Query psy18105
Match_columns 333
No_of_seqs 136 out of 488
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 22:40:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18105.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18105hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2036|consensus 100.0 4.4E-69 9.5E-74 547.9 17.0 282 1-333 72-355 (1011)
2 COG1444 Predicted P-loop ATPas 100.0 5E-47 1.1E-51 396.3 18.7 249 5-329 57-308 (758)
3 PF08351 DUF1726: Domain of un 100.0 5.6E-30 1.2E-34 207.0 6.9 92 35-129 1-92 (92)
4 PF05127 Helicase_RecD: Helica 99.7 4.8E-19 1E-23 159.0 -0.6 61 257-317 1-61 (177)
5 PF05127 Helicase_RecD: Helica 98.6 1.9E-08 4.1E-13 90.6 1.3 31 207-237 1-31 (177)
6 PHA03333 putative ATPase subun 98.4 3.4E-07 7.4E-12 96.7 6.2 67 244-310 178-244 (752)
7 PF13604 AAA_30: AAA domain; P 97.2 0.001 2.2E-08 60.4 6.9 47 255-302 20-66 (196)
8 KOG1803|consensus 96.5 0.0027 5.8E-08 66.6 4.6 57 254-311 202-261 (649)
9 KOG2036|consensus 96.5 0.0011 2.4E-08 70.5 1.7 30 283-312 276-305 (1011)
10 PF13245 AAA_19: Part of AAA d 96.4 0.0074 1.6E-07 47.0 5.6 48 255-302 12-62 (76)
11 TIGR00376 DNA helicase, putati 96.3 0.012 2.6E-07 62.7 7.8 49 255-304 175-223 (637)
12 PF13086 AAA_11: AAA domain; P 96.2 0.0075 1.6E-07 53.5 4.9 49 256-304 20-75 (236)
13 smart00487 DEXDc DEAD-like hel 96.0 0.025 5.4E-07 48.0 7.1 53 255-307 26-79 (201)
14 PF00580 UvrD-helicase: UvrD/R 95.9 0.024 5.3E-07 52.9 7.4 56 255-310 15-73 (315)
15 PHA03333 putative ATPase subun 95.6 0.013 2.9E-07 62.7 4.7 54 180-237 168-221 (752)
16 PF00270 DEAD: DEAD/DEAH box h 95.3 0.12 2.5E-06 44.0 8.7 53 256-308 17-70 (169)
17 PRK10917 ATP-dependent DNA hel 95.1 0.082 1.8E-06 56.8 8.7 55 256-311 285-339 (681)
18 TIGR00643 recG ATP-dependent D 95.0 0.088 1.9E-06 56.0 8.6 55 256-311 259-313 (630)
19 COG1444 Predicted P-loop ATPas 94.8 0.013 2.8E-07 63.4 1.5 23 105-128 102-124 (758)
20 PRK08939 primosomal protein Dn 94.7 0.035 7.6E-07 54.1 4.2 51 241-291 144-194 (306)
21 cd00046 DEXDc DEAD-like helica 94.6 0.095 2.1E-06 41.7 6.0 52 256-307 3-55 (144)
22 PRK13889 conjugal transfer rel 94.6 0.082 1.8E-06 59.1 7.2 44 256-300 365-408 (988)
23 PF10236 DAP3: Mitochondrial r 94.5 0.051 1.1E-06 52.9 4.9 39 254-294 24-62 (309)
24 PF04851 ResIII: Type III rest 94.5 0.16 3.4E-06 43.4 7.3 44 255-302 27-70 (184)
25 TIGR02768 TraA_Ti Ti-type conj 94.4 0.093 2E-06 57.1 6.9 45 255-300 370-414 (744)
26 TIGR00580 mfd transcription-re 94.3 0.16 3.5E-06 56.6 8.7 54 256-310 475-528 (926)
27 PF13401 AAA_22: AAA domain; P 93.9 0.063 1.4E-06 44.0 3.6 54 254-307 5-63 (131)
28 PF13191 AAA_16: AAA ATPase do 93.9 0.11 2.4E-06 44.8 5.2 32 250-281 21-52 (185)
29 PRK10689 transcription-repair 93.8 0.23 5E-06 56.5 8.8 52 255-307 623-674 (1147)
30 PF05729 NACHT: NACHT domain 93.7 0.11 2.3E-06 43.8 4.7 28 254-281 1-28 (166)
31 PF05970 PIF1: PIF1-like helic 93.7 0.18 3.8E-06 50.1 6.8 42 256-298 25-66 (364)
32 cd00009 AAA The AAA+ (ATPases 93.4 0.25 5.4E-06 39.6 6.3 38 254-291 20-57 (151)
33 TIGR01448 recD_rel helicase, p 93.4 0.19 4.1E-06 54.5 7.1 46 255-300 340-386 (720)
34 PRK08903 DnaA regulatory inact 93.2 0.11 2.3E-06 47.4 4.3 40 254-293 43-82 (227)
35 PRK06921 hypothetical protein; 93.2 0.18 3.9E-06 48.1 5.8 38 254-291 118-156 (266)
36 PRK13826 Dtr system oriT relax 92.8 0.29 6.4E-06 55.4 7.7 47 254-301 398-444 (1102)
37 PRK08116 hypothetical protein; 92.8 0.12 2.6E-06 49.2 4.1 52 240-291 100-152 (268)
38 PRK12377 putative replication 92.8 0.11 2.3E-06 49.3 3.6 38 254-291 102-139 (248)
39 PRK11889 flhF flagellar biosyn 92.7 0.36 7.7E-06 49.4 7.4 49 254-302 242-292 (436)
40 PRK11664 ATP-dependent RNA hel 92.6 0.19 4.2E-06 55.2 5.8 52 254-306 21-72 (812)
41 TIGR01970 DEAH_box_HrpB ATP-de 92.4 0.19 4.2E-06 55.2 5.5 53 254-307 18-70 (819)
42 PRK08084 DNA replication initi 92.4 0.18 3.9E-06 46.9 4.5 38 254-291 46-83 (235)
43 PRK05642 DNA replication initi 92.2 0.16 3.5E-06 47.2 3.9 38 254-291 46-83 (234)
44 PRK10875 recD exonuclease V su 92.0 0.31 6.7E-06 52.0 6.3 53 254-306 168-223 (615)
45 PRK11192 ATP-dependent RNA hel 92.0 0.66 1.4E-05 46.5 8.3 49 256-304 41-95 (434)
46 PF13173 AAA_14: AAA domain 91.9 0.44 9.5E-06 39.7 6.0 41 254-295 3-43 (128)
47 PRK07952 DNA replication prote 91.7 0.21 4.6E-06 47.2 4.1 38 254-291 100-137 (244)
48 PF01695 IstB_IS21: IstB-like 91.4 0.19 4.1E-06 45.0 3.4 36 256-291 50-85 (178)
49 TIGR01447 recD exodeoxyribonuc 91.2 0.39 8.5E-06 50.9 6.0 51 254-304 161-215 (586)
50 TIGR03420 DnaA_homol_Hda DnaA 91.1 0.2 4.4E-06 45.1 3.3 39 254-292 39-77 (226)
51 PRK14974 cell division protein 91.1 0.65 1.4E-05 46.1 7.1 50 253-303 140-192 (336)
52 PF14532 Sigma54_activ_2: Sigm 91.1 0.14 2.9E-06 43.4 2.0 36 241-276 8-44 (138)
53 PRK06835 DNA replication prote 91.0 0.25 5.5E-06 48.7 4.1 51 240-292 172-222 (329)
54 PF01637 Arch_ATPase: Archaeal 90.6 0.14 3E-06 45.4 1.7 48 254-301 21-68 (234)
55 TIGR02760 TraI_TIGR conjugativ 90.4 0.7 1.5E-05 55.4 7.7 47 254-301 447-493 (1960)
56 PF02562 PhoH: PhoH-like prote 90.1 0.88 1.9E-05 42.1 6.6 39 256-294 22-61 (205)
57 PRK06851 hypothetical protein; 90.1 0.31 6.8E-06 48.9 3.9 48 252-299 29-77 (367)
58 cd01120 RecA-like_NTPases RecA 90.0 0.46 1E-05 39.4 4.3 37 256-292 2-38 (165)
59 PRK08727 hypothetical protein; 90.0 0.86 1.9E-05 42.3 6.5 37 255-291 43-79 (233)
60 TIGR03015 pepcterm_ATPase puta 90.0 1.1 2.5E-05 41.4 7.3 37 182-220 24-60 (269)
61 PRK11634 ATP-dependent RNA hel 89.8 0.95 2.1E-05 48.4 7.5 48 256-303 46-95 (629)
62 COG1484 DnaC DNA replication p 89.4 0.36 7.8E-06 45.8 3.5 38 255-292 107-144 (254)
63 COG1643 HrpA HrpA-like helicas 89.2 0.49 1.1E-05 52.3 4.9 54 255-308 67-120 (845)
64 TIGR01967 DEAH_box_HrpA ATP-de 89.1 0.59 1.3E-05 53.8 5.5 66 239-307 71-136 (1283)
65 cd03281 ABC_MSH5_euk MutS5 hom 89.0 0.43 9.2E-06 43.9 3.6 21 254-274 30-50 (213)
66 PRK09183 transposase/IS protei 88.8 0.63 1.4E-05 44.1 4.8 37 254-290 103-139 (259)
67 TIGR01547 phage_term_2 phage t 88.7 0.86 1.9E-05 45.2 5.9 57 255-311 3-62 (396)
68 PF03308 ArgK: ArgK protein; 88.7 0.62 1.3E-05 44.9 4.6 39 255-294 31-69 (266)
69 PRK01172 ski2-like helicase; P 88.5 1.2 2.7E-05 47.5 7.2 53 256-310 40-92 (674)
70 PRK08181 transposase; Validate 88.5 0.43 9.2E-06 45.8 3.4 36 255-290 108-143 (269)
71 TIGR01054 rgy reverse gyrase. 88.5 1.4 3.1E-05 50.4 8.0 55 255-310 95-149 (1171)
72 PRK12608 transcription termina 88.3 1 2.2E-05 45.5 6.0 36 243-280 123-160 (380)
73 COG1200 RecG RecG-like helicas 88.1 1.5 3.3E-05 47.2 7.4 56 256-312 286-341 (677)
74 PHA02558 uvsW UvsW helicase; P 88.1 2.2 4.7E-05 44.2 8.5 49 256-304 132-180 (501)
75 PRK00411 cdc6 cell division co 88.0 1.2 2.5E-05 43.9 6.2 51 254-304 56-108 (394)
76 PRK10590 ATP-dependent RNA hel 87.9 2.1 4.5E-05 43.6 8.2 51 256-306 41-99 (456)
77 TIGR01587 cas3_core CRISPR-ass 87.8 1.1 2.4E-05 43.4 5.9 51 256-306 2-53 (358)
78 PRK11776 ATP-dependent RNA hel 87.7 1.7 3.8E-05 44.0 7.5 47 256-302 44-92 (460)
79 PRK04837 ATP-dependent RNA hel 87.7 2.4 5.2E-05 42.5 8.3 55 256-310 48-111 (423)
80 TIGR02760 TraI_TIGR conjugativ 87.7 1.3 2.7E-05 53.3 7.3 45 254-299 1037-1085(1960)
81 PF00004 AAA: ATPase family as 87.6 1.1 2.4E-05 36.1 4.9 35 256-293 1-35 (132)
82 PHA02533 17 large terminase pr 87.5 1.2 2.7E-05 46.7 6.4 54 255-308 76-130 (534)
83 KOG1802|consensus 87.5 0.88 1.9E-05 49.1 5.2 55 255-309 427-482 (935)
84 PRK07667 uridine kinase; Provi 87.4 0.86 1.9E-05 40.9 4.5 48 244-291 7-55 (193)
85 smart00382 AAA ATPases associa 87.3 0.54 1.2E-05 37.1 2.8 37 254-291 3-39 (148)
86 PRK05580 primosome assembly pr 86.5 2.6 5.6E-05 45.5 8.3 51 255-306 164-214 (679)
87 PHA02653 RNA helicase NPH-II; 86.3 2.1 4.6E-05 46.3 7.4 21 283-303 223-243 (675)
88 COG1703 ArgK Putative periplas 86.2 0.69 1.5E-05 45.5 3.4 38 256-294 54-91 (323)
89 PF04665 Pox_A32: Poxvirus A32 86.1 0.83 1.8E-05 43.4 3.8 38 256-294 16-53 (241)
90 PTZ00424 helicase 45; Provisio 86.1 2.5 5.5E-05 41.5 7.4 50 256-305 68-119 (401)
91 cd00464 SK Shikimate kinase (S 86.1 0.6 1.3E-05 39.3 2.6 22 256-277 2-23 (154)
92 PRK00254 ski2-like helicase; P 86.0 2.8 6.1E-05 45.3 8.2 49 256-304 42-90 (720)
93 TIGR01425 SRP54_euk signal rec 85.9 1.9 4.1E-05 44.3 6.5 48 254-302 101-151 (429)
94 PRK09401 reverse gyrase; Revie 85.7 2.8 6E-05 48.2 8.3 52 255-307 97-148 (1176)
95 PF13555 AAA_29: P-loop contai 85.6 0.45 9.8E-06 36.0 1.4 23 255-277 25-47 (62)
96 PRK02362 ski2-like helicase; P 85.6 2.7 5.9E-05 45.5 7.9 48 256-304 42-89 (737)
97 cd00268 DEADc DEAD-box helicas 85.5 4.7 0.0001 35.5 8.2 49 256-304 39-91 (203)
98 PLN00206 DEAD-box ATP-dependen 85.4 3.9 8.5E-05 42.5 8.7 50 256-305 161-219 (518)
99 PF05673 DUF815: Protein of un 85.2 3.3 7.2E-05 39.6 7.4 49 255-303 54-102 (249)
100 PRK04296 thymidine kinase; Pro 85.1 1.1 2.4E-05 40.2 4.0 35 255-290 4-38 (190)
101 PRK00698 tmk thymidylate kinas 85.0 1.9 4.1E-05 38.1 5.4 37 255-291 5-41 (205)
102 PRK08154 anaerobic benzoate ca 85.0 1.6 3.6E-05 42.3 5.4 39 182-220 108-150 (309)
103 TIGR03263 guanyl_kin guanylate 84.9 0.53 1.1E-05 41.0 1.7 24 255-278 3-26 (180)
104 PRK12726 flagellar biosynthesi 84.9 1.8 4E-05 44.0 5.8 50 254-303 207-258 (407)
105 TIGR03499 FlhF flagellar biosy 84.7 2.1 4.6E-05 41.0 6.0 49 254-302 195-247 (282)
106 TIGR03881 KaiC_arch_4 KaiC dom 84.6 2.2 4.8E-05 38.8 5.8 46 254-301 21-66 (229)
107 PF01935 DUF87: Domain of unkn 84.4 1.2 2.7E-05 40.5 4.0 45 252-297 22-67 (229)
108 PF03237 Terminase_6: Terminas 84.3 1.4 2.9E-05 41.7 4.4 40 257-297 1-42 (384)
109 KOG0922|consensus 84.2 1.1 2.3E-05 48.1 3.9 55 254-308 67-121 (674)
110 PF07728 AAA_5: AAA domain (dy 84.1 2.3 5E-05 35.4 5.3 42 255-299 1-42 (139)
111 PF13191 AAA_16: AAA ATPase do 84.0 0.73 1.6E-05 39.7 2.2 35 185-220 7-41 (185)
112 cd01672 TMPK Thymidine monopho 84.0 2.7 5.9E-05 36.4 5.9 38 255-292 2-39 (200)
113 PRK04537 ATP-dependent RNA hel 83.9 4.3 9.3E-05 42.9 8.3 54 256-309 49-111 (572)
114 cd01131 PilT Pilus retraction 83.4 1.4 3.1E-05 39.8 3.9 26 255-280 3-28 (198)
115 TIGR00362 DnaA chromosomal rep 83.3 1.2 2.7E-05 44.5 3.8 36 255-290 138-175 (405)
116 TIGR00064 ftsY signal recognit 83.2 2.7 5.9E-05 40.2 6.0 50 254-303 73-124 (272)
117 PRK06893 DNA replication initi 82.9 1.5 3.2E-05 40.6 3.9 35 256-290 42-76 (229)
118 cd01128 rho_factor Transcripti 82.9 1.7 3.7E-05 41.2 4.4 48 255-302 18-68 (249)
119 PF03266 NTPase_1: NTPase; In 82.7 1.2 2.6E-05 39.6 3.1 25 256-280 2-26 (168)
120 TIGR02928 orc1/cdc6 family rep 82.3 7.7 0.00017 37.6 8.9 37 184-220 21-57 (365)
121 PRK03846 adenylylsulfate kinas 82.0 1.8 3.9E-05 38.9 4.0 35 255-289 26-60 (198)
122 TIGR02880 cbbX_cfxQ probable R 81.8 2 4.3E-05 41.2 4.5 29 254-282 59-87 (284)
123 PRK12422 chromosomal replicati 81.8 1.5 3.2E-05 45.0 3.8 38 254-291 142-179 (445)
124 PRK00149 dnaA chromosomal repl 81.7 1.5 3.3E-05 44.6 3.8 38 254-291 149-188 (450)
125 PRK05057 aroK shikimate kinase 81.7 1.1 2.3E-05 39.7 2.4 24 254-277 5-28 (172)
126 PF06745 KaiC: KaiC; InterPro 81.7 3.1 6.7E-05 37.8 5.5 52 254-311 20-72 (226)
127 PRK00300 gmk guanylate kinase; 81.6 0.94 2E-05 40.4 2.0 25 254-278 6-30 (205)
128 PRK06526 transposase; Provisio 81.5 0.91 2E-05 43.1 2.0 36 255-290 100-135 (254)
129 PF00448 SRP54: SRP54-type pro 81.4 4 8.6E-05 37.1 6.1 50 254-303 2-53 (196)
130 cd01983 Fer4_NifH The Fer4_Nif 81.4 4.8 0.0001 30.1 5.7 33 256-289 2-34 (99)
131 TIGR03117 cas_csf4 CRISPR-asso 81.3 8.5 0.00018 41.5 9.3 47 256-302 19-66 (636)
132 PF08477 Miro: Miro-like prote 81.1 0.88 1.9E-05 36.4 1.5 22 256-277 2-23 (119)
133 PRK10078 ribose 1,5-bisphospho 81.1 0.87 1.9E-05 40.4 1.6 23 255-277 4-26 (186)
134 PF12846 AAA_10: AAA-like doma 81.1 1.9 4.1E-05 39.8 4.0 35 256-291 4-38 (304)
135 COG4559 ABC-type hemin transpo 80.9 0.74 1.6E-05 43.6 1.1 39 241-279 14-53 (259)
136 COG1119 ModF ABC-type molybden 80.9 0.88 1.9E-05 43.5 1.7 45 255-300 59-103 (257)
137 PRK06851 hypothetical protein; 80.9 1.7 3.7E-05 43.7 3.8 49 251-299 212-261 (367)
138 PRK08533 flagellar accessory p 80.8 3.9 8.4E-05 38.0 5.9 47 254-302 25-71 (230)
139 PRK10416 signal recognition pa 80.8 3.6 7.8E-05 40.4 5.9 49 254-302 115-165 (318)
140 PRK00131 aroK shikimate kinase 80.7 1.4 2.9E-05 37.7 2.7 24 254-277 5-28 (175)
141 KOG1805|consensus 80.7 3.7 8.1E-05 46.0 6.5 58 256-314 688-748 (1100)
142 cd01129 PulE-GspE PulE/GspE Th 80.6 3.2 6.9E-05 39.5 5.4 24 256-279 83-106 (264)
143 cd01124 KaiC KaiC is a circadi 80.5 2.5 5.5E-05 36.6 4.4 34 256-289 2-35 (187)
144 PRK13949 shikimate kinase; Pro 80.4 1.3 2.7E-05 39.2 2.4 24 255-278 3-26 (169)
145 COG4604 CeuD ABC-type enteroch 80.4 1.6 3.4E-05 41.1 3.0 44 244-288 17-61 (252)
146 PF00931 NB-ARC: NB-ARC domain 80.4 1.8 4E-05 40.2 3.6 67 241-307 6-75 (287)
147 COG3640 CooC CO dehydrogenase 80.3 2.1 4.6E-05 40.9 3.9 34 256-289 3-36 (255)
148 COG2804 PulE Type II secretory 80.1 3.4 7.5E-05 43.1 5.8 37 255-293 260-296 (500)
149 PRK00771 signal recognition pa 79.8 4 8.7E-05 42.0 6.1 37 254-290 96-132 (437)
150 PRK14722 flhF flagellar biosyn 79.6 4.1 8.8E-05 41.1 6.0 47 254-300 138-188 (374)
151 PF00625 Guanylate_kin: Guanyl 79.5 1.5 3.3E-05 38.7 2.7 26 253-278 2-27 (183)
152 PHA03311 helicase-primase subu 79.5 2 4.2E-05 47.0 3.9 44 254-303 72-115 (828)
153 TIGR01313 therm_gnt_kin carboh 79.5 1.3 2.7E-05 38.1 2.1 22 256-277 1-22 (163)
154 PRK01297 ATP-dependent RNA hel 79.5 8 0.00017 39.4 8.2 50 256-305 127-185 (475)
155 PF10236 DAP3: Mitochondrial r 79.4 2.5 5.3E-05 41.2 4.3 26 201-226 21-46 (309)
156 PTZ00110 helicase; Provisional 79.2 8.3 0.00018 40.5 8.4 49 256-304 170-225 (545)
157 PF13207 AAA_17: AAA domain; P 79.2 1.8 4E-05 34.9 2.8 22 256-277 2-23 (121)
158 PRK10536 hypothetical protein; 79.2 2.8 6E-05 40.4 4.4 39 255-293 76-115 (262)
159 PRK14087 dnaA chromosomal repl 79.0 6 0.00013 40.7 7.1 38 254-291 142-181 (450)
160 PF00005 ABC_tran: ABC transpo 79.0 2 4.3E-05 35.5 3.0 33 255-288 13-45 (137)
161 PRK10919 ATP-dependent DNA hel 78.8 4.1 8.8E-05 43.9 6.1 49 255-303 17-68 (672)
162 PRK06696 uridine kinase; Valid 78.7 6.3 0.00014 36.0 6.6 28 255-282 24-51 (223)
163 TIGR02928 orc1/cdc6 family rep 78.5 4.8 0.0001 39.0 6.0 49 254-302 41-95 (365)
164 TIGR01074 rep ATP-dependent DN 78.4 4.3 9.4E-05 43.2 6.1 50 255-304 16-68 (664)
165 cd03238 ABC_UvrA The excision 78.4 1.8 4E-05 38.7 2.8 19 255-273 23-41 (176)
166 TIGR00750 lao LAO/AO transport 78.4 3.2 6.8E-05 40.1 4.7 33 254-287 35-67 (300)
167 PHA02544 44 clamp loader, smal 78.3 5.8 0.00013 37.8 6.5 44 252-299 42-85 (316)
168 PRK13947 shikimate kinase; Pro 78.3 1.7 3.7E-05 37.5 2.5 22 256-277 4-25 (171)
169 PF01637 Arch_ATPase: Archaeal 78.2 2.6 5.7E-05 37.2 3.8 20 201-220 18-37 (234)
170 PF12775 AAA_7: P-loop contain 78.0 1.4 3E-05 42.2 2.0 27 253-279 33-59 (272)
171 cd02117 NifH_like This family 77.8 2.8 6E-05 37.9 3.9 32 256-287 3-34 (212)
172 COG0552 FtsY Signal recognitio 77.8 5.7 0.00012 39.6 6.2 50 254-304 140-192 (340)
173 cd03115 SRP The signal recogni 77.7 5.1 0.00011 34.7 5.4 37 256-292 3-39 (173)
174 PRK14712 conjugal transfer nic 77.6 5.7 0.00012 47.0 7.1 47 254-300 853-902 (1623)
175 PRK00411 cdc6 cell division co 77.5 13 0.00028 36.6 8.7 36 185-220 37-72 (394)
176 PF03354 Terminase_1: Phage Te 77.4 5.2 0.00011 41.1 6.1 53 256-308 25-80 (477)
177 cd00984 DnaB_C DnaB helicase C 77.3 3.3 7.2E-05 37.7 4.3 37 254-290 14-51 (242)
178 PRK11131 ATP-dependent RNA hel 77.3 3.3 7.1E-05 47.9 5.0 54 254-308 90-144 (1294)
179 PRK14701 reverse gyrase; Provi 77.3 7.5 0.00016 46.2 8.0 49 255-304 96-144 (1638)
180 TIGR00635 ruvB Holliday juncti 77.3 5.1 0.00011 38.0 5.7 16 205-220 32-47 (305)
181 COG1157 FliI Flagellar biosynt 77.2 1.8 3.9E-05 44.3 2.7 23 256-278 166-188 (441)
182 COG4181 Predicted ABC-type tra 77.2 1.6 3.4E-05 40.3 2.0 21 255-275 38-58 (228)
183 PF00308 Bac_DnaA: Bacterial d 76.8 3.8 8.2E-05 37.8 4.5 37 254-290 35-73 (219)
184 PLN02589 caffeoyl-CoA O-methyl 76.7 6.8 0.00015 37.2 6.3 76 44-126 155-230 (247)
185 TIGR01166 cbiO cobalt transpor 76.7 2.7 5.8E-05 37.2 3.3 22 255-276 20-41 (190)
186 PRK10247 putative ABC transpor 76.3 2.6 5.6E-05 38.5 3.3 23 255-277 35-57 (225)
187 cd00071 GMPK Guanosine monopho 76.3 1.8 4E-05 36.8 2.1 24 255-278 1-24 (137)
188 cd02021 GntK Gluconate kinase 76.3 1.9 4.1E-05 36.4 2.2 22 256-277 2-23 (150)
189 PRK09694 helicase Cas3; Provis 76.2 5.1 0.00011 44.7 6.0 55 253-307 301-356 (878)
190 cd02034 CooC The accessory pro 76.2 4.4 9.5E-05 33.8 4.4 27 256-282 2-28 (116)
191 PRK05541 adenylylsulfate kinas 76.2 3.6 7.8E-05 35.9 4.0 33 255-287 9-41 (176)
192 PRK11448 hsdR type I restricti 76.2 7.2 0.00016 44.7 7.3 45 256-300 436-481 (1123)
193 KOG0707|consensus 76.1 2.8 6E-05 39.7 3.4 26 254-279 38-63 (231)
194 cd01122 GP4d_helicase GP4d_hel 76.0 3.3 7.1E-05 38.6 4.0 36 255-290 32-68 (271)
195 PRK13695 putative NTPase; Prov 76.0 3.6 7.8E-05 35.9 4.0 27 256-282 3-29 (174)
196 TIGR02533 type_II_gspE general 76.0 5.1 0.00011 41.7 5.6 35 255-291 244-278 (486)
197 COG0513 SrmB Superfamily II DN 76.0 11 0.00024 39.3 8.2 54 256-309 69-126 (513)
198 PRK03839 putative kinase; Prov 75.9 2.1 4.6E-05 37.4 2.5 22 256-277 3-24 (180)
199 TIGR00176 mobB molybdopterin-g 75.8 3.7 8E-05 35.9 4.0 32 256-288 2-33 (155)
200 cd03269 ABC_putative_ATPase Th 75.7 1.8 4E-05 38.8 2.1 23 255-277 28-50 (210)
201 COG4619 ABC-type uncharacteriz 75.6 2.9 6.2E-05 38.5 3.2 55 255-310 31-90 (223)
202 PF03205 MobB: Molybdopterin g 75.4 4.2 9.1E-05 35.0 4.1 28 256-283 3-30 (140)
203 cd02019 NK Nucleoside/nucleoti 75.3 4.8 0.0001 30.1 3.9 22 256-277 2-23 (69)
204 COG1126 GlnQ ABC-type polar am 75.2 1.5 3.2E-05 41.5 1.3 46 243-289 17-63 (240)
205 COG1136 SalX ABC-type antimicr 75.1 1.8 4E-05 40.7 1.9 34 255-289 33-66 (226)
206 TIGR02322 phosphon_PhnN phosph 75.1 2.9 6.2E-05 36.5 3.1 24 255-278 3-26 (179)
207 COG0703 AroK Shikimate kinase 75.1 1.1 2.3E-05 40.6 0.4 47 254-301 3-51 (172)
208 smart00489 DEXDc3 DEAD-like he 75.0 7.7 0.00017 37.3 6.3 51 254-304 28-83 (289)
209 smart00488 DEXDc2 DEAD-like he 75.0 7.7 0.00017 37.3 6.3 51 254-304 28-83 (289)
210 PRK13709 conjugal transfer nic 74.8 7.6 0.00017 46.4 7.2 47 254-300 985-1034(1747)
211 PF07693 KAP_NTPase: KAP famil 74.8 7.4 0.00016 37.0 6.1 55 254-308 21-82 (325)
212 PRK06995 flhF flagellar biosyn 74.7 6.2 0.00013 41.2 5.9 36 254-289 257-293 (484)
213 cd03234 ABCG_White The White s 74.5 2 4.4E-05 39.1 2.1 24 255-278 35-58 (226)
214 cd03226 ABC_cobalt_CbiO_domain 74.5 2 4.4E-05 38.4 2.0 23 255-277 28-50 (205)
215 COG2607 Predicted ATPase (AAA+ 74.4 5 0.00011 38.7 4.7 47 256-302 88-134 (287)
216 PRK11054 helD DNA helicase IV; 74.4 7.6 0.00017 42.1 6.7 52 255-306 211-265 (684)
217 PRK08118 topology modulation p 74.3 2.5 5.4E-05 37.3 2.5 23 256-278 4-26 (167)
218 PF13476 AAA_23: AAA domain; P 74.2 2.9 6.2E-05 36.2 2.9 25 253-278 19-43 (202)
219 PRK14738 gmk guanylate kinase; 74.1 2.1 4.5E-05 38.9 2.0 24 253-276 13-36 (206)
220 cd03265 ABC_DrrA DrrA is the A 74.1 2.1 4.6E-05 38.7 2.1 23 255-277 28-50 (220)
221 PF03668 ATP_bind_2: P-loop AT 74.0 10 0.00022 37.0 6.7 91 205-296 3-97 (284)
222 COG1120 FepC ABC-type cobalami 73.9 1.6 3.5E-05 41.8 1.3 50 244-294 18-68 (258)
223 cd03263 ABC_subfamily_A The AB 73.8 3.5 7.5E-05 37.2 3.4 23 255-277 30-52 (220)
224 cd03243 ABC_MutS_homologs The 73.8 2.9 6.3E-05 37.5 2.9 22 255-276 31-52 (202)
225 cd01393 recA_like RecA is a b 73.7 7.5 0.00016 35.0 5.6 39 254-292 20-64 (226)
226 cd01394 radB RadB. The archaea 73.5 4.8 0.0001 36.3 4.3 36 254-289 20-55 (218)
227 cd02027 APSK Adenosine 5'-phos 73.4 5.1 0.00011 34.4 4.2 32 256-287 2-33 (149)
228 TIGR02782 TrbB_P P-type conjug 73.3 8.3 0.00018 37.4 6.1 25 255-279 134-158 (299)
229 PRK11773 uvrD DNA-dependent he 73.2 8.7 0.00019 41.7 6.8 49 256-304 25-76 (721)
230 cd03290 ABCC_SUR1_N The SUR do 73.1 3.8 8.1E-05 37.0 3.5 23 255-277 29-51 (218)
231 PRK09435 membrane ATPase/prote 73.1 4.3 9.4E-05 40.2 4.1 39 255-294 58-96 (332)
232 cd01130 VirB11-like_ATPase Typ 73.0 8.6 0.00019 34.1 5.7 23 255-277 27-49 (186)
233 PF00158 Sigma54_activat: Sigm 72.9 2.4 5.3E-05 37.6 2.1 36 240-275 8-44 (168)
234 TIGR02237 recomb_radB DNA repa 72.8 9.8 0.00021 33.9 6.0 38 254-291 13-50 (209)
235 cd03216 ABC_Carb_Monos_I This 72.8 2.4 5.3E-05 36.8 2.1 33 255-288 28-60 (163)
236 PRK14737 gmk guanylate kinase; 72.7 2.2 4.7E-05 38.5 1.8 26 253-278 4-29 (186)
237 cd03225 ABC_cobalt_CbiO_domain 72.7 2.4 5.2E-05 38.0 2.1 23 255-277 29-51 (211)
238 KOG1663|consensus 72.7 3 6.5E-05 39.5 2.7 35 43-77 147-181 (237)
239 PRK13946 shikimate kinase; Pro 72.5 2.8 6.1E-05 37.2 2.4 24 254-277 11-34 (184)
240 PF05729 NACHT: NACHT domain 72.5 2.4 5.2E-05 35.4 1.9 17 204-220 1-17 (166)
241 cd03219 ABC_Mj1267_LivG_branch 72.4 2.2 4.8E-05 38.9 1.8 23 255-277 28-50 (236)
242 PF03193 DUF258: Protein of un 72.4 2 4.4E-05 38.3 1.5 23 254-276 36-58 (161)
243 TIGR02323 CP_lyasePhnK phospho 72.4 2.4 5.2E-05 39.2 2.0 24 255-278 31-54 (253)
244 cd04155 Arl3 Arl3 subfamily. 72.3 2.9 6.3E-05 35.5 2.4 23 254-276 15-37 (173)
245 cd03280 ABC_MutS2 MutS2 homolo 72.3 3.3 7.2E-05 37.2 2.9 20 255-274 30-49 (200)
246 PRK06731 flhF flagellar biosyn 72.3 14 0.0003 35.6 7.3 48 255-302 77-126 (270)
247 cd03283 ABC_MutS-like MutS-lik 72.2 3.3 7.2E-05 37.6 2.9 24 254-277 26-49 (199)
248 TIGR02688 conserved hypothetic 72.1 7.4 0.00016 40.2 5.6 56 255-321 211-267 (449)
249 cd00009 AAA The AAA+ (ATPases 72.0 5.1 0.00011 31.9 3.7 34 186-220 3-36 (151)
250 TIGR00150 HI0065_YjeE ATPase, 72.0 3.2 7E-05 35.8 2.6 40 255-298 24-63 (133)
251 TIGR01407 dinG_rel DnaQ family 72.0 19 0.00042 39.8 9.2 51 256-307 267-317 (850)
252 cd03264 ABC_drug_resistance_li 71.9 2.6 5.5E-05 37.9 2.0 23 255-277 27-49 (211)
253 PRK14723 flhF flagellar biosyn 71.9 7.1 0.00015 43.0 5.7 49 254-302 186-238 (767)
254 PRK07933 thymidylate kinase; V 71.8 5.4 0.00012 36.6 4.2 32 256-288 3-34 (213)
255 PRK13766 Hef nuclease; Provisi 71.7 7.9 0.00017 42.0 6.1 53 254-306 30-82 (773)
256 PRK15177 Vi polysaccharide exp 71.7 2.6 5.6E-05 38.4 2.1 23 255-277 15-37 (213)
257 cd03256 ABC_PhnC_transporter A 71.7 3.9 8.5E-05 37.3 3.2 23 255-277 29-51 (241)
258 PRK00440 rfc replication facto 71.6 11 0.00024 35.6 6.4 27 255-281 40-66 (319)
259 PRK12898 secA preprotein trans 71.6 10 0.00022 41.0 6.8 55 257-312 120-174 (656)
260 PHA00729 NTP-binding motif con 71.6 4.1 9E-05 38.3 3.4 24 255-278 19-42 (226)
261 cd03268 ABC_BcrA_bacitracin_re 71.6 2.6 5.7E-05 37.7 2.1 23 255-277 28-50 (208)
262 cd03246 ABCC_Protease_Secretio 71.5 2.8 6E-05 36.7 2.1 32 255-287 30-61 (173)
263 TIGR03410 urea_trans_UrtE urea 71.4 2.6 5.6E-05 38.4 2.0 24 255-278 28-51 (230)
264 cd03297 ABC_ModC_molybdenum_tr 71.4 2.7 5.8E-05 37.9 2.1 25 254-278 24-48 (214)
265 COG0593 DnaA ATPase involved i 71.2 13 0.00028 38.0 7.1 69 254-322 114-183 (408)
266 PF14516 AAA_35: AAA-like doma 71.1 4.8 0.0001 39.4 3.9 59 255-313 33-97 (331)
267 TIGR03817 DECH_helic helicase/ 70.9 16 0.00036 39.9 8.3 48 256-303 54-102 (742)
268 cd03292 ABC_FtsE_transporter F 70.9 4.6 0.0001 36.1 3.5 23 255-277 29-51 (214)
269 cd03230 ABC_DR_subfamily_A Thi 70.9 2.8 6.1E-05 36.6 2.0 23 255-277 28-50 (173)
270 PRK13894 conjugal transfer ATP 70.8 10 0.00023 37.2 6.2 24 255-278 150-173 (319)
271 cd04159 Arl10_like Arl10-like 70.8 2.4 5.2E-05 34.6 1.5 21 256-276 2-22 (159)
272 cd03258 ABC_MetN_methionine_tr 70.7 2.8 6.1E-05 38.2 2.1 24 255-278 33-56 (233)
273 COG0529 CysC Adenylylsulfate k 70.7 5.5 0.00012 36.7 3.9 33 255-287 25-57 (197)
274 PRK13948 shikimate kinase; Pro 70.6 3.4 7.4E-05 37.3 2.5 25 253-277 10-34 (182)
275 PF13401 AAA_22: AAA domain; P 70.4 11 0.00024 30.4 5.4 19 202-220 3-21 (131)
276 COG2805 PilT Tfp pilus assembl 70.4 4.6 9.9E-05 40.1 3.5 53 254-307 126-183 (353)
277 PRK10436 hypothetical protein; 70.4 9.3 0.0002 39.6 6.0 36 255-292 220-255 (462)
278 PRK06620 hypothetical protein; 70.4 2.4 5.2E-05 39.0 1.5 20 255-274 46-65 (214)
279 cd03235 ABC_Metallic_Cations A 70.4 2.6 5.7E-05 37.8 1.8 23 255-277 27-49 (213)
280 PF03193 DUF258: Protein of un 70.3 5.1 0.00011 35.8 3.5 18 203-220 35-52 (161)
281 cd03262 ABC_HisP_GlnQ_permease 70.2 4.5 9.8E-05 36.2 3.3 23 255-277 28-50 (213)
282 PRK13649 cbiO cobalt transport 70.2 2.8 6E-05 39.6 2.0 23 255-277 35-57 (280)
283 cd03254 ABCC_Glucan_exporter_l 70.1 4.7 0.0001 36.6 3.4 24 255-278 31-54 (229)
284 TIGR02524 dot_icm_DotB Dot/Icm 70.0 5.4 0.00012 39.8 4.0 38 254-291 135-173 (358)
285 PRK13833 conjugal transfer pro 70.0 11 0.00024 37.3 6.1 23 256-278 147-169 (323)
286 PF13173 AAA_14: AAA domain 70.0 3.1 6.7E-05 34.6 2.0 19 203-221 2-20 (128)
287 PRK11124 artP arginine transpo 70.0 3 6.5E-05 38.3 2.1 23 255-277 30-52 (242)
288 TIGR00041 DTMP_kinase thymidyl 70.0 10 0.00022 33.3 5.5 29 255-283 5-33 (195)
289 cd03232 ABC_PDR_domain2 The pl 70.0 4.4 9.6E-05 36.1 3.1 22 255-276 35-56 (192)
290 cd03249 ABC_MTABC3_MDL1_MDL2 M 69.9 3 6.6E-05 38.1 2.1 24 255-278 31-54 (238)
291 PRK13632 cbiO cobalt transport 69.9 2.9 6.3E-05 39.4 2.0 24 255-278 37-60 (271)
292 PRK05703 flhF flagellar biosyn 69.9 9.7 0.00021 38.9 5.9 49 254-302 222-274 (424)
293 cd03260 ABC_PstB_phosphate_tra 69.9 3.1 6.7E-05 37.8 2.1 23 255-277 28-50 (227)
294 COG3451 VirB4 Type IV secretor 69.9 5.1 0.00011 44.3 4.1 41 255-295 438-478 (796)
295 COG1101 PhnK ABC-type uncharac 69.8 3.4 7.5E-05 39.3 2.4 36 244-279 22-58 (263)
296 COG4626 Phage terminase-like p 69.7 8.7 0.00019 40.6 5.6 54 255-308 88-144 (546)
297 PHA03368 DNA packaging termina 69.7 9.5 0.00021 41.5 5.9 56 254-309 255-311 (738)
298 TIGR03743 SXT_TraD conjugative 69.7 15 0.00032 39.6 7.5 56 254-312 177-232 (634)
299 TIGR01184 ntrCD nitrate transp 69.6 4.8 0.00011 36.9 3.4 24 255-278 13-36 (230)
300 cd01876 YihA_EngB The YihA (En 69.5 3.2 7E-05 34.1 2.0 19 256-274 2-20 (170)
301 PF13481 AAA_25: AAA domain; P 69.5 6.6 0.00014 34.3 4.1 25 255-279 34-58 (193)
302 cd00820 PEPCK_HprK Phosphoenol 69.4 5 0.00011 33.5 3.1 20 255-274 17-36 (107)
303 COG0194 Gmk Guanylate kinase [ 69.4 4 8.6E-05 37.6 2.7 34 255-290 6-39 (191)
304 TIGR02324 CP_lyasePhnL phospho 69.3 3.1 6.7E-05 37.7 2.0 33 255-288 36-68 (224)
305 PRK00080 ruvB Holliday junctio 69.3 8.6 0.00019 37.3 5.2 41 255-298 53-93 (328)
306 PRK11300 livG leucine/isoleuci 69.2 3 6.6E-05 38.5 2.0 24 255-278 33-56 (255)
307 cd03261 ABC_Org_Solvent_Resist 69.1 3.2 6.8E-05 38.0 2.0 24 255-278 28-51 (235)
308 cd03259 ABC_Carb_Solutes_like 69.0 3.2 7E-05 37.3 2.1 23 255-277 28-50 (213)
309 PRK04195 replication factor C 69.0 9.4 0.0002 39.3 5.7 46 253-301 39-84 (482)
310 cd03257 ABC_NikE_OppD_transpor 68.9 4.6 0.0001 36.4 3.1 23 255-277 33-55 (228)
311 PRK14274 phosphate ABC transpo 68.9 5.6 0.00012 37.0 3.7 23 255-277 40-62 (259)
312 cd01123 Rad51_DMC1_radA Rad51_ 68.9 9 0.0002 34.7 5.0 45 254-298 20-70 (235)
313 TIGR00231 small_GTP small GTP- 68.8 3.5 7.6E-05 33.1 2.0 22 256-277 4-25 (161)
314 PRK14273 phosphate ABC transpo 68.8 3.3 7.1E-05 38.4 2.1 24 255-278 35-58 (254)
315 PRK11248 tauB taurine transpor 68.8 5.2 0.00011 37.4 3.4 23 255-277 29-51 (255)
316 PRK09825 idnK D-gluconate kina 68.7 3.7 8E-05 36.5 2.3 24 255-278 5-28 (176)
317 cd03301 ABC_MalK_N The N-termi 68.7 3.3 7.3E-05 37.1 2.1 24 255-278 28-51 (213)
318 TIGR02315 ABC_phnC phosphonate 68.6 3.3 7.1E-05 37.9 2.0 23 255-277 30-52 (243)
319 TIGR03608 L_ocin_972_ABC putat 68.6 3.4 7.3E-05 36.8 2.1 23 255-277 26-48 (206)
320 PRK13768 GTPase; Provisional 68.5 6.4 0.00014 37.1 4.0 33 255-287 4-36 (253)
321 PRK11629 lolD lipoprotein tran 68.5 3.4 7.3E-05 37.8 2.1 23 255-277 37-59 (233)
322 cd02040 NifH NifH gene encodes 68.4 6.2 0.00013 36.5 3.9 31 255-287 4-34 (270)
323 smart00763 AAA_PrkA PrkA AAA d 68.4 4.6 9.9E-05 40.6 3.1 28 252-279 77-104 (361)
324 KOG0920|consensus 68.3 13 0.00029 41.6 6.9 66 239-307 177-244 (924)
325 TIGR01075 uvrD DNA helicase II 68.3 13 0.00028 40.3 6.8 48 256-303 20-70 (715)
326 PRK11831 putative ABC transpor 68.2 5.3 0.00012 37.6 3.4 23 255-277 35-57 (269)
327 COG1116 TauB ABC-type nitrate/ 68.2 3.4 7.3E-05 39.5 2.1 25 255-279 31-55 (248)
328 cd04160 Arfrp1 Arfrp1 subfamil 68.2 3.7 8E-05 34.6 2.1 21 256-276 2-22 (167)
329 COG4133 CcmA ABC-type transpor 68.1 3.5 7.6E-05 38.3 2.1 39 255-294 30-68 (209)
330 cd03255 ABC_MJ0796_Lo1CDE_FtsE 68.1 3.5 7.5E-05 37.1 2.1 24 255-278 32-55 (218)
331 PRK14088 dnaA chromosomal repl 68.1 5.4 0.00012 40.8 3.7 35 255-289 132-168 (440)
332 PLN02476 O-methyltransferase 68.0 13 0.00027 36.1 6.0 70 44-126 193-262 (278)
333 TIGR01040 V-ATPase_V1_B V-type 68.0 9 0.0002 39.8 5.2 54 256-310 144-208 (466)
334 COG1204 Superfamily II helicas 67.9 9.7 0.00021 41.9 5.7 57 256-313 50-106 (766)
335 PRK14961 DNA polymerase III su 67.9 6.1 0.00013 39.1 3.9 36 185-220 20-55 (363)
336 cd03213 ABCG_EPDR ABCG transpo 67.8 5.3 0.00011 35.7 3.2 23 255-277 37-59 (194)
337 TIGR02211 LolD_lipo_ex lipopro 67.8 3.5 7.7E-05 37.1 2.1 24 255-278 33-56 (221)
338 TIGR03158 cas3_cyano CRISPR-as 67.8 17 0.00036 35.9 7.0 47 256-306 17-63 (357)
339 PRK13540 cytochrome c biogenes 67.7 5.8 0.00013 35.4 3.4 22 255-276 29-50 (200)
340 PRK09493 glnQ glutamine ABC tr 67.7 5.6 0.00012 36.5 3.4 23 255-277 29-51 (240)
341 TIGR02770 nickel_nikD nickel i 67.6 3.5 7.5E-05 37.7 2.0 24 255-278 14-37 (230)
342 cd03266 ABC_NatA_sodium_export 67.6 3.6 7.8E-05 37.0 2.0 23 255-277 33-55 (218)
343 PRK10584 putative ABC transpor 67.5 3.6 7.8E-05 37.3 2.1 23 255-277 38-60 (228)
344 cd03224 ABC_TM1139_LivF_branch 67.4 3.5 7.6E-05 37.1 2.0 23 255-277 28-50 (222)
345 COG1122 CbiO ABC-type cobalt t 67.4 3.3 7.2E-05 39.0 1.8 36 255-291 32-67 (235)
346 PF10443 RNA12: RNA12 protein; 67.4 2.9 6.3E-05 42.9 1.5 21 250-270 14-34 (431)
347 PF09848 DUF2075: Uncharacteri 67.2 9.6 0.00021 37.4 5.1 52 254-306 2-55 (352)
348 COG4122 Predicted O-methyltran 67.2 6.7 0.00015 36.7 3.8 35 43-77 130-164 (219)
349 cd00879 Sar1 Sar1 subfamily. 67.1 3.4 7.3E-05 35.9 1.7 22 254-275 20-41 (190)
350 PRK10867 signal recognition pa 67.0 6.9 0.00015 40.2 4.2 36 254-289 101-137 (433)
351 PTZ00202 tuzin; Provisional 67.0 10 0.00022 39.7 5.4 39 238-277 272-310 (550)
352 cd03233 ABC_PDR_domain1 The pl 67.0 3.3 7.2E-05 37.3 1.7 24 255-278 35-58 (202)
353 PRK14260 phosphate ABC transpo 67.0 5.9 0.00013 36.9 3.4 23 255-277 35-57 (259)
354 cd03215 ABC_Carb_Monos_II This 67.0 3.7 8.1E-05 36.2 2.0 24 255-278 28-51 (182)
355 TIGR03411 urea_trans_UrtD urea 66.9 5.9 0.00013 36.3 3.4 23 255-277 30-52 (242)
356 KOG1970|consensus 66.8 4.9 0.00011 42.7 3.1 38 241-278 95-135 (634)
357 smart00072 GuKc Guanylate kina 66.8 3.7 8.1E-05 36.3 2.0 24 254-277 3-26 (184)
358 PRK13645 cbiO cobalt transport 66.8 5.8 0.00012 37.7 3.4 23 255-277 39-61 (289)
359 PRK13539 cytochrome c biogenes 66.6 3.9 8.4E-05 36.8 2.1 24 255-278 30-53 (207)
360 PF00437 T2SE: Type II/IV secr 66.5 6.7 0.00014 36.7 3.7 33 254-287 128-160 (270)
361 PRK11264 putative amino-acid A 66.4 3.9 8.5E-05 37.7 2.1 23 255-277 31-53 (250)
362 TIGR03878 thermo_KaiC_2 KaiC d 66.4 14 0.0003 34.9 5.9 38 254-291 37-74 (259)
363 TIGR01420 pilT_fam pilus retra 66.4 5.9 0.00013 39.0 3.5 37 255-292 124-160 (343)
364 PRK11247 ssuB aliphatic sulfon 66.4 6.2 0.00013 37.2 3.4 24 255-278 40-63 (257)
365 PF08298 AAA_PrkA: PrkA AAA do 66.4 12 0.00025 37.7 5.5 43 253-298 88-130 (358)
366 TIGR03574 selen_PSTK L-seryl-t 66.3 7.7 0.00017 36.0 4.1 32 256-287 2-33 (249)
367 PRK06067 flagellar accessory p 66.2 15 0.00033 33.6 5.9 45 254-300 26-70 (234)
368 cd01127 TrwB Bacterial conjuga 66.1 8.4 0.00018 38.8 4.6 46 253-299 42-87 (410)
369 cd04154 Arl2 Arl2 subfamily. 66.1 3.6 7.8E-05 35.3 1.7 21 254-274 15-35 (173)
370 PRK00625 shikimate kinase; Pro 66.1 4.8 0.0001 35.9 2.5 22 256-277 3-24 (173)
371 PRK14255 phosphate ABC transpo 66.0 4 8.6E-05 37.7 2.0 23 255-277 33-55 (252)
372 PF01596 Methyltransf_3: O-met 66.0 11 0.00024 34.6 5.0 33 45-77 121-153 (205)
373 TIGR00960 3a0501s02 Type II (G 66.0 4 8.6E-05 36.7 2.0 23 255-277 31-53 (216)
374 TIGR02746 TraC-F-type type-IV 65.9 6.6 0.00014 42.7 4.0 37 256-293 433-469 (797)
375 cd03111 CpaE_like This protein 65.7 30 0.00066 27.9 7.0 90 208-312 5-95 (106)
376 PRK05973 replicative DNA helic 65.7 8.7 0.00019 36.3 4.3 37 254-290 65-101 (237)
377 cd02023 UMPK Uridine monophosp 65.7 7 0.00015 34.7 3.5 22 256-277 2-23 (198)
378 PRK13230 nitrogenase reductase 65.6 7.7 0.00017 36.6 4.0 32 256-288 4-35 (279)
379 cd03114 ArgK-like The function 65.6 8.6 0.00019 33.3 3.9 31 256-287 2-32 (148)
380 cd03250 ABCC_MRP_domain1 Domai 65.6 6.8 0.00015 34.9 3.5 23 255-277 33-55 (204)
381 cd02028 UMPK_like Uridine mono 65.6 9.1 0.0002 34.0 4.2 28 256-283 2-29 (179)
382 PRK10744 pstB phosphate transp 65.6 4.1 8.8E-05 38.0 2.0 23 255-277 41-63 (260)
383 PRK14266 phosphate ABC transpo 65.5 4.2 9.1E-05 37.5 2.1 23 255-277 31-53 (250)
384 cd03229 ABC_Class3 This class 65.5 4.3 9.3E-05 35.6 2.1 33 255-288 28-60 (178)
385 PRK14241 phosphate transporter 65.4 4.1 9E-05 37.9 2.1 23 255-277 32-54 (258)
386 COG3840 ThiQ ABC-type thiamine 65.4 4.2 9.2E-05 37.8 2.0 46 255-300 27-78 (231)
387 TIGR03877 thermo_KaiC_1 KaiC d 65.4 9.1 0.0002 35.4 4.3 47 254-302 22-68 (237)
388 PRK11701 phnK phosphonate C-P 65.4 4.1 9E-05 37.9 2.1 23 255-277 34-56 (258)
389 cd04156 ARLTS1 ARLTS1 subfamil 65.3 3.6 7.7E-05 34.4 1.5 19 256-274 2-20 (160)
390 TIGR01073 pcrA ATP-dependent D 65.2 15 0.00033 39.7 6.6 31 181-220 4-34 (726)
391 PRK13767 ATP-dependent helicas 65.2 22 0.00048 39.6 8.0 48 256-303 50-105 (876)
392 TIGR01978 sufC FeS assembly AT 65.2 4.2 9.1E-05 37.2 2.0 22 255-276 28-49 (243)
393 PRK14267 phosphate ABC transpo 65.1 6.3 0.00014 36.4 3.2 23 255-277 32-54 (253)
394 cd03237 ABC_RNaseL_inhibitor_d 65.1 4.2 9.2E-05 38.0 2.1 23 255-277 27-49 (246)
395 TIGR02881 spore_V_K stage V sp 65.0 6 0.00013 37.1 3.0 27 255-281 44-70 (261)
396 cd03293 ABC_NrtD_SsuB_transpor 64.9 4.4 9.4E-05 36.7 2.0 23 255-277 32-54 (220)
397 cd03296 ABC_CysA_sulfate_impor 64.9 6.8 0.00015 35.9 3.4 23 255-277 30-52 (239)
398 cd00876 Ras Ras family. The R 64.8 3.6 7.8E-05 33.9 1.4 20 256-275 2-21 (160)
399 cd03251 ABCC_MsbA MsbA is an e 64.8 4.4 9.5E-05 36.9 2.1 24 255-278 30-53 (234)
400 PF07652 Flavi_DEAD: Flaviviru 64.7 13 0.00028 33.0 4.8 47 255-302 6-53 (148)
401 PHA02624 large T antigen; Prov 64.7 11 0.00023 40.7 5.1 53 234-292 415-467 (647)
402 PRK00889 adenylylsulfate kinas 64.5 9.2 0.0002 33.2 4.0 33 255-287 6-38 (175)
403 PF06309 Torsin: Torsin; Inte 64.5 17 0.00038 31.3 5.5 50 258-307 58-114 (127)
404 COG3973 Superfamily I DNA and 64.5 15 0.00032 39.7 6.0 56 254-313 227-287 (747)
405 PRK14258 phosphate ABC transpo 64.4 6.9 0.00015 36.6 3.4 24 255-278 35-58 (261)
406 TIGR00991 3a0901s02IAP34 GTP-b 64.3 4.6 9.9E-05 39.9 2.2 38 239-276 23-61 (313)
407 PRK14239 phosphate transporter 64.2 7 0.00015 36.0 3.4 22 255-276 33-54 (252)
408 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 64.2 4.4 9.6E-05 37.0 2.0 23 255-277 50-72 (224)
409 cd03217 ABC_FeS_Assembly ABC-t 64.2 4.5 9.7E-05 36.3 2.0 22 255-276 28-49 (200)
410 cd03214 ABC_Iron-Siderophores_ 64.2 4.7 0.0001 35.5 2.1 59 255-314 27-90 (180)
411 PF04466 Terminase_3: Phage te 64.1 2.2 4.8E-05 42.8 0.0 61 254-314 3-64 (387)
412 PRK14269 phosphate ABC transpo 64.1 4.6 9.9E-05 37.3 2.1 23 255-277 30-52 (246)
413 PRK10908 cell division protein 64.1 7.3 0.00016 35.3 3.4 23 255-277 30-52 (222)
414 cd03295 ABC_OpuCA_Osmoprotecti 64.0 4.6 0.0001 37.1 2.1 23 255-277 29-51 (242)
415 TIGR02673 FtsE cell division A 64.0 4.6 0.0001 36.2 2.0 23 255-277 30-52 (214)
416 PRK13633 cobalt transporter AT 64.0 6.8 0.00015 37.1 3.3 24 255-278 38-61 (280)
417 TIGR01288 nodI ATP-binding ABC 64.0 6.9 0.00015 37.6 3.4 23 255-277 32-54 (303)
418 PRK12597 F0F1 ATP synthase sub 64.0 13 0.00028 38.6 5.4 24 256-279 146-169 (461)
419 PRK14237 phosphate transporter 63.9 7.5 0.00016 36.5 3.5 23 255-277 48-70 (267)
420 cd03245 ABCC_bacteriocin_expor 63.9 4.7 0.0001 36.3 2.1 23 255-277 32-54 (220)
421 TIGR01277 thiQ thiamine ABC tr 63.9 7.3 0.00016 35.1 3.3 24 255-278 26-49 (213)
422 COG3839 MalK ABC-type sugar tr 63.9 4.5 9.8E-05 40.3 2.1 25 254-278 30-54 (338)
423 PRK14253 phosphate ABC transpo 63.8 4.7 0.0001 37.2 2.1 23 255-277 31-53 (249)
424 cd03222 ABC_RNaseL_inhibitor T 63.8 4.5 9.7E-05 36.3 1.9 23 255-277 27-49 (177)
425 PF02223 Thymidylate_kin: Thym 63.8 7.9 0.00017 34.0 3.4 33 260-293 3-35 (186)
426 PRK14270 phosphate ABC transpo 63.7 7.4 0.00016 36.0 3.4 23 255-277 32-54 (251)
427 PRK09544 znuC high-affinity zi 63.6 7.6 0.00016 36.3 3.5 23 255-277 32-54 (251)
428 PRK14261 phosphate ABC transpo 63.6 7.2 0.00016 36.1 3.3 22 255-276 34-55 (253)
429 PRK14252 phosphate ABC transpo 63.6 7.5 0.00016 36.3 3.5 22 255-276 44-65 (265)
430 PRK13543 cytochrome c biogenes 63.6 4.8 0.0001 36.4 2.0 23 255-277 39-61 (214)
431 cd00878 Arf_Arl Arf (ADP-ribos 63.6 4 8.7E-05 34.1 1.5 21 256-276 2-22 (158)
432 PF01583 APS_kinase: Adenylyls 63.6 10 0.00023 33.6 4.1 33 255-287 4-36 (156)
433 PF00910 RNA_helicase: RNA hel 63.5 6.8 0.00015 31.7 2.8 23 257-279 2-24 (107)
434 cd01863 Rab18 Rab18 subfamily. 63.5 4 8.7E-05 34.1 1.4 18 256-273 3-20 (161)
435 smart00174 RHO Rho (Ras homolo 63.4 3.9 8.3E-05 34.8 1.3 19 256-274 1-19 (174)
436 PRK14111 F0F1 ATP synthase sub 63.3 18 0.00039 35.0 6.1 46 205-264 81-126 (290)
437 PF01656 CbiA: CobQ/CobB/MinD/ 63.3 15 0.00034 31.6 5.2 44 256-299 2-46 (195)
438 KOG2228|consensus 63.3 6.2 0.00014 39.7 2.9 39 182-220 28-66 (408)
439 cd00227 CPT Chloramphenicol (C 63.2 6 0.00013 34.6 2.6 24 254-277 3-26 (175)
440 PRK14256 phosphate ABC transpo 63.1 4.9 0.00011 37.2 2.1 23 255-277 32-54 (252)
441 KOG0924|consensus 63.1 14 0.0003 40.5 5.6 51 254-307 372-425 (1042)
442 PRK14262 phosphate ABC transpo 63.1 4.8 0.0001 37.1 2.0 23 255-277 31-53 (250)
443 cd03228 ABCC_MRP_Like The MRP 63.0 5.2 0.00011 34.9 2.1 32 255-287 30-61 (171)
444 PF00009 GTP_EFTU: Elongation 62.9 6.6 0.00014 34.6 2.8 24 255-278 5-28 (188)
445 TIGR01189 ccmA heme ABC export 62.9 5.1 0.00011 35.7 2.1 23 255-277 28-50 (198)
446 smart00534 MUTSac ATPase domai 62.8 5.9 0.00013 35.2 2.5 19 256-274 2-20 (185)
447 cd00881 GTP_translation_factor 62.8 6.1 0.00013 33.6 2.5 24 256-279 2-25 (189)
448 PRK03695 vitamin B12-transport 62.8 7 0.00015 36.3 3.1 23 255-277 24-46 (248)
449 PRK13635 cbiO cobalt transport 62.8 7.9 0.00017 36.8 3.5 23 255-277 35-57 (279)
450 cd03244 ABCC_MRP_domain2 Domai 62.7 5.1 0.00011 36.1 2.1 23 255-277 32-54 (221)
451 PF03796 DnaB_C: DnaB-like hel 62.7 20 0.00044 33.3 6.2 47 255-301 21-67 (259)
452 PRK13973 thymidylate kinase; P 62.6 15 0.00033 33.4 5.2 33 255-288 5-37 (213)
453 cd03236 ABC_RNaseL_inhibitor_d 62.6 5 0.00011 37.8 2.1 24 255-278 28-51 (255)
454 PRK13643 cbiO cobalt transport 62.6 7.6 0.00017 37.0 3.4 23 255-277 34-56 (288)
455 PRK14242 phosphate transporter 62.6 5.1 0.00011 37.0 2.1 22 255-276 34-55 (253)
456 cd04146 RERG_RasL11_like RERG/ 62.4 4.2 9.1E-05 34.4 1.4 15 256-270 2-16 (165)
457 cd04106 Rab23_lke Rab23-like s 62.4 4.3 9.3E-05 33.9 1.4 20 256-275 3-22 (162)
458 PRK14240 phosphate transporter 62.4 5.1 0.00011 37.0 2.1 22 255-276 31-52 (250)
459 PRK13547 hmuV hemin importer A 62.3 7.4 0.00016 36.9 3.2 23 255-277 29-51 (272)
460 PRK13648 cbiO cobalt transport 62.3 5.1 0.00011 37.6 2.0 24 255-278 37-60 (269)
461 PRK13546 teichoic acids export 62.2 5 0.00011 38.0 2.0 24 255-278 52-75 (264)
462 PRK14259 phosphate ABC transpo 62.1 5.1 0.00011 37.7 2.0 23 255-277 41-63 (269)
463 COG2607 Predicted ATPase (AAA+ 62.1 11 0.00023 36.5 4.1 41 180-220 62-102 (287)
464 PRK10771 thiQ thiamine transpo 62.0 5.1 0.00011 36.6 2.0 24 255-278 27-50 (232)
465 TIGR00972 3a0107s01c2 phosphat 62.0 5.2 0.00011 36.9 2.1 24 255-278 29-52 (247)
466 cd01891 TypA_BipA TypA (tyrosi 62.0 5.8 0.00013 35.0 2.3 21 255-275 4-24 (194)
467 PRK02496 adk adenylate kinase; 62.0 6.5 0.00014 34.5 2.6 22 256-277 4-25 (184)
468 cd03275 ABC_SMC1_euk Eukaryoti 61.9 4.5 9.8E-05 37.6 1.6 17 254-270 23-39 (247)
469 cd04138 H_N_K_Ras_like H-Ras/N 61.8 4.4 9.6E-05 33.5 1.4 19 256-274 4-22 (162)
470 PRK14250 phosphate ABC transpo 61.8 5.3 0.00011 36.8 2.0 23 255-277 31-53 (241)
471 TIGR00929 VirB4_CagE type IV s 61.8 8.8 0.00019 41.5 4.0 40 254-293 435-474 (785)
472 PRK14268 phosphate ABC transpo 61.8 8.5 0.00018 35.8 3.5 22 255-276 40-61 (258)
473 TIGR01360 aden_kin_iso1 adenyl 61.8 6.7 0.00014 34.0 2.6 23 255-277 5-27 (188)
474 cd03218 ABC_YhbG The ABC trans 61.7 5.4 0.00012 36.2 2.1 23 255-277 28-50 (232)
475 PRK14247 phosphate ABC transpo 61.6 5.4 0.00012 36.8 2.0 23 255-277 31-53 (250)
476 PRK14248 phosphate ABC transpo 61.6 5.4 0.00012 37.4 2.1 23 255-277 49-71 (268)
477 PRK09200 preprotein translocas 61.5 16 0.00035 40.4 6.0 55 257-312 95-149 (790)
478 cd01870 RhoA_like RhoA-like su 61.5 4.7 0.0001 34.3 1.6 20 255-274 3-22 (175)
479 PRK10619 histidine/lysine/argi 61.5 8.7 0.00019 35.7 3.5 24 255-278 33-56 (257)
480 PRK08233 hypothetical protein; 61.5 5.7 0.00012 34.2 2.1 24 255-278 5-28 (182)
481 PRK14271 phosphate ABC transpo 61.5 5.4 0.00012 37.8 2.1 24 255-278 49-72 (276)
482 PRK14961 DNA polymerase III su 61.4 7 0.00015 38.7 2.9 26 253-278 38-63 (363)
483 cd03278 ABC_SMC_barmotin Barmo 61.4 4.5 9.7E-05 36.6 1.5 20 255-274 24-43 (197)
484 PRK13652 cbiO cobalt transport 61.4 8.4 0.00018 36.4 3.4 24 255-278 32-55 (277)
485 PRK12402 replication factor C 61.3 6.4 0.00014 37.6 2.6 26 255-280 38-63 (337)
486 TIGR03880 KaiC_arch_3 KaiC dom 61.3 23 0.00049 32.1 6.1 46 254-301 17-62 (224)
487 cd03223 ABCD_peroxisomal_ALDP 61.2 5.7 0.00012 34.6 2.0 24 255-278 29-52 (166)
488 cd03298 ABC_ThiQ_thiamine_tran 61.1 5.6 0.00012 35.6 2.0 24 255-278 26-49 (211)
489 cd03267 ABC_NatA_like Similar 61.1 5.5 0.00012 36.6 2.0 23 255-277 49-71 (236)
490 PRK06762 hypothetical protein; 61.1 7 0.00015 33.5 2.6 24 254-277 3-26 (166)
491 cd03369 ABCC_NFT1 Domain 2 of 61.0 5.7 0.00012 35.5 2.1 23 255-277 36-58 (207)
492 cd04145 M_R_Ras_like M-Ras/R-R 60.9 4.7 0.0001 33.7 1.4 19 256-274 5-23 (164)
493 PRK13975 thymidylate kinase; P 60.8 6.9 0.00015 34.4 2.5 24 255-278 4-27 (196)
494 cd03272 ABC_SMC3_euk Eukaryoti 60.8 4.7 0.0001 36.9 1.5 21 254-274 24-44 (243)
495 PRK06217 hypothetical protein; 60.8 6.3 0.00014 34.8 2.2 22 256-277 4-25 (183)
496 PRK13548 hmuV hemin importer A 60.7 5.6 0.00012 37.2 2.0 24 255-278 30-53 (258)
497 PRK09361 radB DNA repair and r 60.7 20 0.00043 32.5 5.6 37 254-290 24-60 (225)
498 cd01135 V_A-ATPase_B V/A-type 60.7 11 0.00024 36.6 4.0 22 256-277 72-93 (276)
499 PRK13891 conjugal transfer pro 60.6 8.9 0.00019 42.6 3.8 40 256-295 491-530 (852)
500 PRK14235 phosphate transporter 60.5 5.8 0.00013 37.3 2.1 24 255-278 47-70 (267)
No 1
>KOG2036|consensus
Probab=100.00 E-value=4.4e-69 Score=547.86 Aligned_cols=282 Identities=68% Similarity=1.129 Sum_probs=258.0
Q ss_pred ChhhhhHHhcCcCCCCCCCcchhhhhccccceeehhhhhhhcccccceEEEecCCCCCHHHHHHHhhhhccCcEEEEEeC
Q psy18105 1 MKSVQRKVQAGKLNVNEDDPFELFVASTNIRYTYYSETHKILGNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLR 80 (333)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~yk~a~~lLGqE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLILL~P 80 (333)
+|.+|+.+++|.++.+.+|+|++|+++++|+||+|++++++||+||+|||+|+|++++||.||+++|||+|||++|||+.
T Consensus 72 ~kk~kk~~~~g~~~~~~~D~f~lFi~~~~I~~cyYkEsekILGnT~gmciLQDFEALTPNLLArTiETVeGGGlVVLLL~ 151 (1011)
T KOG2036|consen 72 AKKIKKAIKRGTLDPNSEDPFSLFISSTNIRYCYYKESEKILGNTFGMCILQDFEALTPNLLARTIETVEGGGLVVLLLK 151 (1011)
T ss_pred HHHHHHHHhccCCCccccCcHHHHhhccceEEEEeccHHHhhccccceEEeehhhhcChhhhhheeeeeecCcEEEEeHh
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhhhcccccccccccccCCcCcchhHHHHHHHhhhcCCceEEEeCCCCccccccccccccccCCCCC--cchhhH
Q psy18105 81 TLSSLKQLYTMSMDIHERYRTEAHSDVVCRFNERFLLSLSSCNRCLVVDDQLTVLPITSQHVLNITPVSKTS--DLSQQE 158 (333)
Q Consensus 81 ~~~~w~~~~~~~~~~~~r~~~~~~~~v~~rF~~Rf~~~L~~~~~~~i~d~~~~~lp~~~~~~~~~~~~~~~~--~~~~~~ 158 (333)
++.+++++|+++||.|.||.++.|.++++||++||+.+|.+|+.|+++||+.+++|+++ +...++++|+.. ..++.+
T Consensus 152 sl~SLkqLyTm~mDVH~R~rTEaH~ev~~RfNeRfilSLasc~~clv~DDeLnvLplss-h~~nv~~~P~~~~~~~~~~e 230 (1011)
T KOG2036|consen 152 SLNSLKQLYTMSMDVHSRYRTEAHSEVTARFNERFILSLASCKNCLVLDDELNVLPLSS-HIKNVEAVPPKDDENLSPSE 230 (1011)
T ss_pred hhhhHHhHHheeeeHHhhhccccchhhhhhhhHHHHHHHhcCCceEEEcCccccccccc-cccccccCCCcccccCChhh
Confidence 99999999999999999999999999999999999999999999999999999999976 555666777533 244567
Q ss_pred HHHHHhhhccccCCcchhhhccCCCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhhhhhhhhhhhcccchhhhh
Q psy18105 159 QELNALKTSLKDTQPVSALIDCCKTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGK 238 (333)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~l~~~~~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaLGla~~~~~~~~~~n~~~~ 238 (333)
.++.+|++++.+.+|++.|+.+|.|.||++|+..|.+++.++
T Consensus 231 ~~lk~Lkesl~~~~P~G~Lv~~~kT~dQakav~~f~dai~eK-------------------------------------- 272 (1011)
T KOG2036|consen 231 RELKELKESLSDDQPAGPLVGLCKTLDQAKAVLTFFDAIVEK-------------------------------------- 272 (1011)
T ss_pred hhhHhhhhhhcCCCcchhhhhhhhhHHHHHHHHHHHHHHHHh--------------------------------------
Confidence 889999999999999999999999999999998887665554
Q ss_pred hhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccccccceE
Q psy18105 239 ALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLDYS 318 (333)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~~~d~~ 318 (333)
.+|.++.|||.|||||||+|||++|++++.||+||+||+|+|+|+.|||+|+.+|+++|+|+||+||+
T Consensus 273 ------------~lr~~vsLtA~RGRGKSAALGlsiA~AVa~GysnIyvtSPspeNlkTlFeFv~kGfDaL~Yqeh~Dy~ 340 (1011)
T KOG2036|consen 273 ------------TLRSTVSLTASRGRGKSAALGLSIAGAVAFGYSNIYVTSPSPENLKTLFEFVFKGFDALEYQEHVDYD 340 (1011)
T ss_pred ------------hhcceEEEEecCCCCchhhhhHHHHHHHhcCcceEEEcCCChHHHHHHHHHHHcchhhhcchhhcchh
Confidence 44555555666666666666999999999999999999999999999999999999999999999999
Q ss_pred EEecCCcccccccCC
Q psy18105 319 IVQSTEPEYNKALVR 333 (333)
Q Consensus 319 ~i~~~~~~~~~~~~~ 333 (333)
||||++|+|++||+|
T Consensus 341 iI~s~np~fkkaivR 355 (1011)
T KOG2036|consen 341 IIQSTNPDFKKAIVR 355 (1011)
T ss_pred hhhhcChhhhhhEEE
Confidence 999999999999986
No 2
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=100.00 E-value=5e-47 Score=396.27 Aligned_cols=249 Identities=35% Similarity=0.475 Sum_probs=194.0
Q ss_pred hhHHhcCcCCCCCCCcchhhhhccccceeehhhhhhhcccccceEEEecCCCCCHHHHHHHhhhhccCcEEEEEeCCccc
Q psy18105 5 QRKVQAGKLNVNEDDPFELFVASTNIRYTYYSETHKILGNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLRTLSS 84 (333)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~yk~a~~lLGqE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLILL~P~~~~ 84 (333)
++..+.+......+++|+ .++.+|+|++++++|||||+++|+|++++|+||+||+++|||||||+||+|+|||++
T Consensus 57 ~~~~~~~~~~~~~~~~~~-----~~~~~~~yk~se~iLG~t~~~~VlD~~~~l~pn~lar~v~TvrgGG~lvil~p~~~~ 131 (758)
T COG1444 57 KRDALAGDRLPESPDPFE-----GEFEHIDYKESERILGRTFDLLVLDLTEGLDPNALARLVGTVRGGGLLVLLLPPWEE 131 (758)
T ss_pred hhhhcccccccccccccc-----cccceechhHHHHHhchhhheEEEecccCCCHHHHHHHHhheecceEEEEEcCchHh
Confidence 355667777788888888 188999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcccccccccccccCCcCcchhHHHHHHHhhhcCCceEEEeCCCC--ccccccccccccccCCCCCcchhhHHHHH
Q psy18105 85 LKQLYTMSMDIHERYRTEAHSDVVCRFNERFLLSLSSCNRCLVVDDQLT--VLPITSQHVLNITPVSKTSDLSQQEQELN 162 (333)
Q Consensus 85 w~~~~~~~~~~~~r~~~~~~~~v~~rF~~Rf~~~L~~~~~~~i~d~~~~--~lp~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (333)
|+++++ .++.++..+.+.+++++|++||++++.+++.+++|+|..+ +.+.+. ....+..+
T Consensus 132 w~~~~~---~~~~~~~~~~~~~vt~rf~~rf~r~l~~~~~~i~i~d~~~~~~~~~p~---~~~~~~~~------------ 193 (758)
T COG1444 132 WKTLPT---ADSRRLSVPPFPDVTPRFNRRFIRSLSAHPDGIFIDDVDPKKIESGPV---SANEPSKE------------ 193 (758)
T ss_pred ccccCc---hhhhcccCCCCcccchHHHHHHHHHHhcCCCceEEEcccccccccCCc---cccccccc------------
Confidence 999886 5678888888889999999999999999977766665543 222110 00000000
Q ss_pred HhhhccccCCcchhhhccCCCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhhhhhhhhhhhcccchhhhhhhhh
Q psy18105 163 ALKTSLKDTQPVSALIDCCKTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGKALLK 242 (333)
Q Consensus 163 ~~~~~~~~~~~~~~l~~~~~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaLGla~~~~~~~~~~n~~~~~~~~ 242 (333)
.++.+.+..+.+.++++|.|+||+++++.|...+..+ +
T Consensus 194 -~~~~~~~~~~~~~l~~l~~T~dQ~~~l~~~~~l~~~~--~--------------------------------------- 231 (758)
T COG1444 194 -RKKPPLDPVFPRELYELCLTEDQAEALEILERLLDAP--K--------------------------------------- 231 (758)
T ss_pred -ccCCCCCCCCCHHHhhhhcChhHHHHHHHHHHHHcCC--C---------------------------------------
Confidence 0111112233477899999999999988887654221 1
Q ss_pred hhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcC-CceEEEeCCChhhHHHHHHHHHhcchhcccccccceEEEe
Q psy18105 243 FIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLDYSIVQ 321 (333)
Q Consensus 243 ~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g-~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~~~d~~~i~ 321 (333)
+.+||||||||||||++||+++.+.+.+ +.+|+||||+++||++||+|+.++|+.|||+++++++.+.
T Consensus 232 -----------~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l~~lg~~~~v~~d~~g 300 (758)
T COG1444 232 -----------RALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLEFLGYKRKVAPDALG 300 (758)
T ss_pred -----------ceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHHhHHHhCCcccccccccc
Confidence 1366777777777777788886666655 5799999999999999999999999999999999988877
Q ss_pred cCCccccc
Q psy18105 322 STEPEYNK 329 (333)
Q Consensus 322 ~~~~~~~~ 329 (333)
+..+-+++
T Consensus 301 ~~~~~~~~ 308 (758)
T COG1444 301 EIREVSGD 308 (758)
T ss_pred ceeeecCC
Confidence 76554443
No 3
>PF08351 DUF1726: Domain of unknown function (DUF1726); InterPro: IPR013562 This entry represents a protein of unknown function and is found towards the N terminus of putative ATPases (IPR007807 from INTERPRO). ; PDB: 2ZPA_B.
Probab=99.96 E-value=5.6e-30 Score=207.04 Aligned_cols=92 Identities=34% Similarity=0.582 Sum_probs=66.1
Q ss_pred hhhhhhhcccccceEEEecCCCCCHHHHHHHhhhhccCcEEEEEeCCccchhhhhcccccccccccccCCcCcchhHHHH
Q psy18105 35 YSETHKILGNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLRTLSSLKQLYTMSMDIHERYRTEAHSDVVCRFNER 114 (333)
Q Consensus 35 yk~a~~lLGqE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLILL~P~~~~w~~~~~~~~~~~~r~~~~~~~~v~~rF~~R 114 (333)
||+++++||||||++|+|++++|+||+|||++|||||||++|||+|+|++|+++++ ++++|+.++++.++++||++|
T Consensus 1 yk~~~~~LG~e~~~~i~d~~~g~~pnal~a~~gtv~gGGllill~p~~~~w~~~~d---~~~~~~~~~~~~~~~~~F~~r 77 (92)
T PF08351_consen 1 YKQARQLLGQEFDLLIFDAFEGFDPNALAALAGTVRGGGLLILLLPPWESWPQLPD---PFSRRLSVPPYTDVTPRFIRR 77 (92)
T ss_dssp -----STTT--BSSEEEE-SS---HHHHHHHHTTB-TT-EEEEEES-GGGTTTS-B---GGGHHCC--SS-B--HHHHHH
T ss_pred CchhhhhhCCccCEEEEEccCCCCHHHHHHHhcceecCeEEEEEcCCHHHhhhcch---HHHhccccCCCCcccHHHHHH
Confidence 89999999999999999999999999999999999999999999999999998875 889999999999999999999
Q ss_pred HHHhhhcCCceEEEe
Q psy18105 115 FLLSLSSCNRCLVVD 129 (333)
Q Consensus 115 f~~~L~~~~~~~i~d 129 (333)
|+++|++++++++||
T Consensus 78 f~~~L~~~~~i~i~D 92 (92)
T PF08351_consen 78 FIRSLQSDPGIIIID 92 (92)
T ss_dssp HHHHHCCSTTS----
T ss_pred HHHHHHHCcCCccCC
Confidence 999999999999886
No 4
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=99.72 E-value=4.8e-19 Score=158.97 Aligned_cols=61 Identities=56% Similarity=0.800 Sum_probs=34.8
Q ss_pred eeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccccccce
Q psy18105 257 SLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLDY 317 (333)
Q Consensus 257 vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~~~d~ 317 (333)
||||||||||||+||+++|+++..|+.+|+||||+++|++++|+|+.++|+++||++..+.
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~l~~~~~~~~~~~ 61 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKGLKALGYKEEKKK 61 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC---------------
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhhcccccccccccc
Confidence 7999999999999999999999999899999999999999999999999999999885443
No 5
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=98.56 E-value=1.9e-08 Score=90.63 Aligned_cols=31 Identities=58% Similarity=0.694 Sum_probs=22.8
Q ss_pred eEEecCCCChhhhhhhhhhhhhhcccchhhh
Q psy18105 207 SLTAARGRGKSAALGLAVAGAVAFGYSNIFG 237 (333)
Q Consensus 207 vlTAdRGRGKSAaLGla~~~~~~~~~~n~~~ 237 (333)
||||+|||||||+||+++++++..+|.||++
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~v 31 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILV 31 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEE
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEE
Confidence 7999999999999999999999988877766
No 6
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=98.41 E-value=3.4e-07 Score=96.73 Aligned_cols=67 Identities=19% Similarity=0.217 Sum_probs=55.2
Q ss_pred hhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 244 IDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 244 ~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
||++=+.--+.--|+++|||||||+.+|++++.++.....+|+||||...+++++|+++.+.++.+|
T Consensus 178 id~~~~~fkq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg 244 (752)
T PHA03333 178 IDRIFDEYGKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQ 244 (752)
T ss_pred HHHHHHHHhhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHHhc
Confidence 3333333334567999999999999999998888773336999999999999999999999999887
No 7
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.18 E-value=0.001 Score=60.36 Aligned_cols=47 Identities=17% Similarity=0.216 Sum_probs=38.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
..+|+|+-|-|||+++..++..+...| .+|+++||+-.++..|-+-.
T Consensus 20 ~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 20 VSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp EEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHHHHHHHHhh
Confidence 467888888899998898877777777 58999999999999987764
No 8
>KOG1803|consensus
Probab=96.53 E-value=0.0027 Score=66.63 Aligned_cols=57 Identities=14% Similarity=0.221 Sum_probs=48.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHH---HHHhcchhccc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQ---FIFKGFDALAY 311 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~---fa~~~L~~lg~ 311 (333)
.+.+|.||.|-||+..|=..+.+++.+| .+|+||||+..+|..+.+ +...-|-++|.
T Consensus 202 ~l~~I~GPPGTGKT~TlvEiI~qlvk~~-k~VLVcaPSn~AVdNiverl~~~~~~l~R~g~ 261 (649)
T KOG1803|consen 202 DLLIIHGPPGTGKTRTLVEIISQLVKQK-KRVLVCAPSNVAVDNIVERLTHLKLNLVRVGH 261 (649)
T ss_pred CceEeeCCCCCCceeeHHHHHHHHHHcC-CeEEEEcCchHHHHHHHHHhcccccchhhcCc
Confidence 6899999999999999999999999988 499999999999999998 33444444454
No 9
>KOG2036|consensus
Probab=96.52 E-value=0.0011 Score=70.49 Aligned_cols=30 Identities=17% Similarity=0.235 Sum_probs=20.8
Q ss_pred ceEEEeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 283 SNIFVTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 283 ~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
..+-+||-.--.-..-.--+..+.-++||-
T Consensus 276 ~~vsLtA~RGRGKSAALGlsiA~AVa~Gys 305 (1011)
T KOG2036|consen 276 STVSLTASRGRGKSAALGLSIAGAVAFGYS 305 (1011)
T ss_pred ceEEEEecCCCCchhhhhHHHHHHHhcCcc
Confidence 468889887665555555666677778874
No 10
>PF13245 AAA_19: Part of AAA domain
Probab=96.44 E-value=0.0074 Score=46.97 Aligned_cols=48 Identities=17% Similarity=0.269 Sum_probs=38.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc---CCceEEEeCCChhhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF---GYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~---g~~~I~VTAPs~~~v~tlf~fa 302 (333)
.++|+|+-|.|||+++=-.++.++.. +..+|+|.+|+..+++.+.+-+
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 46679999999996666666666642 2458999999999999998766
No 11
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.25 E-value=0.012 Score=62.74 Aligned_cols=49 Identities=20% Similarity=0.300 Sum_probs=43.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
..+|.|+-|-|||+++--++.+++..|+ +|+||||+..+|..+.+-+..
T Consensus 175 ~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHh
Confidence 4788999999999988888888888777 899999999999999988766
No 12
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.17 E-value=0.0075 Score=53.53 Aligned_cols=49 Identities=24% Similarity=0.334 Sum_probs=40.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHH-------HcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV-------AFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~-------~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
.+|.|+-|-|||+++--+++.+. .....+|+||||+..+|..+.+-+.+
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred EEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 89999999999998888888872 23445899999999999999988877
No 13
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=95.98 E-value=0.025 Score=48.01 Aligned_cols=53 Identities=26% Similarity=0.217 Sum_probs=38.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC-CceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g-~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
.++|.++.|.|||+.+-.++......+ ..+++|++|+...+...++.+.+.+.
T Consensus 26 ~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 26 DVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred cEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 367788888888885566666655543 35799999999998888877776553
No 14
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=95.93 E-value=0.024 Score=52.87 Aligned_cols=56 Identities=18% Similarity=0.128 Sum_probs=39.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC---CceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG---YSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g---~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
|++|.|--|.|||++|---++.++..+ ..+|+|++++..+++.+-+-+...++..+
T Consensus 15 ~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~ 73 (315)
T PF00580_consen 15 PLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEEEQ 73 (315)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCC
T ss_pred CEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCccc
Confidence 455556666666666677777777655 34899999999999999877777665543
No 15
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.61 E-value=0.013 Score=62.71 Aligned_cols=54 Identities=15% Similarity=0.177 Sum_probs=39.8
Q ss_pred cCCCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhhhhhhhhhhhcccchhhh
Q psy18105 180 CCKTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFG 237 (333)
Q Consensus 180 ~~~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaLGla~~~~~~~~~~n~~~ 237 (333)
.|+.+.-.+.+.++++.. +++.-|++++||||||+++|++++++++|.-.+|.+
T Consensus 168 ~~~~~~~~~~id~~~~~f----kq~~tV~taPRqrGKS~iVgi~l~~La~f~Gi~Ilv 221 (752)
T PHA03333 168 EAPSPRTLREIDRIFDEY----GKCYTAATVPRRCGKTTIMAIILAAMISFLEIDIVV 221 (752)
T ss_pred CCCChhhHHHHHHHHHHH----hhcceEEEeccCCCcHHHHHHHHHHHHHhcCCeEEE
Confidence 456666666666666543 567889999999999999999999887754444444
No 16
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=95.31 E-value=0.12 Score=44.01 Aligned_cols=53 Identities=23% Similarity=0.301 Sum_probs=39.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcC-CceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g-~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
++|.|+-|-|||...=+.+...+..+ ..+++|..|..+-++.+++-..+-+..
T Consensus 17 ~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 17 VLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp EEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred EEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccc
Confidence 56677777777777676666666554 248999999999999999777665544
No 17
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=95.11 E-value=0.082 Score=56.77 Aligned_cols=55 Identities=22% Similarity=0.316 Sum_probs=44.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhccc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAY 311 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~ 311 (333)
.+|.||-|.|||.+.-+++...+..|+ +++|-||..+=+.+.++.+.+-+..+|+
T Consensus 285 ~Ll~~~TGSGKT~va~~~il~~~~~g~-q~lilaPT~~LA~Q~~~~l~~l~~~~~i 339 (681)
T PRK10917 285 RLLQGDVGSGKTVVAALAALAAIEAGY-QAALMAPTEILAEQHYENLKKLLEPLGI 339 (681)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEEeccHHHHHHHHHHHHHHHhhcCc
Confidence 577888888888887888777777665 7999999999999999888877765554
No 18
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.03 E-value=0.088 Score=55.98 Aligned_cols=55 Identities=20% Similarity=0.304 Sum_probs=44.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhccc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAY 311 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~ 311 (333)
.+|.||-|.|||.+.-+++...+..|+ +++|.||..+=+.+.++.+.+-+..+|+
T Consensus 259 ~Ll~g~TGSGKT~va~l~il~~~~~g~-qvlilaPT~~LA~Q~~~~~~~l~~~~gi 313 (630)
T TIGR00643 259 RLLQGDVGSGKTLVAALAMLAAIEAGY-QVALMAPTEILAEQHYNSLRNLLAPLGI 313 (630)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEECCHHHHHHHHHHHHHHHhcccCc
Confidence 578888888888887777777777665 7999999999999999888776665554
No 19
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=94.79 E-value=0.013 Score=63.42 Aligned_cols=23 Identities=13% Similarity=0.052 Sum_probs=15.9
Q ss_pred cCcchhHHHHHHHhhhcCCceEEE
Q psy18105 105 SDVVCRFNERFLLSLSSCNRCLVV 128 (333)
Q Consensus 105 ~~v~~rF~~Rf~~~L~~~~~~~i~ 128 (333)
....|+-+.|+...++.- +++++
T Consensus 102 ~~l~pn~lar~v~TvrgG-G~lvi 124 (758)
T COG1444 102 EGLDPNALARLVGTVRGG-GLLVL 124 (758)
T ss_pred cCCCHHHHHHHHhheecc-eEEEE
Confidence 456678888888888765 55444
No 20
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.70 E-value=0.035 Score=54.08 Aligned_cols=51 Identities=22% Similarity=0.236 Sum_probs=40.7
Q ss_pred hhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 241 LKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 241 ~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+|++..+...-...++|+|+-|.|||+|++-++-.+...|+.-.+|+.|.
T Consensus 144 ~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~ 194 (306)
T PRK08939 144 LDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE 194 (306)
T ss_pred HHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHH
Confidence 445555544222358999999999999999999999998899888999985
No 21
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=94.64 E-value=0.095 Score=41.66 Aligned_cols=52 Identities=25% Similarity=0.258 Sum_probs=43.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
++|+++-|.|||..+=.++..+... ...+++|++|+..-++...+...+.+.
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 6899999999998877777777654 345899999999999999888777664
No 22
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=94.56 E-value=0.082 Score=59.14 Aligned_cols=44 Identities=27% Similarity=0.225 Sum_probs=36.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~ 300 (333)
.+|+|.=|.|||++++.+...+-..|+ +|+++||+-.+++.|-+
T Consensus 365 ~vv~G~AGTGKTT~l~~~~~~~e~~G~-~V~~~ApTGkAA~~L~e 408 (988)
T PRK13889 365 GVVVGYAGTGKSAMLGVAREAWEAAGY-EVRGAALSGIAAENLEG 408 (988)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHcCC-eEEEecCcHHHHHHHhh
Confidence 678888888999988987777777776 79999999998877754
No 23
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=94.51 E-value=0.051 Score=52.89 Aligned_cols=39 Identities=38% Similarity=0.484 Sum_probs=33.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
.-++|+|+||.|||.+|--+++.+...|. |++.-|+...
T Consensus 24 ~r~vL~G~~GsGKS~~L~q~~~~A~~~~w--iVl~vp~a~~ 62 (309)
T PF10236_consen 24 NRYVLTGERGSGKSVLLAQAVHYARENGW--IVLYVPSAQD 62 (309)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCE--EEEEcCCHHH
Confidence 46999999999999999999999998764 7777776654
No 24
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=94.46 E-value=0.16 Score=43.42 Aligned_cols=44 Identities=18% Similarity=0.308 Sum_probs=34.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
-++|.|+-|.|||-++-.+++++.. ++++.+|+..=++++.+-.
T Consensus 27 ~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~ 70 (184)
T PF04851_consen 27 RVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEF 70 (184)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHH
T ss_pred CEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHH
Confidence 3678888888888888877777775 8999999987666665444
No 25
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=94.38 E-value=0.093 Score=57.06 Aligned_cols=45 Identities=22% Similarity=0.219 Sum_probs=37.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~ 300 (333)
..+|+|.-|.|||+++.-+...+...|+ +|+++||+-.+++.|-+
T Consensus 370 ~~il~G~aGTGKTtll~~i~~~~~~~g~-~V~~~ApTg~Aa~~L~~ 414 (744)
T TIGR02768 370 IAVVVGRAGTGKSTMLKAAREAWEAAGY-RVIGAALSGKAAEGLQA 414 (744)
T ss_pred EEEEEecCCCCHHHHHHHHHHHHHhCCC-eEEEEeCcHHHHHHHHh
Confidence 4788999999999999988877777676 79999999998888764
No 26
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=94.30 E-value=0.16 Score=56.59 Aligned_cols=54 Identities=20% Similarity=0.159 Sum_probs=41.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
.+|.||-|.|||.+.-+++...+..|+ +++|-+|..+=+++.++.+.+-+..++
T Consensus 475 ~Ll~adTGsGKT~val~a~l~al~~g~-qvlvLvPT~~LA~Q~~~~f~~~~~~~~ 528 (926)
T TIGR00580 475 RLVCGDVGFGKTEVAMRAAFKAVLDGK-QVAVLVPTTLLAQQHFETFKERFANFP 528 (926)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHhCC-eEEEEeCcHHHHHHHHHHHHHHhccCC
Confidence 577888888888777777666666664 899999999999999887776555433
No 27
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=93.94 E-value=0.063 Score=43.96 Aligned_cols=54 Identities=20% Similarity=0.264 Sum_probs=41.6
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-----CCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-----GYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-----g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
+.++|+|+.|-|||+++=-.+..+... +..-+++++|+..+...+++.+...+.
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~ 63 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALG 63 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhC
Confidence 468999999999999999998888753 444689999999988888776665555
No 28
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=93.88 E-value=0.11 Score=44.80 Aligned_cols=32 Identities=22% Similarity=0.250 Sum_probs=21.8
Q ss_pred hccccceeeeeccCCCchhHHHHHHHHHHHcC
Q psy18105 250 KTLRSTVSLTAARGRGKSAALGLAVAGAVAFG 281 (333)
Q Consensus 250 ~~~~~~~vltA~RGRGKSallGla~a~~~~~g 281 (333)
....+.++|+|++|-|||+++--.+..+...+
T Consensus 21 ~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~ 52 (185)
T PF13191_consen 21 SGSPRNLLLTGESGSGKTSLLRALLDRLAERG 52 (185)
T ss_dssp S-----EEE-B-TTSSHHHHHHHHHHHHHHHT
T ss_pred cCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence 34447899999999999999998888888764
No 29
>PRK10689 transcription-repair coupling factor; Provisional
Probab=93.76 E-value=0.23 Score=56.53 Aligned_cols=52 Identities=17% Similarity=0.070 Sum_probs=39.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
..++.|+-|.|||....+++..++..|. +++|-+|+.+-+++.++.+.+.+.
T Consensus 623 d~Ll~a~TGsGKT~val~aa~~~~~~g~-qvlvLvPT~eLA~Q~~~~f~~~~~ 674 (1147)
T PRK10689 623 DRLVCGDVGFGKTEVAMRAAFLAVENHK-QVAVLVPTTLLAQQHYDNFRDRFA 674 (1147)
T ss_pred CEEEEcCCCcCHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHhhc
Confidence 3677888888888776666655555554 799999999999988877665444
No 30
>PF05729 NACHT: NACHT domain
Probab=93.70 E-value=0.11 Score=43.78 Aligned_cols=28 Identities=18% Similarity=0.154 Sum_probs=24.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG 281 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g 281 (333)
|+++|+|+-|.|||+++--.+..+...+
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 5789999999999999998888888764
No 31
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=93.66 E-value=0.18 Score=50.07 Aligned_cols=42 Identities=21% Similarity=0.249 Sum_probs=29.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTF 298 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tl 298 (333)
+.|+|+=|-|||.++=.+...+...+ ..|++|||+--|+..+
T Consensus 25 ~fv~G~~GtGKs~l~~~i~~~~~~~~-~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 25 FFVTGPAGTGKSFLIKAIIDYLRSRG-KKVLVTAPTGIAAFNI 66 (364)
T ss_pred EEEEcCCCCChhHHHHHHHHHhcccc-ceEEEecchHHHHHhc
Confidence 55677777777777776666665433 3788899887776555
No 32
>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=93.44 E-value=0.25 Score=39.65 Aligned_cols=38 Identities=13% Similarity=0.200 Sum_probs=28.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+++|+|++|.|||+++-.++..+...+..-+++..+.
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~ 57 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASD 57 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhh
Confidence 47999999999999998888888765555445555443
No 33
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=93.40 E-value=0.19 Score=54.46 Aligned_cols=46 Identities=20% Similarity=0.242 Sum_probs=34.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC-CceEEEeCCChhhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g-~~~I~VTAPs~~~v~tlf~ 300 (333)
..+|||.-|.|||+++.-.+..+...| ..+|+++||+-.++..+-+
T Consensus 340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 367777777788887777777666654 2479999999988877654
No 34
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=93.24 E-value=0.11 Score=47.44 Aligned_cols=40 Identities=28% Similarity=0.259 Sum_probs=33.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
+|++|+|++|.|||+|+-.++..+...|..-++|++....
T Consensus 43 ~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~ 82 (227)
T PRK08903 43 RFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPL 82 (227)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhH
Confidence 4899999999999999998888887777777888886543
No 35
>PRK06921 hypothetical protein; Provisional
Probab=93.22 E-value=0.18 Score=48.12 Aligned_cols=38 Identities=18% Similarity=0.277 Sum_probs=32.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs 291 (333)
..++++|+.|.|||+|+--.+..++.. |+.-+++|++.
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~ 156 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVE 156 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHH
Confidence 479999999999999998888888876 77778888743
No 36
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=92.84 E-value=0.29 Score=55.37 Aligned_cols=47 Identities=15% Similarity=0.156 Sum_probs=41.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
+..+|+|.=|-|||++++.+...+-..|+ +|+.+||+-.+++.|-+.
T Consensus 398 r~~~v~G~AGTGKTt~l~~~~~~~e~~G~-~V~g~ApTgkAA~~L~e~ 444 (1102)
T PRK13826 398 RIAAVVGRAGAGKTTMMKAAREAWEAAGY-RVVGGALAGKAAEGLEKE 444 (1102)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCC-eEEEEcCcHHHHHHHHHh
Confidence 46889999999999999998888887786 899999999999988654
No 37
>PRK08116 hypothetical protein; Validated
Probab=92.80 E-value=0.12 Score=49.25 Aligned_cols=52 Identities=23% Similarity=0.279 Sum_probs=37.8
Q ss_pred hhhhhhccch-hccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 240 LLKFIDGISE-KTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 240 ~~~~~~~~~~-~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+++++..++ ..-.++++|+|+-|.|||+|+...+..++..|+.-++++++.
T Consensus 100 a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ 152 (268)
T PRK08116 100 ARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQ 152 (268)
T ss_pred HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence 3444444444 222357999999999999999999888888777667777554
No 38
>PRK12377 putative replication protein; Provisional
Probab=92.77 E-value=0.11 Score=49.33 Aligned_cols=38 Identities=26% Similarity=0.293 Sum_probs=33.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
..++|+|+.|.|||+|+...+..++..|+.-+++|.|.
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~ 139 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPD 139 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHH
Confidence 46899999999999999999999998888778888764
No 39
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.71 E-value=0.36 Score=49.36 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=37.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC-CC-hhhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS-PS-PENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA-Ps-~~~v~tlf~fa 302 (333)
+.+.|.|+.|.||||++..+++.+...|+.-.+|++ |. ..+++++-.++
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~ya 292 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYV 292 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHh
Confidence 578999999999999999999999877764445555 32 24666766653
No 40
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=92.60 E-value=0.19 Score=55.19 Aligned_cols=52 Identities=23% Similarity=0.236 Sum_probs=41.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
.-+|++|+-|.|||+..-+.+-.....+ .+|+||.|.++++.++.+.+.+.+
T Consensus 21 ~~vvv~A~TGSGKTt~~pl~lL~~~~~~-~~ilvlqPrR~aA~qia~rva~~l 72 (812)
T PRK11664 21 PQVLLKAPTGAGKSTWLPLQLLQHGGIN-GKIIMLEPRRLAARNVAQRLAEQL 72 (812)
T ss_pred CCEEEEcCCCCCHHHHHHHHHHHcCCcC-CeEEEECChHHHHHHHHHHHHHHh
Confidence 4689999999999999998765433222 389999999999999998776554
No 41
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=92.43 E-value=0.19 Score=55.24 Aligned_cols=53 Identities=26% Similarity=0.267 Sum_probs=43.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
.-+||.|+-|.|||+...+.+-..... ..+|+||.|.++++.++.+.+.+.+.
T Consensus 18 ~~vIi~a~TGSGKTT~vpl~lL~~~~~-~~~ilvlqPrR~aA~qiA~rva~~~~ 70 (819)
T TIGR01970 18 PQVVLEAPPGAGKSTAVPLALLDAPGI-GGKIIMLEPRRLAARSAAQRLASQLG 70 (819)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHhhcc-CCeEEEEeCcHHHHHHHHHHHHHHhC
Confidence 358999999999999999987765532 34899999999999999988766553
No 42
>PRK08084 DNA replication initiation factor; Provisional
Probab=92.39 E-value=0.18 Score=46.89 Aligned_cols=38 Identities=24% Similarity=0.190 Sum_probs=30.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+++|+|++|.|||+|+=..+..+...|..-+++++..
T Consensus 46 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 58999999999999999877777776676556776643
No 43
>PRK05642 DNA replication initiation factor; Validated
Probab=92.15 E-value=0.16 Score=47.19 Aligned_cols=38 Identities=21% Similarity=0.207 Sum_probs=31.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.|++|.|+.|.|||+|+--++.++...|..-+++++..
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~ 83 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAE 83 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHH
Confidence 47899999999999998877777776677678888754
No 44
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=92.04 E-value=0.31 Score=52.02 Aligned_cols=53 Identities=13% Similarity=0.253 Sum_probs=44.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC---CceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG---YSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g---~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
+..+|||.-|-|||+++--.++.+++.+ ..+|+++||+-.++..+-+-....+
T Consensus 168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~ 223 (615)
T PRK10875 168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKAL 223 (615)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhh
Confidence 5799999999999999988888887642 3589999999999999988665433
No 45
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=91.96 E-value=0.66 Score=46.52 Aligned_cols=49 Identities=24% Similarity=0.222 Sum_probs=34.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH------cCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA------FGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~------~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+++.|+-|-|||.+.-+.+.+.+. .+..+++|.+|+.+-+.++++.+..
T Consensus 41 ~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 41 VLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred EEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 566777777887776665554432 1335899999999998888765544
No 46
>PF13173 AAA_14: AAA domain
Probab=91.94 E-value=0.44 Score=39.74 Aligned_cols=41 Identities=20% Similarity=0.287 Sum_probs=31.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENL 295 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v 295 (333)
..++|+|+||-|||+++=..+..+. ....-++|.--.+...
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~ 43 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDR 43 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHH
Confidence 4689999999999999999988887 2223467766666654
No 47
>PRK07952 DNA replication protein DnaC; Validated
Probab=91.67 E-value=0.21 Score=47.23 Aligned_cols=38 Identities=16% Similarity=0.219 Sum_probs=31.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+++|.|+.|.|||+|+--++..+...|+.-+++|++.
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~ 137 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVAD 137 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHH
Confidence 48999999999999999988888888787666776544
No 48
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=91.44 E-value=0.19 Score=45.03 Aligned_cols=36 Identities=28% Similarity=0.405 Sum_probs=30.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
++|+|+-|.|||+|+--.+..++..|+.-.++++++
T Consensus 50 l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~ 85 (178)
T PF01695_consen 50 LILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASD 85 (178)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHH
T ss_pred EEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCc
Confidence 899999999999999999889999998878887653
No 49
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=91.22 E-value=0.39 Score=50.94 Aligned_cols=51 Identities=16% Similarity=0.191 Sum_probs=42.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC----CceEEEeCCChhhHHHHHHHHHh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG----YSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g----~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+..+|||.-|.|||+++--.++.+...+ ..+|.++||+-.++..|-+-...
T Consensus 161 ~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~ 215 (586)
T TIGR01447 161 NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRK 215 (586)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHh
Confidence 5799999999999999998888877543 24799999999999988876544
No 50
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=91.11 E-value=0.2 Score=45.10 Aligned_cols=39 Identities=31% Similarity=0.280 Sum_probs=31.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
.+++|+|++|.|||+++-..+..+...+..-++|++.+.
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~ 77 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL 77 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence 479999999999999999888887766655567776554
No 51
>PRK14974 cell division protein FtsY; Provisional
Probab=91.10 E-value=0.65 Score=46.06 Aligned_cols=50 Identities=8% Similarity=0.181 Sum_probs=37.1
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC---hhhHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS---PENLNTFFQFIF 303 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs---~~~v~tlf~fa~ 303 (333)
+..++++|.-|-||||++.-++..+...|+ +|.+.+.. ..++..+..++.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~~Dt~R~~a~eqL~~~a~ 192 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAAGDTFRAGAIEQLEEHAE 192 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEecCCcCcHHHHHHHHHHHH
Confidence 357889999999999999999988877676 56555544 456666655554
No 52
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=91.06 E-value=0.14 Score=43.40 Aligned_cols=36 Identities=19% Similarity=0.122 Sum_probs=25.3
Q ss_pred hhhhhccch-hccccceeeeeccCCCchhHHHHHHHH
Q psy18105 241 LKFIDGISE-KTLRSTVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 241 ~~~~~~~~~-~~~~~~~vltA~RGRGKSallGla~a~ 276 (333)
+++.++++. .....|++|+|.+|-||+.++...-..
T Consensus 8 ~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~ 44 (138)
T PF14532_consen 8 RRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRY 44 (138)
T ss_dssp HHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHT
T ss_pred HHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhh
Confidence 555556655 455689999999999999986644443
No 53
>PRK06835 DNA replication protein DnaC; Validated
Probab=90.98 E-value=0.25 Score=48.70 Aligned_cols=51 Identities=18% Similarity=0.227 Sum_probs=40.0
Q ss_pred hhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 240 LLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 240 ~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
..+|++...... ..++|.|+-|.|||+|+--++..++..|+.-+++|++..
T Consensus 172 ~~~f~~~f~~~~--~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l 222 (329)
T PRK06835 172 CKNFIENFDKNN--ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADEL 222 (329)
T ss_pred HHHHHHHHhccC--CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHH
Confidence 344555554433 579999999999999999888888888887788888663
No 54
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=90.64 E-value=0.14 Score=45.43 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=33.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
..++|+|+||-|||+|+=-++..+...++..+++......+...+..+
T Consensus 21 ~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~ 68 (234)
T PF01637_consen 21 QHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSF 68 (234)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHH
T ss_pred cEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHH
Confidence 478999999999999999888888654544566665555554444444
No 55
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=90.39 E-value=0.7 Score=55.43 Aligned_cols=47 Identities=17% Similarity=0.191 Sum_probs=41.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
+..+|+|.-|.|||+++.-++..+-+.|+ +|++.||+-.+++.|-+-
T Consensus 447 ~v~ii~G~aGTGKTt~l~~l~~~~~~~G~-~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 447 RFIIINGFGGTGSTEIAQLLLHLASEQGY-EIQIITAGSLSAQELRQK 493 (1960)
T ss_pred CeEEEEECCCCCHHHHHHHHHHHHHhcCC-eEEEEeCCHHHHHHHHHH
Confidence 47899999999999999998888887786 899999999999998865
No 56
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=90.15 E-value=0.88 Score=42.13 Aligned_cols=39 Identities=28% Similarity=0.327 Sum_probs=24.8
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPEN 294 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~ 294 (333)
++++|+=|.|||.++=-++..++.. .+.+|++|=|..+.
T Consensus 22 v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 22 VIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp EEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--T
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCC
Confidence 6677888888887776666666665 46789999988753
No 57
>PRK06851 hypothetical protein; Provisional
Probab=90.10 E-value=0.31 Score=48.89 Aligned_cols=48 Identities=19% Similarity=0.264 Sum_probs=42.1
Q ss_pred cccceeeeeccCCCchhHHHHHHHHHHHcCCc-eEEEeCCChhhHHHHH
Q psy18105 252 LRSTVSLTAARGRGKSAALGLAVAGAVAFGYS-NIFVTSPSPENLNTFF 299 (333)
Q Consensus 252 ~~~~~vltA~RGRGKSallGla~a~~~~~g~~-~I~VTAPs~~~v~tlf 299 (333)
+++.++|+|.-|-||||++-.++..+...|+. ..++|++.+.++.-|.
T Consensus 29 ~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 29 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred cceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 56789999999999999999999999888865 6889999999887664
No 58
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=90.02 E-value=0.46 Score=39.43 Aligned_cols=37 Identities=14% Similarity=0.140 Sum_probs=30.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
++|+|+.|.|||+++-..+..+...|..-+++..+..
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~ 38 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEE 38 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcc
Confidence 5789999999999999999888877665666666544
No 59
>PRK08727 hypothetical protein; Validated
Probab=90.00 E-value=0.86 Score=42.28 Aligned_cols=37 Identities=22% Similarity=0.214 Sum_probs=31.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
+++|+|+-|.|||+|+--++..+...|+.-+++++..
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~ 79 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA 79 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH
Confidence 6999999999999999988888888887667887543
No 60
>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=89.97 E-value=1.1 Score=41.36 Aligned_cols=37 Identities=16% Similarity=0.238 Sum_probs=18.4
Q ss_pred CCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 182 KTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 182 ~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
.|..+.+++..+...+. .....++|+|..|.|||..+
T Consensus 24 ~~~~~~~~~~~l~~~~~--~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLS--QREGFILITGEVGAGKTTLI 60 (269)
T ss_pred CCHHHHHHHHHHHHHHh--cCCCEEEEEcCCCCCHHHHH
Confidence 57777888776654331 11223444444444444433
No 61
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=89.81 E-value=0.95 Score=48.41 Aligned_cols=48 Identities=25% Similarity=0.238 Sum_probs=35.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCCChhhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
+++.|+-|.|||++.++.+...+.. ...+++|.+|..+-+.++.+-+.
T Consensus 46 vl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~ 95 (629)
T PRK11634 46 VLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMT 95 (629)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHH
Confidence 6778888888888888877665543 23479999999988877765443
No 62
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=89.36 E-value=0.36 Score=45.77 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=33.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
-+++.|+-|.|||.|+.-.+-.++..|.+-+++|+|.-
T Consensus 107 nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el 144 (254)
T COG1484 107 NLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDL 144 (254)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence 48899999999999999888888877888888888753
No 63
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=89.23 E-value=0.49 Score=52.26 Aligned_cols=54 Identities=15% Similarity=0.070 Sum_probs=48.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
.+||.|+-|+||||.+=+.+-..-..+...|.+|=|.+-++.++-+.+...|..
T Consensus 67 vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~ 120 (845)
T COG1643 67 VVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGE 120 (845)
T ss_pred EEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCC
Confidence 489999999999999998887777655668999999999999999999998886
No 64
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=89.06 E-value=0.59 Score=53.79 Aligned_cols=66 Identities=20% Similarity=0.103 Sum_probs=47.6
Q ss_pred hhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 239 ALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
...+|++.|+. ...+||+|+-|.||||.+=..+...-.....+|++|-|.+-++.++.+.+.+.+.
T Consensus 71 ~~~~Il~~l~~---~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg 136 (1283)
T TIGR01967 71 KREDIAEAIAE---NQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELG 136 (1283)
T ss_pred HHHHHHHHHHh---CceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhC
Confidence 33444444433 3478999999999999887665443211134799999999999999999888775
No 65
>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=88.96 E-value=0.43 Score=43.87 Aligned_cols=21 Identities=29% Similarity=0.322 Sum_probs=18.9
Q ss_pred cceeeeeccCCCchhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~ 274 (333)
+.++|||++|.|||++|-..+
T Consensus 30 ~~~~itGpNg~GKStlLk~i~ 50 (213)
T cd03281 30 SIMVITGPNSSGKSVYLKQVA 50 (213)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 468999999999999998776
No 66
>PRK09183 transposase/IS protein; Provisional
Probab=88.84 E-value=0.63 Score=44.12 Aligned_cols=37 Identities=24% Similarity=0.189 Sum_probs=29.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
..++|+|+.|.|||+|+-.++..+...|+.-.+++++
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~ 139 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAA 139 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHH
Confidence 4688999999999999998877777778755566655
No 67
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=88.74 E-value=0.86 Score=45.24 Aligned_cols=57 Identities=18% Similarity=0.198 Sum_probs=46.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCCChh-hHHHHHHHHHhcchhccc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSPSPE-NLNTFFQFIFKGFDALAY 311 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAPs~~-~v~tlf~fa~~~L~~lg~ 311 (333)
..++.|-||.|||....+.+...+.. ...+++|++|... .-+++|.-+...++.+|+
T Consensus 3 ~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~ 62 (396)
T TIGR01547 3 EIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEGI 62 (396)
T ss_pred eEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCC
Confidence 46889999999999999777766655 5679999999998 456788888888888875
No 68
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=88.73 E-value=0.62 Score=44.85 Aligned_cols=39 Identities=21% Similarity=0.327 Sum_probs=29.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
.+=|||+-|-|||||+.-++..+...|. +|-|-|=.|.+
T Consensus 31 ~iGiTG~PGaGKSTli~~l~~~~~~~g~-~VaVlAVDPSS 69 (266)
T PF03308_consen 31 VIGITGPPGAGKSTLIDALIRELRERGK-RVAVLAVDPSS 69 (266)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEEE-GGG
T ss_pred EEEeeCCCCCcHHHHHHHHHHHHhhcCC-ceEEEEECCCC
Confidence 4678999999999999999999998775 67776655543
No 69
>PRK01172 ski2-like helicase; Provisional
Probab=88.51 E-value=1.2 Score=47.49 Aligned_cols=53 Identities=13% Similarity=0.118 Sum_probs=39.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
+++.|+-|.|||.+.-+++...+..|. ++++.+|.++=++..++-..+ +..+|
T Consensus 40 vlv~apTGSGKTl~a~lail~~l~~~~-k~v~i~P~raLa~q~~~~~~~-l~~~g 92 (674)
T PRK01172 40 VIVSVPTAAGKTLIAYSAIYETFLAGL-KSIYIVPLRSLAMEKYEELSR-LRSLG 92 (674)
T ss_pred EEEECCCCchHHHHHHHHHHHHHHhCC-cEEEEechHHHHHHHHHHHHH-HhhcC
Confidence 678899999999888888777665554 677778999998888876654 33344
No 70
>PRK08181 transposase; Validated
Probab=88.49 E-value=0.43 Score=45.83 Aligned_cols=36 Identities=19% Similarity=0.271 Sum_probs=30.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
-++|+|+.|.|||+|+--++-.++..|+.-++++++
T Consensus 108 nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~ 143 (269)
T PRK08181 108 NLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTT 143 (269)
T ss_pred eEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHH
Confidence 389999999999999988887888888877788764
No 71
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=88.47 E-value=1.4 Score=50.41 Aligned_cols=55 Identities=18% Similarity=0.185 Sum_probs=40.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
.++++|+-|.|||+ .++.++..+.....+++|-+|..+-+.++++-+.+-.+.+|
T Consensus 95 d~vi~ApTGsGKT~-f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~ 149 (1171)
T TIGR01054 95 SFAIIAPTGVGKTT-FGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEKAG 149 (1171)
T ss_pred eEEEECCCCCCHHH-HHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHHhcC
Confidence 57889999999997 66766665544335899999999999998877665444333
No 72
>PRK12608 transcription termination factor Rho; Provisional
Probab=88.32 E-value=1 Score=45.54 Aligned_cols=36 Identities=25% Similarity=0.218 Sum_probs=26.7
Q ss_pred hhhccch--hccccceeeeeccCCCchhHHHHHHHHHHHc
Q psy18105 243 FIDGISE--KTLRSTVSLTAARGRGKSAALGLAVAGAVAF 280 (333)
Q Consensus 243 ~~~~~~~--~~~~~~~vltA~RGRGKSallGla~a~~~~~ 280 (333)
+||.+.- ++-| .+|+|++|.|||++++..+..+...
T Consensus 123 vID~l~PiGkGQR--~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 123 VVDLVAPIGKGQR--GLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred hhhheeecCCCce--EEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3454433 4444 5999999999999999988877654
No 73
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=88.09 E-value=1.5 Score=47.16 Aligned_cols=56 Identities=21% Similarity=0.304 Sum_probs=49.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
-+|.||=|.||+-.+.+++..++..|| .+.+-||.--=..+-|+.+.+-|+-+|.+
T Consensus 286 RLlQGDVGSGKTvVA~laml~ai~~G~-Q~ALMAPTEILA~QH~~~~~~~l~~~~i~ 341 (677)
T COG1200 286 RLLQGDVGSGKTVVALLAMLAAIEAGY-QAALMAPTEILAEQHYESLRKWLEPLGIR 341 (677)
T ss_pred HHhccCcCCCHHHHHHHHHHHHHHcCC-eeEEeccHHHHHHHHHHHHHHHhhhcCCe
Confidence 467889999999999999999999998 79999999988899999999989888854
No 74
>PHA02558 uvsW UvsW helicase; Provisional
Probab=88.05 E-value=2.2 Score=44.18 Aligned_cols=49 Identities=12% Similarity=0.054 Sum_probs=34.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
.++.|+-|-|||.++-+++...++.+..+++|-+|+.+=+.+..+-+.+
T Consensus 132 ~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~ 180 (501)
T PHA02558 132 RLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVD 180 (501)
T ss_pred eEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHH
Confidence 4677888888887654444444555555899999999988777665443
No 75
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=87.96 E-value=1.2 Score=43.90 Aligned_cols=51 Identities=12% Similarity=0.186 Sum_probs=37.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC--CceEEEeCCChhhHHHHHHHHHh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG--YSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g--~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
..++|+|+||-|||+++=-++..+...+ ..-++|.++...+...++..+..
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~ 108 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR 108 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence 4589999999999999998888876543 44678877766555555544433
No 76
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=87.94 E-value=2.1 Score=43.57 Aligned_cols=51 Identities=16% Similarity=0.140 Sum_probs=33.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcC--------CceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFG--------YSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g--------~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
+++.|+-|.|||.+.-|.+-..+..+ ..+++|.+|..+-+..+++.+.+-.
T Consensus 41 vlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~~~ 99 (456)
T PRK10590 41 LMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRDYS 99 (456)
T ss_pred EEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHHHh
Confidence 45566666666666565554443221 2369999999999888887766543
No 77
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=87.84 E-value=1.1 Score=43.42 Aligned_cols=51 Identities=18% Similarity=0.273 Sum_probs=39.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
++|+|+-|.|||.+.=+++...+.. ...++++++|..+-+..+++.+..-+
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHh
Confidence 6899999999999866665555432 34589999999999998887665543
No 78
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=87.75 E-value=1.7 Score=43.96 Aligned_cols=47 Identities=28% Similarity=0.342 Sum_probs=34.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcC--CceEEEeCCChhhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFG--YSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g--~~~I~VTAPs~~~v~tlf~fa 302 (333)
+++.|+-|.|||++.++.+...+..+ ..+++|-+|+.+=+..+.+.+
T Consensus 44 vi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~ 92 (460)
T PRK11776 44 VIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEI 92 (460)
T ss_pred EEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHH
Confidence 66778888888887787777666433 236888889998887776544
No 79
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=87.71 E-value=2.4 Score=42.49 Aligned_cols=55 Identities=18% Similarity=0.071 Sum_probs=33.8
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH---------cCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA---------FGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~---------~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
+++.|+-|.|||.+.-+.+-..+. ....+++|.+|+.+=+..+++.+.+-....|
T Consensus 48 vi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~ 111 (423)
T PRK04837 48 VAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEPLAQATG 111 (423)
T ss_pred EEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHHHhccCC
Confidence 455666666666654444332221 1124799999999999998876655443333
No 80
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=87.70 E-value=1.3 Score=53.35 Aligned_cols=45 Identities=16% Similarity=0.199 Sum_probs=33.1
Q ss_pred cceeeeeccCCCchhHH----HHHHHHHHHcCCceEEEeCCChhhHHHHH
Q psy18105 254 STVSLTAARGRGKSAAL----GLAVAGAVAFGYSNIFVTSPSPENLNTFF 299 (333)
Q Consensus 254 ~~~vltA~RGRGKSall----Gla~a~~~~~g~~~I~VTAPs~~~v~tlf 299 (333)
+..+|+|.=|.||||++ ..+...+-..|+ +|+..||+-.+++.|-
T Consensus 1037 ~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~-~v~glApT~~Aa~~L~ 1085 (1960)
T TIGR02760 1037 RFVAVQGLAGVGKTTMLESRYKPVLQAFESEQL-QVIGLAPTHEAVGELK 1085 (1960)
T ss_pred cEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCC-eEEEEeChHHHHHHHH
Confidence 46788899999999999 333333333454 7999999999987774
No 81
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=87.59 E-value=1.1 Score=36.13 Aligned_cols=35 Identities=17% Similarity=0.192 Sum_probs=27.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
++|+|++|.|||+++=..+..+ |..-+.+.+++..
T Consensus 1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~ 35 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELI 35 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHH
T ss_pred CEEECcCCCCeeHHHHHHHhhc---ccccccccccccc
Confidence 4789999999999999888776 3444667776655
No 82
>PHA02533 17 large terminase protein; Provisional
Probab=87.53 E-value=1.2 Score=46.72 Aligned_cols=54 Identities=7% Similarity=0.012 Sum_probs=42.6
Q ss_pred ceeeeeccCCCchhHHHH-HHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 255 TVSLTAARGRGKSAALGL-AVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 255 ~~vltA~RGRGKSallGl-a~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
..++.-.|.-|||+++.. ++..++.....+|+++||+.+..+.+|+-+....+.
T Consensus 76 ~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~ 130 (534)
T PHA02533 76 FNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIEL 130 (534)
T ss_pred EEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 567889999999999974 555555444458999999999999999887765554
No 83
>KOG1802|consensus
Probab=87.48 E-value=0.88 Score=49.06 Aligned_cols=55 Identities=16% Similarity=0.204 Sum_probs=45.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH-Hhcchhc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI-FKGFDAL 309 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa-~~~L~~l 309 (333)
.-+|.|+.|-||+...--.+-.+++.+...|+|||||.-+|..|-+-+ .-||+.+
T Consensus 427 lsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tgLKVv 482 (935)
T KOG1802|consen 427 LSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTGLKVV 482 (935)
T ss_pred ceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcCceEe
Confidence 457899999999999988888999888889999999999999987654 3345543
No 84
>PRK07667 uridine kinase; Provisional
Probab=87.42 E-value=0.86 Score=40.94 Aligned_cols=48 Identities=13% Similarity=0.068 Sum_probs=37.1
Q ss_pred hhccch-hccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 244 IDGISE-KTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 244 ~~~~~~-~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
+|.+.+ +..+..+-|+|.-|.||||+.-.+++.+...|..-.+|+.++
T Consensus 7 ~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 7 INIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred HHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 444444 445567889999999999999999998877776667777776
No 85
>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=87.34 E-value=0.54 Score=37.07 Aligned_cols=37 Identities=11% Similarity=0.107 Sum_probs=27.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
..++|+|+.|.|||+++-.++..+...++ .++..+++
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~-~~~~~~~~ 39 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGG-GVIYIDGE 39 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCC-CEEEECCE
Confidence 35889999999999999988877775442 34444444
No 86
>PRK05580 primosome assembly protein PriA; Validated
Probab=86.54 E-value=2.6 Score=45.51 Aligned_cols=51 Identities=22% Similarity=0.225 Sum_probs=39.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
.+++.|+-|.||+...-.++...+..|. +++|-+|..+=+..+.+.+.+.+
T Consensus 164 ~~Ll~~~TGSGKT~v~l~~i~~~l~~g~-~vLvLvPt~~L~~Q~~~~l~~~f 214 (679)
T PRK05580 164 PFLLDGVTGSGKTEVYLQAIAEVLAQGK-QALVLVPEIALTPQMLARFRARF 214 (679)
T ss_pred cEEEECCCCChHHHHHHHHHHHHHHcCC-eEEEEeCcHHHHHHHHHHHHHHh
Confidence 3667788888888777777777776664 79999999999888887776543
No 87
>PHA02653 RNA helicase NPH-II; Provisional
Probab=86.28 E-value=2.1 Score=46.31 Aligned_cols=21 Identities=10% Similarity=0.088 Sum_probs=16.7
Q ss_pred ceEEEeCCChhhHHHHHHHHH
Q psy18105 283 SNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 283 ~~I~VTAPs~~~v~tlf~fa~ 303 (333)
.+|+||+|..+.+..+..-+.
T Consensus 223 ~~ilvt~PrreLa~qi~~~i~ 243 (675)
T PHA02653 223 RPIVLSLPRVALVRLHSITLL 243 (675)
T ss_pred cEEEEECcHHHHHHHHHHHHH
Confidence 479999999998888665544
No 88
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=86.23 E-value=0.69 Score=45.47 Aligned_cols=38 Identities=21% Similarity=0.269 Sum_probs=30.7
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
+=|||.-|-||||+++-+...+...|. +|-|-|=.|.+
T Consensus 54 iGITG~PGaGKSTli~~L~~~l~~~G~-rVaVlAVDPSS 91 (323)
T COG1703 54 IGITGVPGAGKSTLIEALGRELRERGH-RVAVLAVDPSS 91 (323)
T ss_pred EEecCCCCCchHHHHHHHHHHHHHCCc-EEEEEEECCCC
Confidence 668999999999999999999998876 66665544443
No 89
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=86.11 E-value=0.83 Score=43.37 Aligned_cols=38 Identities=18% Similarity=0.340 Sum_probs=30.2
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
.+|.|+||.|||+++=-.+..+.. .+..|++.+|...+
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~-~f~~I~l~t~~~n~ 53 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRH-KFDHIFLITPEYNN 53 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcc-cCCEEEEEecCCch
Confidence 789999999999998777766554 56789999885553
No 90
>PTZ00424 helicase 45; Provisional
Probab=86.11 E-value=2.5 Score=41.51 Aligned_cols=50 Identities=16% Similarity=0.246 Sum_probs=35.8
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCCChhhHHHHHHHHHhc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSPSPENLNTFFQFIFKG 305 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAPs~~~v~tlf~fa~~~ 305 (333)
.++.|+-|.|||.+.-+++-..+.. ...+++|-+|..+=+.++.+.+..-
T Consensus 68 ~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 68 TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 5677888888887766666665543 2347999999999888877665443
No 91
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=86.09 E-value=0.6 Score=39.27 Aligned_cols=22 Identities=23% Similarity=0.274 Sum_probs=19.8
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|..|.|||++...++..+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 6899999999999999887775
No 92
>PRK00254 ski2-like helicase; Provisional
Probab=85.99 E-value=2.8 Score=45.30 Aligned_cols=49 Identities=8% Similarity=0.047 Sum_probs=37.9
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+++.|+-|.|||.+.-+++...+.....++++.+|.++=++..++...+
T Consensus 42 vlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 42 LVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred EEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHHHHH
Confidence 7788899999998888877665443335788999999999988876654
No 93
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=85.91 E-value=1.9 Score=44.26 Aligned_cols=48 Identities=10% Similarity=0.122 Sum_probs=35.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh---hhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP---ENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~---~~v~tlf~fa 302 (333)
..+.++|..|.||||+++-+++.+...|+ +|.|.+-.+ .++..+-.++
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~D~~R~aA~eQLk~~a 151 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCADTFRAGAFDQLKQNA 151 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcCcccchhHHHHHHHHh
Confidence 57889999999999999988888887776 666655543 4554444344
No 94
>PRK09401 reverse gyrase; Reviewed
Probab=85.71 E-value=2.8 Score=48.20 Aligned_cols=52 Identities=17% Similarity=0.197 Sum_probs=40.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
-+++.|+-|.|||+ .|+.++..+.....+++|.+|+.+=+.++++.+.+-..
T Consensus 97 dv~i~ApTGsGKT~-f~l~~~~~l~~~g~~alIL~PTreLa~Qi~~~l~~l~~ 148 (1176)
T PRK09401 97 SFAIIAPTGVGKTT-FGLVMSLYLAKKGKKSYIIFPTRLLVEQVVEKLEKFGE 148 (1176)
T ss_pred cEEEEcCCCCCHHH-HHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHHHHHhh
Confidence 47889999999996 56766665554445899999999999988877665444
No 95
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=85.63 E-value=0.45 Score=35.96 Aligned_cols=23 Identities=26% Similarity=0.274 Sum_probs=18.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
..+|+|+-|.||||++=.....+
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~L 47 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTVL 47 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 48999999999999986444333
No 96
>PRK02362 ski2-like helicase; Provisional
Probab=85.56 E-value=2.7 Score=45.50 Aligned_cols=48 Identities=19% Similarity=0.177 Sum_probs=39.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+++.|+-|.|||.+.-+++...+..| .++++.+|.++=++..++...+
T Consensus 42 vlv~APTGSGKTlia~lail~~l~~~-~kal~i~P~raLa~q~~~~~~~ 89 (737)
T PRK02362 42 LLAAIPTASGKTLIAELAMLKAIARG-GKALYIVPLRALASEKFEEFER 89 (737)
T ss_pred EEEECCCcchHHHHHHHHHHHHHhcC-CcEEEEeChHHHHHHHHHHHHH
Confidence 67889999999999888877776544 4799999999999998876654
No 97
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=85.52 E-value=4.7 Score=35.49 Aligned_cols=49 Identities=20% Similarity=0.152 Sum_probs=30.1
Q ss_pred eeeeeccCCCchhHHHHH-HHHHHHc---CCceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLA-VAGAVAF---GYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla-~a~~~~~---g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+++.|+-|.|||...=+. +..+... +..+++|.+|..+-++...+.+.+
T Consensus 39 ~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 39 VIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHH
Confidence 566677777776543222 2233322 234789999999988887765544
No 98
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=85.38 E-value=3.9 Score=42.48 Aligned_cols=50 Identities=16% Similarity=0.098 Sum_probs=30.1
Q ss_pred eeeeeccCCCchhHHHHHHH-HHHH--------cCCceEEEeCCChhhHHHHHHHHHhc
Q psy18105 256 VSLTAARGRGKSAALGLAVA-GAVA--------FGYSNIFVTSPSPENLNTFFQFIFKG 305 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a-~~~~--------~g~~~I~VTAPs~~~v~tlf~fa~~~ 305 (333)
++++|+-|.|||.+.-+.+- .+.. .....++|.+|.++=+..+.+.+..-
T Consensus 161 viv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 161 LLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 45566666666654433322 1111 12247999999999988887766543
No 99
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=85.22 E-value=3.3 Score=39.57 Aligned_cols=49 Identities=24% Similarity=0.269 Sum_probs=34.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
.++|.|+||-|||+++=.++......|..=|=|..-....+..+++.+.
T Consensus 54 nvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~~~l~ 102 (249)
T PF05673_consen 54 NVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELLDLLR 102 (249)
T ss_pred ceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHHHHHh
Confidence 3667788888888877777777777775446666666677777776654
No 100
>PRK04296 thymidine kinase; Provisional
Probab=85.09 E-value=1.1 Score=40.22 Aligned_cols=35 Identities=23% Similarity=0.178 Sum_probs=26.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
..++||+-|.||||++--.+.++...|. ++++-.|
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~~g~-~v~i~k~ 38 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEERGM-KVLVFKP 38 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHcCC-eEEEEec
Confidence 4789999999999887766777766564 6666656
No 101
>PRK00698 tmk thymidylate kinase; Validated
Probab=85.02 E-value=1.9 Score=38.07 Aligned_cols=37 Identities=22% Similarity=0.334 Sum_probs=29.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.++|.|.=|.||||++..+...+-..|+.-++...|.
T Consensus 5 ~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~~~p~ 41 (205)
T PRK00698 5 FITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPG 41 (205)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCceeEeeCCC
Confidence 5899999999999999999998877775434444554
No 102
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=84.99 E-value=1.6 Score=42.28 Aligned_cols=39 Identities=21% Similarity=0.191 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHHHHHhhhcc----cceeeEEecCCCChhhhh
Q psy18105 182 KTLDQGKALLKFIDSISEKTL----RSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 182 ~T~dQ~~al~~l~~~~~~~~~----r~~lvlTAdRGRGKSAaL 220 (333)
.+++|++.+..+++.+....+ ...++|+|-+|.|||+.-
T Consensus 108 l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg 150 (309)
T PRK08154 108 ASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLG 150 (309)
T ss_pred CCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHH
Confidence 466777777888877655443 457777777777777655
No 103
>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=84.87 E-value=0.53 Score=41.03 Aligned_cols=24 Identities=17% Similarity=0.264 Sum_probs=21.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
+++|+|+.|.||||++-+++...-
T Consensus 3 ii~l~G~~GsGKsTl~~~L~~~~~ 26 (180)
T TIGR03263 3 LIVISGPSGVGKSTLVKALLEEDP 26 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHccCc
Confidence 689999999999999998888654
No 104
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=84.87 E-value=1.8 Score=44.02 Aligned_cols=50 Identities=18% Similarity=0.145 Sum_probs=37.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh--hhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP--ENLNTFFQFIF 303 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~--~~v~tlf~fa~ 303 (333)
+.++++|+.|.||||++.-+++.+...|+.-.+||+=.. .++..+..++.
T Consensus 207 ~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae 258 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYAD 258 (407)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhh
Confidence 578999999999999999888888777764456666433 34666665554
No 105
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=84.71 E-value=2.1 Score=41.00 Aligned_cols=49 Identities=18% Similarity=0.260 Sum_probs=34.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-C-CceEEEeCCCh--hhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-G-YSNIFVTSPSP--ENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g-~~~I~VTAPs~--~~v~tlf~fa 302 (333)
..+.+.|+-|.||||++.-+++.+... | +.=.+||+-.. .++..+..|+
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~ 247 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYA 247 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHH
Confidence 478899999999999999998888765 5 43345565442 2455554443
No 106
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=84.61 E-value=2.2 Score=38.77 Aligned_cols=46 Identities=20% Similarity=0.159 Sum_probs=33.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
..++|.|+.|.|||+++-.++...+..|..-++|+.... .+.+.+.
T Consensus 21 ~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~--~~~i~~~ 66 (229)
T TIGR03881 21 FFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES--RESIIRQ 66 (229)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC--HHHHHHH
Confidence 368899999999999988766666666776789987543 3444433
No 107
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=84.44 E-value=1.2 Score=40.46 Aligned_cols=45 Identities=16% Similarity=0.316 Sum_probs=34.7
Q ss_pred cccceeeeeccCCCchhHHHHHHHHHH-HcCCceEEEeCCChhhHHH
Q psy18105 252 LRSTVSLTAARGRGKSAALGLAVAGAV-AFGYSNIFVTSPSPENLNT 297 (333)
Q Consensus 252 ~~~~~vltA~RGRGKSallGla~a~~~-~~g~~~I~VTAPs~~~v~t 297 (333)
..+-+.|.|..|.|||.+++.++.++. ..|. +++|==|+-|=...
T Consensus 22 ~~~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~-~~ii~D~~GEY~~~ 67 (229)
T PF01935_consen 22 FNRHIAIFGTTGSGKSNTVKVLLEELLKKKGA-KVIIFDPHGEYASL 67 (229)
T ss_pred ccceEEEECCCCCCHHHHHHHHHHHHHhcCCC-CEEEEcCCCcchhh
Confidence 356788999999999999999999999 5444 67776666554433
No 108
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=84.25 E-value=1.4 Score=41.67 Aligned_cols=40 Identities=10% Similarity=0.146 Sum_probs=25.8
Q ss_pred eeeeccCCCchhHHHHHHHHHHHcCC--ceEEEeCCChhhHHH
Q psy18105 257 SLTAARGRGKSAALGLAVAGAVAFGY--SNIFVTSPSPENLNT 297 (333)
Q Consensus 257 vltA~RGRGKSallGla~a~~~~~g~--~~I~VTAPs~~~v~t 297 (333)
+|.+.||-|||++..+.+...+.... ..|+++ |+...+..
T Consensus 1 ~i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~-~~~~~~~~ 42 (384)
T PF03237_consen 1 LINGGRGSGKTTLIAIWFLWWALTRPPGRRVIIA-STYRQARD 42 (384)
T ss_dssp -EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEE-ESSHHHHH
T ss_pred CCcCCccccHHHHHHHHHHHHHhhCCCCcEEEEe-cCHHHHHH
Confidence 47899999999999987776665433 355555 66666555
No 109
>KOG0922|consensus
Probab=84.18 E-value=1.1 Score=48.07 Aligned_cols=55 Identities=16% Similarity=0.146 Sum_probs=44.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
..+||.|+-|.||||=+=..++.+-......|.||=|.+-++.+|-.-+...+..
T Consensus 67 qvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~ 121 (674)
T KOG0922|consen 67 QVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGC 121 (674)
T ss_pred CEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCC
Confidence 5799999999999998886665544333345999999999999999888777775
No 110
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=84.12 E-value=2.3 Score=35.38 Aligned_cols=42 Identities=21% Similarity=0.192 Sum_probs=30.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFF 299 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf 299 (333)
|++|+|+.|-|||+++=.+++.+ +..-+.|..++-.....|+
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~---~~~~~~i~~~~~~~~~dl~ 42 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALL---GRPVIRINCSSDTTEEDLI 42 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHH---TCEEEEEE-TTTSTHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---hcceEEEEeccccccccce
Confidence 58999999999999988777776 4444556655555555555
No 111
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=84.01 E-value=0.73 Score=39.65 Aligned_cols=35 Identities=23% Similarity=0.370 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 185 DQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 185 dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
+|.+.+..+++ .......+.++|+|.+|.|||+.+
T Consensus 7 ~e~~~l~~~l~-~~~~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 7 EEIERLRDLLD-AAQSGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp HHHHHHHHTTG-GTSS-----EEE-B-TTSSHHHHH
T ss_pred HHHHHHHHHHH-HHHcCCCcEEEEECCCCCCHHHHH
Confidence 44444444443 234445688999999999999988
No 112
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=83.98 E-value=2.7 Score=36.45 Aligned_cols=38 Identities=21% Similarity=0.368 Sum_probs=30.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
.++|.|.=|.||||++-.++..+-..|+.-+.+.-|..
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~~ 39 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGG 39 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCC
Confidence 37899999999999999999999877875444445553
No 113
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=83.93 E-value=4.3 Score=42.91 Aligned_cols=54 Identities=22% Similarity=0.141 Sum_probs=35.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc---------CCceEEEeCCChhhHHHHHHHHHhcchhc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF---------GYSNIFVTSPSPENLNTFFQFIFKGFDAL 309 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~---------g~~~I~VTAPs~~~v~tlf~fa~~~L~~l 309 (333)
+++.|+-|.|||.+.-+.+...+.. ...+++|.+|+.+-+..+++-+.+-...+
T Consensus 49 vi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l~~~~ 111 (572)
T PRK04537 49 VAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVKFGADL 111 (572)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHHHhccC
Confidence 5667777777776666655443311 12479999999999998887765543333
No 114
>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=83.40 E-value=1.4 Score=39.77 Aligned_cols=26 Identities=27% Similarity=0.250 Sum_probs=21.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF 280 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~ 280 (333)
.++|+|+-|.||||++-.++..+...
T Consensus 3 lilI~GptGSGKTTll~~ll~~~~~~ 28 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAAMIDYINKN 28 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhhhc
Confidence 57899999999999998777776643
No 115
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=83.26 E-value=1.2 Score=44.47 Aligned_cols=36 Identities=17% Similarity=0.166 Sum_probs=27.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAP 290 (333)
|++|.|++|.|||+|+-..+..+.+. +..-+++++.
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~ 175 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE 175 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH
Confidence 78999999999999997666666654 3434677654
No 116
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=83.23 E-value=2.7 Score=40.21 Aligned_cols=50 Identities=10% Similarity=0.183 Sum_probs=34.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC--ChhhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP--SPENLNTFFQFIF 303 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP--s~~~v~tlf~fa~ 303 (333)
+.++++|+-|-||||++.-++..+...|+.-.+|++= ...+.+++..|+.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~ 124 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAK 124 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 4677889999999999998888887777633445443 2234566666653
No 117
>PRK06893 DNA replication initiation factor; Validated
Probab=82.90 E-value=1.5 Score=40.57 Aligned_cols=35 Identities=14% Similarity=0.143 Sum_probs=30.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
++|.|+.|.|||+|+-..+..+...|..-+++++.
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 68999999999999999998888777766788774
No 118
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=82.86 E-value=1.7 Score=41.17 Aligned_cols=48 Identities=13% Similarity=0.057 Sum_probs=31.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC-CceEEEe-CCCh-hhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVT-SPSP-ENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g-~~~I~VT-APs~-~~v~tlf~fa 302 (333)
-.+|+|++|.|||+++...+..+.... ...+||+ ..++ .++..+++.+
T Consensus 18 r~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I 68 (249)
T cd01128 18 RGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSV 68 (249)
T ss_pred EEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHh
Confidence 388999999999999998777665432 2244555 4442 3444444443
No 119
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=82.68 E-value=1.2 Score=39.62 Aligned_cols=25 Identities=20% Similarity=0.234 Sum_probs=20.7
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF 280 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~ 280 (333)
++|||+.|-||||++--.+..+...
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~ 26 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKK 26 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHT
T ss_pred EEEECcCCCCHHHHHHHHHHHhhcc
Confidence 5799999999999999888888543
No 120
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=82.32 E-value=7.7 Score=37.63 Aligned_cols=37 Identities=27% Similarity=0.248 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 184 LDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 184 ~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
.+|.+.|..++.....+.....++|+|.+|.|||+.+
T Consensus 21 e~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 21 DEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 4555565555554434444567999999999999887
No 121
>PRK03846 adenylylsulfate kinase; Provisional
Probab=81.98 E-value=1.8 Score=38.87 Aligned_cols=35 Identities=23% Similarity=0.319 Sum_probs=28.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
.++|+|.-|.||||++-+++..+...|...+++-.
T Consensus 26 ~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~ 60 (198)
T PRK03846 26 VLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDG 60 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcC
Confidence 58999999999999999888888766665666643
No 122
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=81.82 E-value=2 Score=41.22 Aligned_cols=29 Identities=24% Similarity=0.267 Sum_probs=23.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGY 282 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~ 282 (333)
.+++++|+.|.|||+++-..+..+...|+
T Consensus 59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g~ 87 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVALRMAQILHRLGY 87 (284)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 37999999999999999877777766554
No 123
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=81.79 E-value=1.5 Score=45.02 Aligned_cols=38 Identities=24% Similarity=0.279 Sum_probs=31.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.|++|.|+.|.|||+|+=.++..+...|..-+++++..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~ 179 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSEL 179 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHH
Confidence 48999999999999999988888777676557777643
No 124
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=81.71 E-value=1.5 Score=44.62 Aligned_cols=38 Identities=18% Similarity=0.145 Sum_probs=29.5
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAPs 291 (333)
.|++|+|+.|.|||+|+=..+..+.+. +..-++|++..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~ 188 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEK 188 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence 489999999999999998777777765 34346777754
No 125
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=81.70 E-value=1.1 Score=39.66 Aligned_cols=24 Identities=21% Similarity=0.155 Sum_probs=20.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
..++|.|..|.||||+...++..+
T Consensus 5 ~~I~liG~~GaGKStl~~~La~~l 28 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQQL 28 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHHHc
Confidence 468999999999999999887764
No 126
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=81.69 E-value=3.1 Score=37.79 Aligned_cols=52 Identities=15% Similarity=0.289 Sum_probs=34.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHHhcchhccc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIFKGFDALAY 311 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~ 311 (333)
...+|+|+.|-|||++.-..+...+.. |..-++||.-.+. +.+.+. ++.+|+
T Consensus 20 s~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~--~~l~~~----~~s~g~ 72 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP--EELIEN----MKSFGW 72 (226)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H--HHHHHH----HHTTTS
T ss_pred cEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH--HHHHHH----HHHcCC
Confidence 478999999999999988777766666 8767888863333 444433 445554
No 127
>PRK00300 gmk guanylate kinase; Provisional
Probab=81.62 E-value=0.94 Score=40.37 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=22.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~ 278 (333)
..++|+|+-|.||||++-+++..+-
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCc
Confidence 4689999999999999999988764
No 128
>PRK06526 transposase; Provisional
Probab=81.51 E-value=0.91 Score=43.07 Aligned_cols=36 Identities=22% Similarity=0.173 Sum_probs=29.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
-++|+|+-|.|||+|+--.+..+...|+.-+++|++
T Consensus 100 nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~ 135 (254)
T PRK06526 100 NVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAA 135 (254)
T ss_pred eEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHH
Confidence 489999999999999987777778778755565554
No 129
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=81.37 E-value=4 Score=37.14 Aligned_cols=50 Identities=12% Similarity=0.179 Sum_probs=37.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC--ChhhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP--SPENLNTFFQFIF 303 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP--s~~~v~tlf~fa~ 303 (333)
..+++.|+-|-||+|++.=+++++...|..=.+||+= ...++++|-.|+.
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~ 53 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAE 53 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHH
Confidence 3578999999999999999999998876654556653 3477777776664
No 130
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=81.36 E-value=4.8 Score=30.13 Aligned_cols=33 Identities=18% Similarity=0.262 Sum_probs=25.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
.+++|..|-|||++.=..+..+.+.|+ ++++..
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~-~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGK-RVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEC
Confidence 467888899999999988888887776 444433
No 131
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=81.30 E-value=8.5 Score=41.51 Aligned_cols=47 Identities=19% Similarity=0.222 Sum_probs=28.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH-cCCceEEEeCCChhhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA-FGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~-~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
+++-|+-|.|||.+--+.+...+. ....+|+|++|+.+=.+++++-+
T Consensus 19 lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l 66 (636)
T TIGR03117 19 GMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSEL 66 (636)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHH
Confidence 444455555554333444433332 22358999999999999998743
No 132
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=81.14 E-value=0.88 Score=36.43 Aligned_cols=22 Identities=18% Similarity=0.364 Sum_probs=17.7
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|.|++|-|||||+=-++..-
T Consensus 2 I~V~G~~g~GKTsLi~~l~~~~ 23 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCGGE 23 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHHSS
T ss_pred EEEECcCCCCHHHHHHHHhcCC
Confidence 5789999999999987555443
No 133
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=81.08 E-value=0.87 Score=40.41 Aligned_cols=23 Identities=22% Similarity=0.262 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.++|+|+.|.||||++-+++...
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~~ 26 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQRE 26 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 68999999999999999886653
No 134
>PF12846 AAA_10: AAA-like domain
Probab=81.05 E-value=1.9 Score=39.78 Aligned_cols=35 Identities=17% Similarity=0.288 Sum_probs=29.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+|+|.-|.|||+++..++.+++..|. .++|-=|.
T Consensus 4 ~~i~G~tGsGKT~~~~~l~~~~~~~g~-~~~i~D~~ 38 (304)
T PF12846_consen 4 TLILGKTGSGKTTLLKNLLEQLIRRGP-RVVIFDPK 38 (304)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCC-CEEEEcCC
Confidence 678999999999999999999998885 56665665
No 135
>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=80.94 E-value=0.74 Score=43.57 Aligned_cols=39 Identities=21% Similarity=0.306 Sum_probs=30.8
Q ss_pred hhhhhccchhccc-cceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 241 LKFIDGISEKTLR-STVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 241 ~~~~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~~~~ 279 (333)
++++|+++-..-. -.+.|.|+.|-||||||..+...+.-
T Consensus 14 r~ll~~vsl~~~pGev~ailGPNGAGKSTlLk~LsGel~p 53 (259)
T COG4559 14 RRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELSP 53 (259)
T ss_pred ceeccCcceeccCCcEEEEECCCCccHHHHHHHhhCccCC
Confidence 3456666665555 47889999999999999999888873
No 136
>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]
Probab=80.94 E-value=0.88 Score=43.51 Aligned_cols=45 Identities=16% Similarity=0.201 Sum_probs=36.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~ 300 (333)
-|+|+|+.|.||||||=++++..-.. ...+.+-.-....+.+.|+
T Consensus 59 ~W~I~G~NGsGKTTLL~ll~~~~~ps-sg~~~~~G~~~G~~~~~~e 103 (257)
T COG1119 59 HWAIVGPNGAGKTTLLSLLTGEHPPS-SGDVTLLGRRFGKGETIFE 103 (257)
T ss_pred cEEEECCCCCCHHHHHHHHhcccCCC-CCceeeeeeeccCCcchHH
Confidence 59999999999999999999988764 3467777777777776654
No 137
>PRK06851 hypothetical protein; Provisional
Probab=80.87 E-value=1.7 Score=43.67 Aligned_cols=49 Identities=20% Similarity=0.361 Sum_probs=40.3
Q ss_pred ccccceeeeeccCCCchhHHHHHHHHHHHcCCc-eEEEeCCChhhHHHHH
Q psy18105 251 TLRSTVSLTAARGRGKSAALGLAVAGAVAFGYS-NIFVTSPSPENLNTFF 299 (333)
Q Consensus 251 ~~~~~~vltA~RGRGKSallGla~a~~~~~g~~-~I~VTAPs~~~v~tlf 299 (333)
.+++.++|+|+-|-|||+++.-.+..+...|+. .++=|+=.|+++.-+.
T Consensus 212 ~~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD~vi 261 (367)
T PRK06851 212 GVKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLDMVI 261 (367)
T ss_pred ccceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcceEE
Confidence 456789999999999999999999999988874 5666777777766554
No 138
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=80.76 E-value=3.9 Score=37.99 Aligned_cols=47 Identities=21% Similarity=0.283 Sum_probs=33.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
...+|+|+-|.|||+++=-+++.++..|..-++|+. -+....+.+.+
T Consensus 25 ~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~--e~~~~~~~~~~ 71 (230)
T PRK08533 25 SLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVST--QLTTTEFIKQM 71 (230)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeC--CCCHHHHHHHH
Confidence 478999999999999976666667666776788883 33445555544
No 139
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=80.76 E-value=3.6 Score=40.39 Aligned_cols=49 Identities=12% Similarity=0.165 Sum_probs=34.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh--hhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP--ENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~--~~v~tlf~fa 302 (333)
..+.++|+.|-||||++.-+++.+...|+.=.++++... .+++++-.++
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a 165 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWG 165 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHH
Confidence 367789999999999999999998877763344554432 3445554444
No 140
>PRK00131 aroK shikimate kinase; Reviewed
Probab=80.75 E-value=1.4 Score=37.67 Aligned_cols=24 Identities=25% Similarity=0.219 Sum_probs=20.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
..++|+|..|.|||++...++..+
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHh
Confidence 368999999999999998887775
No 141
>KOG1805|consensus
Probab=80.69 E-value=3.7 Score=45.97 Aligned_cols=58 Identities=21% Similarity=0.297 Sum_probs=45.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH-Hhcch--hcccccc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI-FKGFD--ALAYQEH 314 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa-~~~L~--~lg~~~~ 314 (333)
.+|.|=.|-||||++-.++.-|...|+ +|++||=.-.||..+.-=+ ..++. +||..+.
T Consensus 688 ~LI~GMPGTGKTTtI~~LIkiL~~~gk-kVLLtsyThsAVDNILiKL~~~~i~~lRLG~~~k 748 (1100)
T KOG1805|consen 688 ALILGMPGTGKTTTISLLIKILVALGK-KVLLTSYTHSAVDNILIKLKGFGIYILRLGSEEK 748 (1100)
T ss_pred heeecCCCCCchhhHHHHHHHHHHcCC-eEEEEehhhHHHHHHHHHHhccCcceeecCCccc
Confidence 567788899999999999999999887 8999999999999887432 23333 3576554
No 142
>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=80.64 E-value=3.2 Score=39.52 Aligned_cols=24 Identities=25% Similarity=0.340 Sum_probs=18.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~ 279 (333)
++|+|+-|.||||++--++..+..
T Consensus 83 ilisG~tGSGKTT~l~all~~i~~ 106 (264)
T cd01129 83 ILVTGPTGSGKTTTLYSALSELNT 106 (264)
T ss_pred EEEECCCCCcHHHHHHHHHhhhCC
Confidence 678888888888888766666553
No 143
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=80.51 E-value=2.5 Score=36.61 Aligned_cols=34 Identities=24% Similarity=0.276 Sum_probs=28.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
.+|+|+-|.|||++.--.+......|..-++||.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~ 35 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL 35 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 5899999999999998888877777766667765
No 144
>PRK13949 shikimate kinase; Provisional
Probab=80.43 E-value=1.3 Score=39.23 Aligned_cols=24 Identities=17% Similarity=0.054 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.++|+|.+|.||||+..+++..+-
T Consensus 3 ~I~liG~~GsGKstl~~~La~~l~ 26 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARELG 26 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 378999999999999988777653
No 145
>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=80.37 E-value=1.6 Score=41.12 Aligned_cols=44 Identities=20% Similarity=0.312 Sum_probs=28.6
Q ss_pred hhccchhccc-cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 244 IDGISEKTLR-STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 244 ~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
++.++..--+ ..-.+.||.|-||||||-+. ++|+.....+|+|-
T Consensus 17 l~~isl~i~~g~iTs~IGPNGAGKSTLLS~~-sRL~~~d~G~i~i~ 61 (252)
T COG4604 17 LDDVSLDIPKGGITSIIGPNGAGKSTLLSMM-SRLLKKDSGEITID 61 (252)
T ss_pred eccceeeecCCceeEEECCCCccHHHHHHHH-HHhccccCceEEEe
Confidence 4444443333 35678899999999999975 55555444466654
No 146
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=80.36 E-value=1.8 Score=40.21 Aligned_cols=67 Identities=15% Similarity=0.205 Sum_probs=43.6
Q ss_pred hhhhhccch-hccccceeeeeccCCCchhHHHHHHHHHH-HcCCc-eEEEeCCChhhHHHHHHHHHhcch
Q psy18105 241 LKFIDGISE-KTLRSTVSLTAARGRGKSAALGLAVAGAV-AFGYS-NIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 241 ~~~~~~~~~-~~~~~~~vltA~RGRGKSallGla~a~~~-~~g~~-~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
.++.+.+.+ ..-.+.+.|+|..|-|||+|+=-++.... ...+. .+||......+...+++.+.+.|.
T Consensus 6 ~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~ 75 (287)
T PF00931_consen 6 EKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLG 75 (287)
T ss_dssp HHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHT
T ss_pred HHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccc
Confidence 344444544 33346899999999999999966554422 23342 588998888777777766655554
No 147
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=80.30 E-value=2.1 Score=40.85 Aligned_cols=34 Identities=24% Similarity=0.381 Sum_probs=28.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
+.|||+=|.||||+.++++.++...|.-+|+|.=
T Consensus 3 IaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVD 36 (255)
T COG3640 3 IAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVD 36 (255)
T ss_pred EEEecCCCccHHHHHHHHHHHHHhcCCceEEEEe
Confidence 6789999999999999989998888633666543
No 148
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=80.15 E-value=3.4 Score=43.13 Aligned_cols=37 Identities=24% Similarity=0.289 Sum_probs=29.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
.+++|||-|.||||+|=-+++.+-.... | ++|+-.|-
T Consensus 260 liLvTGPTGSGKTTTLY~~L~~ln~~~~-n-I~TiEDPV 296 (500)
T COG2804 260 LILVTGPTGSGKTTTLYAALSELNTPER-N-IITIEDPV 296 (500)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhcCCCc-e-EEEeeCCe
Confidence 4899999999999999888888775432 3 78887763
No 149
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=79.79 E-value=4 Score=41.95 Aligned_cols=37 Identities=19% Similarity=0.167 Sum_probs=29.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
..++++|.-|.||||++.-++..+...|+.-.+|++.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D 132 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAAD 132 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCC
Confidence 4678899999999999999988888877744445554
No 150
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=79.57 E-value=4.1 Score=41.11 Aligned_cols=47 Identities=23% Similarity=0.303 Sum_probs=32.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHH-cCCceE-EEeCCCh--hhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVA-FGYSNI-FVTSPSP--ENLNTFFQ 300 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~-~g~~~I-~VTAPs~--~~v~tlf~ 300 (333)
..+++.|+.|-||||++..+++.+.. .|..+| +||+-.. .+++.+-.
T Consensus 138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~ 188 (374)
T PRK14722 138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRI 188 (374)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHH
Confidence 47899999999999999999998764 464454 4554332 24444443
No 151
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=79.53 E-value=1.5 Score=38.69 Aligned_cols=26 Identities=23% Similarity=0.276 Sum_probs=23.5
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~ 278 (333)
++|+||+|+-|.|||++...+++..-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~ 27 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQEFP 27 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHHST
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcc
Confidence 47999999999999999998888765
No 152
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=79.52 E-value=2 Score=46.96 Aligned_cols=44 Identities=16% Similarity=0.172 Sum_probs=36.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
+.++|||.-|.|||+.+--+.+.+ +++||||..-+.|.+..-+.
T Consensus 72 s~~~itG~AGsGKst~i~~l~~~l------~cvitg~T~vAAqN~~~~L~ 115 (828)
T PHA03311 72 SVYLITGTAGAGKSTSIQTLNENL------DCVITGATRVAAQNLSAKLS 115 (828)
T ss_pred EEEEEecCCCCChHHHHHHHHHhc------CEEEEcchHHHHHhhhcccc
Confidence 568999999999999998666555 69999999999999876333
No 153
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=79.50 E-value=1.3 Score=38.12 Aligned_cols=22 Identities=23% Similarity=0.223 Sum_probs=18.9
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|+.|.||||++..++..+
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhc
Confidence 3689999999999998887765
No 154
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=79.46 E-value=8 Score=39.45 Aligned_cols=50 Identities=18% Similarity=0.174 Sum_probs=31.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc---------CCceEEEeCCChhhHHHHHHHHHhc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF---------GYSNIFVTSPSPENLNTFFQFIFKG 305 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~---------g~~~I~VTAPs~~~v~tlf~fa~~~ 305 (333)
+|++|+-|.|||.+.-+.+...+.. |..+++|-+|.++=++..++.+..-
T Consensus 127 vi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~l 185 (475)
T PRK01297 127 AIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAAL 185 (475)
T ss_pred EEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHHh
Confidence 4455666666665444443332211 2357999999999999888766543
No 155
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=79.36 E-value=2.5 Score=41.23 Aligned_cols=26 Identities=38% Similarity=0.401 Sum_probs=22.0
Q ss_pred cccceeeEEecCCCChhhhhhhhhhh
Q psy18105 201 TLRSTVSLTAARGRGKSAALGLAVAG 226 (333)
Q Consensus 201 ~~r~~lvlTAdRGRGKSAaLGla~~~ 226 (333)
....-++|+|.||.|||.+|.-++++
T Consensus 21 ~~~~r~vL~G~~GsGKS~~L~q~~~~ 46 (309)
T PF10236_consen 21 SKNNRYVLTGERGSGKSVLLAQAVHY 46 (309)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHH
Confidence 34567899999999999999777776
No 156
>PTZ00110 helicase; Provisional
Probab=79.23 E-value=8.3 Score=40.46 Aligned_cols=49 Identities=24% Similarity=0.181 Sum_probs=29.7
Q ss_pred eeeeeccCCCchhHHHHHH-HHHHHc-----C-CceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAV-AGAVAF-----G-YSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~-a~~~~~-----g-~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
+|+.|+-|.|||.+.-|.+ ..+... + ...++|.+|..+=++.+++.+.+
T Consensus 170 vI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~ 225 (545)
T PTZ00110 170 MIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNK 225 (545)
T ss_pred EEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHH
Confidence 4556666666665433322 122211 1 23699999999999988877665
No 157
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=79.19 E-value=1.8 Score=34.89 Aligned_cols=22 Identities=18% Similarity=0.228 Sum_probs=19.7
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|+-|.||||++-.++..+
T Consensus 2 I~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999999999888865
No 158
>PRK10536 hypothetical protein; Provisional
Probab=79.17 E-value=2.8 Score=40.37 Aligned_cols=39 Identities=26% Similarity=0.229 Sum_probs=31.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH-HcCCceEEEeCCChh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV-AFGYSNIFVTSPSPE 293 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~-~~g~~~I~VTAPs~~ 293 (333)
.+++||+=|.|||.|+--++..++ ...+.+|+||-|..+
T Consensus 76 lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 76 LIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 588999999999999877766544 545778999999853
No 159
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=78.97 E-value=6 Score=40.66 Aligned_cols=38 Identities=13% Similarity=0.117 Sum_probs=27.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAPs 291 (333)
.|++|+|+.|.|||+|+--.+..+.+. ++.-++||++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~ 181 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDE 181 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence 489999999999999996555545432 44346777643
No 160
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=78.95 E-value=2 Score=35.49 Aligned_cols=33 Identities=21% Similarity=0.291 Sum_probs=22.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
.+.|+|+-|.|||||+=+++..... ...+|.+-
T Consensus 13 ~~~i~G~nGsGKStLl~~l~g~~~~-~~G~i~~~ 45 (137)
T PF00005_consen 13 IVAIVGPNGSGKSTLLKALAGLLPP-DSGSILIN 45 (137)
T ss_dssp EEEEEESTTSSHHHHHHHHTTSSHE-SEEEEEET
T ss_pred EEEEEccCCCccccceeeecccccc-cccccccc
Confidence 6889999999999999755544432 22245554
No 161
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=78.80 E-value=4.1 Score=43.90 Aligned_cols=49 Identities=14% Similarity=0.135 Sum_probs=31.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc-C--CceEEEeCCChhhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF-G--YSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~-g--~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
|++|+|--|.|||+.|=--+++++.. | ..+|++.+.+..+++.+-+-+.
T Consensus 17 ~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~ 68 (672)
T PRK10919 17 PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVA 68 (672)
T ss_pred CEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHH
Confidence 45555555566666556667777753 4 3478888888888877655443
No 162
>PRK06696 uridine kinase; Validated
Probab=78.69 E-value=6.3 Score=36.03 Aligned_cols=28 Identities=14% Similarity=0.114 Sum_probs=23.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGY 282 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~ 282 (333)
.+.|.|.-|.||||++..++..+-..|.
T Consensus 24 iI~I~G~sgsGKSTlA~~L~~~l~~~g~ 51 (223)
T PRK06696 24 RVAIDGITASGKTTFADELAEEIKKRGR 51 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence 4678899999999999999888876554
No 163
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=78.48 E-value=4.8 Score=39.04 Aligned_cols=49 Identities=16% Similarity=0.200 Sum_probs=31.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC------CceEEEeCCChhhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG------YSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g------~~~I~VTAPs~~~v~tlf~fa 302 (333)
..++|+|++|-|||+++=.++..+.... ..-++|.+........++..+
T Consensus 41 ~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i 95 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVEL 95 (365)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHH
Confidence 4699999999999999987777665321 224666665444433444333
No 164
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=78.45 E-value=4.3 Score=43.17 Aligned_cols=50 Identities=18% Similarity=0.170 Sum_probs=29.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc-C--CceEEEeCCChhhHHHHHHHHHh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF-G--YSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~-g--~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
|++|.|--|.|||+.|=--+++++.. | ..+|++.+.+..++..+-+-+.+
T Consensus 16 ~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 16 PCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred CEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHH
Confidence 34555555555555555666666643 3 34677777777777776554443
No 165
>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=78.44 E-value=1.8 Score=38.74 Aligned_cols=19 Identities=32% Similarity=0.413 Sum_probs=16.6
Q ss_pred ceeeeeccCCCchhHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLA 273 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla 273 (333)
.+.|+|+-|.||||||=+.
T Consensus 23 ~~~l~G~nG~GKSTLl~~i 41 (176)
T cd03238 23 LVVVTGVSGSGKSTLVNEG 41 (176)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 5889999999999999655
No 166
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=78.42 E-value=3.2 Score=40.05 Aligned_cols=33 Identities=27% Similarity=0.273 Sum_probs=26.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
..+.|+|+.|.||||++...+..+...|+ ++.|
T Consensus 35 ~~i~i~G~~G~GKttl~~~l~~~~~~~~~-~v~~ 67 (300)
T TIGR00750 35 HRVGITGTPGAGKSTLLEALGMELRRRGL-KVAV 67 (300)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEE
Confidence 46788999999999999999888877665 4444
No 167
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=78.34 E-value=5.8 Score=37.79 Aligned_cols=44 Identities=14% Similarity=0.222 Sum_probs=27.7
Q ss_pred cccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHH
Q psy18105 252 LRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFF 299 (333)
Q Consensus 252 ~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf 299 (333)
.+.+++++|++|.|||+++=..+..+ +..-+.+.+.. ..+..+.
T Consensus 42 ~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~-~~~~~i~ 85 (316)
T PHA02544 42 IPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSD-CRIDFVR 85 (316)
T ss_pred CCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCc-ccHHHHH
Confidence 34567779999999999987665544 33234555544 3344433
No 168
>PRK13947 shikimate kinase; Provisional
Probab=78.30 E-value=1.7 Score=37.47 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=19.5
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|.+|.|||++...++..+
T Consensus 4 I~l~G~~GsGKst~a~~La~~l 25 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTL 25 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 7899999999999998887765
No 169
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=78.18 E-value=2.6 Score=37.16 Aligned_cols=20 Identities=30% Similarity=0.443 Sum_probs=16.7
Q ss_pred cccceeeEEecCCCChhhhh
Q psy18105 201 TLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 201 ~~r~~lvlTAdRGRGKSAaL 220 (333)
...+.++|+|.||.|||+.+
T Consensus 18 ~~~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 18 GPSQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp --SSEEEEEESTTSSHHHHH
T ss_pred hcCcEEEEEcCCcCCHHHHH
Confidence 34678999999999999987
No 170
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=77.96 E-value=1.4 Score=42.25 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=22.7
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~ 279 (333)
++|++|+|+.|.|||+++--.+..+..
T Consensus 33 ~~pvLl~G~~GtGKT~li~~~l~~l~~ 59 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQNFLSSLDS 59 (272)
T ss_dssp TEEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred CCcEEEECCCCCchhHHHHhhhccCCc
Confidence 359999999999999999877766554
No 171
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=77.83 E-value=2.8 Score=37.93 Aligned_cols=32 Identities=22% Similarity=0.238 Sum_probs=24.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
+.|+++-|-||||..--+++.+.+.|+.-.+|
T Consensus 3 iav~gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 3 IAIYGKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEECCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 56679999999998777777777788743334
No 172
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=77.76 E-value=5.7 Score=39.62 Aligned_cols=50 Identities=8% Similarity=0.131 Sum_probs=41.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC---hhhHHHHHHHHHh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS---PENLNTFFQFIFK 304 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs---~~~v~tlf~fa~~ 304 (333)
-.+++.|=.|-||||.+|=++..+.+.|+ +|++.|-. ..++++|-.|+.+
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~-~VllaA~DTFRAaAiEQL~~w~er 192 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQQGK-SVLLAAGDTFRAAAIEQLEVWGER 192 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHHCCC-eEEEEecchHHHHHHHHHHHHHHH
Confidence 45678899999999999999999999998 78887764 4677777777655
No 173
>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=77.74 E-value=5.1 Score=34.73 Aligned_cols=37 Identities=16% Similarity=0.157 Sum_probs=28.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
.+++|+.|-|||+++=.++..+...|..=++|.....
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~ 39 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTY 39 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence 6789999999999998888887777653345555533
No 174
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=77.61 E-value=5.7 Score=47.02 Aligned_cols=47 Identities=9% Similarity=0.114 Sum_probs=36.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHH---cCCceEEEeCCChhhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVA---FGYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~---~g~~~I~VTAPs~~~v~tlf~ 300 (333)
+..+|+|.-|-|||+++...++.+.. .+..+|+.+||+-.++..|-+
T Consensus 853 r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e 902 (1623)
T PRK14712 853 RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS 902 (1623)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHH
Confidence 58999999999999998877665432 122379999999999888743
No 175
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=77.48 E-value=13 Score=36.58 Aligned_cols=36 Identities=17% Similarity=0.171 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 185 DQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 185 dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
+|.+.|..++.....+.....++|+|.+|-|||+.+
T Consensus 37 ~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 37 EQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred HHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHH
Confidence 444555555543333334456899999999999988
No 176
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=77.36 E-value=5.2 Score=41.13 Aligned_cols=53 Identities=21% Similarity=0.196 Sum_probs=41.2
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH-cC--CceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA-FG--YSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~-~g--~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
++|.=+||=|||++++..+...+- .| ...|+++|++.+....+|+.+.+-++.
T Consensus 25 ~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~ 80 (477)
T PF03354_consen 25 VYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEA 80 (477)
T ss_pred EEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHh
Confidence 444559999999999876555443 23 247999999999999999988777765
No 177
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=77.33 E-value=3.3 Score=37.72 Aligned_cols=37 Identities=16% Similarity=0.120 Sum_probs=29.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAP 290 (333)
...+|+|+.|.|||+++--.+..+... |..-+++|.-
T Consensus 14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E 51 (242)
T cd00984 14 DLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLE 51 (242)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCC
Confidence 478999999999999988777777766 7655666643
No 178
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=77.31 E-value=3.3 Score=47.94 Aligned_cols=54 Identities=20% Similarity=0.135 Sum_probs=41.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC-CceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG-YSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g-~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
..++|.|+-|.||||.+=..+-.+- .| ..+|++|-|..-++.++-+.+...+..
T Consensus 90 ~VviI~GeTGSGKTTqlPq~lle~g-~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 90 QVVIVAGETGSGKTTQLPKICLELG-RGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHcC-CCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 4688999999999997664443321 12 237999999999999999998888874
No 179
>PRK14701 reverse gyrase; Provisional
Probab=77.30 E-value=7.5 Score=46.25 Aligned_cols=49 Identities=22% Similarity=0.270 Sum_probs=36.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
.+++.|+-|.|||+ .++..+........+++|.+|..+=+.++.+.+..
T Consensus 96 d~li~APTGsGKTl-~~~~~al~~~~~g~~aLVl~PTreLa~Qi~~~l~~ 144 (1638)
T PRK14701 96 SFSIVAPTGMGKST-FGAFIALFLALKGKKCYIILPTTLLVKQTVEKIES 144 (1638)
T ss_pred CEEEEEcCCCCHHH-HHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHHH
Confidence 47789999999998 56655554433234799999999988888776655
No 180
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=77.26 E-value=5.1 Score=38.00 Aligned_cols=16 Identities=25% Similarity=0.320 Sum_probs=9.2
Q ss_pred eeeEEecCCCChhhhh
Q psy18105 205 TVSLTAARGRGKSAAL 220 (333)
Q Consensus 205 ~lvlTAdRGRGKSAaL 220 (333)
+++++|.+|.|||+.+
T Consensus 32 ~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLA 47 (305)
T ss_pred eEEEECCCCCCHHHHH
Confidence 3556666666666544
No 181
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=77.17 E-value=1.8 Score=44.29 Aligned_cols=23 Identities=30% Similarity=0.494 Sum_probs=19.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~ 278 (333)
+=|-|--|-|||+||||.+....
T Consensus 166 iGIFAgsGVGKStLLgMiar~t~ 188 (441)
T COG1157 166 IGIFAGSGVGKSTLLGMIARNTE 188 (441)
T ss_pred eEEEecCCCcHHHHHHHHhcccc
Confidence 56788999999999999987543
No 182
>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=77.15 E-value=1.6 Score=40.30 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=18.0
Q ss_pred ceeeeeccCCCchhHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a 275 (333)
.+-|.++-|.|||||||+++.
T Consensus 38 ~vaiVG~SGSGKSTLl~vlAG 58 (228)
T COG4181 38 TVAIVGPSGSGKSTLLAVLAG 58 (228)
T ss_pred eEEEEcCCCCcHHhHHHHHhc
Confidence 356789999999999998874
No 183
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=76.83 E-value=3.8 Score=37.76 Aligned_cols=37 Identities=19% Similarity=0.258 Sum_probs=27.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc--CCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF--GYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~--g~~~I~VTAP 290 (333)
.|+.|.|+.|.|||+||--.+..+... +..=++++|.
T Consensus 35 ~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~ 73 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAE 73 (219)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHH
T ss_pred CceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHH
Confidence 389999999999999998888887764 3323466553
No 184
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=76.72 E-value=6.8 Score=37.21 Aligned_cols=76 Identities=17% Similarity=0.073 Sum_probs=48.3
Q ss_pred cccceEEEecCCCCCHHHHHHHhhhhccCcEEEEEeCCccchhhhhcccccccccccccCCcCcchhHHHHHHHhhhcCC
Q psy18105 44 NTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLRTLSSLKQLYTMSMDIHERYRTEAHSDVVCRFNERFLLSLSSCN 123 (333)
Q Consensus 44 qE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLILL~P~~~~w~~~~~~~~~~~~r~~~~~~~~v~~rF~~Rf~~~L~~~~ 123 (333)
.+||++.+|+.....++.+-.+...++.||+||+ ++. -|........+.. .........++++.|.+.+..++
T Consensus 155 ~~fD~iFiDadK~~Y~~y~~~~l~ll~~GGviv~--DNv-l~~G~v~~~~~~~----~~~~~~~~~~~ir~fn~~v~~d~ 227 (247)
T PLN02589 155 GTFDFIFVDADKDNYINYHKRLIDLVKVGGVIGY--DNT-LWNGSVVAPPDAP----MRKYVRYYRDFVLELNKALAADP 227 (247)
T ss_pred CcccEEEecCCHHHhHHHHHHHHHhcCCCeEEEE--cCC-CCCCcccCccccc----hhhhHHHHHHHHHHHHHHHHhCC
Confidence 3799999999999999999999999999999877 221 1222111000000 00000111247888888888887
Q ss_pred ceE
Q psy18105 124 RCL 126 (333)
Q Consensus 124 ~~~ 126 (333)
.+.
T Consensus 228 ~~~ 230 (247)
T PLN02589 228 RIE 230 (247)
T ss_pred CEE
Confidence 654
No 185
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=76.67 E-value=2.7 Score=37.18 Aligned_cols=22 Identities=32% Similarity=0.253 Sum_probs=17.1
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+.+..
T Consensus 20 ~~~i~G~nGsGKSTLl~~i~G~ 41 (190)
T TIGR01166 20 VLALLGANGAGKSTLLLHLNGL 41 (190)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 5788888888888888776554
No 186
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=76.34 E-value=2.6 Score=38.47 Aligned_cols=23 Identities=26% Similarity=0.255 Sum_probs=20.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 35 ~~~i~G~nGsGKSTLl~~l~G~~ 57 (225)
T PRK10247 35 FKLITGPSGCGKSTLLKIVASLI 57 (225)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68999999999999999877643
No 187
>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=76.33 E-value=1.8 Score=36.80 Aligned_cols=24 Identities=25% Similarity=0.254 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
+++|+|+.|.|||+++-+++....
T Consensus 1 ~i~i~GpsGsGKstl~~~L~~~~~ 24 (137)
T cd00071 1 LIVLSGPSGVGKSTLLKRLLEEFD 24 (137)
T ss_pred CEEEECCCCCCHHHHHHHHHhcCC
Confidence 478999999999999988877643
No 188
>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=76.27 E-value=1.9 Score=36.38 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=19.5
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|..|.||||++..++..+
T Consensus 2 i~l~G~~GsGKST~a~~l~~~~ 23 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAERL 23 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhhc
Confidence 6899999999999999987763
No 189
>PRK09694 helicase Cas3; Provisional
Probab=76.24 E-value=5.1 Score=44.74 Aligned_cols=55 Identities=15% Similarity=0.070 Sum_probs=44.0
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
+..++|+|+-|-||+-++=+++..++.. +..+|+++.|..+.+..+|+-+.+-++
T Consensus 301 pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 301 PGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 3469999999999999986666666654 356899999999999999987655443
No 190
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=76.21 E-value=4.4 Score=33.78 Aligned_cols=27 Identities=22% Similarity=0.273 Sum_probs=23.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGY 282 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~ 282 (333)
++++|+-|.|||++....+..+...|+
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~ 28 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGK 28 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence 678999999999999999888877665
No 191
>PRK05541 adenylylsulfate kinase; Provisional
Probab=76.21 E-value=3.6 Score=35.87 Aligned_cols=33 Identities=15% Similarity=0.111 Sum_probs=26.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.++++|.-|.||||++-.++..+...+..-+++
T Consensus 9 ~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 9 VIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 689999999999999998888887655444444
No 192
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=76.18 E-value=7.2 Score=44.70 Aligned_cols=45 Identities=13% Similarity=0.067 Sum_probs=27.7
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~ 300 (333)
.+|..+-|.|||-++=.++.+++.. +..+|++.+|..+=+.+..+
T Consensus 436 ~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~ 481 (1123)
T PRK11448 436 ILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAED 481 (1123)
T ss_pred eEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHH
Confidence 4455677777775433334445543 34588898888877666553
No 193
>KOG0707|consensus
Probab=76.13 E-value=2.8 Score=39.67 Aligned_cols=26 Identities=23% Similarity=0.221 Sum_probs=23.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~ 279 (333)
+|+||.++-|+|||++++++...+-.
T Consensus 38 ~~ivl~gpsg~gk~tll~~l~ee~~~ 63 (231)
T KOG0707|consen 38 KPIVLSGPSGVGKSTLLKRLREELGG 63 (231)
T ss_pred ceEEEeCCCCcchhHHHHHHHHHcCC
Confidence 58999999999999999999988774
No 194
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=76.04 E-value=3.3 Score=38.58 Aligned_cols=36 Identities=22% Similarity=0.175 Sum_probs=28.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAP 290 (333)
..+|+|+-|.|||+++-..+..+... |..=+++|.-
T Consensus 32 ~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E 68 (271)
T cd01122 32 LIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLE 68 (271)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcc
Confidence 68899999999999998887777665 7655677653
No 195
>PRK13695 putative NTPase; Provisional
Probab=76.00 E-value=3.6 Score=35.93 Aligned_cols=27 Identities=22% Similarity=0.271 Sum_probs=23.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCC
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGY 282 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~ 282 (333)
+.|||+-|.||||++-..+..+...|.
T Consensus 3 i~ltG~~G~GKTTll~~i~~~l~~~G~ 29 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAELLKEEGY 29 (174)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence 689999999999999998887765564
No 196
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=75.99 E-value=5.1 Score=41.66 Aligned_cols=35 Identities=20% Similarity=0.208 Sum_probs=24.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.+++||+-|.||||++--++..+...+ +-++|--+
T Consensus 244 lilitGptGSGKTTtL~a~L~~l~~~~--~~iiTiED 278 (486)
T TIGR02533 244 IILVTGPTGSGKTTTLYAALSRLNTPE--RNILTVED 278 (486)
T ss_pred EEEEEcCCCCCHHHHHHHHHhccCCCC--CcEEEEcC
Confidence 378899999999999987676665332 23455444
No 197
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=75.97 E-value=11 Score=39.27 Aligned_cols=54 Identities=22% Similarity=0.145 Sum_probs=36.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH--cCCc-e-EEEeCCChhhHHHHHHHHHhcchhc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA--FGYS-N-IFVTSPSPENLNTFFQFIFKGFDAL 309 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~--~g~~-~-I~VTAPs~~~v~tlf~fa~~~L~~l 309 (333)
++..|..|.||+++-+|-+-.-+. .... . .+|-+|.+|-+.++++-+.+-....
T Consensus 69 vi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~ 126 (513)
T COG0513 69 VLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKNL 126 (513)
T ss_pred EEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhhc
Confidence 455666666666666776655554 2111 2 8999999999999988776654444
No 198
>PRK03839 putative kinase; Provisional
Probab=75.88 E-value=2.1 Score=37.45 Aligned_cols=22 Identities=23% Similarity=0.360 Sum_probs=19.2
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|..|.||||+...++..+
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 7899999999999988777764
No 199
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=75.79 E-value=3.7 Score=35.90 Aligned_cols=32 Identities=19% Similarity=0.340 Sum_probs=26.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
+.|+|.-|.||||++--++..+...|+ +|.+-
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~-~V~vi 33 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGY-RVATI 33 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCC-eEEEE
Confidence 578899999999999999999887775 55443
No 200
>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=75.70 E-value=1.8 Score=38.79 Aligned_cols=23 Identities=17% Similarity=0.335 Sum_probs=20.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++...
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~ 50 (210)
T cd03269 28 IFGLLGPNGAGKTTTIRMILGII 50 (210)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999888764
No 201
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=75.56 E-value=2.9 Score=38.55 Aligned_cols=55 Identities=16% Similarity=0.204 Sum_probs=35.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceE-----EEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNI-----FVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I-----~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
...|||+-|.|||+++-+.+...-- -...+ =|++-.|++...=..++.+.=.-+|
T Consensus 31 ~iaitGPSG~GKStllk~va~Lisp-~~G~l~f~Ge~vs~~~pea~Rq~VsY~~Q~paLfg 90 (223)
T COG4619 31 FIAITGPSGCGKSTLLKIVASLISP-TSGTLLFEGEDVSTLKPEAYRQQVSYCAQTPALFG 90 (223)
T ss_pred eEEEeCCCCccHHHHHHHHHhccCC-CCceEEEcCccccccChHHHHHHHHHHHcCccccc
Confidence 4789999999999999876654321 11112 2677777777766666655444444
No 202
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=75.42 E-value=4.2 Score=35.00 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=24.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYS 283 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~ 283 (333)
+.|.|+.|.||||++=.++..+.+.|+.
T Consensus 3 v~VvG~~~sGKTTl~~~Li~~l~~~g~~ 30 (140)
T PF03205_consen 3 VQVVGPKNSGKTTLIRKLINELKRRGYR 30 (140)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT--
T ss_pred EEEECCCCCCHHHHHHHHHHHHhHcCCc
Confidence 6789999999999999999999988874
No 203
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=75.28 E-value=4.8 Score=30.13 Aligned_cols=22 Identities=23% Similarity=0.330 Sum_probs=19.9
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
+.|+|.-|.|||+++-.+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999999888887
No 204
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=75.18 E-value=1.5 Score=41.55 Aligned_cols=46 Identities=26% Similarity=0.288 Sum_probs=29.4
Q ss_pred hhhccchhccc-cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 243 FIDGISEKTLR-STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 243 ~~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
+|++|+-+.-+ -.++|.|+-|.||||+|=-.- .|-.-...+|+|-.
T Consensus 17 VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN-~LE~~~~G~I~i~g 63 (240)
T COG1126 17 VLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLN-GLEEPDSGSITVDG 63 (240)
T ss_pred EecCcceeEcCCCEEEEECCCCCCHHHHHHHHH-CCcCCCCceEEECC
Confidence 35555554445 578999999999999986322 11111233677765
No 205
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=75.09 E-value=1.8 Score=40.70 Aligned_cols=34 Identities=21% Similarity=0.277 Sum_probs=25.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
.+.|+|+.|.||||||-++.....-. ...|+|..
T Consensus 33 ~vaI~GpSGSGKSTLLniig~ld~pt-~G~v~i~g 66 (226)
T COG1136 33 FVAIVGPSGSGKSTLLNLLGGLDKPT-SGEVLING 66 (226)
T ss_pred EEEEECCCCCCHHHHHHHHhcccCCC-CceEEECC
Confidence 68899999999999999876655542 22455554
No 206
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=75.08 E-value=2.9 Score=36.47 Aligned_cols=24 Identities=25% Similarity=0.318 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.++|+|+.|.||||++=.++..+.
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARARLA 26 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 579999999999999987766653
No 207
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=75.06 E-value=1.1 Score=40.60 Aligned_cols=47 Identities=21% Similarity=0.299 Sum_probs=36.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCc--eEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYS--NIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~--~I~VTAPs~~~v~tlf~f 301 (333)
.+++|.|.+|.||||. |-++|+.+...+. .-+|..-...++..+|+-
T Consensus 3 ~~IvLiG~mGaGKSTI-Gr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~ 51 (172)
T COG0703 3 MNIVLIGFMGAGKSTI-GRALAKALNLPFIDTDQEIEKRTGMSIAEIFEE 51 (172)
T ss_pred ccEEEEcCCCCCHhHH-HHHHHHHcCCCcccchHHHHHHHCcCHHHHHHH
Confidence 3689999999999986 8888888765443 345666667888899864
No 208
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=75.03 E-value=7.7 Score=37.35 Aligned_cols=51 Identities=16% Similarity=0.123 Sum_probs=34.6
Q ss_pred cceeeeeccCCCchhHHHHHH-HHHHHcCCc----eEEEeCCChhhHHHHHHHHHh
Q psy18105 254 STVSLTAARGRGKSAALGLAV-AGAVAFGYS----NIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~-a~~~~~g~~----~I~VTAPs~~~v~tlf~fa~~ 304 (333)
..+++-|+-|-|||.++=+++ +.+...+.. +|+++.+...-.+.++.-+.+
T Consensus 28 ~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 28 KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 589999999999996655555 444443432 788888877765555544433
No 209
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=75.03 E-value=7.7 Score=37.35 Aligned_cols=51 Identities=16% Similarity=0.123 Sum_probs=34.6
Q ss_pred cceeeeeccCCCchhHHHHHH-HHHHHcCCc----eEEEeCCChhhHHHHHHHHHh
Q psy18105 254 STVSLTAARGRGKSAALGLAV-AGAVAFGYS----NIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~-a~~~~~g~~----~I~VTAPs~~~v~tlf~fa~~ 304 (333)
..+++-|+-|-|||.++=+++ +.+...+.. +|+++.+...-.+.++.-+.+
T Consensus 28 ~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 28 KIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred CcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 589999999999996655555 444443432 788888877765555544433
No 210
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=74.78 E-value=7.6 Score=46.39 Aligned_cols=47 Identities=9% Similarity=0.157 Sum_probs=35.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc---CCceEEEeCCChhhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF---GYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~---g~~~I~VTAPs~~~v~tlf~ 300 (333)
+..+|+|.-|-|||+++...+..+... +..+|+.+||+-.++..|-+
T Consensus 985 r~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e 1034 (1747)
T PRK13709 985 RFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS 1034 (1747)
T ss_pred cEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh
Confidence 478899999999999998777766421 22379999999988887653
No 211
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=74.76 E-value=7.4 Score=36.95 Aligned_cols=55 Identities=18% Similarity=0.260 Sum_probs=36.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc---CCceEEEeCCC----hhhHHHHHHHHHhcchh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF---GYSNIFVTSPS----PENLNTFFQFIFKGFDA 308 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~---g~~~I~VTAPs----~~~v~tlf~fa~~~L~~ 308 (333)
..+.|+|+.|.|||+++-+.-..+-.. ++.-|..-|=. ..-...++..+...|+.
T Consensus 21 ~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~~ 82 (325)
T PF07693_consen 21 FVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLEK 82 (325)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHHH
Confidence 457899999999999999999888876 22223333323 33355556555555553
No 212
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=74.74 E-value=6.2 Score=41.17 Aligned_cols=36 Identities=22% Similarity=0.311 Sum_probs=28.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHH-cCCceEEEeC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVA-FGYSNIFVTS 289 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~-~g~~~I~VTA 289 (333)
..+.+.|+-|-||||+++.+++.+.. .|..+|.+.+
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 57899999999999999999998854 4544554433
No 213
>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=74.53 E-value=2 Score=39.08 Aligned_cols=24 Identities=17% Similarity=0.300 Sum_probs=21.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 35 ~~~l~G~nGsGKSTLlk~l~G~~~ 58 (226)
T cd03234 35 VMAILGSSGSGKTTLLDAISGRVE 58 (226)
T ss_pred EEEEECCCCCCHHHHHHHHhCccC
Confidence 689999999999999998887764
No 214
>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=74.48 E-value=2 Score=38.42 Aligned_cols=23 Identities=22% Similarity=0.319 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.||||||-+.+...
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~ 50 (205)
T cd03226 28 IIALTGKNGAGKTTLAKILAGLI 50 (205)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 68999999999999999877654
No 215
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=74.42 E-value=5 Score=38.68 Aligned_cols=47 Identities=23% Similarity=0.260 Sum_probs=36.1
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
++|.|.||-|||+|.=-+.+.....|..=|=|+=-....+..+++.+
T Consensus 88 VLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~l~~~L 134 (287)
T COG2607 88 VLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPDLVELL 134 (287)
T ss_pred eEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhHHHHHHHH
Confidence 78999999999999999888888887755556655555566666544
No 216
>PRK11054 helD DNA helicase IV; Provisional
Probab=74.37 E-value=7.6 Score=42.13 Aligned_cols=52 Identities=17% Similarity=0.165 Sum_probs=35.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC---CceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG---YSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g---~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
+++|+|--|.|||++|=-.+++++..+ ..+|++.|.+..+++.+-+-+...+
T Consensus 211 ~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~l 265 (684)
T PRK11054 211 SLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERL 265 (684)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhc
Confidence 356666667777666666666666543 2379999999999988876555433
No 217
>PRK08118 topology modulation protein; Reviewed
Probab=74.29 E-value=2.5 Score=37.27 Aligned_cols=23 Identities=22% Similarity=0.151 Sum_probs=19.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~ 278 (333)
++|+|+.|.||||++-.++..+-
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l~ 26 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKLN 26 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHhC
Confidence 68999999999998887777653
No 218
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=74.17 E-value=2.9 Score=36.18 Aligned_cols=25 Identities=28% Similarity=0.315 Sum_probs=19.6
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~ 278 (333)
+.+.+|+|++|-||||++= |+..++
T Consensus 19 ~g~~vi~G~Ng~GKStil~-ai~~~L 43 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILE-AIRYAL 43 (202)
T ss_dssp SEEEEEEESTTSSHHHHHH-HHHHHH
T ss_pred CCcEEEECCCCCCHHHHHH-HHHHHH
Confidence 4578999999999999994 444444
No 219
>PRK14738 gmk guanylate kinase; Provisional
Probab=74.13 E-value=2.1 Score=38.91 Aligned_cols=24 Identities=25% Similarity=0.266 Sum_probs=20.6
Q ss_pred ccceeeeeccCCCchhHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~ 276 (333)
.+++||+|+-|.||||++..+.+.
T Consensus 13 ~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 13 PLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CeEEEEECcCCCCHHHHHHHHHhc
Confidence 368999999999999999877654
No 220
>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=74.06 E-value=2.1 Score=38.70 Aligned_cols=23 Identities=17% Similarity=0.299 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 28 ~~~i~G~nGsGKSTLl~~i~G~~ 50 (220)
T cd03265 28 IFGLLGPNGAGKTTTIKMLTTLL 50 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999877654
No 221
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=73.96 E-value=10 Score=37.01 Aligned_cols=91 Identities=20% Similarity=0.194 Sum_probs=65.7
Q ss_pred eeeEEecCCCChhhhhhhhhhhhhhcccchhhhhhhhhhhhccch--hccccceeeeeccCCCchhHHHHHHHHHHHcCC
Q psy18105 205 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGKALLKFIDGISE--KTLRSTVSLTAARGRGKSAALGLAVAGAVAFGY 282 (333)
Q Consensus 205 ~lvlTAdRGRGKSAaLGla~~~~~~~~~~n~~~~~~~~~~~~~~~--~~~~~~~vltA~RGRGKSallGla~a~~~~~g~ 282 (333)
.++||+--|.|||+|| -+.==+.||--.|+=.+-+-+|++.+.. ...++..+..--|+++...-+.-++..+.+.|.
T Consensus 3 ~vIiTGlSGaGKs~Al-~~lED~Gy~cvDNlP~~Ll~~l~~~~~~~~~~~~~~Ai~iD~R~~~~~~~~~~~~~~l~~~~~ 81 (284)
T PF03668_consen 3 LVIITGLSGAGKSTAL-RALEDLGYYCVDNLPPSLLPQLIELLAQSNSKIEKVAIVIDIRSREFFEDLFEALDELRKKGI 81 (284)
T ss_pred EEEEeCCCcCCHHHHH-HHHHhcCeeEEcCCcHHHHHHHHHHHHhcCCCCceEEEEEeCCChHHHHHHHHHHHHHHhcCC
Confidence 5799999999999999 1111144455567766777777777663 456689999999999988888878888877654
Q ss_pred c--eEEEeCCChhhHH
Q psy18105 283 S--NIFVTSPSPENLN 296 (333)
Q Consensus 283 ~--~I~VTAPs~~~v~ 296 (333)
. =|++.|.+-.=+.
T Consensus 82 ~~~ilFLdA~d~~Lir 97 (284)
T PF03668_consen 82 DVRILFLDASDEVLIR 97 (284)
T ss_pred ceEEEEEECChHHHHH
Confidence 3 4888887654433
No 222
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=73.94 E-value=1.6 Score=41.82 Aligned_cols=50 Identities=14% Similarity=0.179 Sum_probs=32.3
Q ss_pred hhccchhccc-cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 244 IDGISEKTLR-STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 244 ~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
++.++-+.-+ ....|.|+.|.||||||-..+..+.- ....|.+-.-+...
T Consensus 18 l~~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p-~~G~V~l~g~~i~~ 68 (258)
T COG1120 18 LDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKP-KSGEVLLDGKDIAS 68 (258)
T ss_pred EecceEEecCCcEEEEECCCCCCHHHHHHHHhccCCC-CCCEEEECCCchhh
Confidence 3444443333 57899999999999999876655542 22357776644433
No 223
>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=73.80 E-value=3.5 Score=37.18 Aligned_cols=23 Identities=22% Similarity=0.351 Sum_probs=18.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++...
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~ 52 (220)
T cd03263 30 IFGLLGHNGAGKTTTLKMLTGEL 52 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57889999999999888877654
No 224
>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=73.78 E-value=2.9 Score=37.53 Aligned_cols=22 Identities=23% Similarity=0.105 Sum_probs=19.6
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.++|||+-|.||||+|-+.+..
T Consensus 31 ~~~l~G~Ng~GKStll~~i~~~ 52 (202)
T cd03243 31 LLLITGPNMGGKSTYLRSIGLA 52 (202)
T ss_pred EEEEECCCCCccHHHHHHHHHH
Confidence 6899999999999999988743
No 225
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=73.71 E-value=7.5 Score=35.01 Aligned_cols=39 Identities=13% Similarity=0.119 Sum_probs=31.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC------CceEEEeCCCh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG------YSNIFVTSPSP 292 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g------~~~I~VTAPs~ 292 (333)
....|+|+.|.|||+++-.+++.....+ ..-++|++-+.
T Consensus 20 ~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 20 RITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred cEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 3688999999999999998888776555 44688888764
No 226
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=73.55 E-value=4.8 Score=36.25 Aligned_cols=36 Identities=11% Similarity=0.177 Sum_probs=30.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS 289 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA 289 (333)
+...|+|+.|.|||+++=.+++.....|..-+++++
T Consensus 20 ~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 20 TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 468899999999999999888888777765678876
No 227
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=73.36 E-value=5.1 Score=34.45 Aligned_cols=32 Identities=22% Similarity=0.165 Sum_probs=25.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
++|+|.-|.||||++-.++..+...|..-+++
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 67899999999999999988887655433444
No 228
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=73.31 E-value=8.3 Score=37.41 Aligned_cols=25 Identities=16% Similarity=0.272 Sum_probs=18.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~ 279 (333)
.++|+|+.|.||||++..++..+..
T Consensus 134 ~ilI~G~tGSGKTTll~al~~~i~~ 158 (299)
T TIGR02782 134 NILVVGGTGSGKTTLANALLAEIAK 158 (299)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhc
Confidence 3677888888888888776666543
No 229
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=73.16 E-value=8.7 Score=41.66 Aligned_cols=49 Identities=16% Similarity=0.118 Sum_probs=27.2
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-C--CceEEEeCCChhhHHHHHHHHHh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-G--YSNIFVTSPSPENLNTFFQFIFK 304 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g--~~~I~VTAPs~~~v~tlf~fa~~ 304 (333)
++|.|--|.|||++|=--+++++.. | ..+|++.+-+..+++.+-+=+.+
T Consensus 25 ~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~ 76 (721)
T PRK11773 25 MLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQ 76 (721)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHH
Confidence 4444444444444445556666652 3 33677777777777766554433
No 230
>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=73.14 E-value=3.8 Score=37.04 Aligned_cols=23 Identities=22% Similarity=0.192 Sum_probs=19.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 29 ~~~i~G~nGsGKSTLl~~i~G~~ 51 (218)
T cd03290 29 LTMIVGQVGCGKSSLLLAILGEM 51 (218)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 68899999999999999877655
No 231
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=73.11 E-value=4.3 Score=40.21 Aligned_cols=39 Identities=21% Similarity=0.286 Sum_probs=31.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
.+.|||+-|.||||++.-++..+...|. +|.|-+=.|.+
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~-~v~vi~~Dp~s 96 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGH-KVAVLAVDPSS 96 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCC-eEEEEEeCCCc
Confidence 4789999999999999999999887765 56665555544
No 232
>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=72.98 E-value=8.6 Score=34.14 Aligned_cols=23 Identities=22% Similarity=0.348 Sum_probs=15.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.++|+|+-|.||||++-.++..+
T Consensus 27 ~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 27 NILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 36677777777777776655443
No 233
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=72.94 E-value=2.4 Score=37.59 Aligned_cols=36 Identities=14% Similarity=0.146 Sum_probs=23.1
Q ss_pred hhhhhhccch-hccccceeeeeccCCCchhHHHHHHH
Q psy18105 240 LLKFIDGISE-KTLRSTVSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 240 ~~~~~~~~~~-~~~~~~~vltA~RGRGKSallGla~a 275 (333)
|+++++.+.. -....|++|+|.+|-||+.++=..-.
T Consensus 8 m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~ 44 (168)
T PF00158_consen 8 MKRLREQAKRAASSDLPVLITGETGTGKELLARAIHN 44 (168)
T ss_dssp HHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHH
Confidence 3445555544 23337999999999999987544433
No 234
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=72.80 E-value=9.8 Score=33.95 Aligned_cols=38 Identities=13% Similarity=0.266 Sum_probs=30.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
....|+|+.|.|||+++=.++......|..-++|++-.
T Consensus 13 ~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 13 TITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 46889999999999998555555656677679999964
No 235
>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=72.80 E-value=2.4 Score=36.84 Aligned_cols=33 Identities=21% Similarity=0.195 Sum_probs=24.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
.+.|+|+-|.|||||+-+.+...... ..+|.+-
T Consensus 28 ~~~l~G~nGsGKSTLl~~i~G~~~~~-~G~v~~~ 60 (163)
T cd03216 28 VHALLGENGAGKSTLMKILSGLYKPD-SGEILVD 60 (163)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCC-CeEEEEC
Confidence 68899999999999999887654322 2256554
No 236
>PRK14737 gmk guanylate kinase; Provisional
Probab=72.73 E-value=2.2 Score=38.46 Aligned_cols=26 Identities=15% Similarity=0.211 Sum_probs=22.8
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~ 278 (333)
..++||+|+-|.|||+++..+++..-
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~~~ 29 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEEHP 29 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhcCC
Confidence 35899999999999999999988754
No 237
>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=72.70 E-value=2.4 Score=37.97 Aligned_cols=23 Identities=30% Similarity=0.281 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 29 ~~~l~G~nGsGKSTLl~~l~G~~ 51 (211)
T cd03225 29 FVLIVGPNGSGKSTLLRLLNGLL 51 (211)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 68899999999999999887654
No 238
>KOG1663|consensus
Probab=72.66 E-value=3 Score=39.51 Aligned_cols=35 Identities=23% Similarity=0.371 Sum_probs=33.4
Q ss_pred ccccceEEEecCCCCCHHHHHHHhhhhccCcEEEE
Q psy18105 43 GNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVL 77 (333)
Q Consensus 43 GqE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLIL 77 (333)
.+|||++.+|+.-..--|..=++...||-||+|++
T Consensus 147 ~~tfDfaFvDadK~nY~~y~e~~l~Llr~GGvi~~ 181 (237)
T KOG1663|consen 147 SGTFDFAFVDADKDNYSNYYERLLRLLRVGGVIVV 181 (237)
T ss_pred CCceeEEEEccchHHHHHHHHHHHhhcccccEEEE
Confidence 68999999999999888999999999999999998
No 239
>PRK13946 shikimate kinase; Provisional
Probab=72.52 E-value=2.8 Score=37.18 Aligned_cols=24 Identities=29% Similarity=0.171 Sum_probs=21.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
..++|+|..|.|||++...++..+
T Consensus 11 ~~I~l~G~~GsGKsti~~~LA~~L 34 (184)
T PRK13946 11 RTVVLVGLMGAGKSTVGRRLATML 34 (184)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHc
Confidence 578999999999999988887765
No 240
>PF05729 NACHT: NACHT domain
Probab=72.48 E-value=2.4 Score=35.42 Aligned_cols=17 Identities=29% Similarity=0.471 Sum_probs=15.7
Q ss_pred ceeeEEecCCCChhhhh
Q psy18105 204 STVSLTAARGRGKSAAL 220 (333)
Q Consensus 204 ~~lvlTAdRGRGKSAaL 220 (333)
|+++|+|+-|.|||+.+
T Consensus 1 r~l~I~G~~G~GKStll 17 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLL 17 (166)
T ss_pred CEEEEECCCCCChHHHH
Confidence 57899999999999988
No 241
>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=72.43 E-value=2.2 Score=38.87 Aligned_cols=23 Identities=22% Similarity=0.258 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~ 50 (236)
T cd03219 28 IHGLIGPNGAGKTTLFNLISGFL 50 (236)
T ss_pred EEEEECCCCCCHHHHHHHHcCCC
Confidence 68899999999999999887654
No 242
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=72.43 E-value=2 Score=38.30 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=19.9
Q ss_pred cceeeeeccCCCchhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~ 276 (333)
...++.|+.|-|||||+=.++-.
T Consensus 36 k~~vl~G~SGvGKSSLiN~L~~~ 58 (161)
T PF03193_consen 36 KTSVLLGQSGVGKSSLINALLPE 58 (161)
T ss_dssp SEEEEECSTTSSHHHHHHHHHTS
T ss_pred CEEEEECCCCCCHHHHHHHHHhh
Confidence 68999999999999999866554
No 243
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=72.43 E-value=2.4 Score=39.22 Aligned_cols=24 Identities=25% Similarity=0.411 Sum_probs=21.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++....
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~ 54 (253)
T TIGR02323 31 VLGIVGESGSGKSTLLGCLAGRLA 54 (253)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999998877653
No 244
>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=72.34 E-value=2.9 Score=35.54 Aligned_cols=23 Identities=13% Similarity=0.192 Sum_probs=19.8
Q ss_pred cceeeeeccCCCchhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~ 276 (333)
.-++|+|+.|.||||++-.....
T Consensus 15 ~~v~i~G~~g~GKStLl~~l~~~ 37 (173)
T cd04155 15 PRILILGLDNAGKTTILKQLASE 37 (173)
T ss_pred cEEEEEccCCCCHHHHHHHHhcC
Confidence 35999999999999999977653
No 245
>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=72.33 E-value=3.3 Score=37.16 Aligned_cols=20 Identities=20% Similarity=0.265 Sum_probs=18.3
Q ss_pred ceeeeeccCCCchhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~ 274 (333)
.++|||+.|.||||+|-+..
T Consensus 30 ~~~ltG~Ng~GKStll~~i~ 49 (200)
T cd03280 30 VLVITGPNAGGKTVTLKTLG 49 (200)
T ss_pred EEEEECCCCCChHHHHHHHH
Confidence 58999999999999998766
No 246
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=72.27 E-value=14 Score=35.56 Aligned_cols=48 Identities=17% Similarity=0.236 Sum_probs=33.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh--hhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP--ENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~--~~v~tlf~fa 302 (333)
.+.+.|+.|.|||+++-+.++.+...|..-.+|++-.. .++.++-.++
T Consensus 77 ~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~ 126 (270)
T PRK06731 77 TIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYV 126 (270)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHh
Confidence 58899999999999999888887765554445555322 4555555443
No 247
>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=72.24 E-value=3.3 Score=37.57 Aligned_cols=24 Identities=21% Similarity=0.180 Sum_probs=19.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
+.++|||+-|.||||++=+.+...
T Consensus 26 ~~~~ltGpNg~GKSTllr~i~~~~ 49 (199)
T cd03283 26 NGILITGSNMSGKSTFLRTIGVNV 49 (199)
T ss_pred cEEEEECCCCCChHHHHHHHHHHH
Confidence 368999999999999998776543
No 248
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=72.09 E-value=7.4 Score=40.20 Aligned_cols=56 Identities=16% Similarity=0.157 Sum_probs=34.9
Q ss_pred ceeeeeccCCCchhHHH-HHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccccccceEEEe
Q psy18105 255 TVSLTAARGRGKSAALG-LAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQEHLDYSIVQ 321 (333)
Q Consensus 255 ~~vltA~RGRGKSallG-la~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~~~d~~~i~ 321 (333)
-+++.|+||.|||++.- +....++..| ..-++..||..+.. ..+|.=...|..++.
T Consensus 211 Nli~lGp~GTGKThla~~l~~~~a~~sG---------~f~T~a~Lf~~L~~--~~lg~v~~~DlLI~D 267 (449)
T TIGR02688 211 NLIELGPKGTGKSYIYNNLSPYVILISG---------GTITVAKLFYNIST--RQIGLVGRWDVVAFD 267 (449)
T ss_pred cEEEECCCCCCHHHHHHHHhHHHHHHcC---------CcCcHHHHHHHHHH--HHHhhhccCCEEEEE
Confidence 38999999999997654 3444345555 44566777766655 344443445554443
No 249
>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=72.03 E-value=5.1 Score=31.88 Aligned_cols=34 Identities=18% Similarity=0.235 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 186 QGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 186 Q~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
|...+..+...+.. ...+.++|+|..|.|||+.+
T Consensus 3 ~~~~~~~i~~~~~~-~~~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 3 QEEAIEALREALEL-PPPKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred hHHHHHHHHHHHhC-CCCCeEEEECCCCCCHHHHH
Confidence 34455555554433 24568999999999999866
No 250
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=72.01 E-value=3.2 Score=35.84 Aligned_cols=40 Identities=30% Similarity=0.353 Sum_probs=29.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTF 298 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tl 298 (333)
.++|.|+-|.||||+.=..+..+ |. .-.||+|+..=++..
T Consensus 24 ~i~l~G~lGaGKTtl~~~l~~~l---g~-~~~v~SPTf~lv~~Y 63 (133)
T TIGR00150 24 VVLLKGDLGAGKTTLVQGLLQGL---GI-QGNVTSPTFTLVNEY 63 (133)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHc---CC-CCcccCCCeeeeeec
Confidence 68899999999999987666654 32 235999986555543
No 251
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=71.99 E-value=19 Score=39.81 Aligned_cols=51 Identities=10% Similarity=0.066 Sum_probs=30.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
+++-|+-|-|||.+--+.+......+ .+|+|++|+.+=.++++.--...|.
T Consensus 267 ~~~eA~TG~GKT~ayLlp~~~~~~~~-~~vvi~t~t~~Lq~Ql~~~~~~~l~ 317 (850)
T TIGR01407 267 SLIEAPTGTGKTLGYLLPALYYAITE-KPVVISTNTKVLQSQLLEKDIPLLN 317 (850)
T ss_pred EEEECCCCCchhHHHHHHHHHHhcCC-CeEEEEeCcHHHHHHHHHHHHHHHH
Confidence 45556666666654455544443323 4899999999866666654333343
No 252
>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=71.90 E-value=2.6 Score=37.87 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~Gl~ 49 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILATLT 49 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhCCC
Confidence 58899999999999999887654
No 253
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=71.87 E-value=7.1 Score=42.96 Aligned_cols=49 Identities=20% Similarity=0.262 Sum_probs=34.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHH-HcCCceE-EEeCCChh--hHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAV-AFGYSNI-FVTSPSPE--NLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~-~~g~~~I-~VTAPs~~--~v~tlf~fa 302 (333)
..+.+.|+-|-||||+++.+++.+. ..|..+| +||+-... ++..+..|+
T Consensus 186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a 238 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYG 238 (767)
T ss_pred eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHH
Confidence 5789999999999999999999885 4454465 44543322 555555554
No 254
>PRK07933 thymidylate kinase; Validated
Probab=71.77 E-value=5.4 Score=36.60 Aligned_cols=32 Identities=19% Similarity=0.209 Sum_probs=27.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
+++-|.=|.||||++.+++..+...|+ +|.+|
T Consensus 3 IviEG~dGsGKST~~~~L~~~L~~~g~-~v~~~ 34 (213)
T PRK07933 3 IAIEGVDGAGKRTLTEALRAALEARGR-SVATL 34 (213)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCC-eEEEE
Confidence 678899999999999999999998886 55554
No 255
>PRK13766 Hef nuclease; Provisional
Probab=71.74 E-value=7.9 Score=41.96 Aligned_cols=53 Identities=17% Similarity=0.207 Sum_probs=41.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
.-.+|.++.|-|||....+.++..+.....+++|.+|+.+-+....+++.+-+
T Consensus 30 ~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~ 82 (773)
T PRK13766 30 KNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFL 82 (773)
T ss_pred CCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 35789999999999988888887765434589999999888877776666543
No 256
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=71.73 E-value=2.6 Score=38.36 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 15 ~~~l~G~NGsGKSTLlk~i~Gl~ 37 (213)
T PRK15177 15 HIGILAAPGSGKTTLTRLLCGLD 37 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 68899999999999999877654
No 257
>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=71.66 E-value=3.9 Score=37.32 Aligned_cols=23 Identities=30% Similarity=0.262 Sum_probs=18.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~Gl~ 51 (241)
T cd03256 29 FVALIGPSGAGKSTLLRCLNGLV 51 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 57888999999999888887654
No 258
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=71.64 E-value=11 Score=35.58 Aligned_cols=27 Identities=15% Similarity=0.097 Sum_probs=23.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG 281 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g 281 (333)
+++++|++|-|||+++-..+..+...+
T Consensus 40 ~~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 479999999999999998888876544
No 259
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=71.60 E-value=10 Score=41.01 Aligned_cols=55 Identities=16% Similarity=0.152 Sum_probs=44.8
Q ss_pred eeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 257 SLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 257 vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
|.-+.-|-|||.+.-|.+......|. .+.|.+|+.+=++..++...+-.+.+|++
T Consensus 120 Iae~~TGeGKTla~~lp~~~~al~G~-~v~VvTptreLA~qdae~~~~l~~~lGls 174 (656)
T PRK12898 120 LAEMQTGEGKTLTATLPAGTAALAGL-PVHVITVNDYLAERDAELMRPLYEALGLT 174 (656)
T ss_pred eeeeeCCCCcHHHHHHHHHHHhhcCC-eEEEEcCcHHHHHHHHHHHHHHHhhcCCE
Confidence 77899999999999999988776664 79999999998888887776666555543
No 260
>PHA00729 NTP-binding motif containing protein
Probab=71.60 E-value=4.1 Score=38.33 Aligned_cols=24 Identities=13% Similarity=0.156 Sum_probs=20.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
-++|||+-|.|||+++-..+..+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 388999999999999887776653
No 261
>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=71.60 E-value=2.6 Score=37.68 Aligned_cols=23 Identities=13% Similarity=0.289 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~ 50 (208)
T cd03268 28 IYGFLGPNGAGKTTTMKIILGLI 50 (208)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 68999999999999999887654
No 262
>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=71.48 E-value=2.8 Score=36.69 Aligned_cols=32 Identities=16% Similarity=0.203 Sum_probs=24.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.+.|+|+.|.|||||+-+++...... ..+|.+
T Consensus 30 ~~~i~G~nGsGKStLl~~l~G~~~~~-~G~i~~ 61 (173)
T cd03246 30 SLAIIGPSGSGKSTLARLILGLLRPT-SGRVRL 61 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHhccCCC-CCeEEE
Confidence 68899999999999999887654422 224555
No 263
>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=71.42 E-value=2.6 Score=38.39 Aligned_cols=24 Identities=17% Similarity=0.158 Sum_probs=20.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (230)
T TIGR03410 28 VTCVLGRNGVGKTTLLKTLMGLLP 51 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999998765543
No 264
>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=71.40 E-value=2.7 Score=37.89 Aligned_cols=25 Identities=24% Similarity=0.222 Sum_probs=21.1
Q ss_pred cceeeeeccCCCchhHHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~ 278 (333)
..+.|+|+.|.|||||+-+++..+.
T Consensus 24 e~~~i~G~nGsGKSTLl~~l~G~~~ 48 (214)
T cd03297 24 EVTGIFGASGAGKSTLLRCIAGLEK 48 (214)
T ss_pred eeEEEECCCCCCHHHHHHHHhCCCC
Confidence 3689999999999999998776543
No 265
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=71.18 E-value=13 Score=38.00 Aligned_cols=69 Identities=19% Similarity=0.164 Sum_probs=42.5
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH-HHhcchhcccccccceEEEec
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF-IFKGFDALAYQEHLDYSIVQS 322 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f-a~~~L~~lg~~~~~d~~~i~~ 322 (333)
-|+.|-|+-|-|||+||-.+.+++.+.+..-.++-.-+..-.+.+... ....++.+.-+.+.|..+|.+
T Consensus 114 nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDD 183 (408)
T COG0593 114 NPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDD 183 (408)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeech
Confidence 499999999999999999999999988764333333333222222222 123444443222566666654
No 266
>PF14516 AAA_35: AAA-like domain
Probab=71.12 E-value=4.8 Score=39.45 Aligned_cols=59 Identities=19% Similarity=0.324 Sum_probs=43.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe---CC--ChhhHHHHHHHHHhcch-hccccc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT---SP--SPENLNTFFQFIFKGFD-ALAYQE 313 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT---AP--s~~~v~tlf~fa~~~L~-~lg~~~ 313 (333)
.+.|.|+|.-|||+++--+++.+...|+.-|+|- +. ...+...++.+....+. .|+..+
T Consensus 33 ~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~ 97 (331)
T PF14516_consen 33 YIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDE 97 (331)
T ss_pred EEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCCh
Confidence 5889999999999999999999998888766553 22 23567777766655554 366654
No 267
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=70.90 E-value=16 Score=39.89 Aligned_cols=48 Identities=21% Similarity=0.195 Sum_probs=33.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
++++|+-|.|||.+.-|.+-..+.. ...++++-+|.++=++..++-+.
T Consensus 54 vvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~ 102 (742)
T TIGR03817 54 VVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVR 102 (742)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHH
Confidence 5667777777777767766555533 33589999999998777776544
No 268
>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=70.90 E-value=4.6 Score=36.15 Aligned_cols=23 Identities=35% Similarity=0.352 Sum_probs=18.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~ 51 (214)
T cd03292 29 FVFLVGPSGAGKSTLLKLIYKEE 51 (214)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 57889999999999988877654
No 269
>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=70.88 E-value=2.8 Score=36.63 Aligned_cols=23 Identities=17% Similarity=0.286 Sum_probs=20.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 28 ~~~i~G~nGsGKStLl~~l~G~~ 50 (173)
T cd03230 28 IYGLLGPNGAGKTTLIKIILGLL 50 (173)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999999876654
No 270
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=70.82 E-value=10 Score=37.20 Aligned_cols=24 Identities=17% Similarity=0.356 Sum_probs=16.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.++|+|+.|.||||++.-++....
T Consensus 150 ~ilI~G~tGSGKTTll~aL~~~~~ 173 (319)
T PRK13894 150 NILVIGGTGSGKTTLVNAIINEMV 173 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhh
Confidence 367777888888888776666543
No 271
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=70.76 E-value=2.4 Score=34.62 Aligned_cols=21 Identities=19% Similarity=0.488 Sum_probs=17.2
Q ss_pred eeeeeccCCCchhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~ 276 (333)
++|.|+.|.|||+|+=.....
T Consensus 2 i~i~G~~~~GKssl~~~l~~~ 22 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGG 22 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccC
Confidence 578999999999998766543
No 272
>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=70.70 E-value=2.8 Score=38.20 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+.+..+.
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~G~~~ 56 (233)
T cd03258 33 IFGIIGRSGAGKSTLIRCINGLER 56 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 789999999999999998876543
No 273
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=70.68 E-value=5.5 Score=36.65 Aligned_cols=33 Identities=24% Similarity=0.289 Sum_probs=28.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.+-+||--|.||||++..+...|.+.|+.-.++
T Consensus 25 viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~L 57 (197)
T COG0529 25 VIWFTGLSGSGKSTIANALEEKLFAKGYHVYLL 57 (197)
T ss_pred EEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence 567899999999999999999999989854444
No 274
>PRK13948 shikimate kinase; Provisional
Probab=70.62 E-value=3.4 Score=37.28 Aligned_cols=25 Identities=24% Similarity=0.054 Sum_probs=20.7
Q ss_pred ccceeeeeccCCCchhHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.++|+|-+|.||||+.-+++..+
T Consensus 10 ~~~I~LiG~~GsGKSTvg~~La~~l 34 (182)
T PRK13948 10 VTWVALAGFMGTGKSRIGWELSRAL 34 (182)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHc
Confidence 4679999999999999977776654
No 275
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=70.45 E-value=11 Score=30.43 Aligned_cols=19 Identities=16% Similarity=0.413 Sum_probs=13.5
Q ss_pred ccceeeEEecCCCChhhhh
Q psy18105 202 LRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 202 ~r~~lvlTAdRGRGKSAaL 220 (333)
.++.++|+|..|.|||+.+
T Consensus 3 ~~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ----EEEEE-TTSSHHHHH
T ss_pred CCcccEEEcCCCCCHHHHH
Confidence 4678899999999999988
No 276
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.43 E-value=4.6 Score=40.09 Aligned_cols=53 Identities=21% Similarity=0.227 Sum_probs=36.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh-----hhHHHHHHHHHhcch
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP-----ENLNTFFQFIFKGFD 307 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~-----~~v~tlf~fa~~~L~ 307 (333)
..++|||+-|.||||.|--.+-++-+ ....-++|=-.| .|-..|...=+.|.+
T Consensus 126 GLILVTGpTGSGKSTTlAamId~iN~-~~~~HIlTIEDPIE~vh~skkslI~QREvG~d 183 (353)
T COG2805 126 GLILVTGPTGSGKSTTLAAMIDYINK-HKAKHILTIEDPIEYVHESKKSLINQREVGRD 183 (353)
T ss_pred ceEEEeCCCCCcHHHHHHHHHHHHhc-cCCcceEEecCchHhhhcchHhhhhHHHhccc
Confidence 47899999999999998766666554 444677777665 455556555555554
No 277
>PRK10436 hypothetical protein; Provisional
Probab=70.42 E-value=9.3 Score=39.55 Aligned_cols=36 Identities=19% Similarity=0.198 Sum_probs=24.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
.+++||+-|.||||+|--++..+...+ +-++|--+|
T Consensus 220 liLvtGpTGSGKTTtL~a~l~~~~~~~--~~i~TiEDP 255 (462)
T PRK10436 220 LILVTGPTGSGKTVTLYSALQTLNTAQ--INICSVEDP 255 (462)
T ss_pred eEEEECCCCCChHHHHHHHHHhhCCCC--CEEEEecCC
Confidence 488999999999999976666654332 334665544
No 278
>PRK06620 hypothetical protein; Validated
Probab=70.39 E-value=2.4 Score=39.02 Aligned_cols=20 Identities=15% Similarity=0.154 Sum_probs=17.4
Q ss_pred ceeeeeccCCCchhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~ 274 (333)
+++|.|+.|.|||+|+=..+
T Consensus 46 ~l~l~Gp~G~GKThLl~a~~ 65 (214)
T PRK06620 46 TLLIKGPSSSGKTYLTKIWQ 65 (214)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 58999999999999997543
No 279
>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=70.38 E-value=2.6 Score=37.84 Aligned_cols=23 Identities=22% Similarity=0.286 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~G~~ 49 (213)
T cd03235 27 FLAIVGPNGAGKSTLLKAILGLL 49 (213)
T ss_pred EEEEECCCCCCHHHHHHHHcCCC
Confidence 68999999999999999876654
No 280
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=70.32 E-value=5.1 Score=35.76 Aligned_cols=18 Identities=33% Similarity=0.403 Sum_probs=16.6
Q ss_pred cceeeEEecCCCChhhhh
Q psy18105 203 RSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 203 r~~lvlTAdRGRGKSAaL 220 (333)
.+.+|+.+.-|.|||+.+
T Consensus 35 ~k~~vl~G~SGvGKSSLi 52 (161)
T PF03193_consen 35 GKTSVLLGQSGVGKSSLI 52 (161)
T ss_dssp TSEEEEECSTTSSHHHHH
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 378999999999999988
No 281
>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=70.23 E-value=4.5 Score=36.17 Aligned_cols=23 Identities=26% Similarity=0.232 Sum_probs=18.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~ 50 (213)
T cd03262 28 VVVIIGPSGSGKSTLLRCINLLE 50 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57888888888888888776554
No 282
>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=70.16 E-value=2.8 Score=39.59 Aligned_cols=23 Identities=22% Similarity=0.234 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 35 ~~~l~G~nGsGKSTLl~~i~Gl~ 57 (280)
T PRK13649 35 YTAFIGHTGSGKSTIMQLLNGLH 57 (280)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 58899999999999999887654
No 283
>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=70.13 E-value=4.7 Score=36.57 Aligned_cols=24 Identities=25% Similarity=0.332 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+++..+.
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~ 54 (229)
T cd03254 31 TVAIVGPTGAGKTTLINLLMRFYD 54 (229)
T ss_pred EEEEECCCCCCHHHHHHHHhcCcC
Confidence 578999999999999998877654
No 284
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=70.04 E-value=5.4 Score=39.83 Aligned_cols=38 Identities=24% Similarity=0.240 Sum_probs=26.5
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs 291 (333)
..++|+|+-|.||||+|..++..+... +..+.++|--+
T Consensus 135 glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~Ed 173 (358)
T TIGR02524 135 GIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEA 173 (358)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCC
Confidence 469999999999999998877776532 22234455433
No 285
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=70.01 E-value=11 Score=37.26 Aligned_cols=23 Identities=22% Similarity=0.432 Sum_probs=17.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~ 278 (333)
++|+|..|.||||++.-++..+.
T Consensus 147 ilI~G~tGSGKTTll~aL~~~i~ 169 (323)
T PRK13833 147 IVISGGTGSGKTTLANAVIAEIV 169 (323)
T ss_pred EEEECCCCCCHHHHHHHHHHHHh
Confidence 67788888888888877666654
No 286
>PF13173 AAA_14: AAA domain
Probab=70.00 E-value=3.1 Score=34.56 Aligned_cols=19 Identities=42% Similarity=0.627 Sum_probs=16.7
Q ss_pred cceeeEEecCCCChhhhhh
Q psy18105 203 RSTVSLTAARGRGKSAALG 221 (333)
Q Consensus 203 r~~lvlTAdRGRGKSAaLG 221 (333)
+++++|+|.||.|||..+=
T Consensus 2 ~~~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLK 20 (128)
T ss_pred CCeEEEECCCCCCHHHHHH
Confidence 4688999999999999883
No 287
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=69.99 E-value=3 Score=38.33 Aligned_cols=23 Identities=30% Similarity=0.296 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+...
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~G~~ 52 (242)
T PRK11124 30 TLVLLGPSGAGKSSLLRVLNLLE 52 (242)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999999876544
No 288
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=69.98 E-value=10 Score=33.27 Aligned_cols=29 Identities=21% Similarity=0.281 Sum_probs=25.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYS 283 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~ 283 (333)
.++|.|.=|.||||++-+++..+-..|+.
T Consensus 5 ~IvieG~~GsGKsT~~~~L~~~l~~~g~~ 33 (195)
T TIGR00041 5 FIVIEGIDGAGKTTQANLLKKLLQENGYD 33 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCe
Confidence 47999999999999999999888777764
No 289
>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=69.96 E-value=4.4 Score=36.05 Aligned_cols=22 Identities=23% Similarity=0.373 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+++..
T Consensus 35 ~~~l~G~nGsGKSTLl~~l~G~ 56 (192)
T cd03232 35 LTALMGESGAGKTTLLDVLAGR 56 (192)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 6899999999999999988754
No 290
>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=69.93 E-value=3 Score=38.10 Aligned_cols=24 Identities=33% Similarity=0.303 Sum_probs=21.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 31 ~~~l~G~nGsGKSTLl~~i~G~~~ 54 (238)
T cd03249 31 TVALVGSSGCGKSTVVSLLERFYD 54 (238)
T ss_pred EEEEEeCCCCCHHHHHHHHhccCC
Confidence 689999999999999998887653
No 291
>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=69.91 E-value=2.9 Score=39.39 Aligned_cols=24 Identities=21% Similarity=0.195 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+.+++..+.
T Consensus 37 ~~~l~G~nGsGKSTLl~~l~Gl~~ 60 (271)
T PRK13632 37 YVAILGHNGSGKSTISKILTGLLK 60 (271)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 688999999999999998876643
No 292
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=69.91 E-value=9.7 Score=38.87 Aligned_cols=49 Identities=16% Similarity=0.155 Sum_probs=34.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHH-H-cCCceEEEeCCCh--hhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAV-A-FGYSNIFVTSPSP--ENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~-~-~g~~~I~VTAPs~--~~v~tlf~fa 302 (333)
+.+++.|+-|-||||++.-+++.+. . .|+.=.+||+-.. .++.++..|+
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a 274 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYA 274 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHH
Confidence 4788999999999999998887776 3 3554456666443 2455555544
No 293
>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=69.90 E-value=3.1 Score=37.76 Aligned_cols=23 Identities=30% Similarity=0.271 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 28 ~~~i~G~nGsGKSTLl~~i~G~~ 50 (227)
T cd03260 28 ITALIGPSGCGKSTLLRLLNRLN 50 (227)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 68899999999999999877766
No 294
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=69.89 E-value=5.1 Score=44.26 Aligned_cols=41 Identities=20% Similarity=0.331 Sum_probs=35.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENL 295 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v 295 (333)
=-.|.|+-|.|||+|+.+.+|++.+.+..+|++.=+....-
T Consensus 438 hT~I~G~tGaGKTvLl~~llaq~~k~~~~~iv~fDk~~g~~ 478 (796)
T COG3451 438 HTLIIGPTGAGKTVLLSFLLAQALKYGNPQIVAFDKDNGAY 478 (796)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEcCCCcHH
Confidence 35789999999999999999999998867888888776653
No 295
>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=69.79 E-value=3.4 Score=39.28 Aligned_cols=36 Identities=22% Similarity=0.351 Sum_probs=26.8
Q ss_pred hhccchhccc-cceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 244 IDGISEKTLR-STVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 244 ~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~~~~ 279 (333)
|++++-.-.. ..+.|.|..|.||||+++..+..+.-
T Consensus 22 l~~~sL~I~~g~FvtViGsNGAGKSTlln~iaG~l~~ 58 (263)
T COG1101 22 LNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAGDLKP 58 (263)
T ss_pred HhcCceeecCCceEEEEcCCCccHHHHHHHhhCcccc
Confidence 3444333333 58899999999999999988887764
No 296
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=69.69 E-value=8.7 Score=40.62 Aligned_cols=54 Identities=17% Similarity=0.176 Sum_probs=41.7
Q ss_pred ceeeeeccCCCchhHHH-HHHHHHHH--cCCceEEEeCCChhhHHHHHHHHHhcchh
Q psy18105 255 TVSLTAARGRGKSAALG-LAVAGAVA--FGYSNIFVTSPSPENLNTFFQFIFKGFDA 308 (333)
Q Consensus 255 ~~vltA~RGRGKSallG-la~a~~~~--~g~~~I~VTAPs~~~v~tlf~fa~~~L~~ 308 (333)
-+.|-=+||=|||+++- |....++- .+-..++|.||+.+-..++|.++...+..
T Consensus 88 e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa~~~F~~ar~mv~~ 144 (546)
T COG4626 88 EAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQAANSFNPARDMVKR 144 (546)
T ss_pred EEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHHHHhhHHHHHHHHh
Confidence 46677799999999875 65555553 23347999999999999999998766553
No 297
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=69.67 E-value=9.5 Score=41.52 Aligned_cols=56 Identities=20% Similarity=0.051 Sum_probs=45.6
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeCCChhhHHHHHHHHHhcchhc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTSPSPENLNTFFQFIFKGFDAL 309 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTAPs~~~v~tlf~fa~~~L~~l 309 (333)
+--|...+|=-|||..++..++.++.. -..+|++|||.....+.+|+-+...|+.-
T Consensus 255 k~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~ 311 (738)
T PHA03368 255 RATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQW 311 (738)
T ss_pred cceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhh
Confidence 456888999999999988666655532 23489999999999999999988888853
No 298
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=69.67 E-value=15 Score=39.60 Aligned_cols=56 Identities=13% Similarity=0.142 Sum_probs=42.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
+=..|.|.-|-|||+++.+.+.++++.|. .++|+=|--++ .++.-....++..|.+
T Consensus 177 ~H~lv~G~TGsGKT~l~~~l~~q~i~~g~-~viv~DpKgD~--~l~~~~~~~~~~~G~~ 232 (634)
T TIGR03743 177 GHTLVLGTTGVGKTRLAELLITQDIRRGD-VVIVIDPKGDA--DLKRRMRAEAKRAGRP 232 (634)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCCch--HHHHHHHHHHHHhCCC
Confidence 45788999999999999999999999875 68888887764 3344344445556653
No 299
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=69.63 E-value=4.8 Score=36.87 Aligned_cols=24 Identities=38% Similarity=0.354 Sum_probs=19.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+.+....
T Consensus 13 ~~~i~G~nGsGKSTLl~~l~Gl~~ 36 (230)
T TIGR01184 13 FISLIGHSGCGKSTLLNLISGLAQ 36 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 578899999999999988765543
No 300
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=69.54 E-value=3.2 Score=34.15 Aligned_cols=19 Identities=16% Similarity=0.310 Sum_probs=17.4
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
++|+|+.|.|||||+-..+
T Consensus 2 i~l~G~~g~GKTtL~~~l~ 20 (170)
T cd01876 2 IAFAGRSNVGKSSLINALT 20 (170)
T ss_pred EEEEcCCCCCHHHHHHHHh
Confidence 5799999999999999877
No 301
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=69.48 E-value=6.6 Score=34.33 Aligned_cols=25 Identities=16% Similarity=0.150 Sum_probs=21.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~ 279 (333)
..+|+|+.|.|||+++--.++.+..
T Consensus 34 l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 34 LTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp EEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 6899999999999999877777764
No 302
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=69.44 E-value=5 Score=33.45 Aligned_cols=20 Identities=25% Similarity=0.223 Sum_probs=17.5
Q ss_pred ceeeeeccCCCchhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~ 274 (333)
.+.|.++.|.|||||+=++.
T Consensus 17 ~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 17 GVLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEEcCCCCCHHHHHHHhh
Confidence 57899999999999998865
No 303
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=69.39 E-value=4 Score=37.57 Aligned_cols=34 Identities=18% Similarity=0.324 Sum_probs=26.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
.+||+||-|-||||++=.+.+.- ...+ .|-.|+-
T Consensus 6 l~vlsgPSG~GKsTl~k~L~~~~-~l~~-SVS~TTR 39 (191)
T COG0194 6 LIVLSGPSGVGKSTLVKALLEDD-KLRF-SVSATTR 39 (191)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc-CeEE-EEEeccC
Confidence 68999999999999999888877 4333 4555553
No 304
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=69.33 E-value=3.1 Score=37.67 Aligned_cols=33 Identities=30% Similarity=0.327 Sum_probs=24.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
.+.|+|+.|.|||||+-+++..+... ..+|.+-
T Consensus 36 ~~~l~G~nGsGKSTLl~~i~G~~~~~-~G~i~~~ 68 (224)
T TIGR02324 36 CVALSGPSGAGKSTLLKSLYANYLPD-SGRILVR 68 (224)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCC-CCeEEEe
Confidence 68999999999999999887654322 1245553
No 305
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=69.29 E-value=8.6 Score=37.28 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=27.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTF 298 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tl 298 (333)
+++++|++|-|||+++=..+..+- ..-..+.+|..+....+
T Consensus 53 ~~ll~GppG~GKT~la~~ia~~l~---~~~~~~~~~~~~~~~~l 93 (328)
T PRK00080 53 HVLLYGPPGLGKTTLANIIANEMG---VNIRITSGPALEKPGDL 93 (328)
T ss_pred cEEEECCCCccHHHHHHHHHHHhC---CCeEEEecccccChHHH
Confidence 589999999999999986665543 22234556554444333
No 306
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=69.22 E-value=3 Score=38.53 Aligned_cols=24 Identities=25% Similarity=0.260 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++....
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~Gl~~ 56 (255)
T PRK11300 33 IVSLIGPNGAGKTTVFNCLTGFYK 56 (255)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcC
Confidence 688999999999999998876643
No 307
>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=69.13 E-value=3.2 Score=37.98 Aligned_cols=24 Identities=29% Similarity=0.354 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (235)
T cd03261 28 ILAIIGPSGSGKSTLLRLIVGLLR 51 (235)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999998886543
No 308
>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=69.04 E-value=3.2 Score=37.25 Aligned_cols=23 Identities=26% Similarity=0.313 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~ 50 (213)
T cd03259 28 FLALLGPSGCGKTTLLRLIAGLE 50 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999877654
No 309
>PRK04195 replication factor C large subunit; Provisional
Probab=68.98 E-value=9.4 Score=39.29 Aligned_cols=46 Identities=13% Similarity=0.198 Sum_probs=31.4
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
..+++|+|+.|.|||+++=.++..+ |+.-+.++|....+...+-+.
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el---~~~~ielnasd~r~~~~i~~~ 84 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDY---GWEVIELNASDQRTADVIERV 84 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEcccccccHHHHHHH
Confidence 4689999999999999986655543 555566766554444444333
No 310
>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=68.92 E-value=4.6 Score=36.42 Aligned_cols=23 Identities=26% Similarity=0.281 Sum_probs=18.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++..+
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~G~~ 55 (228)
T cd03257 33 TLGLVGESGSGKSTLARAILGLL 55 (228)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 58888999999999888877654
No 311
>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional
Probab=68.90 E-value=5.6 Score=37.04 Aligned_cols=23 Identities=17% Similarity=0.148 Sum_probs=19.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 40 ~~~l~G~nGsGKSTLl~~l~G~~ 62 (259)
T PRK14274 40 VTAIIGPSGCGKSTFIKTLNLMI 62 (259)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 58889999999999999888655
No 312
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=68.90 E-value=9 Score=34.69 Aligned_cols=45 Identities=9% Similarity=0.031 Sum_probs=31.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC------CceEEEeCCChhhHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG------YSNIFVTSPSPENLNTF 298 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g------~~~I~VTAPs~~~v~tl 298 (333)
....|+|+.|.|||+++-.+++.....+ ..-++|++-..-..+.+
T Consensus 20 ~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl 70 (235)
T cd01123 20 SITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL 70 (235)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH
Confidence 3678999999999999998887654322 44688888664333333
No 313
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=68.81 E-value=3.5 Score=33.13 Aligned_cols=22 Identities=18% Similarity=0.264 Sum_probs=18.4
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
+++.|+.|-||||++-.++..-
T Consensus 4 i~~~G~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 4 IVIVGDPNVGKSTLLNRLLGNK 25 (161)
T ss_pred EEEECCCCCCHHHHHHHHhCCC
Confidence 7899999999999988665543
No 314
>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional
Probab=68.79 E-value=3.3 Score=38.42 Aligned_cols=24 Identities=25% Similarity=0.144 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 35 ~~~i~G~nGsGKSTLl~~l~Gl~~ 58 (254)
T PRK14273 35 ITALIGPSGCGKSTFLRTLNRMND 58 (254)
T ss_pred EEEEECCCCCCHHHHHHHHhcccc
Confidence 688999999999999998876543
No 315
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=68.77 E-value=5.2 Score=37.44 Aligned_cols=23 Identities=22% Similarity=0.274 Sum_probs=19.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~Gl~ 51 (255)
T PRK11248 29 LLVVLGPSGCGKTTLLNLIAGFV 51 (255)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999998877654
No 316
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=68.74 E-value=3.7 Score=36.53 Aligned_cols=24 Identities=25% Similarity=0.095 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.++|+|.-|.||||++..++..+-
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~~l~ 28 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAALFS 28 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcC
Confidence 578999999999999998887653
No 317
>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=68.71 E-value=3.3 Score=37.09 Aligned_cols=24 Identities=25% Similarity=0.275 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (213)
T cd03301 28 FVVLLGPSGCGKTTTLRMIAGLEE 51 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999988877653
No 318
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=68.61 E-value=3.3 Score=37.94 Aligned_cols=23 Identities=26% Similarity=0.235 Sum_probs=20.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 30 ~~~l~G~nGsGKSTLl~~l~Gl~ 52 (243)
T TIGR02315 30 FVAIIGPSGAGKSTLLRCINRLV 52 (243)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 68999999999999999876544
No 319
>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=68.59 E-value=3.4 Score=36.80 Aligned_cols=23 Identities=22% Similarity=0.251 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 26 ~~~i~G~nGsGKSTLl~~l~G~~ 48 (206)
T TIGR03608 26 MYAIIGESGSGKSTLLNIIGLLE 48 (206)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 58899999999999999887654
No 320
>PRK13768 GTPase; Provisional
Probab=68.55 E-value=6.4 Score=37.06 Aligned_cols=33 Identities=21% Similarity=0.192 Sum_probs=25.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
..+++|+-|.||||++.-++..+...|+.-++|
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i 36 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIV 36 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEE
Confidence 478999999999998887777777777643333
No 321
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=68.46 E-value=3.4 Score=37.82 Aligned_cols=23 Identities=26% Similarity=0.320 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 37 ~~~l~G~nGsGKSTLl~~l~Gl~ 59 (233)
T PRK11629 37 MMAIVGSSGSGKSTLLHLLGGLD 59 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 68999999999999999887654
No 322
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=68.39 E-value=6.2 Score=36.52 Aligned_cols=31 Identities=19% Similarity=0.251 Sum_probs=23.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
..+. ++=|-||||+..-+++.+...|+ +|+|
T Consensus 4 iav~-~KGGvGKTT~~~nLA~~La~~G~-kVll 34 (270)
T cd02040 4 IAIY-GKGGIGKSTTTQNLSAALAEMGK-KVMI 34 (270)
T ss_pred EEEE-eCCcCCHHHHHHHHHHHHHhCCC-eEEE
Confidence 3444 89999999988887777777786 5554
No 323
>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=68.37 E-value=4.6 Score=40.62 Aligned_cols=28 Identities=21% Similarity=0.222 Sum_probs=24.4
Q ss_pred cccceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 252 LRSTVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 252 ~~~~~vltA~RGRGKSallGla~a~~~~ 279 (333)
-+++++|.|+-|.|||+++=.++..+-.
T Consensus 77 ~r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 77 RKQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 3579999999999999999988887765
No 324
>KOG0920|consensus
Probab=68.31 E-value=13 Score=41.63 Aligned_cols=66 Identities=18% Similarity=0.179 Sum_probs=49.5
Q ss_pred hhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHH--cCCceEEEeCCChhhHHHHHHHHHhcch
Q psy18105 239 ALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVA--FGYSNIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~--~g~~~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
.-++|||.|++. ..+||.|.-|.||||-+=..+-.... .++.+|++|-|.+=++-++.+-+.+...
T Consensus 177 ~r~~Il~~i~~~---qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAeRVa~ER~ 244 (924)
T KOG0920|consen 177 MRDTILDAIEEN---QVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAERVAKERG 244 (924)
T ss_pred HHHHHHHHHHhC---ceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHHHHHHHhc
Confidence 344556665543 46899999999999988766554432 2567999999999999999988876663
No 325
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=68.31 E-value=13 Score=40.26 Aligned_cols=48 Identities=17% Similarity=0.140 Sum_probs=26.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHc-C--CceEEEeCCChhhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAF-G--YSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~-g--~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
++|.|--|.|||+.|=--+++++.. | ..+|++.+.+..+++.+-+-+.
T Consensus 20 ~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~ 70 (715)
T TIGR01075 20 LLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIG 70 (715)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHH
Confidence 3333444444444444455666653 3 3367777777777776654443
No 326
>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional
Probab=68.24 E-value=5.3 Score=37.56 Aligned_cols=23 Identities=22% Similarity=0.289 Sum_probs=18.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 35 ~~~i~G~nGsGKSTLl~~l~Gl~ 57 (269)
T PRK11831 35 ITAIMGPSGIGKTTLLRLIGGQI 57 (269)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57889999999999988777654
No 327
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=68.23 E-value=3.4 Score=39.50 Aligned_cols=25 Identities=28% Similarity=0.284 Sum_probs=21.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~ 279 (333)
.+.|.|+-|.||||||-+.+.....
T Consensus 31 fvsilGpSGcGKSTLLriiAGL~~p 55 (248)
T COG1116 31 FVAILGPSGCGKSTLLRLIAGLEKP 55 (248)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 6889999999999999987766553
No 328
>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=68.21 E-value=3.7 Score=34.59 Aligned_cols=21 Identities=19% Similarity=0.099 Sum_probs=18.1
Q ss_pred eeeeeccCCCchhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~ 276 (333)
++++|+.|-|||||+..+...
T Consensus 2 i~~vG~~~~GKstLi~~l~~~ 22 (167)
T cd04160 2 VLILGLDNAGKTTFLEQLKTL 22 (167)
T ss_pred EEEEecCCCCHHHHHHHHhhh
Confidence 678999999999999987653
No 329
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=68.10 E-value=3.5 Score=38.26 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=28.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN 294 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~ 294 (333)
.++|||+.|.||||||=+.+..+.-. ..+|....-...+
T Consensus 30 ~~~i~G~NG~GKTtLLRilaGLl~p~-~G~v~~~~~~i~~ 68 (209)
T COG4133 30 ALQITGPNGAGKTTLLRILAGLLRPD-AGEVYWQGEPIQN 68 (209)
T ss_pred EEEEECCCCCcHHHHHHHHHcccCCC-CCeEEecCCCCcc
Confidence 58999999999999999876655532 3378887433333
No 330
>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=68.09 E-value=3.5 Score=37.12 Aligned_cols=24 Identities=25% Similarity=0.279 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+..+.
T Consensus 32 ~~~l~G~nGsGKSTLl~~i~Gl~~ 55 (218)
T cd03255 32 FVAIVGPSGSGKSTLLNILGGLDR 55 (218)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCcC
Confidence 689999999999999998876543
No 331
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=68.08 E-value=5.4 Score=40.77 Aligned_cols=35 Identities=20% Similarity=0.170 Sum_probs=27.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC--CceEEEeC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG--YSNIFVTS 289 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g--~~~I~VTA 289 (333)
|++|.|+-|.|||+|+-..+..+...+ ..-++||+
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 899999999999999987777776643 22356665
No 332
>PLN02476 O-methyltransferase
Probab=68.00 E-value=13 Score=36.11 Aligned_cols=70 Identities=16% Similarity=0.163 Sum_probs=47.2
Q ss_pred cccceEEEecCCCCCHHHHHHHhhhhccCcEEEEEeCCccchhhhhcccccccccccccCCcCcchhHHHHHHHhhhcCC
Q psy18105 44 NTYGMCVLQDFEALTPNLLARTIETVEGGGVIVLLLRTLSSLKQLYTMSMDIHERYRTEAHSDVVCRFNERFLLSLSSCN 123 (333)
Q Consensus 44 qE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLILL~P~~~~w~~~~~~~~~~~~r~~~~~~~~v~~rF~~Rf~~~L~~~~ 123 (333)
.+||++++|+..+--++.+-.+...++.||+||+ ++. -|...... +...+....=+++|.+.+.+++
T Consensus 193 ~~FD~VFIDa~K~~Y~~y~e~~l~lL~~GGvIV~--DNv-L~~G~V~d----------~~~~d~~t~~ir~fn~~v~~d~ 259 (278)
T PLN02476 193 SSYDFAFVDADKRMYQDYFELLLQLVRVGGVIVM--DNV-LWHGRVAD----------PLVNDAKTISIRNFNKKLMDDK 259 (278)
T ss_pred CCCCEEEECCCHHHHHHHHHHHHHhcCCCcEEEE--ecC-ccCCcccC----------cccCCHHHHHHHHHHHHHhhCC
Confidence 4799999999999999999999999999999887 221 13322210 1111111224677877787777
Q ss_pred ceE
Q psy18105 124 RCL 126 (333)
Q Consensus 124 ~~~ 126 (333)
.+.
T Consensus 260 ~~~ 262 (278)
T PLN02476 260 RVS 262 (278)
T ss_pred CEE
Confidence 654
No 333
>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=67.99 E-value=9 Score=39.80 Aligned_cols=54 Identities=13% Similarity=0.060 Sum_probs=33.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHH-----------HcCCceEEEeCCChhhHHHHHHHHHhcchhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV-----------AFGYSNIFVTSPSPENLNTFFQFIFKGFDALA 310 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~-----------~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg 310 (333)
.-|-|++|-|||+|+|+.+.+.- +.+...+.|-|--=+. ...-+|+.+.|+.-|
T Consensus 144 igIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGer-re~~efi~~~l~~~g 208 (466)
T TIGR01040 144 IPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVN-METARFFKQDFEENG 208 (466)
T ss_pred eeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeee-hHHHHHHHHHHHhcC
Confidence 67889999999999999776653 1111113444433333 556666666666555
No 334
>COG1204 Superfamily II helicase [General function prediction only]
Probab=67.93 E-value=9.7 Score=41.93 Aligned_cols=57 Identities=18% Similarity=0.206 Sum_probs=49.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhccccc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQE 313 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~ 313 (333)
++|.||-|.|||-++=|++-.-+..|..+++-++|-++=++..++-+. .++.+|++.
T Consensus 50 ~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~-~~~~~GirV 106 (766)
T COG1204 50 VLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFS-RLEELGIRV 106 (766)
T ss_pred EEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhh-hHHhcCCEE
Confidence 889999999999998888888888765689999999999999998877 688888755
No 335
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.88 E-value=6.1 Score=39.15 Aligned_cols=36 Identities=19% Similarity=0.272 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 185 DQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 185 dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
.|.+++..+.+.+..++-..+++++|.+|.|||+..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHH
Confidence 677787888777777766778999999999999766
No 336
>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=67.83 E-value=5.3 Score=35.70 Aligned_cols=23 Identities=22% Similarity=0.306 Sum_probs=19.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 37 ~~~l~G~nGsGKStLl~~i~Gl~ 59 (194)
T cd03213 37 LTAIMGPSGAGKSTLLNALAGRR 59 (194)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 58899999999999998886654
No 337
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=67.82 E-value=3.5 Score=37.15 Aligned_cols=24 Identities=29% Similarity=0.302 Sum_probs=20.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+=+.+..+.
T Consensus 33 ~~~i~G~nGsGKSTLl~~i~G~~~ 56 (221)
T TIGR02211 33 IVAIVGSSGSGKSTLLHLLGGLDN 56 (221)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999998776543
No 338
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=67.79 E-value=17 Score=35.95 Aligned_cols=47 Identities=19% Similarity=0.129 Sum_probs=31.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
++|+|+-|.|||.+.-+++- . ...+.++.+|.++-++..++-+..-+
T Consensus 17 ~~i~apTGsGKT~~~~~~~l--~--~~~~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 17 IFNTAPTGAGKTLAWLTPLL--H--GENDTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred EEEECCCCCCHHHHHHHHHH--H--cCCCEEEEeChHHHHHHHHHHHHHHH
Confidence 67788888888876543332 2 22367888899988887766554444
No 339
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=67.75 E-value=5.8 Score=35.40 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=16.5
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.||||++-+.+..
T Consensus 29 ~~~l~G~nGsGKSTLl~~i~G~ 50 (200)
T PRK13540 29 LLHLKGSNGAGKTTLLKLIAGL 50 (200)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 5778888888888888866544
No 340
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=67.70 E-value=5.6 Score=36.48 Aligned_cols=23 Identities=26% Similarity=0.244 Sum_probs=18.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 29 ~~~l~G~nGsGKSTLl~~l~G~~ 51 (240)
T PRK09493 29 VVVIIGPSGSGKSTLLRCINKLE 51 (240)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57788888888888888777654
No 341
>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD. This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.
Probab=67.59 E-value=3.5 Score=37.71 Aligned_cols=24 Identities=21% Similarity=0.169 Sum_probs=21.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++....
T Consensus 14 ~~~i~G~nGsGKSTLl~~l~Gl~~ 37 (230)
T TIGR02770 14 VLALVGESGSGKSLTCLAILGLLP 37 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999887664
No 342
>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=67.58 E-value=3.6 Score=37.03 Aligned_cols=23 Identities=22% Similarity=0.325 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+...
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~Gl~ 55 (218)
T cd03266 33 VTGLLGPNGAGKTTTLRMLAGLL 55 (218)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 68899999999999998877654
No 343
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=67.53 E-value=3.6 Score=37.34 Aligned_cols=23 Identities=30% Similarity=0.439 Sum_probs=20.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+=+.+..+
T Consensus 38 ~~~i~G~nGsGKSTLl~~i~Gl~ 60 (228)
T PRK10584 38 TIALIGESGSGKSTLLAILAGLD 60 (228)
T ss_pred EEEEECCCCCCHHHHHHHHHcCC
Confidence 68999999999999999887654
No 344
>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=67.39 E-value=3.5 Score=37.12 Aligned_cols=23 Identities=26% Similarity=0.303 Sum_probs=19.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++...
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~ 50 (222)
T cd03224 28 IVALLGRNGAGKTTLLKTIMGLL 50 (222)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999998765443
No 345
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=67.35 E-value=3.3 Score=38.96 Aligned_cols=36 Identities=25% Similarity=0.252 Sum_probs=27.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
.++|+|+.|.||||++.++...+.... ..|.|-...
T Consensus 32 ~~~i~G~nGsGKSTL~~~l~GLl~p~~-G~v~~~g~~ 67 (235)
T COG1122 32 RVLLIGPNGSGKSTLLKLLNGLLKPTS-GEVLVDGLD 67 (235)
T ss_pred EEEEECCCCCCHHHHHHHHcCcCcCCC-CEEEECCee
Confidence 589999999999999998887777542 256665443
No 346
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=67.35 E-value=2.9 Score=42.93 Aligned_cols=21 Identities=19% Similarity=0.398 Sum_probs=17.9
Q ss_pred hccccceeeeeccCCCchhHH
Q psy18105 250 KTLRSTVSLTAARGRGKSAAL 270 (333)
Q Consensus 250 ~~~~~~~vltA~RGRGKSall 270 (333)
++....+||+||||.||+.+.
T Consensus 14 e~~~TFIvV~GPrGSGK~elV 34 (431)
T PF10443_consen 14 ENPNTFIVVQGPRGSGKRELV 34 (431)
T ss_pred cCCCeEEEEECCCCCCccHHH
Confidence 445568999999999999988
No 347
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=67.20 E-value=9.6 Score=37.43 Aligned_cols=52 Identities=13% Similarity=0.109 Sum_probs=38.6
Q ss_pred cceeeeeccCCCchhHHHHHHHHH--HHcCCceEEEeCCChhhHHHHHHHHHhcc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA--VAFGYSNIFVTSPSPENLNTFFQFIFKGF 306 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~--~~~g~~~I~VTAPs~~~v~tlf~fa~~~L 306 (333)
..++|+|.-|.|||.++--++..+ ...+. ++++..+|..-...+.+-+.+..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~-~~~~l~~n~~l~~~l~~~l~~~~ 55 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGK-KVLYLCGNHPLRNKLREQLAKKY 55 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCC-ceEEEEecchHHHHHHHHHhhhc
Confidence 468999999999999998888888 44443 56666677777777776655444
No 348
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=67.18 E-value=6.7 Score=36.74 Aligned_cols=35 Identities=23% Similarity=0.451 Sum_probs=33.6
Q ss_pred ccccceEEEecCCCCCHHHHHHHhhhhccCcEEEE
Q psy18105 43 GNTYGMCVLQDFEALTPNLLARTIETVEGGGVIVL 77 (333)
Q Consensus 43 GqE~d~lIlD~~~gl~PNaLaalaGTVrGGGlLIL 77 (333)
=..||++.+|+-.+-.|+.|-++.-.++.||++|.
T Consensus 130 ~~~fDliFIDadK~~yp~~le~~~~lLr~GGliv~ 164 (219)
T COG4122 130 DGSFDLVFIDADKADYPEYLERALPLLRPGGLIVA 164 (219)
T ss_pred CCCccEEEEeCChhhCHHHHHHHHHHhCCCcEEEE
Confidence 37899999999999999999999999999999998
No 349
>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=67.08 E-value=3.4 Score=35.95 Aligned_cols=22 Identities=14% Similarity=0.223 Sum_probs=18.5
Q ss_pred cceeeeeccCCCchhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a 275 (333)
.-++|.|+.|.|||||+-.+..
T Consensus 20 ~ki~ilG~~~~GKStLi~~l~~ 41 (190)
T cd00879 20 AKILFLGLDNAGKTTLLHMLKD 41 (190)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4479999999999999886654
No 350
>PRK10867 signal recognition particle protein; Provisional
Probab=67.05 E-value=6.9 Score=40.20 Aligned_cols=36 Identities=14% Similarity=0.197 Sum_probs=28.6
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHc-CCceEEEeC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAF-GYSNIFVTS 289 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~-g~~~I~VTA 289 (333)
..++++|.-|.||||+++-+|..+... |+.-.+|++
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~ 137 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA 137 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc
Confidence 467899999999999999999888877 653344554
No 351
>PTZ00202 tuzin; Provisional
Probab=67.05 E-value=10 Score=39.73 Aligned_cols=39 Identities=23% Similarity=0.221 Sum_probs=27.0
Q ss_pred hhhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHH
Q psy18105 238 KALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~ 277 (333)
.+|++++++++... .+..+|||+-|.|||+++=.++..+
T Consensus 272 a~Lr~VL~~~d~~~-privvLtG~~G~GKTTLlR~~~~~l 310 (550)
T PTZ00202 272 SWVRQVLRRLDTAH-PRIVVFTGFRGCGKSSLCRSAVRKE 310 (550)
T ss_pred HHHHHHHhccCCCC-ceEEEEECCCCCCHHHHHHHHHhcC
Confidence 34555555544432 3588999999999999987777443
No 352
>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=67.03 E-value=3.3 Score=37.25 Aligned_cols=24 Identities=21% Similarity=0.141 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++....
T Consensus 35 ~~~i~G~nGsGKSTLl~~l~G~~~ 58 (202)
T cd03233 35 MVLVLGRPGSGCSTLLKALANRTE 58 (202)
T ss_pred EEEEECCCCCCHHHHHHHhcccCC
Confidence 689999999999999999776654
No 353
>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional
Probab=67.01 E-value=5.9 Score=36.93 Aligned_cols=23 Identities=17% Similarity=0.170 Sum_probs=18.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 35 ~~~l~G~nGsGKSTLlk~l~Gl~ 57 (259)
T PRK14260 35 VTAIIGPSGCGKSTFIKTLNRIS 57 (259)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 57888999999999988887654
No 354
>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=66.96 E-value=3.7 Score=36.17 Aligned_cols=24 Identities=13% Similarity=0.122 Sum_probs=20.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+....
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~ 51 (182)
T cd03215 28 IVGIAGLVGNGQTELAEALFGLRP 51 (182)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999998776654
No 355
>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=66.90 E-value=5.9 Score=36.30 Aligned_cols=23 Identities=13% Similarity=0.293 Sum_probs=18.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++..+
T Consensus 30 ~~~l~G~nGsGKSTLl~~l~G~~ 52 (242)
T TIGR03411 30 LRVIIGPNGAGKTTMMDVITGKT 52 (242)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57888899999998888777654
No 356
>KOG1970|consensus
Probab=66.85 E-value=4.9 Score=42.66 Aligned_cols=38 Identities=21% Similarity=0.298 Sum_probs=29.0
Q ss_pred hhhhhccch--hccc-cceeeeeccCCCchhHHHHHHHHHH
Q psy18105 241 LKFIDGISE--KTLR-STVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 241 ~~~~~~~~~--~~~~-~~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+-+++.++ +.++ +.++|||+-|.||||++=+++..+-
T Consensus 95 k~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskelg 135 (634)
T KOG1970|consen 95 KQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKELG 135 (634)
T ss_pred HHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhhC
Confidence 334554444 4555 8999999999999999998887765
No 357
>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=66.84 E-value=3.7 Score=36.34 Aligned_cols=24 Identities=21% Similarity=0.336 Sum_probs=21.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
+|+||+|+-|.||+++.-.++...
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~~ 26 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQEI 26 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhcC
Confidence 689999999999999999887775
No 358
>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=66.77 E-value=5.8 Score=37.74 Aligned_cols=23 Identities=22% Similarity=0.291 Sum_probs=18.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 39 ~~~l~G~nGsGKSTLl~~l~Gl~ 61 (289)
T PRK13645 39 VTCVIGTTGSGKSTMIQLTNGLI 61 (289)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 57888888888888888777654
No 359
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=66.63 E-value=3.9 Score=36.81 Aligned_cols=24 Identities=29% Similarity=0.356 Sum_probs=21.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+....
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~G~~~ 53 (207)
T PRK13539 30 ALVLTGPNGSGKTTLLRLIAGLLP 53 (207)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999998777643
No 360
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=66.45 E-value=6.7 Score=36.68 Aligned_cols=33 Identities=15% Similarity=0.229 Sum_probs=24.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.-++++|+.|.||||++.-++..+... ..+|++
T Consensus 128 ~~ili~G~tGSGKTT~l~all~~i~~~-~~~iv~ 160 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLLNALLEEIPPE-DERIVT 160 (270)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHCHTT-TSEEEE
T ss_pred eEEEEECCCccccchHHHHHhhhcccc-ccceEE
Confidence 368999999999999998877766654 134444
No 361
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=66.42 E-value=3.9 Score=37.68 Aligned_cols=23 Identities=22% Similarity=0.252 Sum_probs=19.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~ 53 (250)
T PRK11264 31 VVAIIGPSGSGKTTLLRCINLLE 53 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 68899999999999999876544
No 362
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=66.40 E-value=14 Score=34.87 Aligned_cols=38 Identities=26% Similarity=0.315 Sum_probs=31.3
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPS 291 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs 291 (333)
...+|+|+-|-|||++.=.++...+..|..-++||.-.
T Consensus 37 s~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 37 SVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES 74 (259)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 36889999999999999888887777777678888754
No 363
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=66.39 E-value=5.9 Score=39.00 Aligned_cols=37 Identities=22% Similarity=0.246 Sum_probs=25.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
.++|+|+-|.||||++-.++..+..... .-++|-.++
T Consensus 124 ~ili~G~tGSGKTT~l~al~~~i~~~~~-~~i~tiEdp 160 (343)
T TIGR01420 124 LILVTGPTGSGKSTTLASMIDYINKNAA-GHIITIEDP 160 (343)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCcCCC-CEEEEEcCC
Confidence 4899999999999999877666553222 234454443
No 364
>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional
Probab=66.37 E-value=6.2 Score=37.18 Aligned_cols=24 Identities=29% Similarity=0.302 Sum_probs=19.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+.+..+.
T Consensus 40 ~~~I~G~NGsGKSTLlk~l~Gl~~ 63 (257)
T PRK11247 40 FVAVVGRSGCGKSTLLRLLAGLET 63 (257)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 578899999999999987776543
No 365
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=66.36 E-value=12 Score=37.72 Aligned_cols=43 Identities=21% Similarity=0.313 Sum_probs=30.3
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTF 298 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tl 298 (333)
|+.++|.||-|-|||+++=++...+-+. .|++--++|-.=.+|
T Consensus 88 krIl~L~GPvg~GKSsl~~~Lk~~le~y---~~Y~l~~~Pm~e~PL 130 (358)
T PF08298_consen 88 KRILLLLGPVGGGKSSLAELLKRGLEEY---PIYTLKGCPMHEEPL 130 (358)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhheE---EEEEecCCccccChh
Confidence 4679999999999999998887777653 455544444443333
No 366
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=66.34 E-value=7.7 Score=35.98 Aligned_cols=32 Identities=22% Similarity=0.125 Sum_probs=25.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
++++|.-|.||||++-.++..+-..|+.-+++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 68999999999999998888876656533333
No 367
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=66.23 E-value=15 Score=33.57 Aligned_cols=45 Identities=22% Similarity=0.322 Sum_probs=34.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~ 300 (333)
...+|+|+-|-|||+++=.++...+..|..-++||.- +..+.+.+
T Consensus 26 ~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e--~~~~~~~~ 70 (234)
T PRK06067 26 SLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTE--NTSKSYLK 70 (234)
T ss_pred cEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcC--CCHHHHHH
Confidence 5789999999999999988877777777766888874 33444443
No 368
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=66.10 E-value=8.4 Score=38.83 Aligned_cols=46 Identities=17% Similarity=0.318 Sum_probs=37.8
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFF 299 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf 299 (333)
.+-+.|.|.-|.|||+++--++..+.+.|. +++|+-|.-+-++.++
T Consensus 42 ~~h~~i~g~tGsGKt~~i~~l~~~~~~~~~-~~vi~D~kg~~~~~~~ 87 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQIRELLASIRARGD-RAIIYDPNGGFVSKFY 87 (410)
T ss_pred hccEEEEcCCCCCHHHHHHHHHHHHHhcCC-CEEEEeCCcchhHhhc
Confidence 356899999999999998888888877664 8999999988766543
No 369
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=66.09 E-value=3.6 Score=35.33 Aligned_cols=21 Identities=14% Similarity=0.196 Sum_probs=17.4
Q ss_pred cceeeeeccCCCchhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~ 274 (333)
..+++.|+.|-|||+|+--++
T Consensus 15 ~kv~ivG~~~~GKTsL~~~l~ 35 (173)
T cd04154 15 MRILILGLDNAGKTTILKKLL 35 (173)
T ss_pred cEEEEECCCCCCHHHHHHHHc
Confidence 458899999999999986544
No 370
>PRK00625 shikimate kinase; Provisional
Probab=66.06 E-value=4.8 Score=35.93 Aligned_cols=22 Identities=14% Similarity=-0.079 Sum_probs=19.4
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|-.|.||||+...++..+
T Consensus 3 I~LiG~pGsGKTT~~k~La~~l 24 (173)
T PRK00625 3 IFLCGLPTVGKTSFGKALAKFL 24 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 7899999999999999887764
No 371
>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional
Probab=66.02 E-value=4 Score=37.74 Aligned_cols=23 Identities=26% Similarity=0.193 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~Gl~ 55 (252)
T PRK14255 33 ITALIGPSGCGKSTYLRTLNRMN 55 (252)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68999999999999999987643
No 372
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=66.00 E-value=11 Score=34.63 Aligned_cols=33 Identities=12% Similarity=0.299 Sum_probs=31.7
Q ss_pred ccceEEEecCCCCCHHHHHHHhhhhccCcEEEE
Q psy18105 45 TYGMCVLQDFEALTPNLLARTIETVEGGGVIVL 77 (333)
Q Consensus 45 E~d~lIlD~~~gl~PNaLaalaGTVrGGGlLIL 77 (333)
+||++.+|+..+--++.+-.+...|+.||+||+
T Consensus 121 ~fD~VFiDa~K~~y~~y~~~~~~ll~~ggvii~ 153 (205)
T PF01596_consen 121 QFDFVFIDADKRNYLEYFEKALPLLRPGGVIIA 153 (205)
T ss_dssp SEEEEEEESTGGGHHHHHHHHHHHEEEEEEEEE
T ss_pred ceeEEEEcccccchhhHHHHHhhhccCCeEEEE
Confidence 799999999999999999999999999999988
No 373
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=65.98 E-value=4 Score=36.74 Aligned_cols=23 Identities=35% Similarity=0.345 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+=+.+..+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~ 53 (216)
T TIGR00960 31 MVFLVGHSGAGKSTFLKLILGIE 53 (216)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999877654
No 374
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=65.87 E-value=6.6 Score=42.68 Aligned_cols=37 Identities=16% Similarity=0.290 Sum_probs=31.6
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
.+|+|+-|.|||+++...+.++...|. +|+|-=|..+
T Consensus 433 ~~I~G~tGsGKS~~~~~l~~~~~~~g~-~v~iiD~~~s 469 (797)
T TIGR02746 433 IAVVGGSGAGKSFFMQELIVDNLSRGG-KVWVIDVGRS 469 (797)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHHhCCC-EEEEEeCCCC
Confidence 799999999999999999998887774 7888777644
No 375
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=65.73 E-value=30 Score=27.86 Aligned_cols=90 Identities=20% Similarity=0.139 Sum_probs=51.7
Q ss_pred EEecCCCChhh-hhhhhhhhhhhcccchhhhhhhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEE
Q psy18105 208 LTAARGRGKSA-ALGLAVAGAVAFGYSNIFGKALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIF 286 (333)
Q Consensus 208 lTAdRGRGKSA-aLGla~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~ 286 (333)
+...-|.|||. +..||.+..-.++++..... .=++... ..+++=.+.|-+.-+..-+.++ . .-|+
T Consensus 5 ~~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d-------~d~~~~~-D~IIiDtpp~~~~~~~~~l~~a-----D-~vlv 70 (106)
T cd03111 5 IGAKGGVGATTLAANLAVALAKEAGRRVLLVD-------LDLQFGD-DYVVVDLGRSLDEVSLAALDQA-----D-RVFL 70 (106)
T ss_pred ECCCCCCcHHHHHHHHHHHHHhcCCCcEEEEE-------CCCCCCC-CEEEEeCCCCcCHHHHHHHHHc-----C-eEEE
Confidence 34445689997 77777776644455555441 1112111 3455556666654433222211 2 2488
Q ss_pred EeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 287 VTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 287 VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
||-|+..++..+-++... ++.++..
T Consensus 71 vv~~~~~s~~~~~~~~~~-l~~~~~~ 95 (106)
T cd03111 71 VTQQDLPSIRNAKRLLEL-LRVLDYS 95 (106)
T ss_pred EecCChHHHHHHHHHHHH-HHHcCCC
Confidence 999999999988877654 5555543
No 376
>PRK05973 replicative DNA helicase; Provisional
Probab=65.71 E-value=8.7 Score=36.30 Aligned_cols=37 Identities=27% Similarity=0.223 Sum_probs=29.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
...+|.|.-|.|||++.=.++...+..|..-+++|--
T Consensus 65 sl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlE 101 (237)
T PRK05973 65 DLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLE 101 (237)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEe
Confidence 3678999999999999988887777777755677644
No 377
>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=65.65 E-value=7 Score=34.70 Aligned_cols=22 Identities=14% Similarity=0.326 Sum_probs=19.1
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
+.|+|+.|.||||++-.+...+
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5689999999999998877765
No 378
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=65.65 E-value=7.7 Score=36.57 Aligned_cols=32 Identities=22% Similarity=0.269 Sum_probs=23.5
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
+++.++-|-||||+.--++..+.+.|+ +|+|-
T Consensus 4 i~~~gKGGVGKTT~a~nLA~~La~~G~-rVLli 35 (279)
T PRK13230 4 FCFYGKGGIGKSTTVCNIAAALAESGK-KVLVV 35 (279)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhCCC-EEEEE
Confidence 455699999999977766666667787 45443
No 379
>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=65.65 E-value=8.6 Score=33.25 Aligned_cols=31 Identities=26% Similarity=0.384 Sum_probs=24.9
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
+.++|+-|.|||++.-..+..+...|. ++++
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~-~v~i 32 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGK-RVAV 32 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCC-EEEE
Confidence 567899999999999999888877665 4444
No 380
>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=65.64 E-value=6.8 Score=34.94 Aligned_cols=23 Identities=26% Similarity=0.369 Sum_probs=19.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+=+++...
T Consensus 33 ~~~i~G~nG~GKSTLl~~i~G~~ 55 (204)
T cd03250 33 LVAIVGPVGSGKSSLLSALLGEL 55 (204)
T ss_pred EEEEECCCCCCHHHHHHHHhCcC
Confidence 68899999999999998876654
No 381
>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=65.61 E-value=9.1 Score=34.03 Aligned_cols=28 Identities=18% Similarity=0.192 Sum_probs=23.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCc
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYS 283 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~ 283 (333)
+.|+|.-|.||||+.-.++..+...|..
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~~~~ 29 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVNGIG 29 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence 5789999999999999998888765543
No 382
>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional
Probab=65.59 E-value=4.1 Score=38.04 Aligned_cols=23 Identities=22% Similarity=0.144 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+=+.+..+
T Consensus 41 ~~~i~G~nGsGKSTLl~~l~Gl~ 63 (260)
T PRK10744 41 VTAFIGPSGCGKSTLLRTFNRMY 63 (260)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68899999999999999887654
No 383
>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional
Probab=65.51 E-value=4.2 Score=37.54 Aligned_cols=23 Identities=22% Similarity=0.183 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+...
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~ 53 (250)
T PRK14266 31 VTALIGPSGCGKSTFIRTLNRMN 53 (250)
T ss_pred EEEEECCCCCCHHHHHHHHHhhh
Confidence 68999999999999999887643
No 384
>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=65.50 E-value=4.3 Score=35.63 Aligned_cols=33 Identities=24% Similarity=0.247 Sum_probs=24.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
.+.|+|+.|.|||||+-+++..+... ..+|.+-
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~ 60 (178)
T cd03229 28 IVALLGPSGSGKSTLLRCIAGLEEPD-SGSILID 60 (178)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCC-ceEEEEC
Confidence 68899999999999999887654421 2256653
No 385
>PRK14241 phosphate transporter ATP-binding protein; Provisional
Probab=65.44 E-value=4.1 Score=37.87 Aligned_cols=23 Identities=22% Similarity=0.199 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++...
T Consensus 32 ~~~i~G~nGsGKSTLl~~laGl~ 54 (258)
T PRK14241 32 VTAFIGPSGCGKSTVLRTLNRMH 54 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 68899999999999999988765
No 386
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=65.39 E-value=4.2 Score=37.84 Aligned_cols=46 Identities=24% Similarity=0.340 Sum_probs=33.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHH-cC-----CceEEEeCCChhhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVA-FG-----YSNIFVTSPSPENLNTFFQ 300 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~-~g-----~~~I~VTAPs~~~v~tlf~ 300 (333)
.+-|.|+-|.||||||-|.+.-..- .| ..+.--|+|+.--|..+|+
T Consensus 27 ~vAi~GpSGaGKSTLLnLIAGF~~P~~G~i~i~g~d~t~~~P~~RPVSmlFQ 78 (231)
T COG3840 27 IVAILGPSGAGKSTLLNLIAGFETPASGEILINGVDHTASPPAERPVSMLFQ 78 (231)
T ss_pred EEEEECCCCccHHHHHHHHHhccCCCCceEEEcCeecCcCCcccCChhhhhh
Confidence 5788999999999999987765442 22 1234447898888888875
No 387
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=65.39 E-value=9.1 Score=35.38 Aligned_cols=47 Identities=21% Similarity=0.227 Sum_probs=35.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
...+|+|+.|.|||++.=.++...+..|..-++||.- +....+.+.+
T Consensus 22 s~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e--e~~~~i~~~~ 68 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE--EHPVQVRRNM 68 (237)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee--CCHHHHHHHH
Confidence 5789999999999999887777766667767888853 4555665553
No 388
>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional
Probab=65.37 E-value=4.1 Score=37.87 Aligned_cols=23 Identities=22% Similarity=0.343 Sum_probs=20.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|.|+.|.|||||+-+.+..+
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl~ 56 (258)
T PRK11701 34 VLGIVGESGSGKTTLLNALSARL 56 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999999877754
No 389
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=65.28 E-value=3.6 Score=34.40 Aligned_cols=19 Identities=32% Similarity=0.163 Sum_probs=16.1
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
++++|++|-|||+++=-..
T Consensus 2 i~i~G~~~~GKTsl~~~~~ 20 (160)
T cd04156 2 VLLLGLDSAGKSTLLYKLK 20 (160)
T ss_pred EEEEcCCCCCHHHHHHHHh
Confidence 6789999999999877554
No 390
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=65.24 E-value=15 Score=39.73 Aligned_cols=31 Identities=23% Similarity=0.298 Sum_probs=18.1
Q ss_pred CCCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 181 CKTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 181 ~~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
.++++|.+|+.. ...|+.|.|.-|.|||.+|
T Consensus 4 ~Ln~~Q~~av~~---------~~g~~lV~AgaGSGKT~~l 34 (726)
T TIGR01073 4 HLNPEQREAVKT---------TEGPLLIMAGAGSGKTRVL 34 (726)
T ss_pred ccCHHHHHHHhC---------CCCCEEEEeCCCCCHHHHH
Confidence 367888887543 1245555555555555555
No 391
>PRK13767 ATP-dependent helicase; Provisional
Probab=65.22 E-value=22 Score=39.60 Aligned_cols=48 Identities=21% Similarity=0.207 Sum_probs=32.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHH-Hc-------CCceEEEeCCChhhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAV-AF-------GYSNIFVTSPSPENLNTFFQFIF 303 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~-~~-------g~~~I~VTAPs~~~v~tlf~fa~ 303 (333)
++|+|+-|.|||.+.-+.+-..+ .. ...++++.+|.++=+..+++-+.
T Consensus 50 vli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 50 VLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 56778888888876666544332 21 12368889999998887776444
No 392
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=65.19 E-value=4.2 Score=37.17 Aligned_cols=22 Identities=18% Similarity=0.206 Sum_probs=19.8
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+-|.|||||+-+.+..
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl 49 (243)
T TIGR01978 28 IHAIMGPNGSGKSTLSKTIAGH 49 (243)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 6899999999999999987765
No 393
>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional
Probab=65.06 E-value=6.3 Score=36.43 Aligned_cols=23 Identities=26% Similarity=0.176 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 32 ~~~l~G~nGsGKSTLl~~l~G~~ 54 (253)
T PRK14267 32 VFALMGPSGCGKSTLLRTFNRLL 54 (253)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 68899999999999999877654
No 394
>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=65.05 E-value=4.2 Score=38.03 Aligned_cols=23 Identities=13% Similarity=0.281 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 27 ~~~i~G~NGsGKSTLlk~L~G~~ 49 (246)
T cd03237 27 VIGILGPNGIGKTTFIKMLAGVL 49 (246)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999876654
No 395
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=64.97 E-value=6 Score=37.11 Aligned_cols=27 Identities=11% Similarity=0.108 Sum_probs=22.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcC
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFG 281 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g 281 (333)
+++++|+.|.|||+++=+.+..+...|
T Consensus 44 ~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 44 HMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 689999999999999988887765444
No 396
>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=64.88 E-value=4.4 Score=36.67 Aligned_cols=23 Identities=30% Similarity=0.348 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~Gl~ 54 (220)
T cd03293 32 FVALVGPSGCGKSTLLRIIAGLE 54 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999877654
No 397
>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=64.86 E-value=6.8 Score=35.91 Aligned_cols=23 Identities=30% Similarity=0.378 Sum_probs=18.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~ 52 (239)
T cd03296 30 LVALLGPSGSGKTTLLRLIAGLE 52 (239)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57889999999999998876654
No 398
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. 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 feature of m
Probab=64.80 E-value=3.6 Score=33.94 Aligned_cols=20 Identities=40% Similarity=0.273 Sum_probs=16.8
Q ss_pred eeeeeccCCCchhHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a 275 (333)
++|.|+.|.|||+++=-+..
T Consensus 2 i~i~G~~~~GKTsli~~l~~ 21 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVK 21 (160)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 67899999999999876553
No 399
>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=64.79 E-value=4.4 Score=36.88 Aligned_cols=24 Identities=33% Similarity=0.308 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~~ 53 (234)
T cd03251 30 TVALVGPSGSGKSTLVNLIPRFYD 53 (234)
T ss_pred EEEEECCCCCCHHHHHHHHhcccc
Confidence 689999999999999998766653
No 400
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=64.71 E-value=13 Score=32.97 Aligned_cols=47 Identities=19% Similarity=0.275 Sum_probs=35.2
Q ss_pred ceeeeeccCCCchh-HHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSA-ALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFI 302 (333)
Q Consensus 255 ~~vltA~RGRGKSa-llGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa 302 (333)
.-+|+-+-|.|||. .|=-.+.+.++.+. +++|-+|.+.-+..+.+.+
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~~~~-rvLvL~PTRvva~em~~aL 53 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIKRRL-RVLVLAPTRVVAEEMYEAL 53 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHHTT---EEEEESSHHHHHHHHHHT
T ss_pred eeEEecCCCCCCcccccHHHHHHHHHccC-eEEEecccHHHHHHHHHHH
Confidence 45789999999999 57777777777654 8999999998888877654
No 401
>PHA02624 large T antigen; Provisional
Probab=64.70 E-value=11 Score=40.70 Aligned_cols=53 Identities=15% Similarity=0.238 Sum_probs=35.4
Q ss_pred hhhhhhhhhhhhccchhccccceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCCh
Q psy18105 234 NIFGKALLKFIDGISEKTLRSTVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSP 292 (333)
Q Consensus 234 n~~~~~~~~~~~~~~~~~~~~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~ 292 (333)
..|...++.|+.+++. |+.+++.||-|.|||++. +++...+ |...+-|++|.-
T Consensus 415 ~~~~~~lk~~l~giPK---k~~il~~GPpnTGKTtf~-~sLl~~L--~G~vlsVNsPt~ 467 (647)
T PHA02624 415 DVIYDILKLIVENVPK---RRYWLFKGPVNSGKTTLA-AALLDLC--GGKSLNVNCPPD 467 (647)
T ss_pred HHHHHHHHHHHhcCCC---CeEEEEECCCCCCHHHHH-HHHHHHc--CCeEEEeeCCcc
Confidence 3355666666666655 469999999999999874 4444444 333566887763
No 402
>PRK00889 adenylylsulfate kinase; Provisional
Probab=64.52 E-value=9.2 Score=33.25 Aligned_cols=33 Identities=24% Similarity=0.244 Sum_probs=25.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.++|+|.-|.||||++-.++..+...|..-++|
T Consensus 6 ~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 6 TVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 588999999999999998888887655432334
No 403
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=64.50 E-value=17 Score=31.30 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=34.0
Q ss_pred eeeccCCCchhHHHHHHHHHHHcCC----ceEEEeC---CChhhHHHHHHHHHhcch
Q psy18105 258 LTAARGRGKSAALGLAVAGAVAFGY----SNIFVTS---PSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 258 ltA~RGRGKSallGla~a~~~~~g~----~~I~VTA---Ps~~~v~tlf~fa~~~L~ 307 (333)
+.|..|-|||.+.-|.|..+-..|. ...++.. |....|.+.-+.+...+.
T Consensus 58 fHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I~ 114 (127)
T PF06309_consen 58 FHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWIR 114 (127)
T ss_pred eecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHHH
Confidence 5788888888888888888766553 2344443 777777777666655444
No 404
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=64.49 E-value=15 Score=39.71 Aligned_cols=56 Identities=20% Similarity=0.224 Sum_probs=46.4
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcC-----CceEEEeCCChhhHHHHHHHHHhcchhccccc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFG-----YSNIFVTSPSPENLNTFFQFIFKGFDALAYQE 313 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g-----~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~~ 313 (333)
.++||.|.-|.||+|.+=--+|.++... ...|+|-+||+ ++++++..-|-.||-+-
T Consensus 227 ~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~----vFleYis~VLPeLGe~~ 287 (747)
T COG3973 227 KILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNR----VFLEYISRVLPELGEEG 287 (747)
T ss_pred CeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcH----HHHHHHHHhchhhccCc
Confidence 5999999999999999888899998631 11399999997 68889999999888543
No 405
>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional
Probab=64.41 E-value=6.9 Score=36.55 Aligned_cols=24 Identities=21% Similarity=0.145 Sum_probs=18.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+=+++....
T Consensus 35 ~~~I~G~nGsGKSTLl~~l~Gl~~ 58 (261)
T PRK14258 35 VTAIIGPSGCGKSTFLKCLNRMNE 58 (261)
T ss_pred EEEEECCCCCCHHHHHHHHhcccC
Confidence 577888888888888877776654
No 406
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=64.28 E-value=4.6 Score=39.87 Aligned_cols=38 Identities=21% Similarity=0.387 Sum_probs=28.3
Q ss_pred hhhhhhhccchhccc-cceeeeeccCCCchhHHHHHHHH
Q psy18105 239 ALLKFIDGISEKTLR-STVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 239 ~~~~~~~~~~~~~~~-~~~vltA~RGRGKSallGla~a~ 276 (333)
.|.++|..++++..+ .-++|.|+.|.||||++=-.+..
T Consensus 23 ~l~~~l~~l~~~~~~~~rIllvGktGVGKSSliNsIlG~ 61 (313)
T TIGR00991 23 KLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSIIGE 61 (313)
T ss_pred HHHHHHHhcccccccceEEEEECCCCCCHHHHHHHHhCC
Confidence 455666677775544 46899999999999998776544
No 407
>PRK14239 phosphate transporter ATP-binding protein; Provisional
Probab=64.23 E-value=7 Score=36.01 Aligned_cols=22 Identities=27% Similarity=0.246 Sum_probs=17.7
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+++..
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~Gl 54 (252)
T PRK14239 33 ITALIGPSGSGKSTLLRSINRM 54 (252)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 5788888888998888887654
No 408
>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=64.21 E-value=4.4 Score=37.04 Aligned_cols=23 Identities=30% Similarity=0.349 Sum_probs=20.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 50 ~~~i~G~nGsGKSTLl~~l~G~~ 72 (224)
T cd03220 50 RIGLIGRNGAGKSTLLRLLAGIY 72 (224)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999999888754
No 409
>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=64.20 E-value=4.5 Score=36.27 Aligned_cols=22 Identities=23% Similarity=0.270 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+.+..
T Consensus 28 ~~~i~G~nGsGKStLl~~l~G~ 49 (200)
T cd03217 28 VHALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred EEEEECCCCCCHHHHHHHHhCC
Confidence 7899999999999999987665
No 410
>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=64.19 E-value=4.7 Score=35.46 Aligned_cols=59 Identities=19% Similarity=0.267 Sum_probs=34.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC-----ChhhHHHHHHHHHhcchhcccccc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP-----SPENLNTFFQFIFKGFDALAYQEH 314 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP-----s~~~v~tlf~fa~~~L~~lg~~~~ 314 (333)
.+.|+|+-|.||||++-+.+..+... ..+|.+-.- ++.....-..++.+.++.+|+.+.
T Consensus 27 ~~~l~G~nGsGKStLl~~i~G~~~~~-~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~ 90 (180)
T cd03214 27 IVGILGPNGAGKSTLLKTLAGLLKPS-SGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHL 90 (180)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCC-CcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhH
Confidence 68899999999999999987654322 225655321 122222222333335666676543
No 411
>PF04466 Terminase_3: Phage terminase large subunit; InterPro: IPR006701 Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possesses an endonuclease and ATPase activity that requires Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences [, ].; GO: 0006323 DNA packaging; PDB: 2WBN_A 2WC9_A.
Probab=64.14 E-value=2.2 Score=42.76 Aligned_cols=61 Identities=15% Similarity=0.172 Sum_probs=0.0
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhh-HHHHHHHHHhcchhcccccc
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPEN-LNTFFQFIFKGFDALAYQEH 314 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~-v~tlf~fa~~~L~~lg~~~~ 314 (333)
|-.|+.|-||.|||....+.+...+.....+++|+-....+ -+++|+-+...++.+|+...
T Consensus 3 r~~v~~GGrGS~KS~~~a~~li~~~~~~~~~~l~~R~~~~sl~~Sv~~~l~~~i~~~gl~~~ 64 (387)
T PF04466_consen 3 RYIVLKGGRGSGKSSFIAQKLILRAMQYPGRILCVRKVQNSLRDSVYAQLKWAIDRLGLSDY 64 (387)
T ss_dssp --------------------------------------------------------------
T ss_pred cEEEEECCCCchHHHHHHHHHHHHHHhCCCcEEEEEccccHHHHHHHHHHHHHHHhcCCCce
Confidence 45688999999999998775544443334466665443333 35677888888888887653
No 412
>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional
Probab=64.12 E-value=4.6 Score=37.32 Aligned_cols=23 Identities=30% Similarity=0.203 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~ 52 (246)
T PRK14269 30 ITALIGASGCGKSTFLRCFNRMN 52 (246)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68899999999999999887654
No 413
>PRK10908 cell division protein FtsE; Provisional
Probab=64.12 E-value=7.3 Score=35.25 Aligned_cols=23 Identities=35% Similarity=0.323 Sum_probs=18.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~G~~ 52 (222)
T PRK10908 30 MAFLTGHSGAGKSTLLKLICGIE 52 (222)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57788888889988888876544
No 414
>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=64.04 E-value=4.6 Score=37.12 Aligned_cols=23 Identities=17% Similarity=0.251 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~ 51 (242)
T cd03295 29 FLVLIGPSGSGKTTTMKMINRLI 51 (242)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 68899999999999999887654
No 415
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=64.03 E-value=4.6 Score=36.20 Aligned_cols=23 Identities=30% Similarity=0.364 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 30 ~~~l~G~nGsGKSTLl~~i~Gl~ 52 (214)
T TIGR02673 30 FLFLTGPSGAGKTTLLKLLYGAL 52 (214)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999998776543
No 416
>PRK13633 cobalt transporter ATP-binding subunit; Provisional
Probab=64.01 E-value=6.8 Score=37.11 Aligned_cols=24 Identities=21% Similarity=0.159 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 38 ~~~l~G~nGsGKSTLl~~l~Gl~~ 61 (280)
T PRK13633 38 FLVILGRNGSGKSTIAKHMNALLI 61 (280)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 588999999999999998876654
No 417
>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI. This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.
Probab=63.96 E-value=6.9 Score=37.55 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=19.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 32 ~~~l~G~NGaGKSTLl~~l~Gl~ 54 (303)
T TIGR01288 32 CFGLLGPNGAGKSTIARMLLGMI 54 (303)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57889999999999998877654
No 418
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=63.96 E-value=13 Score=38.65 Aligned_cols=24 Identities=17% Similarity=0.164 Sum_probs=21.7
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~ 279 (333)
..|-|++|-|||+|+|+.+.....
T Consensus 146 ~gIfa~~G~GKt~Ll~~~~~~~~~ 169 (461)
T PRK12597 146 TGLFGGAGVGKTVLMMELIFNISK 169 (461)
T ss_pred EEeecCCCCChhHHHHHHHHHHHh
Confidence 788999999999999999988774
No 419
>PRK14237 phosphate transporter ATP-binding protein; Provisional
Probab=63.93 E-value=7.5 Score=36.49 Aligned_cols=23 Identities=26% Similarity=0.211 Sum_probs=17.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+...
T Consensus 48 ~~~I~G~nGsGKSTLl~~l~Gl~ 70 (267)
T PRK14237 48 ITALIGPSGSGKSTYLRSLNRMN 70 (267)
T ss_pred EEEEECCCCCCHHHHHHHHHhcc
Confidence 57788888888888888776544
No 420
>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=63.89 E-value=4.7 Score=36.33 Aligned_cols=23 Identities=30% Similarity=0.323 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+...
T Consensus 32 ~~~i~G~nGsGKSTLl~~i~G~~ 54 (220)
T cd03245 32 KVAIIGRVGSGKSTLLKLLAGLY 54 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhcCc
Confidence 68899999999999999887654
No 421
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. 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.
Probab=63.88 E-value=7.3 Score=35.09 Aligned_cols=24 Identities=29% Similarity=0.340 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+..+.
T Consensus 26 ~~~i~G~nGsGKSTLl~~l~G~~~ 49 (213)
T TIGR01277 26 IVAIMGPSGAGKSTLLNLIAGFIE 49 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999998876543
No 422
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=63.87 E-value=4.5 Score=40.28 Aligned_cols=25 Identities=28% Similarity=0.252 Sum_probs=20.7
Q ss_pred cceeeeeccCCCchhHHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~ 278 (333)
..++|.|+-|.||||+|=+.|...-
T Consensus 30 ef~vllGPSGcGKSTlLr~IAGLe~ 54 (338)
T COG3839 30 EFVVLLGPSGCGKSTLLRMIAGLEE 54 (338)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCC
Confidence 3799999999999999987665433
No 423
>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.84 E-value=4.7 Score=37.16 Aligned_cols=23 Identities=26% Similarity=0.213 Sum_probs=20.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~ 53 (249)
T PRK14253 31 VTALIGPSGCGKSTLLRCLNRMN 53 (249)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 68999999999999999887654
No 424
>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=63.79 E-value=4.5 Score=36.27 Aligned_cols=23 Identities=17% Similarity=0.419 Sum_probs=20.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|.|+.|.|||||+=+++..+
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~Gl~ 49 (177)
T cd03222 27 VIGIVGPNGTGKTTAVKILAGQL 49 (177)
T ss_pred EEEEECCCCChHHHHHHHHHcCC
Confidence 68899999999999999876654
No 425
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 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. 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; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=63.78 E-value=7.9 Score=33.96 Aligned_cols=33 Identities=24% Similarity=0.451 Sum_probs=27.7
Q ss_pred eccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 260 AARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 260 A~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
|-=|.||||+.-++...+...|+. +++|.|...
T Consensus 3 GiDGsGKtT~~~~L~~~l~~~~~~-~~~~~~~~~ 35 (186)
T PF02223_consen 3 GIDGSGKTTQIRLLAEALKEKGYK-VIITFPPGS 35 (186)
T ss_dssp ESTTSSHHHHHHHHHHHHHHTTEE-EEEEESSTS
T ss_pred CCCCCCHHHHHHHHHHHHHHcCCc-ccccCCCCC
Confidence 456999999999999999988875 888887653
No 426
>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.70 E-value=7.4 Score=35.98 Aligned_cols=23 Identities=26% Similarity=0.189 Sum_probs=19.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~G~~ 54 (251)
T PRK14270 32 ITALIGPSGCGKSTFLRCLNRMN 54 (251)
T ss_pred EEEEECCCCCCHHHHHHHHHhcc
Confidence 57889999999999998887654
No 427
>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed
Probab=63.65 E-value=7.6 Score=36.33 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 32 ~~~I~G~NGsGKSTLl~~i~Gl~ 54 (251)
T PRK09544 32 ILTLLGPNGAGKSTLVRVVLGLV 54 (251)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 58899999999999999876654
No 428
>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.64 E-value=7.2 Score=36.07 Aligned_cols=22 Identities=27% Similarity=0.211 Sum_probs=19.5
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+.+..
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl 55 (253)
T PRK14261 34 VTALIGPSGCGKSTLLRCFNRM 55 (253)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 6889999999999999988753
No 429
>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.62 E-value=7.5 Score=36.33 Aligned_cols=22 Identities=27% Similarity=0.194 Sum_probs=16.8
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+++..
T Consensus 44 ~~~i~G~nGsGKSTLl~~l~Gl 65 (265)
T PRK14252 44 VTALIGPSGCGKSTFLRCFNRM 65 (265)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 5778888888888888776543
No 430
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=63.60 E-value=4.8 Score=36.44 Aligned_cols=23 Identities=17% Similarity=0.261 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 39 ~~~i~G~nGsGKSTLl~~i~G~~ 61 (214)
T PRK13543 39 ALLVQGDNGAGKTTLLRVLAGLL 61 (214)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCC
Confidence 58899999999999999887654
No 431
>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=63.59 E-value=4 Score=34.09 Aligned_cols=21 Identities=24% Similarity=0.303 Sum_probs=17.3
Q ss_pred eeeeeccCCCchhHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~ 276 (333)
+++.|+.|.|||+++--++..
T Consensus 2 i~iiG~~~~GKssli~~~~~~ 22 (158)
T cd00878 2 ILILGLDGAGKTTILYKLKLG 22 (158)
T ss_pred EEEEcCCCCCHHHHHHHHhcC
Confidence 678999999999998766543
No 432
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=63.56 E-value=10 Score=33.60 Aligned_cols=33 Identities=21% Similarity=0.198 Sum_probs=27.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.+.|||--|.||||++-.+...|...|+.-+++
T Consensus 4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 467999999999999999999998888755555
No 433
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=63.54 E-value=6.8 Score=31.73 Aligned_cols=23 Identities=17% Similarity=0.101 Sum_probs=20.5
Q ss_pred eeeeccCCCchhHHHHHHHHHHH
Q psy18105 257 SLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 257 vltA~RGRGKSallGla~a~~~~ 279 (333)
.|.|+.|.|||++.-.++..+..
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 57899999999999998888885
No 434
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=63.46 E-value=4 Score=34.14 Aligned_cols=18 Identities=33% Similarity=0.298 Sum_probs=15.4
Q ss_pred eeeeeccCCCchhHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLA 273 (333)
Q Consensus 256 ~vltA~RGRGKSallGla 273 (333)
+++.|+.|.|||+++=-+
T Consensus 3 i~v~G~~~~GKSsli~~l 20 (161)
T cd01863 3 ILLIGDSGVGKSSLLLRF 20 (161)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 789999999999998433
No 435
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=63.36 E-value=3.9 Score=34.80 Aligned_cols=19 Identities=16% Similarity=0.109 Sum_probs=15.9
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
++|.|+.|-||||++--.+
T Consensus 1 i~i~G~~~vGKTsli~~~~ 19 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYT 19 (174)
T ss_pred CEEECCCCCCHHHHHHHHH
Confidence 4789999999999987544
No 436
>PRK14111 F0F1 ATP synthase subunit gamma; Provisional
Probab=63.34 E-value=18 Score=34.97 Aligned_cols=46 Identities=20% Similarity=0.196 Sum_probs=26.8
Q ss_pred eeeEEecCCCChhhhhhhhhhhhhhcccchhhhhhhhhhhhccchhccccceeeeeccCC
Q psy18105 205 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFGKALLKFIDGISEKTLRSTVSLTAARGR 264 (333)
Q Consensus 205 ~lvlTAdRGRGKSAaLGla~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~vltA~RGR 264 (333)
.+|+|+|||= + =+|++-+...+.+.|.......-...+++.|+||+
T Consensus 81 ~IvitSDrGL------------C--G~fN~~l~k~~~~~i~~~~~~~~~~~l~~vG~Kg~ 126 (290)
T PRK14111 81 LILVTPDRGL------------A--GSLNANVLRRAIRFITDERSMGRTVDVIAIGRKGR 126 (290)
T ss_pred EEEEeCCCCc------------c--ccccHHHHHHHHHHHHHHHhCCCceEEEEEehHHH
Confidence 4899999992 1 12333344444444443332223346999999985
No 437
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=63.30 E-value=15 Score=31.65 Aligned_cols=44 Identities=18% Similarity=0.286 Sum_probs=32.0
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeC-CChhhHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTS-PSPENLNTFF 299 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTA-Ps~~~v~tlf 299 (333)
.|...+-|-|||++.=.++..+...|+.=++|-+ |...+...++
T Consensus 2 ~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~D~~~~~~~~~~ 46 (195)
T PF01656_consen 2 AVTSGKGGVGKTTIAANLAQALARKGKKVLLIDLDPQAPNLSILF 46 (195)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEESTTSHHHHHHT
T ss_pred EEEcCCCCccHHHHHHHHHhccccccccccccccCcccccHHHHh
Confidence 4677889999999999888888888886666665 4444444444
No 438
>KOG2228|consensus
Probab=63.28 E-value=6.2 Score=39.74 Aligned_cols=39 Identities=21% Similarity=0.302 Sum_probs=20.3
Q ss_pred CCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 182 KTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 182 ~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
--+|+++-+..+++.-....+-.-+.+.+.||.|||.-+
T Consensus 28 g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li 66 (408)
T KOG2228|consen 28 GVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILI 66 (408)
T ss_pred ehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEee
Confidence 346777777777764211112233445556666665433
No 439
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=63.23 E-value=6 Score=34.60 Aligned_cols=24 Identities=17% Similarity=0.119 Sum_probs=20.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
+.++|+|..|.||||+.-.++..+
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhh
Confidence 368999999999999999887764
No 440
>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.11 E-value=4.9 Score=37.17 Aligned_cols=23 Identities=22% Similarity=0.205 Sum_probs=20.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~Gl~ 54 (252)
T PRK14256 32 VTAIIGPSGCGKSTVLRSINRMH 54 (252)
T ss_pred EEEEECCCCCCHHHHHHHHHhcc
Confidence 68999999999999999988765
No 441
>KOG0924|consensus
Probab=63.11 E-value=14 Score=40.51 Aligned_cols=51 Identities=20% Similarity=0.217 Sum_probs=42.5
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCc---eEEEeCCChhhHHHHHHHHHhcch
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYS---NIFVTSPSPENLNTFFQFIFKGFD 307 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~---~I~VTAPs~~~v~tlf~fa~~~L~ 307 (333)
..+||.|.-|.||||-|- ..|...||. -|-+|-|.+.+.-++-.-+...+.
T Consensus 372 ~vvvivgETGSGKTTQl~---QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~ 425 (1042)
T KOG0924|consen 372 QVVVIVGETGSGKTTQLA---QYLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMG 425 (1042)
T ss_pred cEEEEEecCCCCchhhhH---HHHHhcccccCCeeeecCchHHHHHHHHHHHHHHhC
Confidence 589999999999999764 455556766 399999999999999998888885
No 442
>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.10 E-value=4.8 Score=37.12 Aligned_cols=23 Identities=17% Similarity=0.174 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~Gl~ 53 (250)
T PRK14262 31 ITAIIGPSGCGKTTLLRSINRMN 53 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 58899999999999999877543
No 443
>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=63.02 E-value=5.2 Score=34.89 Aligned_cols=32 Identities=25% Similarity=0.312 Sum_probs=24.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEE
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFV 287 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~V 287 (333)
.+.|+|+.|.|||||+-+++..+... ..+|.+
T Consensus 30 ~~~l~G~nGsGKstLl~~i~G~~~~~-~G~i~~ 61 (171)
T cd03228 30 KVAIVGPSGSGKSTLLKLLLRLYDPT-SGEILI 61 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCC-CCEEEE
Confidence 68999999999999999887765432 124554
No 444
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=62.89 E-value=6.6 Score=34.55 Aligned_cols=24 Identities=21% Similarity=0.331 Sum_probs=21.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
-+.+.|+-|.|||||+|-++....
T Consensus 5 ~I~i~G~~~sGKTTL~~~L~~~~~ 28 (188)
T PF00009_consen 5 NIAIIGHVDSGKTTLLGALLGKAG 28 (188)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred EEEEECCCCCCcEeechhhhhhcc
Confidence 478999999999999999887774
No 445
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA. This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.
Probab=62.89 E-value=5.1 Score=35.66 Aligned_cols=23 Identities=22% Similarity=0.328 Sum_probs=19.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+=+++..+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~ 50 (198)
T TIGR01189 28 ALQVTGPNGIGKTTLLRILAGLL 50 (198)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68999999999999998766654
No 446
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=62.81 E-value=5.9 Score=35.20 Aligned_cols=19 Identities=32% Similarity=0.214 Sum_probs=16.4
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
++|||+.|.|||+++=..+
T Consensus 2 ~~ltG~N~~GKst~l~~i~ 20 (185)
T smart00534 2 VIITGPNMGGKSTYLRQVG 20 (185)
T ss_pred EEEECCCCCcHHHHHHHHH
Confidence 6899999999999986554
No 447
>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=62.81 E-value=6.1 Score=33.61 Aligned_cols=24 Identities=13% Similarity=0.059 Sum_probs=20.3
Q ss_pred eeeeeccCCCchhHHHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVA 279 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~ 279 (333)
++|.|+-|.||||++..++.....
T Consensus 2 v~v~G~~~~GKStlln~l~~~~~~ 25 (189)
T cd00881 2 VGIAGHVDHGKTTLTERLLYVTGD 25 (189)
T ss_pred EEEEeCCCCCHHHHHHHHHHhcCC
Confidence 578999999999999988776543
No 448
>PRK03695 vitamin B12-transporter ATPase; Provisional
Probab=62.80 E-value=7 Score=36.30 Aligned_cols=23 Identities=26% Similarity=0.293 Sum_probs=17.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 24 i~~l~G~nGsGKSTLl~~l~Gl~ 46 (248)
T PRK03695 24 ILHLVGPNGAGKSTLLARMAGLL 46 (248)
T ss_pred EEEEECCCCCCHHHHHHHHcCCC
Confidence 57788888888888888766543
No 449
>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=62.80 E-value=7.9 Score=36.77 Aligned_cols=23 Identities=26% Similarity=0.216 Sum_probs=18.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 35 ~~~i~G~nGaGKSTLl~~i~G~~ 57 (279)
T PRK13635 35 WVAIVGHNGSGKSTLAKLLNGLL 57 (279)
T ss_pred EEEEECCCCCcHHHHHHHHhcCC
Confidence 57888999999999888776554
No 450
>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=62.72 E-value=5.1 Score=36.11 Aligned_cols=23 Identities=26% Similarity=0.250 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~G~~ 54 (221)
T cd03244 32 KVGIVGRTGSGKSSLLLALFRLV 54 (221)
T ss_pred EEEEECCCCCCHHHHHHHHHcCC
Confidence 68899999999999999887654
No 451
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=62.66 E-value=20 Score=33.32 Aligned_cols=47 Identities=17% Similarity=0.028 Sum_probs=32.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
..+|.|..|.|||+++.-.+..+...+..+|+.-+..-..-+...++
T Consensus 21 L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~R~ 67 (259)
T PF03796_consen 21 LTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAARL 67 (259)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHHHH
T ss_pred EEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHHHH
Confidence 68999999999999999888877766324666665554444444443
No 452
>PRK13973 thymidylate kinase; Provisional
Probab=62.64 E-value=15 Score=33.40 Aligned_cols=33 Identities=30% Similarity=0.529 Sum_probs=28.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHcCCceEEEe
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVT 288 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~g~~~I~VT 288 (333)
.+++-|.=|.||||.+-+++..+-..|+ ++++|
T Consensus 5 ~IviEG~dGsGKtTq~~~l~~~l~~~g~-~~~~~ 37 (213)
T PRK13973 5 FITFEGGEGAGKSTQIRLLAERLRAAGY-DVLVT 37 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCC-eEEEE
Confidence 5788999999999999999999988886 56555
No 453
>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=62.60 E-value=5 Score=37.83 Aligned_cols=24 Identities=29% Similarity=0.385 Sum_probs=21.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+..+.
T Consensus 28 ~~~IvG~nGsGKSTLlk~l~Gl~~ 51 (255)
T cd03236 28 VLGLVGPNGIGKSTALKILAGKLK 51 (255)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcC
Confidence 688999999999999998877765
No 454
>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=62.57 E-value=7.6 Score=37.03 Aligned_cols=23 Identities=26% Similarity=0.183 Sum_probs=19.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 34 ~v~i~G~nGsGKSTLl~~l~Gl~ 56 (288)
T PRK13643 34 YTALIGHTGSGKSTLLQHLNGLL 56 (288)
T ss_pred EEEEECCCCChHHHHHHHHhcCC
Confidence 58889999999999988887654
No 455
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=62.56 E-value=5.1 Score=37.03 Aligned_cols=22 Identities=27% Similarity=0.211 Sum_probs=19.7
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+=+++..
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl 55 (253)
T PRK14242 34 VTALIGPSGCGKSTFLRCLNRM 55 (253)
T ss_pred EEEEECCCCCCHHHHHHHHHhh
Confidence 6889999999999999988764
No 456
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=62.42 E-value=4.2 Score=34.40 Aligned_cols=15 Identities=40% Similarity=0.601 Sum_probs=14.0
Q ss_pred eeeeeccCCCchhHH
Q psy18105 256 VSLTAARGRGKSAAL 270 (333)
Q Consensus 256 ~vltA~RGRGKSall 270 (333)
++|.|+.|.|||+|+
T Consensus 2 i~vvG~~~~GKtsli 16 (165)
T cd04146 2 IAVLGASGVGKSALV 16 (165)
T ss_pred EEEECCCCCcHHHHH
Confidence 689999999999997
No 457
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=62.37 E-value=4.3 Score=33.90 Aligned_cols=20 Identities=25% Similarity=0.230 Sum_probs=17.2
Q ss_pred eeeeeccCCCchhHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a 275 (333)
+++.|+.|.|||+++--...
T Consensus 3 v~~vG~~~~GKTsl~~~~~~ 22 (162)
T cd04106 3 VIVVGNGNVGKSSMIQRFVK 22 (162)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 78999999999999976553
No 458
>PRK14240 phosphate transporter ATP-binding protein; Provisional
Probab=62.36 E-value=5.1 Score=36.96 Aligned_cols=22 Identities=27% Similarity=0.214 Sum_probs=19.9
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|.|+-|.|||||+-+.+..
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~G~ 52 (250)
T PRK14240 31 VTALIGPSGCGKSTFLRTLNRM 52 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 6899999999999999998764
No 459
>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional
Probab=62.34 E-value=7.4 Score=36.95 Aligned_cols=23 Identities=26% Similarity=0.312 Sum_probs=18.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++..+
T Consensus 29 ~~~l~G~nGsGKSTLl~~laG~~ 51 (272)
T PRK13547 29 VTALLGRNGAGKSTLLKALAGDL 51 (272)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 57889999999999998776654
No 460
>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=62.26 E-value=5.1 Score=37.65 Aligned_cols=24 Identities=25% Similarity=0.253 Sum_probs=20.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 37 ~~~I~G~nGsGKSTLl~~i~Gl~~ 60 (269)
T PRK13648 37 WTSIVGHNGSGKSTIAKLMIGIEK 60 (269)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 588999999999999988876543
No 461
>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional
Probab=62.20 E-value=5 Score=38.01 Aligned_cols=24 Identities=21% Similarity=0.293 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 52 ~~~liG~NGsGKSTLlk~L~Gl~~ 75 (264)
T PRK13546 52 VIGLVGINGSGKSTLSNIIGGSLS 75 (264)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcC
Confidence 588999999999999998877643
No 462
>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional
Probab=62.08 E-value=5.1 Score=37.72 Aligned_cols=23 Identities=26% Similarity=0.224 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+++...
T Consensus 41 ~~~l~G~nGsGKSTLl~~l~Gl~ 63 (269)
T PRK14259 41 VTALIGPSGCGKSTVLRSLNRMN 63 (269)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68899999999999999887653
No 463
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=62.07 E-value=11 Score=36.50 Aligned_cols=41 Identities=29% Similarity=0.305 Sum_probs=32.7
Q ss_pred cCCCHHHHHHHHHHHHHHhhhcccceeeEEecCCCChhhhh
Q psy18105 180 CCKTLDQGKALLKFIDSISEKTLRSTVSLTAARGRGKSAAL 220 (333)
Q Consensus 180 ~~~T~dQ~~al~~l~~~~~~~~~r~~lvlTAdRGRGKSAaL 220 (333)
+.--..|.++|.+=.+.+.++..-.-|.|.+.||-|||+.+
T Consensus 62 l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLV 102 (287)
T COG2607 62 LVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLV 102 (287)
T ss_pred HhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHH
Confidence 34456788888776677777777778889999999999877
No 464
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=62.03 E-value=5.1 Score=36.58 Aligned_cols=24 Identities=29% Similarity=0.357 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+=+++....
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~Gl~~ 50 (232)
T PRK10771 27 RVAILGPSGAGKSTLLNLIAGFLT 50 (232)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999987766543
No 465
>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein. This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.
Probab=62.00 E-value=5.2 Score=36.88 Aligned_cols=24 Identities=25% Similarity=0.156 Sum_probs=20.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~~ 52 (247)
T TIGR00972 29 VTALIGPSGCGKSTLLRSLNRMND 52 (247)
T ss_pred EEEEECCCCCCHHHHHHHHhccCC
Confidence 688999999999999998776553
No 466
>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=61.99 E-value=5.8 Score=34.98 Aligned_cols=21 Identities=14% Similarity=0.300 Sum_probs=19.0
Q ss_pred ceeeeeccCCCchhHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVA 275 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a 275 (333)
-++|.|+.|.|||+|+..++.
T Consensus 4 ~i~ivG~~~~GKTsL~~~l~~ 24 (194)
T cd01891 4 NIAIIAHVDHGKTTLVDALLK 24 (194)
T ss_pred EEEEEecCCCCHHHHHHHHHH
Confidence 588999999999999998775
No 467
>PRK02496 adk adenylate kinase; Provisional
Probab=61.98 E-value=6.5 Score=34.50 Aligned_cols=22 Identities=14% Similarity=0.166 Sum_probs=19.6
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|+-|.||||++..++..+
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 7899999999999999887765
No 468
>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=61.90 E-value=4.5 Score=37.60 Aligned_cols=17 Identities=24% Similarity=0.407 Sum_probs=15.5
Q ss_pred cceeeeeccCCCchhHH
Q psy18105 254 STVSLTAARGRGKSAAL 270 (333)
Q Consensus 254 ~~~vltA~RGRGKSall 270 (333)
...+|+|+.|.|||++|
T Consensus 23 ~~~~i~G~NGsGKStll 39 (247)
T cd03275 23 RFTCIIGPNGSGKSNLM 39 (247)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 46899999999999997
No 469
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=61.85 E-value=4.4 Score=33.49 Aligned_cols=19 Identities=32% Similarity=0.296 Sum_probs=15.8
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
+++.|+.|-||||++=-++
T Consensus 4 i~iiG~~~vGKTsl~~~~~ 22 (162)
T cd04138 4 LVVVGAGGVGKSALTIQLI 22 (162)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6889999999999975443
No 470
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.81 E-value=5.3 Score=36.83 Aligned_cols=23 Identities=22% Similarity=0.255 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+++..+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~ 53 (241)
T PRK14250 31 IYTIVGPSGAGKSTLIKLINRLI 53 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999999888754
No 471
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=61.80 E-value=8.8 Score=41.47 Aligned_cols=40 Identities=20% Similarity=0.306 Sum_probs=34.2
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChh
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPE 293 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~ 293 (333)
.=..|+|+-|.|||+++...++++...|..+|+|-=|..+
T Consensus 435 ~n~~I~G~tGsGKS~~~~~l~~~~~~~~~~~v~iiD~~~~ 474 (785)
T TIGR00929 435 GHTLIFGPTGSGKTTLLNFLLAQMQKYGGMTIFAFDKDRG 474 (785)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhccCCCeEEEEeCCCC
Confidence 3478999999999999999999999877657888888776
No 472
>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.79 E-value=8.5 Score=35.82 Aligned_cols=22 Identities=23% Similarity=0.193 Sum_probs=16.6
Q ss_pred ceeeeeccCCCchhHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAG 276 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~ 276 (333)
.+.|+|+.|.|||||+-+.+..
T Consensus 40 ~~~i~G~nGsGKSTLl~~i~Gl 61 (258)
T PRK14268 40 VTALIGPSGCGKSTFIRCLNRM 61 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 5778888888888888776654
No 473
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=61.76 E-value=6.7 Score=33.98 Aligned_cols=23 Identities=17% Similarity=0.212 Sum_probs=19.3
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.++|+|.-|.||||++=.++..+
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 57889999999999998777553
No 474
>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=61.73 E-value=5.4 Score=36.24 Aligned_cols=23 Identities=26% Similarity=0.365 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+=+.+..+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~ 50 (232)
T cd03218 28 IVGLLGPNGAGKTTTFYMIVGLV 50 (232)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 68899999999999998887654
No 475
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.61 E-value=5.4 Score=36.82 Aligned_cols=23 Identities=26% Similarity=0.245 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+.|.|||||+-+.+..+
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~G~~ 53 (250)
T PRK14247 31 ITALMGPSGSGKSTLLRVFNRLI 53 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 68899999999999999887654
No 476
>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.58 E-value=5.4 Score=37.38 Aligned_cols=23 Identities=26% Similarity=0.195 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 49 ~~~i~G~nGsGKSTLl~~l~Gl~ 71 (268)
T PRK14248 49 VTALIGPSGCGKSTFLRSINRMN 71 (268)
T ss_pred EEEEECCCCCCHHHHHHHHHhcc
Confidence 68999999999999999887643
No 477
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=61.55 E-value=16 Score=40.39 Aligned_cols=55 Identities=9% Similarity=0.023 Sum_probs=43.5
Q ss_pred eeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHHHHhcchhcccc
Q psy18105 257 SLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQFIFKGFDALAYQ 312 (333)
Q Consensus 257 vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~fa~~~L~~lg~~ 312 (333)
|..++-|-|||.+..|++....-.|. .+.|.+|+.+=+..-++....-++.+|+.
T Consensus 95 Iaem~TGeGKTL~a~lp~~l~al~G~-~v~VvTpt~~LA~qd~e~~~~l~~~lGl~ 149 (790)
T PRK09200 95 IAEMQTGEGKTLTATMPLYLNALEGK-GVHLITVNDYLAKRDAEEMGQVYEFLGLT 149 (790)
T ss_pred eeeecCCCcchHHHHHHHHHHHHcCC-CeEEEeCCHHHHHHHHHHHHHHHhhcCCe
Confidence 78899999999999998875554565 79999999988887777776666666643
No 478
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho 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 feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=61.53 E-value=4.7 Score=34.27 Aligned_cols=20 Identities=15% Similarity=0.165 Sum_probs=16.7
Q ss_pred ceeeeeccCCCchhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~ 274 (333)
.++|.|+.|-|||+++-..+
T Consensus 3 ki~iiG~~~~GKTsl~~~~~ 22 (175)
T cd01870 3 KLVIVGDGACGKTCLLIVFS 22 (175)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 58899999999999985433
No 479
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=61.52 E-value=8.7 Score=35.69 Aligned_cols=24 Identities=25% Similarity=0.220 Sum_probs=19.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+....
T Consensus 33 ~~~l~G~nGsGKSTLl~~i~G~~~ 56 (257)
T PRK10619 33 VISIIGSSGSGKSTFLRCINFLEK 56 (257)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 577899999999999887776543
No 480
>PRK08233 hypothetical protein; Provisional
Probab=61.51 E-value=5.7 Score=34.21 Aligned_cols=24 Identities=17% Similarity=0.220 Sum_probs=20.2
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|.-|.||||++-.++..+.
T Consensus 5 iI~I~G~~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTHKLK 28 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhhCC
Confidence 477899999999999988777664
No 481
>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional
Probab=61.50 E-value=5.4 Score=37.83 Aligned_cols=24 Identities=25% Similarity=0.185 Sum_probs=21.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 49 ~~~I~G~nGsGKSTLl~~l~Gl~~ 72 (276)
T PRK14271 49 VTSLMGPTGSGKTTFLRTLNRMND 72 (276)
T ss_pred EEEEECCCCCCHHHHHHHHhccCC
Confidence 688999999999999999987553
No 482
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.39 E-value=7 Score=38.72 Aligned_cols=26 Identities=23% Similarity=0.266 Sum_probs=21.3
Q ss_pred ccceeeeeccCCCchhHHHHHHHHHH
Q psy18105 253 RSTVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 253 ~~~~vltA~RGRGKSallGla~a~~~ 278 (333)
.-.++++|+||-|||+++=..+..+.
T Consensus 38 ~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 38 HHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 34578999999999999987776664
No 483
>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=61.37 E-value=4.5 Score=36.56 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=17.0
Q ss_pred ceeeeeccCCCchhHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~ 274 (333)
..+|+|+.|.|||+++=...
T Consensus 24 ~~~i~G~nGsGKStll~al~ 43 (197)
T cd03278 24 LTAIVGPNGSGKSNIIDAIR 43 (197)
T ss_pred cEEEECCCCCCHHHHHHHHH
Confidence 57899999999999996553
No 484
>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=61.35 E-value=8.4 Score=36.43 Aligned_cols=24 Identities=17% Similarity=0.160 Sum_probs=20.6
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+.+..+.
T Consensus 32 ~~~i~G~NGsGKSTLl~~l~Gl~~ 55 (277)
T PRK13652 32 RIAVIGPNGAGKSTLFRHFNGILK 55 (277)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 588999999999999998876543
No 485
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=61.30 E-value=6.4 Score=37.56 Aligned_cols=26 Identities=19% Similarity=0.187 Sum_probs=21.8
Q ss_pred ceeeeeccCCCchhHHHHHHHHHHHc
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAVAF 280 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~~~ 280 (333)
+++++|++|.|||+++-.++..+...
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 57899999999999998887777543
No 486
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=61.29 E-value=23 Score=32.12 Aligned_cols=46 Identities=9% Similarity=0.173 Sum_probs=32.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENLNTFFQF 301 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v~tlf~f 301 (333)
...+|.|+-|.|||++.--.+...+..|..-++||.-. ..+.+.+.
T Consensus 17 ~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~--~~~~l~~~ 62 (224)
T TIGR03880 17 HVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE--REERILGY 62 (224)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC--CHHHHHHH
Confidence 46789999999999987766776666676667777755 34444433
No 487
>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=61.17 E-value=5.7 Score=34.61 Aligned_cols=24 Identities=21% Similarity=0.184 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+=+.+..+.
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~~ 52 (166)
T cd03223 29 RLLITGPSGTGKSSLFRALAGLWP 52 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 789999999999999998876544
No 488
>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=61.14 E-value=5.6 Score=35.64 Aligned_cols=24 Identities=25% Similarity=0.344 Sum_probs=20.5
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+-|.|||||+-+.+..+.
T Consensus 26 ~~~l~G~nGsGKSTLl~~l~gl~~ 49 (211)
T cd03298 26 ITAIVGPSGSGKSTLLNLIAGFET 49 (211)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999988876543
No 489
>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=61.13 E-value=5.5 Score=36.63 Aligned_cols=23 Identities=22% Similarity=0.329 Sum_probs=20.4
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 49 ~~~i~G~NGsGKSTLl~~i~Gl~ 71 (236)
T cd03267 49 IVGFIGPNGAGKTTTLKILSGLL 71 (236)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc
Confidence 68899999999999999887654
No 490
>PRK06762 hypothetical protein; Provisional
Probab=61.09 E-value=7 Score=33.54 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=20.8
Q ss_pred cceeeeeccCCCchhHHHHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~ 277 (333)
..++|+|.-|.||||++-.++..+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 357899999999999998887776
No 491
>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=60.96 E-value=5.7 Score=35.54 Aligned_cols=23 Identities=17% Similarity=0.185 Sum_probs=20.1
Q ss_pred ceeeeeccCCCchhHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~ 277 (333)
.+.|+|+-|.|||||+-+.+..+
T Consensus 36 ~~~i~G~nGsGKSTLl~~l~Gl~ 58 (207)
T cd03369 36 KIGIVGRTGAGKSTLILALFRFL 58 (207)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 68999999999999999886654
No 492
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=60.89 E-value=4.7 Score=33.67 Aligned_cols=19 Identities=26% Similarity=0.244 Sum_probs=16.2
Q ss_pred eeeeeccCCCchhHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~ 274 (333)
+++.|+.|.|||+++=-.+
T Consensus 5 i~i~G~~~~GKtsl~~~~~ 23 (164)
T cd04145 5 LVVVGGGGVGKSALTIQFI 23 (164)
T ss_pred EEEECCCCCcHHHHHHHHH
Confidence 7899999999999976443
No 493
>PRK13975 thymidylate kinase; Provisional
Probab=60.84 E-value=6.9 Score=34.43 Aligned_cols=24 Identities=17% Similarity=0.216 Sum_probs=20.9
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.++|.|..|.||||+.-+++..+-
T Consensus 4 ~I~ieG~~GsGKtT~~~~L~~~l~ 27 (196)
T PRK13975 4 FIVFEGIDGSGKTTQAKLLAEKLN 27 (196)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 478999999999999998877764
No 494
>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=60.80 E-value=4.7 Score=36.91 Aligned_cols=21 Identities=19% Similarity=0.207 Sum_probs=18.1
Q ss_pred cceeeeeccCCCchhHHHHHH
Q psy18105 254 STVSLTAARGRGKSAALGLAV 274 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~ 274 (333)
....|+|+.|.|||+++=+..
T Consensus 24 ~~~~i~GpNGsGKStll~ai~ 44 (243)
T cd03272 24 KHNVVVGRNGSGKSNFFAAIR 44 (243)
T ss_pred CcEEEECCCCCCHHHHHHHHH
Confidence 368899999999999987665
No 495
>PRK06217 hypothetical protein; Validated
Probab=60.75 E-value=6.3 Score=34.81 Aligned_cols=22 Identities=18% Similarity=0.252 Sum_probs=19.5
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
++|+|.-|.||||+.-.+++.+
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 7899999999999988887765
No 496
>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional
Probab=60.72 E-value=5.6 Score=37.19 Aligned_cols=24 Identities=25% Similarity=0.302 Sum_probs=21.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+.+....
T Consensus 30 ~~~i~G~nGsGKSTLl~~i~G~~~ 53 (258)
T PRK13548 30 VVAILGPNGAGKSTLLRALSGELS 53 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999998887643
No 497
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=60.71 E-value=20 Score=32.46 Aligned_cols=37 Identities=16% Similarity=0.216 Sum_probs=30.9
Q ss_pred cceeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCC
Q psy18105 254 STVSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSP 290 (333)
Q Consensus 254 ~~~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAP 290 (333)
....|+|+.|.|||+++=.+++..+..|..-++|++-
T Consensus 24 ~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 24 TITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 3678999999999999877777777777767899887
No 498
>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.
Probab=60.68 E-value=11 Score=36.57 Aligned_cols=22 Identities=9% Similarity=0.099 Sum_probs=18.9
Q ss_pred eeeeeccCCCchhHHHHHHHHH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGA 277 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~ 277 (333)
..|-|++|-|||+|+++.+.+.
T Consensus 72 ~gIfgg~GvGKt~L~~~i~~~~ 93 (276)
T cd01135 72 IPIFSGSGLPHNELAAQIARQA 93 (276)
T ss_pred EEeecCCCCChhHHHHHHHHhh
Confidence 6788999999999999966554
No 499
>PRK13891 conjugal transfer protein TrbE; Provisional
Probab=60.62 E-value=8.9 Score=42.57 Aligned_cols=40 Identities=20% Similarity=0.256 Sum_probs=32.4
Q ss_pred eeeeeccCCCchhHHHHHHHHHHHcCCceEEEeCCChhhH
Q psy18105 256 VSLTAARGRGKSAALGLAVAGAVAFGYSNIFVTSPSPENL 295 (333)
Q Consensus 256 ~vltA~RGRGKSallGla~a~~~~~g~~~I~VTAPs~~~v 295 (333)
..|+|+-|.|||+++...++++......+|+|-=|..+.-
T Consensus 491 ~~I~G~tGsGKS~l~~~L~~~~~k~~~~~v~i~D~~~s~~ 530 (852)
T PRK13891 491 TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMY 530 (852)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEEcCCcccc
Confidence 5899999999999999999999875444788777776443
No 500
>PRK14235 phosphate transporter ATP-binding protein; Provisional
Probab=60.55 E-value=5.8 Score=37.27 Aligned_cols=24 Identities=21% Similarity=0.122 Sum_probs=21.0
Q ss_pred ceeeeeccCCCchhHHHHHHHHHH
Q psy18105 255 TVSLTAARGRGKSAALGLAVAGAV 278 (333)
Q Consensus 255 ~~vltA~RGRGKSallGla~a~~~ 278 (333)
.+.|+|+.|.|||||+-+++..+.
T Consensus 47 ~~~i~G~nGsGKSTLl~~l~Gl~~ 70 (267)
T PRK14235 47 VTAFIGPSGCGKSTFLRCLNRMND 70 (267)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcc
Confidence 688999999999999999877653
Done!