23% Similarity=0.281 Sum_probs=21.7
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 89869999079865789999999985
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..|+.++.||.|+||||-+.|+---+
T Consensus 214 p~GliLvtGPTGSGKTTTLya~L~~l 239 (461)
T PRK10436 214 PQGLVLVTGPTGSGKTVTLYSALQTL 239 (461)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 99779997899995699999999743
No 368
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=94.59 E-value=0.035 Score=30.66 Aligned_cols=26 Identities=19% Similarity=0.257 Sum_probs=21.5
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 89869999079865789999999985
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..|+.+|.||.|+||||.+.++-..+
T Consensus 79 ~~GlilitGptGSGKtTtl~a~l~~~ 104 (264)
T cd01129 79 PHGIILVTGPTGSGKTTTLYSALSEL 104 (264)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 99889997899997799999999864
No 369
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.57 E-value=0.03 Score=31.04 Aligned_cols=31 Identities=32% Similarity=0.405 Sum_probs=25.0
Q ss_pred EEECC---CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 99868---98699990798657899999999857
Q gi|254780640|r 45 KIEFA---DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~---~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+++|. .++|.|+|+.|+||||++..|.-+.-
T Consensus 16 ~a~~~~p~~GvTAlFG~SGsGKTslin~IaGL~r 49 (352)
T COG4148 16 DANFTLPARGITALFGPSGSGKTSLINMIAGLTR 49 (352)
T ss_pred EEECCCCCCCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 8743687785699964788871618989743477
No 370
>COG4694 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.55 E-value=0.053 Score=29.79 Aligned_cols=49 Identities=20% Similarity=0.175 Sum_probs=32.1
Q ss_pred EEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 9989999540136831799868986999907986578999999998579775
Q gi|254780640|r 28 KLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 28 kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
++...-+.| .+.+...+.|.+ +++++|.||+||||+-......--|.+.
T Consensus 7 ~~k~~g~~N--~~~gt~~~~fg~-v~lfyaeNG~gk~tlani~~~~~~gk~~ 55 (758)
T COG4694 7 GNKDKGQQN--VSSGTSQISFGK-VALFYAENGAGKETLANINFIYGSGKTT 55 (758)
T ss_pred CCCCCCEEC--CCCCCCCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf 644104004--789876454564-4888614786354799999999537665
No 371
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=94.54 E-value=0.034 Score=30.76 Aligned_cols=25 Identities=32% Similarity=0.368 Sum_probs=21.2
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..+.+|.||.|+|||||+.+|.--.
T Consensus 4 G~l~vlsgPSG~GKsTl~k~L~~~~ 28 (191)
T COG0194 4 GLLIVLSGPSGVGKSTLVKALLEDD 28 (191)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHC
T ss_conf 6399998998888899999998634
No 372
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=94.52 E-value=0.11 Score=28.18 Aligned_cols=30 Identities=30% Similarity=0.469 Sum_probs=21.8
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 9999079865789999999985797756433
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH 83 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~ 83 (110)
..|+|+-|+||||+.|++.+.- |...+...
T Consensus 2 i~iigH~~aGKTtL~E~lL~~~-g~i~~~G~ 31 (268)
T cd04170 2 IALVGHSGSGKTTLAEALLYAT-GAIDRLGS 31 (268)
T ss_pred EEEEECCCCCHHHHHHHHHHHC-CCCCCCCC
T ss_conf 8999089999899999999966-99665765
No 373
>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein; InterPro: IPR005285 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family includes transporters, whose physiological function is not yet established. These proteins are thought to confer resistance to the chemicals cycloheximide and sulphomethuron methyl, BFA, azole antifungal agents, other antifungal agents: amorolfine and terbinafine. Some of them could serve as an efflux pump of various antibiotics..
Probab=94.49 E-value=0.022 Score=31.71 Aligned_cols=20 Identities=35% Similarity=0.592 Sum_probs=11.5
Q ss_pred EEEEEECCCCCHHHHHHHHH
Q ss_conf 69999079865789999999
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~ 71 (110)
+|.+=|.-|+|||||||+|.
T Consensus 855 lTALMG~SGAGKTTLLn~La 874 (1466)
T TIGR00956 855 LTALMGASGAGKTTLLNVLA 874 (1466)
T ss_pred EEECCCCCCCCHHHHHHHHH
T ss_conf 76515788763578886443
No 374
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.48 E-value=0.058 Score=29.60 Aligned_cols=31 Identities=19% Similarity=0.518 Sum_probs=24.5
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+++.. ++..++|+||+||||-+-=|.+.+-
T Consensus 200 ~~~l~~g~VIaLVGvnGvGKTTTiAKLA~~l~ 231 (407)
T PRK12726 200 SFDLSNHRIISLIGQTGVGKTTTLVKLGWQLL 231 (407)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 02303690899989998978999999999999
No 375
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=94.45 E-value=0.036 Score=30.60 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=20.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 9999079865789999999985797756
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~ 80 (110)
..|+|+-|+||||+.|||.+.- |...+
T Consensus 5 iai~gH~gaGKTtL~EalL~~~-G~i~r 31 (267)
T cd04169 5 FAIISHPDAGKTTLTEKLLLFG-GAIRE 31 (267)
T ss_pred EEEECCCCCCHHHHHHHHHHHC-CCCCC
T ss_conf 9998479999899999999866-86333
No 376
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=94.43 E-value=0.086 Score=28.74 Aligned_cols=28 Identities=18% Similarity=0.265 Sum_probs=20.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCCC
Q ss_conf 99990798657899999999857977564
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQRR 81 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~~ 81 (110)
..|+|+-|+||||+.|||.+. .|...|.
T Consensus 2 iai~gH~~~GKTtL~e~lL~~-~g~i~r~ 29 (237)
T cd04168 2 IGILAHVDAGKTTLTESLLYT-SGAIRKL 29 (237)
T ss_pred EEEECCCCCCHHHHHHHHHHH-CCHHHHC
T ss_conf 899938998999999999996-5712226
No 377
>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=94.41 E-value=0.04 Score=30.38 Aligned_cols=26 Identities=31% Similarity=0.367 Sum_probs=22.5
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+..|.|+.|+|||+++..|.-++-
T Consensus 34 Gei~~iiGgSGsGKStlLr~I~Gll~ 59 (263)
T COG1127 34 GEILAILGGSGSGKSTLLRLILGLLR 59 (263)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf 81899988988689999999856578
No 378
>pfam00625 Guanylate_kin Guanylate kinase.
Probab=94.40 E-value=0.036 Score=30.65 Aligned_cols=24 Identities=25% Similarity=0.441 Sum_probs=20.3
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 869999079865789999999985
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+|+||.|+||+||+++|.--+
T Consensus 2 klivl~GPSG~GK~tl~~~L~~~~ 25 (182)
T pfam00625 2 RPIVLSGPSGVGKSHIKKALLDEY 25 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHC
T ss_conf 869998989999999999999848
No 379
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=94.33 E-value=0.11 Score=28.23 Aligned_cols=34 Identities=29% Similarity=0.357 Sum_probs=27.6
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 317998689-8699990798657899999999857
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+..+++... .+..|+|+.|+|||++..||--++-
T Consensus 22 ~~vs~~i~~GE~lgiVGESGsGKS~~~~aim~llp 56 (316)
T COG0444 22 DGVSFELKKGEILGIVGESGSGKSVLAKAIMGLLP 56 (316)
T ss_pred ECEEEEECCCCEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 14058875896899983897889999999984668
No 380
>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=94.28 E-value=0.039 Score=30.42 Aligned_cols=24 Identities=33% Similarity=0.417 Sum_probs=20.1
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 869999079865789999999985
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+|+||.|+||+||++.|.--.
T Consensus 2 ~livl~GpsG~GK~tl~~~l~~~~ 25 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEED 25 (180)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHC
T ss_conf 399998999889999999999768
No 381
>PTZ00265 multidrug resistance protein (mdr1); Provisional
Probab=94.25 E-value=0.059 Score=29.54 Aligned_cols=30 Identities=20% Similarity=0.362 Sum_probs=22.6
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98689-8699990798657899999999857
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+...+ ....|+|+.|+||||++.+|.-+.-
T Consensus 1190 f~I~~GqkVaiVGrSGsGKSTii~lL~Rfyd 1220 (1467)
T PTZ00265 1190 FSCDSKKTTAIVGETGSGKSTFMNLLLRFYD 1220 (1467)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf 9977998899989999839999999997763
No 382
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB; InterPro: IPR014149 This entry represents TrbB, a protein, which is encoded 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 homologue of the vir system VirB11 ATPase , and the Flp pilus system ATPase TadA ..
Probab=94.23 E-value=0.032 Score=30.87 Aligned_cols=25 Identities=28% Similarity=0.317 Sum_probs=20.3
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 6999907986578999999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
=.+|+|-.||||||+..|+--=+-.
T Consensus 141 NIlv~GGTGSGKTTLaNAlla~I~~ 165 (315)
T TIGR02782 141 NILVVGGTGSGKTTLANALLAEIAK 165 (315)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 8899814588579999999998852
No 383
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11; InterPro: IPR014155 This entry contains VirB11, a protein that 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 and is a homologue of the P-like conjugation system TrbB protein and the Flp pilus system protein TadA ..
Probab=94.12 E-value=0.036 Score=30.64 Aligned_cols=26 Identities=23% Similarity=0.313 Sum_probs=21.2
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98699990798657899999999857
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..-.+|.|..|+||||++.||--+..
T Consensus 158 ~knIii~GGTgSGKTTf~kal~~~IP 183 (328)
T TIGR02788 158 RKNIIISGGTGSGKTTFLKALVKEIP 183 (328)
T ss_pred CCEEEEEECCCCHHHHHHHHHHHCCC
T ss_conf 89199990689718999999973276
No 384
>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=94.11 E-value=0.042 Score=30.29 Aligned_cols=24 Identities=25% Similarity=0.394 Sum_probs=20.1
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 699990798657899999999857
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
-.+|.|+.|+||||++.|+...+.
T Consensus 27 nIlIsG~tGSGKTTll~al~~~i~ 50 (186)
T cd01130 27 NILISGGTGSGKTTLLNALLAFIP 50 (186)
T ss_pred CEEEECCCCCCHHHHHHHHHHHCC
T ss_conf 899989999989999999996133
No 385
>TIGR00955 3a01204 Pigment precourser permease; InterPro: IPR005284 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family includes different parts of a membrane-spanning permease system necessary for the transport of pigment precursor into pigment cells responsible for eye color. White protein dimerises with brown protein for the transport of guanine and with scarlet protein for the transport of tryptophan.; GO: 0006810 transport.
Probab=94.08 E-value=0.047 Score=30.05 Aligned_cols=24 Identities=29% Similarity=0.493 Sum_probs=20.8
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 869999079865789999999985
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+-.|-|.-|+||||++++|..--
T Consensus 59 eLlA~mGsSGAGKTTLmn~La~R~ 82 (671)
T TIGR00955 59 ELLAIMGSSGAGKTTLMNALAFRS 82 (671)
T ss_pred EEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 068984787662689999985337
No 386
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.06 E-value=0.064 Score=29.37 Aligned_cols=31 Identities=26% Similarity=0.472 Sum_probs=24.1
Q ss_pred EECCCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 9868986999907986578999999998579
Q gi|254780640|r 46 IEFADHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.+-.+.+.+++|+||+||||-+-=|.+.+-.
T Consensus 71 ~~~~~~vI~lvG~~G~GKTTT~AKLA~~~~~ 101 (270)
T PRK06731 71 FEKEVQTIALIGPTGVGKTTTLAKMAWQFHG 101 (270)
T ss_pred CCCCCEEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 6799818999888989889999999999986
No 387
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=93.99 E-value=0.077 Score=28.98 Aligned_cols=29 Identities=24% Similarity=0.307 Sum_probs=22.5
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 98689-869999079865789999999985
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+...+ .+..++||.|+||||++.-|....
T Consensus 23 ~~i~~Gef~fl~GpSGAGKSTllkLi~~~e 52 (223)
T COG2884 23 FHIPKGEFVFLTGPSGAGKSTLLKLIYGEE 52 (223)
T ss_pred EEECCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 764686089986788887899999998413
No 388
>KOG0066 consensus
Probab=93.98 E-value=0.048 Score=30.00 Aligned_cols=24 Identities=29% Similarity=0.337 Sum_probs=16.1
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 869999079865789999999985
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.-..|+||||.||||+|-.+.--+
T Consensus 614 SRiaIVGPNGVGKSTlLkLL~Gkl 637 (807)
T KOG0066 614 SRIAIVGPNGVGKSTLLKLLIGKL 637 (807)
T ss_pred CEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 406887888723889999996687
No 389
>PTZ00243 ABC transporter; Provisional
Probab=93.96 E-value=0.13 Score=27.76 Aligned_cols=30 Identities=23% Similarity=0.256 Sum_probs=23.1
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 98689-8699990798657899999999857
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+...+ .-..|+|..|+||||++-||.-+.-
T Consensus 1331 f~I~pGEKVGIVGRTGSGKSSLi~aLfRl~e 1361 (1560)
T PTZ00243 1331 FRIAPREKVGIVGRTGSGKSTLLLTFMRMVE 1361 (1560)
T ss_pred EEECCCCEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf 9988999999987987439999999970327
No 390
>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit; InterPro: IPR005892 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits this transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L. lactis functionally complements an Escherichia coli proU mutant. The complementing locus is similar to a opuA locus in Bacillus subtlis. This clarifies the differences in nomenclature.; GO: 0005524 ATP binding, 0015171 amino acid transmembrane transporter activity, 0006865 amino acid transport, 0016020 membrane.
Probab=93.90 E-value=0.067 Score=29.28 Aligned_cols=31 Identities=29% Similarity=0.506 Sum_probs=25.0
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 998689-8699990798657899999999857
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.++..+ -+.+|.|+.|+||||++.-|+-+.=
T Consensus 13 ~l~i~~GEi~vi~GlSGsGKsT~vrmlNRLIE 44 (372)
T TIGR01186 13 DLEIAKGEIFVIMGLSGSGKSTLVRMLNRLIE 44 (372)
T ss_pred EEEEECCEEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 01552543899977899857899999872257
No 391
>PRK00300 gmk guanylate kinase; Provisional
Probab=93.86 E-value=0.054 Score=29.76 Aligned_cols=25 Identities=28% Similarity=0.286 Sum_probs=21.2
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
..+.+|.||-|+||+||++.|.--.
T Consensus 7 g~livisGPSG~GK~tl~~~L~~~~ 31 (208)
T PRK00300 7 GLLIVLSAPSGAGKSTLVRALLERD 31 (208)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHC
T ss_conf 8389999999889999999999729
No 392
>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]
Probab=93.76 E-value=0.17 Score=27.31 Aligned_cols=35 Identities=20% Similarity=0.291 Sum_probs=25.3
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 317998689-86999907986578999999998579
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+..++++.+ .+..|+|+.|+||||+..+|.-+.-.
T Consensus 308 ~~VSf~l~~GE~lglVGeSGsGKSTlar~i~gL~~P 343 (539)
T COG1123 308 DDVSFDLREGETLGLVGESGSGKSTLARILAGLLPP 343 (539)
T ss_pred EEEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 012457638878999889999989999999487788
No 393
>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=93.76 E-value=0.05 Score=29.91 Aligned_cols=23 Identities=35% Similarity=0.550 Sum_probs=19.5
Q ss_pred EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 69999079865789999999985
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.+|.||-|+||+||++.|.-.+
T Consensus 1 livi~GPSG~GK~tl~~~L~~~~ 23 (137)
T cd00071 1 LIVLSGPSGVGKSTLLKRLLEEF 23 (137)
T ss_pred CEEEECCCCCCHHHHHHHHHHCC
T ss_conf 99999999889999999998519
No 394
>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]
Probab=93.66 E-value=0.095 Score=28.51 Aligned_cols=34 Identities=26% Similarity=0.275 Sum_probs=26.6
Q ss_pred EEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 7998689-869999079865789999999985797
Q gi|254780640|r 44 QKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 44 ~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.+++..+ .+..|+|+.|+|||++..+|.-++...
T Consensus 28 vsf~v~~GE~lgIvGESGsGKSt~a~~i~gll~~~ 62 (539)
T COG1123 28 VSFEVEPGEILGIVGESGSGKSTLALALMGLLPEG 62 (539)
T ss_pred CEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCCC
T ss_conf 24786489589998689888899999985548887
No 395
>PTZ00265 multidrug resistance protein (mdr1); Provisional
Probab=93.60 E-value=0.12 Score=28.02 Aligned_cols=30 Identities=27% Similarity=0.502 Sum_probs=23.9
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 998689-869999079865789999999985
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+.+.+ ..+.|+|+.|+|||||+..|+-+.
T Consensus 405 sl~i~~G~t~AlVG~SGsGKSTii~LL~RfY 435 (1467)
T PTZ00265 405 NFTLKEGKTYAFVGESGCGKSTILKLIERLY 435 (1467)
T ss_pred EEEECCCCEEEEECCCCCCHHHHHHHHHCCC
T ss_conf 3886389779986688875667999996326
No 396
>PRK05399 DNA mismatch repair protein; Provisional
Probab=93.59 E-value=0.1 Score=28.31 Aligned_cols=34 Identities=18% Similarity=0.386 Sum_probs=24.3
Q ss_pred CCCCCEEEECCC--CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 368317998689--86999907986578999999998
Q gi|254780640|r 39 GFTEIQKIEFAD--HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 39 ~f~~~~~i~f~~--~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
.|.. ..+.+++ .+.+|.|||-+||||.+..+..+
T Consensus 591 ~fVp-ND~~l~~~~~~~iiTGPNM~GKSTylRQvali 626 (848)
T PRK05399 591 PFVP-NDCDLDPERRMLLITGPNMAGKSTYMRQVALI 626 (848)
T ss_pred CEEE-EEEEECCCCCEEEEECCCCCCCHHHHHHHHHH
T ss_conf 7576-56886687617999568877708999999999
No 397
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.55 E-value=0.059 Score=29.55 Aligned_cols=25 Identities=20% Similarity=0.255 Sum_probs=20.6
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 6999907986578999999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-.+|.|+.|+||||++.|+...+-.
T Consensus 162 NilI~G~TgSGKTTll~aL~~~ip~ 186 (332)
T PRK13900 162 NIIISGGTSTGKTTFTNAALREIPA 186 (332)
T ss_pred CEEEECCCCCCHHHHHHHHHHCCCC
T ss_conf 1999888898899999999835895
No 398
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB; InterPro: IPR013374 This model describes a protein involved in type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly, and is closely related to GspE (IPR013369 from INTERPRO) of type II secretion systems (also referred to as the main terminal branch of the general secretion pathway). Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0009297 pilus biogenesis.
Probab=93.52 E-value=0.043 Score=30.26 Aligned_cols=50 Identities=28% Similarity=0.603 Sum_probs=29.0
Q ss_pred CCCEEEEEEE-----EEEEECEECCCCCEEEEC------CCCEEEEEECCCCCHHHH-HHHHH
Q ss_conf 0210168998-----999954013683179986------898699990798657899-99999
Q gi|254780640|r 21 YARKLIFKLL-----DIEISHFRGFTEIQKIEF------ADHLTIVNGQNGYGKSSL-SEAIE 71 (110)
Q Consensus 21 ~~~~~~~kl~-----~i~i~nFr~f~~~~~i~f------~~~~~~i~G~Ng~GKSti-l~ai~ 71 (110)
++=++.+||. +|-|+-. ||-+.|.=.| +-|+.++.||.|||||.- .-||.
T Consensus 287 fGEKvVLRiLDsS~a~Ldi~~L-GFeP~Qk~~fL~Ai~kPqGMvLVTGPTGSGKTVSLYTaLn 348 (577)
T TIGR02538 287 FGEKVVLRILDSSAAKLDIDKL-GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALN 348 (577)
T ss_pred CCCEEEEEEECHHHCCCCCHHH-CCCHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHC
T ss_conf 2444667765522122674220-6888899999999707997288626659841687876311
No 399
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=93.42 E-value=0.069 Score=29.21 Aligned_cols=26 Identities=23% Similarity=0.195 Sum_probs=22.0
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+-|.|+|+.|+|||+++..+..-+.-
T Consensus 437 ghT~I~G~tGaGKTvLl~~lla~~~k 462 (796)
T COG3451 437 GHTLIIGPTGAGKTVLLSFLLAQALK 462 (796)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 97499889888789999999999987
No 400
>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=93.36 E-value=0.07 Score=29.19 Aligned_cols=24 Identities=29% Similarity=0.429 Sum_probs=20.5
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 699990798657899999999857
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+.++.|..|+||||+-.+|.--+.
T Consensus 1 liiv~GvsGsGKSTia~~La~~lg 24 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAERLG 24 (150)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHC
T ss_conf 989991899999999999999719
No 401
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.30 E-value=0.07 Score=29.17 Aligned_cols=25 Identities=20% Similarity=0.321 Sum_probs=20.8
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 6999907986578999999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-.+|.|..|+||||++.||...+..
T Consensus 164 NIlIsGgTGSGKTTllnALl~~IP~ 188 (343)
T PRK13851 164 TMLLCGPTGSGKTTMSKTLISAIPP 188 (343)
T ss_pred CEEEECCCCCCHHHHHHHHHHCCCC
T ss_conf 8999888986199999999962896
No 402
>PRK08118 topology modulation protein; Reviewed
Probab=93.27 E-value=0.091 Score=28.61 Aligned_cols=22 Identities=32% Similarity=0.466 Sum_probs=19.1
Q ss_pred EEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9999079865789999999985
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l 74 (110)
..|+|..|+||||+...|.-.+
T Consensus 4 I~IiG~~GsGKSTlAr~L~~~~ 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
T ss_conf 9998899987999999999988
No 403
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=93.26 E-value=0.09 Score=28.63 Aligned_cols=33 Identities=27% Similarity=0.396 Sum_probs=24.8
Q ss_pred EEEECC-CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 799868-986999907986578999999998579
Q gi|254780640|r 44 QKIEFA-DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 44 ~~i~f~-~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..++.. ....++.||.|+||||++..+.-+...
T Consensus 24 vsL~ia~ge~vv~lGpSGcGKTTLLnl~AGf~~P 57 (259)
T COG4525 24 VSLTIASGELVVVLGPSGCGKTTLLNLIAGFVTP 57 (259)
T ss_pred CCEEECCCCEEEEECCCCCCHHHHHHHHHCCCCC
T ss_conf 5502358978999768886578899998627585
No 404
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=93.23 E-value=0.078 Score=28.94 Aligned_cols=26 Identities=23% Similarity=0.360 Sum_probs=21.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.-.+|.|..|+||||++.|+...+..
T Consensus 145 ~nilVsGgTGSGKTTllnaL~~~i~~ 170 (323)
T PRK13833 145 LNIVISGGTGSGKTTLANAVIAEIVA 170 (323)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf 96899917777568999999986402
No 405
>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=93.23 E-value=0.1 Score=28.32 Aligned_cols=36 Identities=19% Similarity=0.303 Sum_probs=24.6
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 317998689-869999079865789999999985797
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+..++.++. ..-.|+|.||+||||+..-|.-+.-..
T Consensus 30 ~~vSFtL~~~QTlaiIG~NGSGKSTLakMlaGmi~PT 66 (267)
T COG4167 30 KPVSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPT 66 (267)
T ss_pred CCEEEEECCCCEEEEECCCCCCHHHHHHHHHCCCCCC
T ss_conf 4157896079679998269974758999983555898
No 406
>pfam00448 SRP54 SRP54-type protein, GTPase domain. This family includes relatives of the G-domain of the SRP54 family of proteins.
Probab=93.17 E-value=0.11 Score=28.24 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=19.9
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9869999079865789999999985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.+..++||+|+||||-+-=|.+.+
T Consensus 1 P~vi~lvGptGvGKTTTiaKLAa~~ 25 (196)
T pfam00448 1 PNVILLVGLQGSGKTTTIAKLAAYL 25 (196)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 9699998999998899999999999
No 407
>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=93.12 E-value=0.098 Score=28.46 Aligned_cols=32 Identities=19% Similarity=0.283 Sum_probs=24.8
Q ss_pred EEECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 998689-86999907986578999999998579
Q gi|254780640|r 45 KIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 45 ~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
++++-+ .+-.|+|+.|+||||++.+|.--+..
T Consensus 26 sF~l~PGeVLgiVGESGSGKtTlL~~is~rl~p 58 (258)
T COG4107 26 SFDLYPGEVLGIVGESGSGKTTLLKCISGRLTP 58 (258)
T ss_pred CEEECCCCEEEEEECCCCCHHHHHHHHHCCCCC
T ss_conf 132227737999705887577699998645688
No 408
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=93.10 E-value=0.072 Score=29.13 Aligned_cols=21 Identities=38% Similarity=0.553 Sum_probs=18.5
Q ss_pred EEEEECCCCCHHHHHHHHHHH
Q ss_conf 999907986578999999998
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~ 73 (110)
..+.|+-|+||||++.|++-+
T Consensus 4 iaVtGesGaGKSSfINAlRGl 24 (197)
T cd04104 4 IAVTGESGAGKSSFINALRGV 24 (197)
T ss_pred EEEECCCCCCHHHHHHHHHCC
T ss_conf 999558998689999998688
No 409
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.09 E-value=0.11 Score=28.18 Aligned_cols=27 Identities=30% Similarity=0.473 Sum_probs=24.1
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 999907986578999999998579775
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
-+++||-|+||||...++.-.++|...
T Consensus 39 lLf~GPpG~GKTt~A~~lA~~l~~~~~ 65 (337)
T PRK12402 39 LVVYGPSGSGKTAAVRALARELYGDPW 65 (337)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf 988892984899999999999679975
No 410
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=93.03 E-value=0.074 Score=29.05 Aligned_cols=25 Identities=28% Similarity=0.298 Sum_probs=20.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 9999079865789999999985797
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
..|.||-|+||||++|++-..+-..
T Consensus 2 iGitG~pGaGKStLi~~l~~~~~~~ 26 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRAR 26 (148)
T ss_pred EEECCCCCCCHHHHHHHHHHHHHHC
T ss_conf 7625899787899999999999978
No 411
>TIGR01184 ntrCD nitrate ABC transporter, ATP-binding proteins C and D; InterPro: IPR005890 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). 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. ; GO: 0015112 nitrate transmembrane transporter activity, 0015706 nitrate transport, 0016020 membrane.
Probab=93.01 E-value=0.12 Score=28.07 Aligned_cols=44 Identities=30% Similarity=0.463 Sum_probs=31.0
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEE
Q ss_conf 869999079865789999999985797756433133310244574127
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPM 98 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l 98 (110)
.+.-++|+.|+||||+|.-|. |...+..-+=.+.-+.+..|.|=
T Consensus 12 EFisliGHSGCGKSTLLNli~----Gl~~P~~G~v~L~G~~i~~PGPd 55 (230)
T TIGR01184 12 EFISLIGHSGCGKSTLLNLIS----GLAQPTSGGVILEGKQITEPGPD 55 (230)
T ss_pred CEEEEECCCCCCHHHHHHHHH----HCCCCCCCCEEECCEECCCCCCC
T ss_conf 369985127861789999985----00577776167626241787696
No 412
>TIGR02528 EutP ethanolamine utilization protein, EutP; 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 10f 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 biogenic amine metabolic process.
Probab=93.01 E-value=0.044 Score=30.18 Aligned_cols=41 Identities=29% Similarity=0.459 Sum_probs=26.8
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCCCCC--HHHHHH-CCCCCCCE
Q ss_conf 9999079865789999999985797756433--133310-24457412
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQRRKH--GDSIKK-RSIKTPMP 97 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~--~d~i~~-~s~~~pi~ 97 (110)
..++|+.|+|||||..+|. |...+-+. .=.... ..+.||.+
T Consensus 3 ~~f~G~~gCGKTTL~q~L~----g~~~~YKKTQAvE~~~k~~IDTPGE 46 (144)
T TIGR02528 3 IMFIGSVGCGKTTLTQALQ----GEEIKYKKTQAVEYKDKEAIDTPGE 46 (144)
T ss_pred EEEEECCCCCHHHHHHHCC----CCCCCEEEEEEEEECCCCCCCCCCC
T ss_conf 7887158887443543116----8732102334454258886559850
No 413
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=93.01 E-value=0.13 Score=27.84 Aligned_cols=25 Identities=28% Similarity=0.490 Sum_probs=21.7
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..-.|.||.|+|||+++.++..+..
T Consensus 30 e~iaitGPSG~GKStllk~va~Lis 54 (223)
T COG4619 30 EFIAITGPSGCGKSTLLKIVASLIS 54 (223)
T ss_pred CEEEEECCCCCCHHHHHHHHHHCCC
T ss_conf 5488767887668899999981369
No 414
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.00 E-value=0.13 Score=27.80 Aligned_cols=57 Identities=14% Similarity=0.157 Sum_probs=35.8
Q ss_pred EECCCCEEEEEECCCCCHHHHHHHHHHHHCCCC--C----------CCCCHHHHHHCCCCCCCEEEEEE
Q ss_conf 986898699990798657899999999857977--5----------64331333102445741278996
Q gi|254780640|r 46 IEFADHLTIVNGQNGYGKSSLSEAIEWLFYGYT--Q----------RRKHGDSIKKRSIKTPMPMCMAV 102 (110)
Q Consensus 46 i~f~~~~~~i~G~Ng~GKStil~ai~~~l~g~~--~----------~~~~~d~i~~~s~~~pi~l~~~v 102 (110)
+.+..++..++||.|.||||-+-=|.|-+.... . |-...+.+.-+..-..+|++.+.
T Consensus 199 ~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~ 267 (407)
T COG1419 199 IVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVY 267 (407)
T ss_pred CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHHCCCEEEEC
T ss_conf 124685799989988758879999999997532576068997144115289999999998699559963
No 415
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=92.96 E-value=0.1 Score=28.39 Aligned_cols=25 Identities=28% Similarity=0.313 Sum_probs=21.2
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+...|+|+.|+|||-++.|+.+-..
T Consensus 35 npl~i~G~~G~GKTHLLqA~~~~~~ 59 (219)
T pfam00308 35 NPLFIYGGVGLGKTHLLHAIGNYAL 59 (219)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 8269988999988899999999999
No 416
>PRK01889 ribosome-associated GTPase; Reviewed
Probab=92.94 E-value=0.098 Score=28.45 Aligned_cols=24 Identities=29% Similarity=0.434 Sum_probs=19.7
Q ss_pred CCC-CEEEEEECCCCCHHHHHHHHH
Q ss_conf 689-869999079865789999999
Q gi|254780640|r 48 FAD-HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 48 f~~-~~~~i~G~Ng~GKStil~ai~ 71 (110)
+.+ ...++.|+.|.||||++.+|.
T Consensus 191 l~~GkT~vl~G~SGVGKSTLiN~L~ 215 (353)
T PRK01889 191 LKPGKTVALLGSSGVGKSTLVNALL 215 (353)
T ss_pred HHCCCEEEEECCCCCCHHHHHHHHC
T ss_conf 6349789997788866999998756
No 417
>pfam00485 PRK Phosphoribulokinase / Uridine kinase family. In Arabidopsis the region carries two binding domains, a phosphoribosylpyrophosphate-binding domain and, at the very C-terminus, a uracil-binding domain.
Probab=92.93 E-value=0.1 Score=28.42 Aligned_cols=26 Identities=23% Similarity=0.354 Sum_probs=21.9
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 69999079865789999999985797
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+..|.|+-|+||||+...|.-.|...
T Consensus 1 iIgIaG~SgSGKTT~a~~L~~~l~~~ 26 (196)
T pfam00485 1 IIGVAGSSGAGKTTVARTFVSIFGRE 26 (196)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf 98998998571999999999996605
No 418
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=92.83 E-value=0.021 Score=31.76 Aligned_cols=38 Identities=18% Similarity=0.406 Sum_probs=27.3
Q ss_pred ECEECCCCCEEEECCCCEEEEEECCCCCHHHHHHHHHH
Q ss_conf 54013683179986898699990798657899999999
Q gi|254780640|r 35 SHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 35 ~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil~ai~~ 72 (110)
.+|+.|+...-=.|...+.+|.|..|+|||-||.++.-
T Consensus 122 GGYKayR~~v~~~l~~~~~vl~G~TG~GKT~lL~~L~~ 159 (333)
T PRK11784 122 GGYKAYRRFVIDTLEEPLVVLGGMTGSGKTRLLQALAN 159 (333)
T ss_pred CCHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHH
T ss_conf 60899999999985468599867888778999999997
No 419
>pfam00004 AAA ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Probab=92.71 E-value=0.091 Score=28.60 Aligned_cols=21 Identities=29% Similarity=0.536 Sum_probs=18.6
Q ss_pred EEEECCCCCHHHHHHHHHHHH
Q ss_conf 999079865789999999985
Q gi|254780640|r 54 IVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 54 ~i~G~Ng~GKStil~ai~~~l 74 (110)
+++||-|+|||++..||.--+
T Consensus 2 Ll~GppGtGKT~~a~~la~~~ 22 (131)
T pfam00004 2 LLYGPPGTGKTTLAKAVAKEL 22 (131)
T ss_pred EEECCCCCCHHHHHHHHHHHH
T ss_conf 878999999999999999997
No 420
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=92.68 E-value=0.17 Score=27.22 Aligned_cols=34 Identities=24% Similarity=0.210 Sum_probs=25.2
Q ss_pred CCEEEECCC-CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 317998689-8699990798657899999999857
Q gi|254780640|r 42 EIQKIEFAD-HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 42 ~~~~i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+..+++..+ ....|+|++|+||||+-..|.-+.-
T Consensus 30 d~Vsf~i~~ge~~glVGESG~GKSTlgr~i~~L~~ 64 (268)
T COG4608 30 DGVSFSIKEGETLGLVGESGCGKSTLGRLILGLEE 64 (268)
T ss_pred CCEEEEECCCCEEEEEECCCCCHHHHHHHHHCCCC
T ss_conf 11568975898789993688877879999972838
No 421
>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=92.66 E-value=0.12 Score=28.03 Aligned_cols=25 Identities=16% Similarity=0.315 Sum_probs=21.0
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 6999907986578999999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+..|.|+-|+||||+...|.-.|..
T Consensus 1 iIgIaG~SgSGKTT~a~~L~~~l~~ 25 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRV 25 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 9899898977899999999999846
No 422
>pfam09439 SRPRB Signal recognition particle receptor beta subunit. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase which anchors the alpha subunit to the endoplasmic reticulum membrane.
Probab=92.63 E-value=0.13 Score=27.78 Aligned_cols=22 Identities=27% Similarity=0.348 Sum_probs=18.8
Q ss_pred CCEEEEEECCCCCHHHHHHHHH
Q ss_conf 9869999079865789999999
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~ 71 (110)
.+-.+|.|+.|+|||+|+.-|.
T Consensus 3 ~ptvLllGl~~sGKT~Lf~~L~ 24 (181)
T pfam09439 3 QPAVIIAGLCDSGKTSLFTLLT 24 (181)
T ss_pred CCEEEEECCCCCCHHHHHHHHH
T ss_conf 8869998689998999999997
No 423
>PRK05480 uridine kinase; Provisional
Probab=92.62 E-value=0.16 Score=27.42 Aligned_cols=27 Identities=19% Similarity=0.195 Sum_probs=23.2
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 869999079865789999999985797
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
=+..|.|+.|+||||+.+.|.-.|...
T Consensus 7 ~iIgIaG~SgSGKTT~a~~L~~~l~~~ 33 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEELGDE 33 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 899998999778999999999980868
No 424
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein B; InterPro: IPR004435 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cisdithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism , . In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which coverts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner . MoCF is the active co-factor in eukaryotic and some prokaryotic molybdoenzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdoenzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF . Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 () of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) . The MobB domain is similar to that of the urease accessory protein UreG and the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocentres of their respective target enzymes. It is involved in the final step of molybdenum-cofactor biosynthesis. While its precise function has not been identified it is thought to be involved in the transfer of a guanine dinucleotide moiety to molybdopterin, as it shows GTP-binding and weak GTPase activity . The MobB protein (P32125 from SWISSPROT) from Escherichia coli, which is comprised of this domain, is a homodimer . Each molecule is composed of two distinct regions - an outer region comprised of 6 beta-strands and three alpha helices, and an inner region comprised of a two-strand beta hairpin followed by an alpha helix. These regions require interaction with the second monomer to allow proper folding to occur. The two monomers are intertwined and form an extensive 16-stranded beta-sheet. While the active site could not be positively identified, the presence of highly conserved residues suggests the substrate binding site occurs in the central solvent channel.; GO: 0005525 GTP binding, 0006777 Mo-molybdopterin cofactor biosynthetic process.
Probab=92.60 E-value=0.13 Score=27.89 Aligned_cols=27 Identities=19% Similarity=0.192 Sum_probs=23.0
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 699990798657899999999857977
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
+..|+|.-++||||+++++--.|-.+.
T Consensus 1 v~~i~G~k~SGKTtL~~~l~~~L~~~G 27 (165)
T TIGR00176 1 VLQIVGYKNSGKTTLIERLVKALKARG 27 (165)
T ss_pred CEEEEEECCCCHHHHHHHHHHHHHCCC
T ss_conf 937896258867899999999997079
No 425
>TIGR00064 ftsY signal recognition particle-docking protein FtsY; InterPro: IPR004390 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family includes the cell division ABC transporter and the periplasmic substrate-binding protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In Escherichia 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.; GO: 0005525 GTP binding.
Probab=92.56 E-value=0.11 Score=28.18 Aligned_cols=28 Identities=18% Similarity=0.243 Sum_probs=23.5
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 9869999079865789999999985797
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+.+-+++|-||+||||-+-=|...|--.
T Consensus 82 p~Vil~VGVNG~GKTTTIaKLA~~l~~~ 109 (284)
T TIGR00064 82 PNVILFVGVNGVGKTTTIAKLANKLKKQ 109 (284)
T ss_pred CEEEEEEEEECCCHHHHHHHHHHHHHHC
T ss_conf 7799998440886010288999999874
No 426
>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=92.55 E-value=0.15 Score=27.58 Aligned_cols=27 Identities=22% Similarity=0.271 Sum_probs=22.6
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 699990798657899999999857977
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
+..|.|+-|+||||+.++|.-.|.+..
T Consensus 1 iIgI~G~sgsGKTT~a~~L~~~l~~~~ 27 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQLGNPK 27 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 989889998859999999999809998
No 427
>KOG0743 consensus
Probab=92.54 E-value=0.089 Score=28.65 Aligned_cols=44 Identities=23% Similarity=0.241 Sum_probs=27.9
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCC----C-CCCCCHHHHHHCCCCCC
Q ss_conf 69999079865789999999985797----7-56433133310244574
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGY----T-QRRKHGDSIKKRSIKTP 95 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~----~-~~~~~~d~i~~~s~~~p 95 (110)
=-+++||-|+||||++-|+.-.|--. . ......+.+++-=..+|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~dLr~LL~~t~ 285 (457)
T KOG0743 237 GYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDSDLRHLLLATP 285 (457)
T ss_pred CCEEECCCCCCHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHCC
T ss_conf 4120479999888999999720587367744002368389999997289
No 428
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA; InterPro: IPR011917 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes .; GO: 0005524 ATP binding, 0006869 lipid transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=92.50 E-value=0.082 Score=28.84 Aligned_cols=29 Identities=24% Similarity=0.475 Sum_probs=22.2
Q ss_pred EECC--C-CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9868--9-869999079865789999999985
Q gi|254780640|r 46 IEFA--D-HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 46 i~f~--~-~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
|+|. + .++-++|+-||||||+..-|--++
T Consensus 381 i~l~~~~G~~vALVGRSGSGKsTlv~LlPRFy 412 (603)
T TIGR02203 381 ISLVVEPGETVALVGRSGSGKSTLVNLLPRFY 412 (603)
T ss_pred CCCEECCCCEEEEECCCCCHHHHHHHHCCCCC
T ss_conf 66511587359987068853899985523660
No 429
>pfam00350 Dynamin_N Dynamin family.
Probab=92.49 E-value=0.095 Score=28.51 Aligned_cols=18 Identities=39% Similarity=0.446 Sum_probs=16.7
Q ss_pred EEEECCCCCHHHHHHHHH
Q ss_conf 999079865789999999
Q gi|254780640|r 54 IVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 54 ~i~G~Ng~GKStil~ai~ 71 (110)
+++|.-.+||||+++||.
T Consensus 2 vvvG~~ssGKSSliNALl 19 (168)
T pfam00350 2 AVVGDQSAGKSSVLNALL 19 (168)
T ss_pred EEECCCCCCHHHHHHHHH
T ss_conf 899178898999999997
No 430
>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=92.45 E-value=0.15 Score=27.47 Aligned_cols=48 Identities=13% Similarity=0.232 Sum_probs=27.7
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC----------CCCCCHHHHHHCCCCCCCEEE
Q ss_conf 699990798657899999999857977----------564331333102445741278
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT----------QRRKHGDSIKKRSIKTPMPMC 99 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~----------~~~~~~d~i~~~s~~~pi~l~ 99 (110)
+.+++||+|+||||-+-=|.+.+--.. .|-.-.+.++.+...-.+|+.
T Consensus 2 Vi~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~ 59 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVF 59 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCEEE
T ss_conf 9999899999889999999999997699289997488757799999999997498599
No 431
>TIGR02237 recomb_radB DNA repair and recombination protein RadB; InterPro: IPR011939 This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA, eukaryotic RAD51 (IPR011941 from INTERPRO) and DMC1 (IPR011940 from INTERPRO), and archaeal RadA (IPR011938 from INTERPRO) ,, .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0008094 DNA-dependent ATPase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=92.41 E-value=0.093 Score=28.57 Aligned_cols=25 Identities=28% Similarity=0.413 Sum_probs=19.0
Q ss_pred EEEEEECCCCCHHHHH--HHHHHHHCC
Q ss_conf 6999907986578999--999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLS--EAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil--~ai~~~l~g 76 (110)
+|-||||=|+|||||+ -|+..+--|
T Consensus 14 iTQiYGp~G~GKTn~c~~~a~~a~~~G 40 (223)
T TIGR02237 14 ITQIYGPPGSGKTNICLILAVNAARQG 40 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf 889875899867899999999998618
No 432
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=92.25 E-value=0.25 Score=26.44 Aligned_cols=26 Identities=19% Similarity=0.087 Sum_probs=20.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 99990798657899999999857977
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
..|+|+-++||||++|+|.+.-...+
T Consensus 3 iaiiGHvd~GKTTL~~~ll~~tg~i~ 28 (179)
T cd01890 3 FSIIAHIDHGKSTLADRLLELTGTVS 28 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHCCCCC
T ss_conf 99994899898999999999859954
No 433
>PRK13768 GTPase; Provisional
Probab=92.24 E-value=0.17 Score=27.27 Aligned_cols=24 Identities=25% Similarity=0.358 Sum_probs=20.7
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 699990798657899999999857
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
..+++||-|+||||.+.++.-.+-
T Consensus 4 ~~~ViGpaGSGKsT~~~~l~~~l~ 27 (253)
T PRK13768 4 IVFFLGTAGSGKTTLVGALSDWLE 27 (253)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 899989999988999999999999
No 434
>KOG0066 consensus
Probab=92.20 E-value=0.23 Score=26.57 Aligned_cols=26 Identities=27% Similarity=0.238 Sum_probs=18.9
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 69999079865789999999985797
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
-..++||||.||||+|.-|..-.+..
T Consensus 292 RYGLVGPNG~GKTTLLkHIa~RalaI 317 (807)
T KOG0066 292 RYGLVGPNGMGKTTLLKHIAARALAI 317 (807)
T ss_pred EECCCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 30006789876377999987521168
No 435
>COG0249 MutS Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]
Probab=92.16 E-value=0.2 Score=26.87 Aligned_cols=32 Identities=22% Similarity=0.454 Sum_probs=24.0
Q ss_pred CCCCEEEECCC--CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 68317998689--8699990798657899999999
Q gi|254780640|r 40 FTEIQKIEFAD--HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 40 f~~~~~i~f~~--~~~~i~G~Ng~GKStil~ai~~ 72 (110)
|.. ..+++++ .+.+|.|||=+||||.+.-+..
T Consensus 596 fVp-Nd~~L~~~~~i~lITGPNM~GKSTylRQval 629 (843)
T COG0249 596 FVP-NDIDLSGNRRIILITGPNMGGKSTYLRQVAL 629 (843)
T ss_pred CCC-CCEEECCCCEEEEEECCCCCCCHHHHHHHHH
T ss_conf 446-8653079954899978998861999999999
No 436
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.14 E-value=0.14 Score=27.66 Aligned_cols=25 Identities=32% Similarity=0.344 Sum_probs=20.5
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.-.+|.|+.|+||||++.|+...+.
T Consensus 150 ~nilI~G~TgsGKTTll~all~~i~ 174 (320)
T PRK13894 150 RNILVIGGTGSGKTTLVNAIINEMV 174 (320)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHHC
T ss_conf 7589985888656899999986320
No 437
>KOG0054 consensus
Probab=92.12 E-value=0.32 Score=25.86 Aligned_cols=31 Identities=29% Similarity=0.234 Sum_probs=24.4
Q ss_pred EECCC-CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 98689-86999907986578999999998579
Q gi|254780640|r 46 IEFAD-HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 46 i~f~~-~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+.+.+ .-..|+|-.|+||||+..||--+...
T Consensus 1161 ~~I~p~eKVGIVGRTGaGKSSL~~aLFRl~e~ 1192 (1381)
T KOG0054 1161 FTIKPGEKVGIVGRTGAGKSSLILALFRLVEP 1192 (1381)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHHHHCCCC
T ss_conf 99749976888689899889999999961476
No 438
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=92.09 E-value=0.11 Score=28.13 Aligned_cols=19 Identities=37% Similarity=0.599 Sum_probs=16.3
Q ss_pred EEEEECCCCCHHHHHHHHH
Q ss_conf 9999079865789999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~ 71 (110)
.+++|..|+|||||+..+.
T Consensus 2 IlilGLd~aGKTTil~~l~ 20 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLS 20 (164)
T ss_pred EEEECCCCCCHHHHHHHHH
T ss_conf 9999679998999999981
No 439
>PRK09270 frcK putative fructose transport system kinase; Reviewed
Probab=92.08 E-value=0.18 Score=27.11 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=21.9
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
-+..|.|+-|+||||+.++|.-.|.
T Consensus 35 ~lIgIaG~pGSGKSTlA~~l~~~L~ 59 (230)
T PRK09270 35 TVVGIAGPPGAGKSTLAETLWEALS 59 (230)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 8999989998899999999999986
No 440
>PRK04195 replication factor C large subunit; Provisional
Probab=92.05 E-value=0.12 Score=27.98 Aligned_cols=26 Identities=27% Similarity=0.335 Sum_probs=21.9
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..-+++||-|+||||+..+|.--+..
T Consensus 41 k~lLL~GPpGvGKTT~a~~lAk~~g~ 66 (403)
T PRK04195 41 KALLLYGPPGVGKTSLAHALANDYGW 66 (403)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf 46998893998799999999998499
No 441
>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=92.04 E-value=0.17 Score=27.30 Aligned_cols=24 Identities=21% Similarity=0.338 Sum_probs=20.1
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 986999907986578999999998
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
..+.++.||.|+||++|...|.--
T Consensus 2 ~r~iil~Gpsg~GK~tl~~~l~~~ 25 (184)
T smart00072 2 RRPIVLSGPSGVGKGTLLAELIQE 25 (184)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf 977999999999999999999863
No 442
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=92.03 E-value=0.16 Score=27.41 Aligned_cols=21 Identities=19% Similarity=0.289 Sum_probs=18.0
Q ss_pred EEEEEECCCCCHHHHHHHHHH
Q ss_conf 699990798657899999999
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~ 72 (110)
..+|+|+.|+|||+++.-|..
T Consensus 2 tvLl~Gl~~aGKT~Lf~~L~~ 22 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTT 22 (203)
T ss_pred EEEEECCCCCCHHHHHHHHHC
T ss_conf 599990799989999999974
No 443
>PRK07261 topology modulation protein; Provisional
Probab=91.99 E-value=0.15 Score=27.50 Aligned_cols=22 Identities=27% Similarity=0.434 Sum_probs=18.7
Q ss_pred EEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9999079865789999999985
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+|+|..|+||||+...|.-.+
T Consensus 3 I~IiG~sGsGKSTlAr~L~~~~ 24 (171)
T PRK07261 3 IAIIGYSGSGKSTLARFLGQHY 24 (171)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
T ss_conf 9998899986899999999987
No 444
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=91.89 E-value=0.22 Score=26.66 Aligned_cols=29 Identities=21% Similarity=0.318 Sum_probs=23.7
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 89869999079865789999999985797
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.+.+.+|.||.|+|||.+.-.|.--+.|.
T Consensus 3 ~~~ii~i~GpTasGKs~la~~la~~~~~e 31 (304)
T PRK00091 3 KPKLIVLVGPTASGKTALAIELAKRLNGE 31 (304)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHCCCE
T ss_conf 99779998988658999999999987998
No 445
>TIGR00382 clpX ATP-dependent Clp protease, ATP-binding subunit ClpX; InterPro: IPR004487 ClpX is a member of the HSP (heat-shock protein) 100 family. Gel filtration and electron microscopy showed that ClpX subunits associate to form a six-membered ring that is stabilized by binding of ATP or nonhydrolyzable analogs of ATP . It functions as an ATP-depedent molecular chaperone and is the regulatory subunit of the ClpXP protease . ClpXP is involved in DNA damage repair, stationary-phase gene expression, and ssrA-mediated protein quality control. To date more than 50 proteins include transcription factors, metabolic enzymes, and proteins involved in the starvation and oxidative stress responses have been identified as substrates . The N-terminal domain of ClpX is a C4-type zinc binding domain (ZBD) involved in substrate recognition. ZBD forms a very stable dimer that is essential for promoting the degradation of some typical ClpXP substrates such as lO and MuA . ; GO: 0005515 protein binding, 0005524 ATP binding, 0016887 ATPase activity, 0015031 protein transport.
Probab=91.89 E-value=0.12 Score=28.09 Aligned_cols=31 Identities=19% Similarity=0.489 Sum_probs=24.6
Q ss_pred EEEECCCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 7998689869999079865789999999985
Q gi|254780640|r 44 QKIEFADHLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 44 ~~i~f~~~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
.++++...=-+++||.|||||=+.+-|.-.|
T Consensus 146 eeVEL~KSNILLiGPTGSGKTLLAqTLA~~L 176 (452)
T TIGR00382 146 EEVELSKSNILLIGPTGSGKTLLAQTLARIL 176 (452)
T ss_pred HHHHHHCCCEEEECCCCCCHHHHHHHHHHHC
T ss_conf 4433300662454688852689999999873
No 446
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN; InterPro: IPR012699 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 , including phosphites as well as phosphonates. PhnN in Escherichia coli shows considerable homology to guanylate kinases (2.7.4.8 from EC), 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=91.84 E-value=0.22 Score=26.69 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=24.6
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8699990798657899999999857977
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
.+..++||-|+||=|+|+.-+--+-+..
T Consensus 2 ~li~vvGPSGaGKDtLl~~AR~~l~~~~ 29 (183)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARLAGDP 29 (183)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHCCCC
T ss_conf 3789970778867789999999704899
No 447
>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]
Probab=91.83 E-value=0.19 Score=27.05 Aligned_cols=70 Identities=23% Similarity=0.292 Sum_probs=41.2
Q ss_pred EEECEECCCCCEEEECCCC-EEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCC------CCCCEEEEEEC
Q ss_conf 9954013683179986898-69999079865789999999985797756433133310244------57412789962
Q gi|254780640|r 33 EISHFRGFTEIQKIEFADH-LTIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSI------KTPMPMCMAVP 103 (110)
Q Consensus 33 ~i~nFr~f~~~~~i~f~~~-~~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~------~~pi~l~~~v~ 103 (110)
+...|+.. +...+.+..| .-.|+|+.|+||||+-.||.-++-....-+-.+..+...+. +..++++|--|
T Consensus 296 ~~~~~~AV-d~isl~L~~gqTlGlVGESGSGKsTlG~allrL~~s~G~I~F~G~~i~~~~~~~mrplR~~mQvVFQDP 372 (534)
T COG4172 296 TVDHLRAV-DGISLTLRRGQTLGLVGESGSGKSTLGLALLRLIPSQGEIRFDGQDIDGLSRKEMRPLRRRMQVVFQDP 372 (534)
T ss_pred CCHHEEEE-CCCEEEECCCCEEEEEECCCCCCCHHHHHHHHHCCCCCEEEECCCCCCCCCHHHHHHHHHHCEEEEECC
T ss_conf 42000775-254367538976777705889811599999852476863897881166648566203555226997178
No 448
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=91.82 E-value=0.44 Score=25.20 Aligned_cols=51 Identities=24% Similarity=0.351 Sum_probs=36.0
Q ss_pred CEEEEEEEEEEEECEECCCCCEEEECCCCEEEEEECCCCCHHHHH-----HHHHHHHCC
Q ss_conf 101689989999540136831799868986999907986578999-----999998579
Q gi|254780640|r 23 RKLIFKLLDIEISHFRGFTEIQKIEFADHLTIVNGQNGYGKSSLS-----EAIEWLFYG 76 (110)
Q Consensus 23 ~~~~~kl~~i~i~nFr~f~~~~~i~f~~~~~~i~G~Ng~GKStil-----~ai~~~l~g 76 (110)
..-+.+|....-+|.++. + .+|++.- ++.|.|-.|+||||++ .|+.-.+.+
T Consensus 603 ~~~~L~l~gA~~nNLkni-~-v~iPLg~-~t~VTGVSGSGKSTLIn~tL~~a~~~~l~~ 658 (935)
T COG0178 603 NGKWLELKGARRNNLKNI-D-VEIPLGV-FTCVTGVSGSGKSTLINDTLVPALARHLNG 658 (935)
T ss_pred CCCEEEEECCCCCCCCCC-E-EECCCCC-EEEEEECCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf 998699804641474663-0-5511663-799983687877786999999999998634
No 449
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.77 E-value=0.22 Score=26.71 Aligned_cols=39 Identities=18% Similarity=0.227 Sum_probs=28.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCC--CCCCCHHHHHH
Q ss_conf 8699990798657899999999857977--56433133310
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYT--QRRKHGDSIKK 89 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~--~~~~~~d~i~~ 89 (110)
-+.-++|..|+|||||..+++--|.... .-.-.+|.+++
T Consensus 8 ~viW~TGLsGSGKTTiA~~l~~~L~~~g~~~~~LDGD~lR~ 48 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELRE 48 (176)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCHHHHH
T ss_conf 79997899999899999999999997599779988689998
No 450
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=91.77 E-value=0.19 Score=27.01 Aligned_cols=37 Identities=24% Similarity=0.420 Sum_probs=26.8
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC--CCCCCHHHHH
Q ss_conf 699990798657899999999857977--5643313331
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT--QRRKHGDSIK 88 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~--~~~~~~d~i~ 88 (110)
+.-+.|..|+|||||..|++-.|+-.. .-.-.+|.++
T Consensus 25 viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR 63 (197)
T COG0529 25 VIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVR 63 (197)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCHHHH
T ss_conf 999646888878799999999999759758985574676
No 451
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.74 E-value=0.14 Score=27.64 Aligned_cols=25 Identities=28% Similarity=0.474 Sum_probs=20.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 99990798657899999999857977
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
.+|.|+.|+||||+...|.-- +|..
T Consensus 3 iiilG~pGaGK~T~A~~La~~-~~i~ 27 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK-LGLP 27 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH-CCCC
T ss_conf 999899999889999999997-6997
No 452
>TIGR01187 potA polyamine ABC transporter, ATP-binding protein; InterPro: IPR005893 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family comprises the spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belongs to the larger ATP-Binding Cassette (ABC) transporter superfamily. Polyamines like spermidine and putrescine play a vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).; GO: 0015417 polyamine-transporting ATPase activity, 0015846 polyamine transport, 0016020 membrane.
Probab=91.69 E-value=0.08 Score=28.89 Aligned_cols=18 Identities=28% Similarity=0.462 Sum_probs=14.9
Q ss_pred EEECCCCCHHHHHHHHHH
Q ss_conf 990798657899999999
Q gi|254780640|r 55 VNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 55 i~G~Ng~GKStil~ai~~ 72 (110)
|.||-|+||||+|--|.-
T Consensus 1 LLGpSGcGKTTlLrlLAG 18 (331)
T TIGR01187 1 LLGPSGCGKTTLLRLLAG 18 (331)
T ss_pred CCCCCCCCHHHHHHHHHC
T ss_conf 978888747999999834
No 453
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=91.68 E-value=0.72 Score=24.13 Aligned_cols=22 Identities=23% Similarity=0.407 Sum_probs=18.6
Q ss_pred EEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9999079865789999999985
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l 74 (110)
..|+|+-++||||++++|.+.-
T Consensus 2 v~iiGh~d~GKTTL~~~Ll~~~ 23 (189)
T cd00881 2 VGIAGHVDHGKTTLTERLLYVT 23 (189)
T ss_pred EEEECCCCCCHHHHHHHHHHHC
T ss_conf 8999179989999999999764
No 454
>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=91.66 E-value=0.19 Score=26.96 Aligned_cols=27 Identities=30% Similarity=0.386 Sum_probs=22.5
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 699990798657899999999857977
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
+..|.|..|+||||+..+|.-.|....
T Consensus 1 IIgVaG~SGSGKTTv~~~i~~ifg~~~ 27 (273)
T cd02026 1 IIGVAGDSGCGKSTFLRRLTSLFGSDL 27 (273)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 989978887869999999999858487
No 455
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=91.66 E-value=0.47 Score=25.05 Aligned_cols=49 Identities=20% Similarity=0.185 Sum_probs=28.1
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCCCCCEEEEEECCCEEEE
Q ss_conf 999907986578999999998579775643313331024457412789962855673
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQRRKHGDSIKKRSIKTPMPMCMAVPRCKYQL 109 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~~~~~~d~i~~~s~~~pi~l~~~v~~~~y~~ 109 (110)
..|+|.-++||||++.+|. |... .-.+ ...+-..|++-.+..++.+.++
T Consensus 3 V~LVG~PN~GKSTLln~LT----~a~~--~v~~--ypfTT~~pi~g~~~~~~~~iql 51 (233)
T cd01896 3 VALVGFPSVGKSTLLSKLT----NTKS--EVAA--YEFTTLTCVPGVLEYKGAKIQL 51 (233)
T ss_pred EEEECCCCCCHHHHHHHHH----CCCC--CCCC--CCCCCCCCEEEEEEECCEEEEE
T ss_conf 9999999999999999997----8995--4369--8978757477799989989999
No 456
>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]
Probab=91.66 E-value=0.21 Score=26.80 Aligned_cols=27 Identities=26% Similarity=0.394 Sum_probs=23.3
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 986999907986578999999998579
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
.++.-|+|..|+||||+|..|.++=..
T Consensus 32 GdVisIIGsSGSGKSTfLRCiN~LE~P 58 (256)
T COG4598 32 GDVISIIGSSGSGKSTFLRCINFLEKP 58 (256)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 988999658998626899999863488
No 457
>pfam02456 Adeno_IVa2 Adenovirus IVa2 protein. IVa2 protein can interact with the adenoviral packaging signal and that this interaction involves DNA sequences that have previously been demonstrated to be required for packaging. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter.
Probab=91.59 E-value=0.17 Score=27.29 Aligned_cols=22 Identities=32% Similarity=0.475 Sum_probs=19.1
Q ss_pred CCEEEEEECCCCCHHHHHHHHH
Q ss_conf 9869999079865789999999
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+=+.+|+||.|+|||-++..|-
T Consensus 87 P~I~vVYGPTG~GKSQLlRNli 108 (370)
T pfam02456 87 PVIGVVYGPTGCGKSQLLRNLL 108 (370)
T ss_pred CEEEEEECCCCCCHHHHHHHHH
T ss_conf 4499998899877899999987
No 458
>pfam10662 PduV-EutP Ethanolamine utilisation - propanediol utilisation. Members of this family function in ethanolamine and propanediol degradation pathways, however the exact roles of these proteins is poorly understood.
Probab=91.58 E-value=0.15 Score=27.46 Aligned_cols=18 Identities=33% Similarity=0.763 Sum_probs=16.5
Q ss_pred EEEEECCCCCHHHHHHHH
Q ss_conf 999907986578999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAI 70 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai 70 (110)
..|+|+-++||||++.||
T Consensus 4 VaivGrpNvGKSTLlN~L 21 (143)
T pfam10662 4 IMLIGRSGCGKTTLTQAL 21 (143)
T ss_pred EEEECCCCCCHHHHHHHH
T ss_conf 999899999999999997
No 459
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=91.50 E-value=0.29 Score=26.08 Aligned_cols=24 Identities=17% Similarity=0.061 Sum_probs=19.4
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 999907986578999999998579
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..++|+-++||||++|+|.+....
T Consensus 5 v~iiGHvd~GKTTL~~~Ll~~tg~ 28 (194)
T cd01891 5 IAIIAHVDHGKTTLVDALLKQSGT 28 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 999906898799999999997487
No 460
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=91.48 E-value=0.6 Score=24.52 Aligned_cols=27 Identities=26% Similarity=0.385 Sum_probs=22.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 999907986578999999998579775
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
.+++|+-++||||++++|.+.+...+.
T Consensus 2 i~iiGHvD~GKSTL~g~lL~~~g~i~~ 28 (219)
T cd01883 2 LVVIGHVDAGKSTTTGHLLYLLGGVDK 28 (219)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCCCH
T ss_conf 899966899899999999998599768
No 461
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=91.48 E-value=0.22 Score=26.73 Aligned_cols=29 Identities=17% Similarity=0.234 Sum_probs=23.7
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 98699990798657899999999857977
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
+.+.+++|-||+||||-+-=|...+-...
T Consensus 139 p~Vil~vGVNG~GKTTTIaKLA~~l~~~g 167 (340)
T COG0552 139 PFVILFVGVNGVGKTTTIAKLAKYLKQQG 167 (340)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHHHHCC
T ss_conf 67999993488863717999999999789
No 462
>TIGR01846 type_I_sec_HlyB type I secretion system ATPase; InterPro: IPR010132 Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This entry contains one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry signals located toward the extreme C terminus to direct type I secretion.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane.
Probab=91.45 E-value=0.22 Score=26.74 Aligned_cols=27 Identities=26% Similarity=0.431 Sum_probs=23.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 869999079865789999999985797
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.+-.|+||-|+||||+-.-++-+....
T Consensus 492 e~IGIvGpSGSGKSTLTKL~QRLYtP~ 518 (703)
T TIGR01846 492 EVIGIVGPSGSGKSTLTKLLQRLYTPE 518 (703)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 579987278986789999988614888
No 463
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=91.44 E-value=0.15 Score=27.56 Aligned_cols=22 Identities=14% Similarity=0.371 Sum_probs=18.3
Q ss_pred CCEEEEEECCCCCHHHHHHHHH
Q ss_conf 9869999079865789999999
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~ 71 (110)
+--.+++|+.|+|||||+..+.
T Consensus 14 ~~Ki~ilG~~~sGKTsll~~l~ 35 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLA 35 (173)
T ss_pred CCEEEEECCCCCCHHHHHHHHH
T ss_conf 7589999799998899999985
No 464
>pfam03205 MobB Molybdopterin guanine dinucleotide synthesis protein B. This protein contains a P-loop.
Probab=91.41 E-value=0.19 Score=26.97 Aligned_cols=25 Identities=20% Similarity=0.302 Sum_probs=20.4
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 6999907986578999999998579
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+.+|+|+.++||||+++.|.-.+..
T Consensus 2 ~v~i~G~~~sGKttl~~~L~~~~~~ 26 (122)
T pfam03205 2 IVLVVGPKDSGKTTLIRKLLNYLKR 26 (122)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 7999948999899999999999998
No 465
>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein; InterPro: IPR014343 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Members of this entry represent the ATP-binding protein of a conserved four-gene ABC transporter operon found next to ectoine utilisation 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 entry shows strong sequence similarity to a number of amino acid ABC transporter ATP-binding proteins..
Probab=91.39 E-value=0.12 Score=27.94 Aligned_cols=40 Identities=18% Similarity=0.251 Sum_probs=24.3
Q ss_pred EEEEECEECCCCCEEEECCC-CEEEEEE---CCCCCHHHHHHHHH
Q ss_conf 99995401368317998689-8699990---79865789999999
Q gi|254780640|r 31 DIEISHFRGFTEIQKIEFAD-HLTIVNG---QNGYGKSSLSEAIE 71 (110)
Q Consensus 31 ~i~i~nFr~f~~~~~i~f~~-~~~~i~G---~Ng~GKStil~ai~ 71 (110)
+....+|+.. |...++... .-..++| |.|+||||||..|-
T Consensus 8 k~ryg~l~vL-dg~~~~V~~Gek~~~iG~~~PsGSGK~T~LRiLM 51 (256)
T TIGR03005 8 KCRYGELTVL-DGLELEVAAGEKVALIGADRPSGSGKSTILRILM 51 (256)
T ss_pred EEECCCEEEE-CCCCCCCCCCCHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf 1001311221-1455401024120110577889973588888888
No 466
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=91.39 E-value=0.15 Score=27.51 Aligned_cols=19 Identities=21% Similarity=0.497 Sum_probs=15.8
Q ss_pred EEEEECCCCCHHHHHHHHH
Q ss_conf 9999079865789999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~ 71 (110)
.+++|+.|+|||||+..+.
T Consensus 2 i~ilG~~~vGKTsll~~l~ 20 (158)
T cd00878 2 ILILGLDGAGKTTILYKLK 20 (158)
T ss_pred EEEECCCCCCHHHHHHHHH
T ss_conf 9999999998899999995
No 467
>TIGR01842 type_I_sec_PrtD type I secretion system ATPase; InterPro: IPR010128 Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry signals located toward the extreme C terminus to direct type I secretion.; GO: 0005524 ATP binding, 0015031 protein transport, 0016021 integral to membrane.
Probab=91.32 E-value=0.17 Score=27.28 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=21.9
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..-.|+||-|+||||+...|.-....
T Consensus 357 e~laIIGPSgSGKStLaR~~vG~W~~ 382 (556)
T TIGR01842 357 EALAIIGPSGSGKSTLARILVGIWPP 382 (556)
T ss_pred CEEEEECCCCCCHHHHHHHHHHCCCC
T ss_conf 45888747865258898788721013
No 468
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=91.32 E-value=0.23 Score=26.60 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=19.7
Q ss_pred CCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 89869999079865789999999
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
..+..+|+|.-++||||++.+|.
T Consensus 2 ~~~~V~ivG~pN~GKSsL~N~L~ 24 (168)
T cd04163 2 KSGFVAIVGRPNVGKSTLLNALV 24 (168)
T ss_pred CCCEEEEECCCCCCHHHHHHHHH
T ss_conf 98689999999999999999995
No 469
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=91.31 E-value=0.26 Score=26.30 Aligned_cols=26 Identities=15% Similarity=0.229 Sum_probs=23.5
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 69999079865789999999985797
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
+..|.|+-|+||||+...|.-.|.+.
T Consensus 10 iIgIaG~SgSGKTTv~~~l~~~~~~~ 35 (218)
T COG0572 10 IIGIAGGSGSGKTTVAKELSEQLGVE 35 (218)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf 99986798778899999999982867
No 470
>PRK07429 phosphoribulokinase; Provisional
Probab=91.26 E-value=0.26 Score=26.32 Aligned_cols=28 Identities=29% Similarity=0.315 Sum_probs=23.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 8699990798657899999999857977
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
=+..|.|..|+||||+.++|.-.|....
T Consensus 9 ~IIGIAGgSGSGKTTv~r~I~~~fg~~~ 36 (331)
T PRK07429 9 VIIGVAGDSGCGKSTFLRRLADLFGEEL 36 (331)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 8999857887789999999999838887
No 471
>PRK09435 arginine/ornithine transport system ATPase; Provisional
Probab=91.22 E-value=0.22 Score=26.72 Aligned_cols=27 Identities=26% Similarity=0.270 Sum_probs=22.8
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 869999079865789999999985797
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
.+..|.|+-|+||||+++++-..+-..
T Consensus 50 ~~iGiTG~pG~GKStli~~l~~~~~~~ 76 (325)
T PRK09435 50 LRIGITGVPGVGKSTFIEALGMHLIEQ 76 (325)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf 599742799986889999999999967
No 472
>TIGR00150 TIGR00150 conserved hypothetical protein TIGR00150; 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 . .
Probab=91.20 E-value=0.21 Score=26.84 Aligned_cols=27 Identities=19% Similarity=0.246 Sum_probs=23.3
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 986999907986578999999998579
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
..+.++.|+=||||||+..++.-.|.-
T Consensus 28 ~~v~~L~GDlGaGKTtl~~G~~~~LG~ 54 (147)
T TIGR00150 28 GTVVLLKGDLGAGKTTLVKGLLQGLGI 54 (147)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 538997323466658999999983792
No 473
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=91.14 E-value=0.28 Score=26.18 Aligned_cols=25 Identities=16% Similarity=0.405 Sum_probs=19.9
Q ss_pred CCEEEEEECCCCCHHHHHHHHH--HHH
Q ss_conf 9869999079865789999999--985
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIE--WLF 74 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~--~~l 74 (110)
.++..++||.|+||||.+--|. +.+
T Consensus 194 ~~vi~lvGPTGVGKTTTiAKLAa~~~l 220 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVL 220 (282)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 727999778887578899999999999
No 474
>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=91.13 E-value=0.2 Score=26.85 Aligned_cols=23 Identities=26% Similarity=0.398 Sum_probs=19.4
Q ss_pred CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 86999907986578999999998
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
...++.||.|+||||++..++.-
T Consensus 38 ECvvL~G~SG~GKStllr~LYaN 60 (235)
T COG4778 38 ECVVLHGPSGSGKSTLLRSLYAN 60 (235)
T ss_pred CEEEEECCCCCCHHHHHHHHHHC
T ss_conf 07996689887688999999851
No 475
>PRK08356 hypothetical protein; Provisional
Probab=91.11 E-value=0.21 Score=26.76 Aligned_cols=23 Identities=22% Similarity=0.351 Sum_probs=19.7
Q ss_pred CEEEEEECCCCCHHHHHHHHHHH
Q ss_conf 86999907986578999999998
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWL 73 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~ 73 (110)
=+..|+|.+|+||||+.+.+.-.
T Consensus 6 mIIgitG~~gSGK~tva~~l~~~ 28 (195)
T PRK08356 6 MIVGIAGKIAAGKTTVAKFLEEL 28 (195)
T ss_pred EEEEEECCCCCCHHHHHHHHHHC
T ss_conf 69998589988789999999986
No 476
>pfam07728 AAA_5 AAA domain (dynein-related subfamily). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=91.08 E-value=0.25 Score=26.41 Aligned_cols=26 Identities=27% Similarity=0.382 Sum_probs=21.6
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 99990798657899999999857977
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
.+++||-|+|||++.+.+...+.+..
T Consensus 2 vll~Gp~G~GKT~la~~la~~l~~~~ 27 (139)
T pfam07728 2 VLLVGPPGTGKSELAERLAAALSNRP 27 (139)
T ss_pred EEEECCCCCHHHHHHHHHHHHCCCCC
T ss_conf 89998997569999999999807983
No 477
>TIGR00041 DTMP_kinase thymidylate kinase; InterPro: IPR000062 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process, 0006235 dTTP biosynthetic process.
Probab=91.07 E-value=0.24 Score=26.49 Aligned_cols=26 Identities=19% Similarity=0.397 Sum_probs=22.5
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-..+|-|.-||||||+.+.+.-.|--
T Consensus 3 ~fiviEGiDGaGKTT~~~~l~~~l~~ 28 (211)
T TIGR00041 3 MFIVIEGIDGAGKTTQLNLLKKLLKE 28 (211)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf 45888511587589999999999775
No 478
>PRK08233 hypothetical protein; Provisional
Probab=91.03 E-value=0.27 Score=26.28 Aligned_cols=26 Identities=19% Similarity=0.372 Sum_probs=21.9
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 86999907986578999999998579
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
-+-.|.|..|+||||+.++|.--+.+
T Consensus 4 ~IIgIaGgSgSGKTtla~~l~~~l~~ 29 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKLKN 29 (182)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf 89999688867899999999997467
No 479
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family; InterPro: IPR006001 This family of proteins 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 (IPR000577 from INTERPRO).; GO: 0016301 kinase activity, 0005975 carbohydrate metabolic process.
Probab=91.02 E-value=0.23 Score=26.59 Aligned_cols=39 Identities=21% Similarity=0.334 Sum_probs=28.1
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCC--CCCCCCCHHHHHHCC
Q ss_conf 999907986578999999998579--775643313331024
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYG--YTQRRKHGDSIKKRS 91 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g--~~~~~~~~d~i~~~s 91 (110)
.||.|.-|+|||+|-.++.--|.. -+.+-..||.++...
T Consensus 1 ~VlmGvaG~GKs~~a~~l~~~lg~iyPd~~yieGDdLHP~~ 41 (175)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRLGDIYPDAKYIEGDDLHPAA 41 (175)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHH
T ss_conf 96760278628899999999854315788756886667877
No 480
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.98 E-value=0.18 Score=27.08 Aligned_cols=28 Identities=21% Similarity=0.192 Sum_probs=23.0
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf 9869999079865789999999985797
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGY 77 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~ 77 (110)
..-.+|.|++++||||++.|+-.+.-..
T Consensus 143 ~~siii~G~t~sGKTt~lnall~~Ip~~ 170 (312)
T COG0630 143 RKSIIICGGTASGKTTLLNALLDFIPPE 170 (312)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf 9949998888886495999998637852
No 481
>TIGR00750 lao LAO/AO transport system ATPase; 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 K-12, 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..
Probab=90.97 E-value=0.25 Score=26.44 Aligned_cols=25 Identities=32% Similarity=0.424 Sum_probs=22.1
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 8699990798657899999999857
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
.+..|.|.=|+||||++|++-..|=
T Consensus 39 ~~vG~TG~PGaGKSTl~~~l~~~lr 63 (333)
T TIGR00750 39 HVVGITGVPGAGKSTLVEKLIMELR 63 (333)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 7876646888857779999989997
No 482
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=90.97 E-value=0.17 Score=27.22 Aligned_cols=20 Identities=20% Similarity=0.416 Sum_probs=16.3
Q ss_pred EEEEECCCCCHHHHHHHHHH
Q ss_conf 99990798657899999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~ 72 (110)
.+++|+.|+|||||+..+.-
T Consensus 2 ivilG~~~~GKTsll~~l~~ 21 (167)
T cd04160 2 VLILGLDNAGKTTFLEQLKT 21 (167)
T ss_pred EEEECCCCCCHHHHHHHHHH
T ss_conf 99999999888899998875
No 483
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.92 E-value=0.18 Score=27.09 Aligned_cols=21 Identities=38% Similarity=0.548 Sum_probs=19.2
Q ss_pred CCEEEEEECCCCCHHHHHHHH
Q ss_conf 986999907986578999999
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAI 70 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai 70 (110)
.|+.+|+|+.|+||||-+.|+
T Consensus 127 RGLviiVGaTGSGKSTtmAaM 147 (375)
T COG5008 127 RGLVIIVGATGSGKSTTMAAM 147 (375)
T ss_pred CCEEEEECCCCCCCHHHHHHH
T ss_conf 745999877888840168998
No 484
>PRK06217 hypothetical protein; Validated
Probab=90.90 E-value=0.25 Score=26.41 Aligned_cols=22 Identities=23% Similarity=0.435 Sum_probs=19.4
Q ss_pred EEEEECCCCCHHHHHHHHHHHH
Q ss_conf 9999079865789999999985
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l 74 (110)
.+|+|..|+||||+-.+|.-.+
T Consensus 4 I~i~G~sGsGkSTla~~La~~l 25 (185)
T PRK06217 4 IHITGASGSGTTTLGAALAEAL 25 (185)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
T ss_conf 9997899887899999999975
No 485
>pfam07726 AAA_3 ATPase family associated with various cellular activities (AAA). This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Probab=90.85 E-value=0.26 Score=26.32 Aligned_cols=27 Identities=15% Similarity=0.183 Sum_probs=22.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf 999907986578999999998579775
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEWLFYGYTQ 79 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~~l~g~~~ 79 (110)
.++.||-|.|||++.+++...+...-.
T Consensus 2 VLL~GppG~GKT~l~~~lA~~~~~~~~ 28 (131)
T pfam07726 2 VLLEGVPGLAKTLLARTLARSLGLDFR 28 (131)
T ss_pred EEEECCCCCHHHHHHHHHHHHHCCCCE
T ss_conf 878989987699999999999599816
No 486
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=90.84 E-value=0.18 Score=27.08 Aligned_cols=19 Identities=21% Similarity=0.485 Sum_probs=15.9
Q ss_pred EEEEECCCCCHHHHHHHHH
Q ss_conf 9999079865789999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~ 71 (110)
.++.|..|+|||||+..+.
T Consensus 2 Il~lGl~~sGKTtil~~l~ 20 (162)
T cd04157 2 ILVVGLDNSGKTTIINQLK 20 (162)
T ss_pred EEEECCCCCCHHHHHHHHH
T ss_conf 9999999998899999997
No 487
>PRK03846 adenylylsulfate kinase; Provisional
Probab=90.81 E-value=0.32 Score=25.89 Aligned_cols=40 Identities=23% Similarity=0.303 Sum_probs=29.3
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHHCCCCC--CCCCHHHHHH
Q ss_conf 986999907986578999999998579775--6433133310
Q gi|254780640|r 50 DHLTIVNGQNGYGKSSLSEAIEWLFYGYTQ--RRKHGDSIKK 89 (110)
Q Consensus 50 ~~~~~i~G~Ng~GKStil~ai~~~l~g~~~--~~~~~d~i~~ 89 (110)
..+.-|+|..|+|||||..+|.--|..... -.-.+|.++.
T Consensus 24 g~viWlTGLSGSGKTTlA~~L~~~L~~~~~~~~~LDGD~lR~ 65 (198)
T PRK03846 24 GVVLWFTGLSGSGKSTVAGALEEALHELGVHTYLLDGDNVRH 65 (198)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECHHHHHH
T ss_conf 869998799999889999999999997599759977799987
No 488
>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=90.80 E-value=0.25 Score=26.44 Aligned_cols=24 Identities=21% Similarity=0.325 Sum_probs=20.0
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf 699990798657899999999857
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLFY 75 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l~ 75 (110)
+..|.|+-|+||||+...|.-.+.
T Consensus 1 IIGIaG~sgSGKST~a~~l~~~l~ 24 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQALLS 24 (220)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHH
T ss_conf 989788998779999999999860
No 489
>PRK00089 era GTP-binding protein Era; Reviewed
Probab=90.78 E-value=0.19 Score=27.02 Aligned_cols=25 Identities=28% Similarity=0.469 Sum_probs=21.7
Q ss_pred ECCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf 8689869999079865789999999
Q gi|254780640|r 47 EFADHLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 47 ~f~~~~~~i~G~Ng~GKStil~ai~ 71 (110)
.+..|...|+|.-++||||++.+|.
T Consensus 5 ~~ksG~VaivG~PNvGKSTL~N~l~ 29 (296)
T PRK00089 5 KFKSGFVAIVGRPNVGKSTLLNALV 29 (296)
T ss_pred CCCEEEEEEECCCCCCHHHHHHHHH
T ss_conf 9837999999899988899999996
No 490
>COG3709 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=90.77 E-value=0.35 Score=25.67 Aligned_cols=30 Identities=30% Similarity=0.366 Sum_probs=25.8
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf 898699990798657899999999857977
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYGYT 78 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g~~ 78 (110)
...+.+++||.|+||-|++++....+-+..
T Consensus 4 ~G~lI~vvGPSGAGKDtl~~~ar~~l~~~~ 33 (192)
T COG3709 4 MGRLIAVVGPSGAGKDTLLDAARARLAGRP 33 (192)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHCCCC
T ss_conf 754999988887776779999998726687
No 491
>pfam00735 Septin Septin. Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerize to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis.
Probab=90.73 E-value=0.19 Score=27.03 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=16.5
Q ss_pred EEEEECCCCCHHHHHHHHH
Q ss_conf 9999079865789999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~ 71 (110)
.+++|..|.||||++..|.
T Consensus 7 imvvG~sGlGKTTfiNtL~ 25 (280)
T pfam00735 7 LMVVGESGLGKTTLINTLF 25 (280)
T ss_pred EEEECCCCCCHHHHHHHHH
T ss_conf 9997799997899999985
No 492
>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=90.67 E-value=0.22 Score=26.71 Aligned_cols=23 Identities=30% Similarity=0.521 Sum_probs=19.0
Q ss_pred EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 69999079865789999999985
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l 74 (110)
+.+|-|.-|+||||++..|.-.+
T Consensus 1 lI~iEG~iGsGKSTl~~~L~~~~ 23 (193)
T cd01673 1 VIVVEGNIGAGKSTLAKELAEHL 23 (193)
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
T ss_conf 98998888888999999999966
No 493
>TIGR01070 mutS1 DNA mismatch repair protein MutS; InterPro: IPR005748 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication . MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base . MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch . MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level . Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure , and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions . Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts . This entry represents a family of MutS proteins.; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair.
Probab=90.60 E-value=0.16 Score=27.43 Aligned_cols=31 Identities=32% Similarity=0.450 Sum_probs=22.5
Q ss_pred CCCCCEEEECCC--CEEEEEECCCCCHHHHHHHH
Q ss_conf 368317998689--86999907986578999999
Q gi|254780640|r 39 GFTEIQKIEFAD--HLTIVNGQNGYGKSSLSEAI 70 (110)
Q Consensus 39 ~f~~~~~i~f~~--~~~~i~G~Ng~GKStil~ai 70 (110)
.|.-. .++..+ .+.+|.|||=+||||-+.=+
T Consensus 591 ~fvpN-~~~m~~nr~~lliTGPNM~GKSTYmRQt 623 (863)
T TIGR01070 591 PFVPN-DLEMADNRRLLLITGPNMGGKSTYMRQT 623 (863)
T ss_pred CCCCC-CCCCCCCCEEEEEECCCCCCHHHHHHHH
T ss_conf 86777-5655888568888668797531799999
No 494
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=90.60 E-value=0.21 Score=26.76 Aligned_cols=20 Identities=15% Similarity=0.363 Sum_probs=16.4
Q ss_pred EEEEECCCCCHHHHHHHHHH
Q ss_conf 99990798657899999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~ 72 (110)
.++.|+.|+|||+|+..+..
T Consensus 2 il~lG~~~~GKTsll~~~~~ 21 (158)
T cd04151 2 ILILGLDNAGKTTILYRLQL 21 (158)
T ss_pred EEEECCCCCCHHHHHHHHHC
T ss_conf 99999999989999999970
No 495
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=90.59 E-value=0.34 Score=25.72 Aligned_cols=28 Identities=25% Similarity=0.477 Sum_probs=23.7
Q ss_pred CCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf 8986999907986578999999998579
Q gi|254780640|r 49 ADHLTIVNGQNGYGKSSLSEAIEWLFYG 76 (110)
Q Consensus 49 ~~~~~~i~G~Ng~GKStil~ai~~~l~g 76 (110)
+..+.++-|.-|+|||||-.+|.--|..
T Consensus 7 ~~~iiVVMGVsGsGKSTig~~LA~~l~~ 34 (177)
T PRK11545 7 DHHIYVLMGVSGSGKSAVASAVAHQLHA 34 (177)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf 8759999847989999999999998199
No 496
>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=90.58 E-value=0.33 Score=25.81 Aligned_cols=30 Identities=20% Similarity=0.356 Sum_probs=26.0
Q ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 869999079865789999999985797756
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIEWLFYGYTQR 80 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~~~l~g~~~~ 80 (110)
+..++.||.|.|||-+..+|.-.|||....
T Consensus 596 GsFlf~GptGvGKTELAKaLAe~Lfg~~~~ 625 (852)
T TIGR03346 596 GSFLFLGPTGVGKTELAKALAEFLFDDEDA 625 (852)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf 589986788776899999999998558520
No 497
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=90.43 E-value=0.38 Score=25.48 Aligned_cols=20 Identities=35% Similarity=0.469 Sum_probs=15.9
Q ss_pred EEEEECCCCCHHHHHHHHHH
Q ss_conf 99990798657899999999
Q gi|254780640|r 53 TIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 53 ~~i~G~Ng~GKStil~ai~~ 72 (110)
.+++|+.|.|||+|+.-...
T Consensus 4 ivlvGd~~VGKTsli~rf~~ 23 (168)
T cd04177 4 IVVLGAGGVGKSALTVQFVQ 23 (168)
T ss_pred EEEECCCCCCHHHHHHHHHH
T ss_conf 99989999779999999961
No 498
>pfam00009 GTP_EFTU Elongation factor Tu GTP binding domain. This domain contains a P-loop motif, also found in several other families such as pfam00071, pfam00025 and pfam00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains.
Probab=90.40 E-value=0.25 Score=26.41 Aligned_cols=23 Identities=22% Similarity=0.332 Sum_probs=19.1
Q ss_pred EEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 69999079865789999999985
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~~l 74 (110)
-..|+|+-++||||++++|..-.
T Consensus 5 nVaivG~~n~GKSTL~n~Ll~~~ 27 (185)
T pfam00009 5 NIGIIGHVDHGKTTLTDALLYVT 27 (185)
T ss_pred EEEEECCCCCCHHHHHHHHHHHC
T ss_conf 89999389944999999997154
No 499
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=90.39 E-value=0.22 Score=26.73 Aligned_cols=21 Identities=19% Similarity=0.322 Sum_probs=17.9
Q ss_pred CEEEEEECCCCCHHHHHHHHH
Q ss_conf 869999079865789999999
Q gi|254780640|r 51 HLTIVNGQNGYGKSSLSEAIE 71 (110)
Q Consensus 51 ~~~~i~G~Ng~GKStil~ai~ 71 (110)
--.++.|-.|+|||||+..+.
T Consensus 20 ~kIlilGld~aGKTTil~~l~ 40 (190)
T cd00879 20 AKILFLGLDNAGKTTLLHMLK 40 (190)
T ss_pred CEEEEEECCCCCHHHHHHHHH
T ss_conf 489999069998899999980
No 500
>KOG0073 consensus
Probab=90.37 E-value=0.17 Score=27.20 Aligned_cols=21 Identities=14% Similarity=0.275 Sum_probs=17.6
Q ss_pred EEEEEECCCCCHHHHHHHHHH
Q ss_conf 699990798657899999999
Q gi|254780640|r 52 LTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 52 ~~~i~G~Ng~GKStil~ai~~ 72 (110)
-.+|.|.+++|||+|+..+.-
T Consensus 18 riLiLGLdNsGKTti~~kl~~ 38 (185)
T KOG0073 18 RILILGLDNSGKTTIVKKLLG 38 (185)
T ss_pred EEEEEECCCCCCHHHHHHHCC
T ss_conf 799991278982448988538
Done!