Query 000248
Match_columns 1789
No_of_seqs 315 out of 1698
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 01:13:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000248.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000248hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1803 DNA helicase [Replicat 100.0 4.6E-33 9.9E-38 334.0 23.2 358 1257-1788 3-375 (649)
2 KOG1802 RNA helicase nonsense 100.0 5.4E-32 1.2E-36 323.5 27.2 349 1245-1789 228-586 (935)
3 TIGR00376 DNA helicase, putati 100.0 1.1E-30 2.4E-35 327.0 31.5 336 1294-1789 33-379 (637)
4 PF13086 AAA_11: AAA domain; P 100.0 3.2E-29 6.8E-34 269.5 13.9 208 1449-1788 1-209 (236)
5 PF12726 SEN1_N: SEN1 N termin 99.9 5.2E-25 1.1E-29 280.3 24.5 548 91-741 2-594 (727)
6 KOG1805 DNA replication helica 99.8 1.5E-20 3.2E-25 234.5 17.8 120 1414-1610 638-757 (1100)
7 KOG1807 Helicases [Replication 99.7 1.6E-16 3.6E-21 194.4 21.9 269 1248-1599 154-461 (1025)
8 KOG1801 tRNA-splicing endonucl 99.2 1.4E-11 3.1E-16 159.8 9.6 277 1214-1578 5-300 (827)
9 COG1112 Superfamily I DNA and 99.1 3.9E-10 8.5E-15 144.3 13.9 228 1448-1789 273-506 (767)
10 PF13245 AAA_19: Part of AAA d 99.1 1.6E-10 3.4E-15 110.1 7.5 62 1456-1576 1-62 (76)
11 PF13604 AAA_30: AAA domain; P 98.9 5.9E-09 1.3E-13 114.8 9.0 66 1449-1576 1-66 (196)
12 PRK10875 recD exonuclease V su 98.4 6.8E-07 1.5E-11 113.7 9.4 67 1451-1577 154-220 (615)
13 PF00580 UvrD-helicase: UvrD/R 98.3 8.2E-07 1.8E-11 101.2 7.8 67 1450-1578 1-67 (315)
14 TIGR01447 recD exodeoxyribonuc 98.3 1.1E-06 2.3E-11 111.6 8.6 67 1452-1577 148-214 (586)
15 KOG1806 DEAD box containing he 98.2 1.4E-06 3E-11 111.6 7.0 70 1449-1580 738-807 (1320)
16 TIGR01448 recD_rel helicase, p 98.2 3.9E-06 8.4E-11 108.9 8.7 41 1448-1496 322-362 (720)
17 KOG1804 RNA helicase [RNA proc 98.1 1.7E-06 3.8E-11 111.0 3.6 45 1732-1789 416-460 (775)
18 TIGR02768 TraA_Ti Ti-type conj 98.0 8.8E-06 1.9E-10 106.0 8.4 42 1448-1496 351-392 (744)
19 PRK10919 ATP-dependent DNA hel 97.9 1.9E-05 4.2E-10 101.9 7.5 68 1449-1578 2-69 (672)
20 PRK14712 conjugal transfer nic 97.9 2.4E-05 5.2E-10 107.3 8.3 44 1448-1497 834-877 (1623)
21 TIGR01075 uvrD DNA helicase II 97.8 2.6E-05 5.6E-10 101.3 7.6 68 1449-1578 4-71 (715)
22 PRK13889 conjugal transfer rel 97.8 3E-05 6.6E-10 103.0 8.2 39 1449-1494 346-384 (988)
23 PRK11054 helD DNA helicase IV; 97.8 2.7E-05 5.9E-10 100.6 6.9 69 1448-1578 195-263 (684)
24 PRK11773 uvrD DNA-dependent he 97.8 3.5E-05 7.6E-10 100.2 7.8 69 1448-1578 8-76 (721)
25 PRK13709 conjugal transfer nic 97.8 5.1E-05 1.1E-09 105.3 9.1 44 1448-1497 966-1009(1747)
26 TIGR01074 rep ATP-dependent DN 97.7 5E-05 1.1E-09 97.6 7.1 68 1449-1578 1-68 (664)
27 smart00487 DEXDc DEAD-like hel 97.7 0.00014 3.1E-09 75.9 8.8 71 1449-1580 8-78 (201)
28 cd00046 DEXDc DEAD-like helica 97.7 9.7E-05 2.1E-09 72.6 6.8 51 1474-1578 2-52 (144)
29 PRK13826 Dtr system oriT relax 97.6 0.00011 2.3E-09 98.6 8.3 41 1449-1496 381-421 (1102)
30 TIGR02760 TraI_TIGR conjugativ 97.5 0.00012 2.6E-09 103.6 8.0 45 1448-1498 1018-1062(1960)
31 TIGR01073 pcrA ATP-dependent D 97.5 0.00014 3E-09 94.8 7.4 68 1449-1578 4-71 (726)
32 TIGR02760 TraI_TIGR conjugativ 97.5 0.00019 4.1E-09 101.8 9.0 65 1449-1575 429-493 (1960)
33 PF05970 PIF1: PIF1-like helic 97.3 0.00029 6.3E-09 85.0 6.6 46 1449-1496 1-46 (364)
34 PF04851 ResIII: Type III rest 97.2 0.00061 1.3E-08 71.8 7.0 69 1449-1577 3-71 (184)
35 PF00270 DEAD: DEAD/DEAH box h 96.8 0.0052 1.1E-07 64.5 9.1 67 1452-1580 2-68 (169)
36 KOG0989 Replication factor C, 96.5 0.0025 5.3E-08 75.3 4.6 39 1455-1498 45-83 (346)
37 COG0210 UvrD Superfamily I DNA 96.4 0.0049 1.1E-07 79.5 6.9 68 1449-1578 2-69 (655)
38 cd00009 AAA The AAA+ (ATPases 96.4 0.005 1.1E-07 61.2 5.4 42 1451-1497 3-44 (151)
39 cd00268 DEADc DEAD-box helicas 96.3 0.018 3.9E-07 62.8 9.3 70 1449-1578 21-91 (203)
40 smart00382 AAA ATPases associa 96.1 0.0038 8.3E-08 61.1 2.7 24 1473-1496 3-26 (148)
41 PRK06851 hypothetical protein; 95.9 0.033 7.2E-07 68.0 10.2 59 1473-1585 31-89 (367)
42 PF00004 AAA: ATPase family as 95.9 0.0051 1.1E-07 61.8 2.5 22 1475-1496 1-22 (132)
43 PTZ00424 helicase 45; Provisio 95.7 0.029 6.3E-07 67.7 8.7 33 1449-1489 50-82 (401)
44 PF13191 AAA_16: AAA ATPase do 95.7 0.011 2.5E-07 62.8 4.4 45 1452-1498 6-50 (185)
45 TIGR02785 addA_Gpos recombinat 95.6 0.021 4.6E-07 79.1 7.9 67 1449-1578 1-67 (1232)
46 TIGR02928 orc1/cdc6 family rep 95.6 0.012 2.5E-07 70.3 4.7 47 1451-1498 20-66 (365)
47 PRK07952 DNA replication prote 95.5 0.026 5.7E-07 65.4 6.9 48 1451-1498 78-125 (244)
48 PHA02558 uvsW UvsW helicase; P 95.5 0.042 9.2E-07 69.4 9.2 69 1449-1580 114-182 (501)
49 PLN03025 replication factor C 95.4 0.021 4.5E-07 67.9 5.7 44 1450-1498 17-60 (319)
50 TIGR00609 recB exodeoxyribonuc 95.3 0.021 4.6E-07 78.2 6.3 56 1472-1578 9-64 (1087)
51 PRK11192 ATP-dependent RNA hel 95.3 0.059 1.3E-06 66.3 9.3 72 1449-1578 23-95 (434)
52 TIGR02881 spore_V_K stage V sp 95.3 0.02 4.3E-07 66.2 4.9 25 1473-1497 43-67 (261)
53 PRK05580 primosome assembly pr 95.1 0.062 1.3E-06 70.4 9.2 70 1448-1578 143-212 (679)
54 PRK12377 putative replication 95.1 0.018 3.8E-07 67.0 3.8 27 1473-1499 102-128 (248)
55 KOG0744 AAA+-type ATPase [Post 95.0 0.015 3.2E-07 69.3 3.0 25 1472-1496 177-201 (423)
56 cd01124 KaiC KaiC is a circadi 94.9 0.048 1E-06 58.7 6.3 24 1474-1497 1-24 (187)
57 KOG0991 Replication factor C, 94.8 0.018 4E-07 66.1 2.9 28 1472-1499 48-75 (333)
58 PF02562 PhoH: PhoH-like prote 94.8 0.053 1.1E-06 61.6 6.5 42 1449-1498 4-45 (205)
59 TIGR00643 recG ATP-dependent D 94.7 0.092 2E-06 68.2 9.3 43 1445-1489 231-273 (630)
60 PRK10536 hypothetical protein; 94.6 0.07 1.5E-06 62.6 7.0 41 1449-1497 59-99 (262)
61 cd01129 PulE-GspE PulE/GspE Th 94.6 0.044 9.6E-07 64.0 5.4 43 1449-1497 63-105 (264)
62 PRK12402 replication factor C 94.6 0.046 1E-06 64.3 5.6 43 1451-1498 20-62 (337)
63 PRK11448 hsdR type I restricti 94.5 0.071 1.5E-06 73.2 7.7 75 1450-1581 414-488 (1123)
64 PRK11776 ATP-dependent RNA hel 94.4 0.13 2.9E-06 63.9 9.3 32 1449-1488 26-57 (460)
65 PRK10917 ATP-dependent DNA hel 94.3 0.14 3.1E-06 67.2 9.8 46 1443-1490 255-300 (681)
66 PRK08181 transposase; Validate 94.3 0.049 1.1E-06 64.0 5.0 47 1449-1499 87-133 (269)
67 PF13401 AAA_22: AAA domain; P 94.3 0.03 6.5E-07 56.7 2.8 27 1472-1498 4-30 (131)
68 PRK00411 cdc6 cell division co 94.3 0.046 1E-06 66.1 4.9 27 1472-1498 55-81 (394)
69 PF07728 AAA_5: AAA domain (dy 94.2 0.032 6.9E-07 57.8 2.9 22 1475-1496 2-23 (139)
70 TIGR00604 rad3 DNA repair heli 94.2 0.14 3.1E-06 67.4 9.4 51 1556-1606 60-114 (705)
71 PF01695 IstB_IS21: IstB-like 94.1 0.036 7.8E-07 61.2 3.0 27 1473-1499 48-74 (178)
72 PRK06893 DNA replication initi 94.0 0.044 9.5E-07 62.4 3.8 28 1472-1499 39-66 (229)
73 PRK06526 transposase; Provisio 93.9 0.059 1.3E-06 62.8 4.6 27 1473-1499 99-125 (254)
74 TIGR00635 ruvB Holliday juncti 93.9 0.06 1.3E-06 63.0 4.6 24 1473-1496 31-54 (305)
75 PRK10876 recB exonuclease V su 93.9 0.086 1.9E-06 73.0 6.7 62 1472-1577 17-78 (1181)
76 PRK08084 DNA replication initi 93.9 0.086 1.9E-06 60.4 5.8 44 1450-1498 28-71 (235)
77 TIGR02533 type_II_gspE general 93.9 0.062 1.3E-06 67.9 5.0 43 1449-1497 225-267 (486)
78 PRK00254 ski2-like helicase; P 93.8 0.19 4.2E-06 66.3 9.6 67 1449-1578 23-90 (720)
79 cd01120 RecA-like_NTPases RecA 93.8 0.045 9.7E-07 56.4 3.1 24 1474-1497 1-24 (165)
80 PRK01172 ski2-like helicase; P 93.8 0.2 4.4E-06 65.5 9.5 66 1449-1578 22-87 (674)
81 PRK10590 ATP-dependent RNA hel 93.7 0.29 6.2E-06 61.2 10.2 74 1449-1578 23-97 (456)
82 TIGR00614 recQ_fam ATP-depende 93.6 0.22 4.7E-06 62.5 9.0 31 1449-1487 11-41 (470)
83 PRK11634 ATP-dependent RNA hel 93.6 0.27 5.8E-06 64.2 10.0 32 1449-1488 28-59 (629)
84 PRK04537 ATP-dependent RNA hel 93.6 0.27 5.9E-06 63.4 10.0 76 1449-1579 31-107 (572)
85 PRK11664 ATP-dependent RNA hel 93.5 0.13 2.9E-06 68.6 7.4 21 1557-1577 49-69 (812)
86 PRK00080 ruvB Holliday junctio 93.4 0.077 1.7E-06 63.3 4.4 25 1472-1496 51-75 (328)
87 PRK14974 cell division protein 93.4 0.18 3.9E-06 61.2 7.5 26 1472-1497 140-165 (336)
88 COG1061 SSL2 DNA or RNA helica 93.3 0.27 5.8E-06 61.5 9.2 71 1448-1581 35-105 (442)
89 PF05729 NACHT: NACHT domain 93.3 0.074 1.6E-06 55.3 3.7 26 1474-1499 2-27 (166)
90 TIGR01970 DEAH_box_HrpB ATP-de 93.3 0.19 4.1E-06 67.3 8.2 21 1557-1577 46-66 (819)
91 TIGR02880 cbbX_cfxQ probable R 93.3 0.06 1.3E-06 63.5 3.3 25 1474-1498 60-84 (284)
92 TIGR01650 PD_CobS cobaltochela 93.3 0.1 2.2E-06 63.1 5.2 41 1449-1496 48-88 (327)
93 TIGR01242 26Sp45 26S proteasom 93.2 0.059 1.3E-06 65.2 3.1 22 1474-1495 158-179 (364)
94 cd01131 PilT Pilus retraction 93.1 0.071 1.5E-06 59.5 3.4 26 1473-1498 2-27 (198)
95 PRK10436 hypothetical protein; 93.1 0.11 2.5E-06 65.3 5.5 43 1449-1497 201-243 (462)
96 cd01130 VirB11-like_ATPase Typ 93.0 0.14 3.1E-06 56.3 5.5 41 1449-1496 9-49 (186)
97 KOG0743 AAA+-type ATPase [Post 93.0 0.05 1.1E-06 67.4 2.1 23 1474-1496 237-259 (457)
98 PRK00440 rfc replication facto 93.0 0.14 3E-06 59.8 5.6 43 1451-1498 22-64 (319)
99 PRK08903 DnaA regulatory inact 92.9 0.16 3.5E-06 57.1 5.9 46 1449-1498 23-68 (227)
100 PHA02544 44 clamp loader, smal 92.9 0.13 2.9E-06 60.5 5.4 44 1449-1496 24-67 (316)
101 PRK08116 hypothetical protein; 92.9 0.13 2.8E-06 60.4 5.2 26 1474-1499 116-141 (268)
102 CHL00181 cbbX CbbX; Provisiona 92.8 0.13 2.7E-06 61.1 5.0 24 1474-1497 61-84 (287)
103 TIGR02538 type_IV_pilB type IV 92.8 0.13 2.8E-06 66.2 5.4 42 1449-1496 299-340 (564)
104 TIGR03420 DnaA_homol_Hda DnaA 92.7 0.17 3.6E-06 56.5 5.6 43 1450-1497 21-63 (226)
105 PF07652 Flavi_DEAD: Flaviviru 92.7 0.24 5.1E-06 53.9 6.4 23 1555-1577 32-54 (148)
106 PRK13767 ATP-dependent helicas 92.7 0.4 8.7E-06 64.8 10.0 80 1442-1577 22-105 (876)
107 TIGR01587 cas3_core CRISPR-ass 92.6 0.22 4.8E-06 59.6 6.7 23 1556-1578 29-51 (358)
108 PRK04195 replication factor C 92.6 0.12 2.6E-06 65.0 4.7 46 1450-1496 18-63 (482)
109 PRK13833 conjugal transfer pro 92.5 0.21 4.5E-06 60.4 6.4 50 1442-1498 120-170 (323)
110 PRK09401 reverse gyrase; Revie 92.4 0.38 8.2E-06 66.8 9.4 70 1447-1580 78-147 (1176)
111 PRK09183 transposase/IS protei 92.4 0.15 3.2E-06 59.6 4.8 44 1449-1497 84-127 (259)
112 PTZ00361 26 proteosome regulat 92.3 0.14 3.1E-06 64.0 4.9 23 1473-1495 218-240 (438)
113 TIGR02784 addA_alphas double-s 92.3 0.19 4.2E-06 69.4 6.6 51 1475-1578 13-63 (1141)
114 PRK04296 thymidine kinase; Pro 92.3 0.16 3.6E-06 56.3 4.8 26 1473-1498 3-28 (190)
115 TIGR00348 hsdR type I site-spe 92.3 0.28 6.2E-06 64.3 7.7 76 1451-1580 240-317 (667)
116 TIGR02397 dnaX_nterm DNA polym 92.3 0.17 3.8E-06 60.2 5.3 46 1450-1499 18-63 (355)
117 PRK11331 5-methylcytosine-spec 92.2 0.17 3.8E-06 63.4 5.4 41 1449-1496 178-218 (459)
118 PF13671 AAA_33: AAA domain; P 92.1 0.09 1.9E-06 54.2 2.4 21 1474-1494 1-21 (143)
119 PF00308 Bac_DnaA: Bacterial d 92.1 0.21 4.5E-06 56.9 5.5 49 1448-1499 13-61 (219)
120 PTZ00110 helicase; Provisional 92.1 0.56 1.2E-05 60.2 9.9 85 1439-1580 137-227 (545)
121 TIGR02640 gas_vesic_GvpN gas v 92.1 0.15 3.3E-06 59.2 4.5 22 1473-1494 22-43 (262)
122 COG1484 DnaC DNA replication p 92.1 0.13 2.9E-06 59.9 4.0 27 1472-1498 105-131 (254)
123 PLN00206 DEAD-box ATP-dependen 92.1 0.64 1.4E-05 59.3 10.2 41 1449-1497 143-184 (518)
124 PRK11057 ATP-dependent DNA hel 92.1 0.51 1.1E-05 61.3 9.5 45 1442-1496 17-62 (607)
125 PRK04837 ATP-dependent RNA hel 92.1 0.58 1.2E-05 57.8 9.6 74 1449-1577 30-104 (423)
126 TIGR00580 mfd transcription-re 92.0 0.52 1.1E-05 64.0 9.8 47 1442-1490 444-490 (926)
127 PF00448 SRP54: SRP54-type pro 92.0 0.25 5.5E-06 55.5 5.9 26 1473-1498 2-27 (196)
128 PRK13894 conjugal transfer ATP 92.0 0.26 5.7E-06 59.4 6.3 49 1442-1497 124-173 (319)
129 PF06745 KaiC: KaiC; InterPro 92.0 0.31 6.8E-06 54.8 6.6 24 1472-1495 19-42 (226)
130 PTZ00112 origin recognition co 91.9 0.16 3.5E-06 67.5 4.6 48 1451-1498 760-807 (1164)
131 PF13207 AAA_17: AAA domain; P 91.8 0.13 2.8E-06 51.8 3.1 22 1474-1495 1-22 (121)
132 PHA00729 NTP-binding motif con 91.7 0.13 2.7E-06 59.4 3.1 24 1474-1497 19-42 (226)
133 PF00910 RNA_helicase: RNA hel 91.7 0.14 3.1E-06 51.7 3.2 25 1476-1500 2-26 (107)
134 PRK06921 hypothetical protein; 91.6 0.15 3.2E-06 59.8 3.6 27 1473-1499 118-144 (266)
135 TIGR00603 rad25 DNA repair hel 91.4 0.48 1E-05 62.7 8.3 67 1449-1579 255-321 (732)
136 TIGR03015 pepcterm_ATPase puta 91.4 0.14 3E-06 58.6 3.1 25 1472-1496 43-67 (269)
137 PRK14962 DNA polymerase III su 91.4 0.24 5.1E-06 62.7 5.4 25 1474-1498 38-62 (472)
138 PF05496 RuvB_N: Holliday junc 91.4 0.23 5E-06 57.5 4.8 27 1556-1582 101-130 (233)
139 PF13481 AAA_25: AAA domain; P 91.3 0.38 8.2E-06 52.4 6.2 28 1472-1499 32-59 (193)
140 PF01443 Viral_helicase1: Vira 91.3 0.12 2.7E-06 57.6 2.5 21 1476-1496 2-22 (234)
141 PRK08533 flagellar accessory p 91.3 0.37 8E-06 55.3 6.3 26 1472-1497 24-49 (230)
142 PRK02362 ski2-like helicase; P 91.2 0.66 1.4E-05 61.6 9.4 67 1449-1579 23-90 (737)
143 TIGR01054 rgy reverse gyrase. 91.1 0.63 1.4E-05 64.7 9.4 35 1448-1490 77-111 (1171)
144 PRK10416 signal recognition pa 91.1 0.46 1E-05 57.3 7.2 27 1471-1497 113-139 (318)
145 PF03215 Rad17: Rad17 cell cyc 91.1 0.24 5.3E-06 63.2 5.1 25 1472-1496 45-69 (519)
146 smart00489 DEXDc3 DEAD-like he 91.1 0.69 1.5E-05 54.9 8.5 35 1452-1493 11-48 (289)
147 smart00488 DEXDc2 DEAD-like he 91.1 0.69 1.5E-05 54.9 8.5 35 1452-1493 11-48 (289)
148 PRK06067 flagellar accessory p 91.0 0.5 1.1E-05 53.7 7.0 25 1471-1495 24-48 (234)
149 COG3973 Superfamily I DNA and 91.0 0.38 8.3E-06 61.6 6.5 48 1442-1499 206-253 (747)
150 PRK06835 DNA replication prote 90.9 0.17 3.7E-06 61.2 3.4 27 1473-1499 184-210 (329)
151 KOG2028 ATPase related to the 90.9 0.29 6.3E-06 59.5 5.1 37 1453-1499 148-184 (554)
152 COG1474 CDC6 Cdc6-related prot 90.9 0.26 5.6E-06 60.5 4.9 25 1475-1499 45-69 (366)
153 COG4096 HsdR Type I site-speci 90.8 0.29 6.3E-06 64.4 5.4 70 1451-1577 167-236 (875)
154 TIGR01389 recQ ATP-dependent D 90.7 0.81 1.7E-05 59.1 9.3 39 1442-1488 5-44 (591)
155 TIGR03689 pup_AAA proteasome A 90.7 0.17 3.7E-06 64.5 3.2 25 1473-1497 217-241 (512)
156 TIGR03880 KaiC_arch_3 KaiC dom 90.6 0.52 1.1E-05 53.1 6.7 24 1472-1495 16-39 (224)
157 PF13238 AAA_18: AAA domain; P 90.6 0.18 3.9E-06 50.5 2.7 21 1476-1496 2-22 (129)
158 COG2804 PulE Type II secretory 90.6 0.34 7.4E-06 61.2 5.5 122 1449-1581 241-376 (500)
159 TIGR00064 ftsY signal recognit 90.6 0.63 1.4E-05 54.9 7.5 25 1473-1497 73-97 (272)
160 PRK03992 proteasome-activating 90.6 0.19 4.2E-06 61.8 3.4 23 1473-1495 166-188 (389)
161 COG2805 PilT Tfp pilus assembl 90.5 0.2 4.4E-06 59.8 3.3 28 1471-1498 124-151 (353)
162 TIGR00150 HI0065_YjeE ATPase, 90.5 0.37 8E-06 51.6 5.0 42 1452-1496 5-46 (133)
163 PRK05973 replicative DNA helic 90.5 0.5 1.1E-05 54.9 6.5 26 1472-1497 64-89 (237)
164 PRK00771 signal recognition pa 90.5 0.58 1.3E-05 58.8 7.4 28 1471-1498 94-121 (437)
165 PRK10689 transcription-repair 90.4 0.85 1.8E-05 63.3 9.6 43 1446-1490 597-639 (1147)
166 PF13476 AAA_23: AAA domain; P 90.4 0.2 4.4E-06 53.8 3.1 27 1472-1498 19-45 (202)
167 PRK14961 DNA polymerase III su 90.4 0.34 7.3E-06 59.1 5.3 26 1473-1498 39-64 (363)
168 PTZ00454 26S protease regulato 90.2 0.18 3.9E-06 62.5 2.7 22 1473-1494 180-201 (398)
169 KOG0651 26S proteasome regulat 90.2 0.21 4.5E-06 59.8 3.1 23 1471-1493 165-187 (388)
170 PRK14722 flhF flagellar biosyn 90.1 0.26 5.6E-06 60.7 3.9 29 1470-1498 135-163 (374)
171 TIGR01420 pilT_fam pilus retra 90.1 0.21 4.5E-06 60.5 3.1 26 1472-1497 122-147 (343)
172 TIGR02782 TrbB_P P-type conjug 90.0 0.42 9E-06 57.1 5.5 42 1449-1497 116-157 (299)
173 cd01122 GP4d_helicase GP4d_hel 90.0 0.56 1.2E-05 54.1 6.3 26 1472-1497 30-55 (271)
174 TIGR03877 thermo_KaiC_1 KaiC d 89.9 0.55 1.2E-05 53.8 6.2 24 1472-1495 21-44 (237)
175 PF01078 Mg_chelatase: Magnesi 89.8 0.3 6.5E-06 55.8 3.9 36 1452-1494 9-44 (206)
176 PHA02624 large T antigen; Prov 89.8 0.35 7.5E-06 62.5 4.8 39 1454-1496 417-455 (647)
177 TIGR01241 FtsH_fam ATP-depende 89.8 0.2 4.4E-06 63.3 2.8 22 1474-1495 90-111 (495)
178 PRK00149 dnaA chromosomal repl 89.8 0.45 9.8E-06 59.5 5.8 27 1473-1499 149-175 (450)
179 PLN00020 ribulose bisphosphate 89.7 0.24 5.2E-06 60.9 3.2 26 1470-1495 146-171 (413)
180 PF06309 Torsin: Torsin; Inte 89.6 0.62 1.4E-05 49.7 5.8 44 1454-1499 37-80 (127)
181 PRK09361 radB DNA repair and r 89.6 0.32 6.8E-06 54.8 3.9 27 1472-1498 23-49 (225)
182 PRK14963 DNA polymerase III su 89.5 0.38 8.2E-06 61.3 4.9 25 1474-1498 38-62 (504)
183 PRK08727 hypothetical protein; 89.5 0.3 6.4E-06 56.0 3.6 27 1473-1499 42-68 (233)
184 PRK14970 DNA polymerase III su 89.5 0.47 1E-05 57.5 5.5 45 1450-1498 21-65 (367)
185 PRK06620 hypothetical protein; 89.5 0.39 8.4E-06 54.7 4.5 20 1473-1492 45-64 (214)
186 TIGR03158 cas3_cyano CRISPR-as 89.4 1 2.2E-05 54.9 8.2 28 1454-1487 2-29 (357)
187 PF07726 AAA_3: ATPase family 89.4 0.16 3.4E-06 54.3 1.2 21 1475-1495 2-22 (131)
188 COG0470 HolB ATPase involved i 89.3 0.24 5.2E-06 57.8 2.8 26 1474-1499 26-51 (325)
189 PRK08939 primosomal protein Dn 89.3 0.27 5.8E-06 58.9 3.2 26 1474-1499 158-183 (306)
190 PRK06645 DNA polymerase III su 89.3 0.47 1E-05 60.6 5.4 28 1472-1499 43-70 (507)
191 TIGR03878 thermo_KaiC_2 KaiC d 89.3 0.32 7E-06 56.7 3.7 26 1472-1497 36-61 (259)
192 PRK01297 ATP-dependent RNA hel 89.3 1.5 3.2E-05 55.2 9.7 75 1449-1578 109-184 (475)
193 TIGR00602 rad24 checkpoint pro 89.3 0.5 1.1E-05 61.7 5.8 47 1450-1496 88-134 (637)
194 COG1199 DinG Rad3-related DNA 89.2 0.79 1.7E-05 59.7 7.6 23 1556-1578 63-85 (654)
195 TIGR02524 dot_icm_DotB Dot/Icm 89.2 0.41 9E-06 58.6 4.7 27 1472-1498 134-160 (358)
196 PF13555 AAA_29: P-loop contai 89.2 0.35 7.6E-06 45.6 3.2 26 1474-1499 25-50 (62)
197 PF03266 NTPase_1: NTPase; In 89.1 0.28 6E-06 54.0 2.9 24 1475-1498 2-25 (168)
198 PRK14956 DNA polymerase III su 89.1 0.45 9.7E-06 60.3 5.0 39 1456-1498 28-66 (484)
199 smart00763 AAA_PrkA PrkA AAA d 89.1 0.47 1E-05 58.2 5.0 25 1472-1496 78-102 (361)
200 TIGR00595 priA primosomal prot 89.0 0.54 1.2E-05 59.9 5.8 23 1556-1578 25-47 (505)
201 KOG0733 Nuclear AAA ATPase (VC 89.0 0.22 4.8E-06 63.7 2.3 23 1473-1495 224-246 (802)
202 PRK14701 reverse gyrase; Provi 89.0 1.1 2.4E-05 64.0 9.2 36 1444-1487 74-109 (1638)
203 PRK05642 DNA replication initi 89.0 0.64 1.4E-05 53.4 5.8 26 1473-1498 46-71 (234)
204 PF00931 NB-ARC: NB-ARC domain 88.9 0.5 1.1E-05 54.4 4.9 41 1452-1495 2-42 (287)
205 cd01394 radB RadB. The archaea 88.8 0.38 8.2E-06 53.8 3.7 27 1472-1498 19-45 (218)
206 PRK13342 recombination factor 88.8 0.34 7.3E-06 60.0 3.6 22 1473-1494 37-58 (413)
207 TIGR00362 DnaA chromosomal rep 88.7 0.58 1.3E-05 57.6 5.6 27 1473-1499 137-163 (405)
208 TIGR00678 holB DNA polymerase 88.6 0.5 1.1E-05 51.8 4.5 28 1472-1499 14-41 (188)
209 PF09848 DUF2075: Uncharacteri 88.4 0.69 1.5E-05 56.1 5.8 24 1473-1496 2-25 (352)
210 TIGR01360 aden_kin_iso1 adenyl 88.4 0.4 8.7E-06 51.7 3.5 23 1473-1495 4-26 (188)
211 TIGR03499 FlhF flagellar biosy 88.3 0.39 8.4E-06 56.8 3.6 28 1471-1498 193-220 (282)
212 PRK13341 recombination factor 88.3 0.47 1E-05 62.9 4.7 23 1473-1495 53-75 (725)
213 TIGR02237 recomb_radB DNA repa 88.2 0.44 9.5E-06 52.9 3.8 27 1472-1498 12-38 (209)
214 PRK13531 regulatory ATPase Rav 88.2 0.38 8.2E-06 61.0 3.6 24 1473-1496 40-63 (498)
215 cd03115 SRP The signal recogni 88.2 0.43 9.4E-06 51.5 3.6 25 1474-1498 2-26 (173)
216 cd01393 recA_like RecA is a b 88.2 0.42 9E-06 53.5 3.6 28 1471-1498 18-45 (226)
217 PHA02244 ATPase-like protein 88.1 0.56 1.2E-05 57.8 4.8 22 1474-1495 121-142 (383)
218 COG2256 MGS1 ATPase related to 88.1 0.33 7.2E-06 59.9 2.8 14 1474-1487 50-63 (436)
219 TIGR01359 UMP_CMP_kin_fam UMP- 88.0 0.37 8E-06 52.2 2.9 21 1474-1494 1-21 (183)
220 PRK12723 flagellar biosynthesi 87.9 1.1 2.3E-05 55.7 7.1 27 1471-1497 173-199 (388)
221 PHA02653 RNA helicase NPH-II; 87.8 1.6 3.5E-05 57.7 9.0 23 1556-1578 222-244 (675)
222 PRK14957 DNA polymerase III su 87.8 0.61 1.3E-05 60.1 5.1 26 1473-1498 39-64 (546)
223 CHL00195 ycf46 Ycf46; Provisio 87.8 0.36 7.7E-06 61.4 3.0 23 1473-1495 260-282 (489)
224 PRK14958 DNA polymerase III su 87.7 0.64 1.4E-05 59.4 5.2 43 1453-1499 23-65 (509)
225 COG0467 RAD55 RecA-superfamily 87.7 0.49 1.1E-05 54.7 3.8 28 1472-1499 23-50 (260)
226 COG1223 Predicted ATPase (AAA+ 87.6 0.33 7.1E-06 57.1 2.3 21 1473-1493 152-172 (368)
227 COG5192 BMS1 GTP-binding prote 87.6 0.41 8.8E-06 60.3 3.2 27 1474-1500 71-97 (1077)
228 TIGR01425 SRP54_euk signal rec 87.5 0.91 2E-05 57.0 6.2 26 1472-1497 100-125 (429)
229 PRK14955 DNA polymerase III su 87.5 0.65 1.4E-05 57.4 4.9 26 1473-1498 39-64 (397)
230 TIGR02525 plasmid_TraJ plasmid 87.3 0.46 1E-05 58.5 3.5 26 1473-1498 150-175 (372)
231 COG2255 RuvB Holliday junction 87.1 0.59 1.3E-05 55.7 4.0 42 1442-1487 25-67 (332)
232 PRK11889 flhF flagellar biosyn 86.9 2.1 4.6E-05 53.5 8.7 26 1472-1497 241-266 (436)
233 cd00984 DnaB_C DnaB helicase C 86.9 0.58 1.2E-05 53.0 3.7 27 1473-1499 14-40 (242)
234 PRK14949 DNA polymerase III su 86.7 0.63 1.4E-05 62.6 4.5 26 1473-1498 39-64 (944)
235 COG0714 MoxR-like ATPases [Gen 86.7 0.79 1.7E-05 55.0 5.0 39 1451-1496 29-67 (329)
236 PRK14952 DNA polymerase III su 86.6 0.78 1.7E-05 59.6 5.1 42 1453-1498 20-61 (584)
237 PF00437 T2SE: Type II/IV secr 86.6 0.4 8.8E-06 55.5 2.4 25 1472-1496 127-151 (270)
238 PRK14969 DNA polymerase III su 86.5 0.79 1.7E-05 58.8 5.1 44 1451-1498 21-64 (527)
239 TIGR00959 ffh signal recogniti 86.5 1.5 3.2E-05 55.2 7.2 26 1472-1497 99-124 (428)
240 PRK13766 Hef nuclease; Provisi 86.4 1.8 3.9E-05 57.6 8.5 37 1452-1497 18-54 (773)
241 PF13173 AAA_14: AAA domain 86.4 0.63 1.4E-05 48.3 3.4 25 1473-1497 3-27 (128)
242 PRK08233 hypothetical protein; 86.3 0.48 1E-05 50.9 2.6 24 1473-1496 4-27 (182)
243 TIGR01618 phage_P_loop phage n 86.3 0.46 9.9E-06 54.7 2.5 23 1470-1492 10-32 (220)
244 PRK13909 putative recombinatio 86.2 1 2.2E-05 61.2 6.2 49 1477-1578 3-51 (910)
245 COG1222 RPT1 ATP-dependent 26S 86.2 0.42 9.2E-06 58.3 2.3 20 1473-1492 186-205 (406)
246 PF12774 AAA_6: Hydrolytic ATP 86.1 0.61 1.3E-05 54.0 3.5 33 1456-1495 23-55 (231)
247 TIGR02655 circ_KaiC circadian 86.1 1.2 2.5E-05 56.6 6.2 27 1472-1498 263-289 (484)
248 PRK04328 hypothetical protein; 86.0 1.5 3.3E-05 50.9 6.6 24 1472-1495 23-46 (249)
249 PRK00131 aroK shikimate kinase 86.0 0.71 1.5E-05 49.0 3.6 23 1473-1495 5-27 (175)
250 TIGR03881 KaiC_arch_4 KaiC dom 85.9 0.71 1.5E-05 52.0 3.8 27 1472-1498 20-46 (229)
251 PRK12726 flagellar biosynthesi 85.9 1.5 3.3E-05 54.5 6.8 28 1471-1498 205-232 (407)
252 PRK14964 DNA polymerase III su 85.9 1 2.2E-05 57.5 5.5 43 1452-1498 19-61 (491)
253 PRK05896 DNA polymerase III su 85.8 0.97 2.1E-05 58.8 5.4 42 1454-1499 24-65 (605)
254 PRK14960 DNA polymerase III su 85.6 1 2.2E-05 59.1 5.4 40 1455-1498 24-63 (702)
255 PRK12323 DNA polymerase III su 85.5 0.97 2.1E-05 59.2 5.1 43 1452-1498 22-64 (700)
256 PF13521 AAA_28: AAA domain; P 85.4 0.42 9E-06 51.2 1.6 20 1476-1495 3-22 (163)
257 CHL00176 ftsH cell division pr 85.3 0.57 1.2E-05 61.3 3.0 22 1473-1494 217-238 (638)
258 PRK05541 adenylylsulfate kinas 85.3 0.83 1.8E-05 49.5 3.8 28 1470-1497 5-32 (176)
259 PRK05480 uridine/cytidine kina 85.3 0.73 1.6E-05 51.4 3.5 26 1471-1496 5-30 (209)
260 PRK14088 dnaA chromosomal repl 85.2 1.1 2.5E-05 56.1 5.5 26 1474-1499 132-157 (440)
261 PHA02774 E1; Provisional 85.2 0.97 2.1E-05 58.4 4.9 24 1473-1496 435-458 (613)
262 TIGR03817 DECH_helic helicase/ 85.1 3.3 7.2E-05 55.4 9.9 77 1442-1580 25-105 (742)
263 PF00176 SNF2_N: SNF2 family N 85.1 2.2 4.7E-05 49.1 7.3 46 1454-1499 2-52 (299)
264 cd02019 NK Nucleoside/nucleoti 85.1 0.78 1.7E-05 43.1 3.1 22 1475-1496 2-23 (69)
265 PF01637 Arch_ATPase: Archaeal 84.9 0.77 1.7E-05 50.4 3.4 25 1472-1496 20-44 (234)
266 PRK05703 flhF flagellar biosyn 84.8 0.75 1.6E-05 57.5 3.6 26 1472-1497 221-246 (424)
267 cd01121 Sms Sms (bacterial rad 84.7 1.7 3.8E-05 53.6 6.6 27 1472-1498 82-108 (372)
268 TIGR01313 therm_gnt_kin carboh 84.6 0.62 1.3E-05 49.7 2.5 19 1476-1494 2-20 (163)
269 PRK09111 DNA polymerase III su 84.6 1.1 2.3E-05 58.5 5.0 45 1451-1499 29-73 (598)
270 cd01123 Rad51_DMC1_radA Rad51_ 84.6 0.79 1.7E-05 51.6 3.4 25 1471-1495 18-42 (235)
271 PRK13407 bchI magnesium chelat 84.6 0.9 1.9E-05 55.3 4.0 23 1474-1496 31-53 (334)
272 COG0464 SpoVK ATPases of the A 84.6 0.63 1.4E-05 58.7 2.9 23 1472-1494 276-298 (494)
273 PRK11823 DNA repair protein Ra 84.5 1.7 3.6E-05 54.9 6.5 26 1472-1497 80-105 (446)
274 PRK14950 DNA polymerase III su 84.3 1.2 2.6E-05 57.9 5.2 44 1451-1498 21-64 (585)
275 COG1224 TIP49 DNA helicase TIP 84.3 0.72 1.6E-05 56.3 3.0 27 1472-1498 65-91 (450)
276 PRK14087 dnaA chromosomal repl 84.3 1.4 3E-05 55.7 5.6 27 1473-1499 142-168 (450)
277 PF02492 cobW: CobW/HypB/UreG, 84.3 0.67 1.5E-05 50.9 2.6 22 1473-1494 1-22 (178)
278 PRK13900 type IV secretion sys 84.2 1.1 2.3E-05 54.6 4.5 24 1473-1496 161-184 (332)
279 PRK13851 type IV secretion sys 84.2 0.99 2.2E-05 55.2 4.2 39 1451-1496 148-186 (344)
280 TIGR01967 DEAH_box_HrpA ATP-de 84.2 1.8 3.9E-05 60.6 7.0 31 1455-1492 72-102 (1283)
281 PRK06647 DNA polymerase III su 84.2 1.2 2.6E-05 57.7 5.2 44 1452-1499 22-65 (563)
282 PRK07133 DNA polymerase III su 84.2 1.2 2.6E-05 59.0 5.2 44 1452-1499 24-67 (725)
283 PF05673 DUF815: Protein of un 84.1 0.78 1.7E-05 53.8 3.1 27 1473-1499 53-79 (249)
284 PRK08691 DNA polymerase III su 83.9 1.3 2.7E-05 58.6 5.2 44 1452-1499 22-65 (709)
285 PRK12422 chromosomal replicati 83.9 0.77 1.7E-05 57.8 3.2 25 1474-1498 143-167 (445)
286 PRK09302 circadian clock prote 83.9 1.9 4.1E-05 54.9 6.7 25 1472-1496 273-297 (509)
287 PRK14527 adenylate kinase; Pro 83.8 0.99 2.1E-05 49.9 3.7 23 1471-1493 5-27 (191)
288 TIGR02322 phosphon_PhnN phosph 83.8 0.81 1.8E-05 49.6 3.0 23 1473-1495 2-24 (179)
289 PRK14951 DNA polymerase III su 83.6 1.3 2.9E-05 57.9 5.2 42 1453-1498 23-64 (618)
290 TIGR00750 lao LAO/AO transport 83.5 0.95 2.1E-05 53.9 3.6 30 1470-1499 32-61 (300)
291 PF12775 AAA_7: P-loop contain 83.5 0.79 1.7E-05 54.1 2.9 21 1474-1494 35-55 (272)
292 PRK08074 bifunctional ATP-depe 83.4 2.8 6.2E-05 57.3 8.4 40 1449-1497 257-299 (928)
293 TIGR00763 lon ATP-dependent pr 83.4 0.83 1.8E-05 61.1 3.4 24 1473-1496 348-371 (775)
294 PRK14965 DNA polymerase III su 83.4 1.3 2.9E-05 57.4 5.1 45 1451-1499 21-65 (576)
295 TIGR01243 CDC48 AAA family ATP 83.3 0.89 1.9E-05 60.3 3.6 22 1473-1494 213-234 (733)
296 KOG0738 AAA+-type ATPase [Post 83.3 0.68 1.5E-05 57.0 2.2 20 1473-1492 246-265 (491)
297 TIGR02030 BchI-ChlI magnesium 83.2 1.4 2.9E-05 53.9 4.8 24 1473-1496 26-49 (337)
298 cd02021 GntK Gluconate kinase 83.1 0.83 1.8E-05 48.0 2.6 20 1474-1493 1-20 (150)
299 PRK06762 hypothetical protein; 82.9 1 2.2E-05 48.3 3.2 23 1473-1495 3-25 (166)
300 PRK14948 DNA polymerase III su 82.9 1.3 2.8E-05 58.1 4.7 26 1474-1499 40-65 (620)
301 PF06414 Zeta_toxin: Zeta toxi 82.9 0.92 2E-05 50.6 3.0 26 1471-1496 14-39 (199)
302 PRK04040 adenylate kinase; Pro 82.9 0.97 2.1E-05 50.5 3.2 24 1473-1496 3-26 (188)
303 TIGR03117 cas_csf4 CRISPR-asso 82.8 3.3 7.1E-05 54.5 8.2 22 1556-1577 46-67 (636)
304 PRK07003 DNA polymerase III su 82.8 1.5 3.2E-05 58.3 5.2 40 1455-1498 25-64 (830)
305 PF14532 Sigma54_activ_2: Sigm 82.8 0.65 1.4E-05 48.8 1.6 15 1473-1487 22-36 (138)
306 PRK10865 protein disaggregatio 82.5 1.5 3.3E-05 59.4 5.3 26 1473-1498 599-624 (857)
307 PF06068 TIP49: TIP49 C-termin 82.5 0.67 1.5E-05 57.0 1.8 26 1472-1497 50-75 (398)
308 PRK04301 radA DNA repair and r 82.4 1 2.2E-05 54.0 3.3 25 1472-1496 102-126 (317)
309 PRK09112 DNA polymerase III su 82.4 1.7 3.6E-05 53.3 5.2 44 1452-1499 29-72 (351)
310 cd01428 ADK Adenylate kinase ( 82.3 0.93 2E-05 49.3 2.7 18 1475-1492 2-19 (194)
311 PRK07940 DNA polymerase III su 82.2 1.5 3.3E-05 54.5 4.8 27 1473-1499 37-63 (394)
312 TIGR02236 recomb_radA DNA repa 82.1 1.1 2.4E-05 53.3 3.4 24 1472-1495 95-118 (310)
313 PF01580 FtsK_SpoIIIE: FtsK/Sp 82.1 1.1 2.3E-05 49.9 3.1 26 1474-1499 40-65 (205)
314 PRK13764 ATPase; Provisional 82.1 1 2.2E-05 58.6 3.4 26 1473-1498 258-283 (602)
315 TIGR01407 dinG_rel DnaQ family 82.1 3.6 7.8E-05 55.8 8.5 32 1449-1487 245-279 (850)
316 KOG0731 AAA+-type ATPase conta 82.0 0.79 1.7E-05 60.6 2.3 43 1442-1493 323-365 (774)
317 PRK00889 adenylylsulfate kinas 82.0 1.3 2.8E-05 48.0 3.6 26 1472-1497 4-29 (175)
318 cd02023 UMPK Uridine monophosp 82.0 1.1 2.3E-05 49.7 3.0 23 1474-1496 1-23 (198)
319 PRK09694 helicase Cas3; Provis 81.8 3.3 7.1E-05 56.4 7.9 41 1449-1497 286-326 (878)
320 PF13479 AAA_24: AAA domain 81.7 0.76 1.7E-05 52.0 1.8 19 1474-1492 5-23 (213)
321 PRK05563 DNA polymerase III su 81.6 1.8 3.9E-05 56.0 5.3 27 1473-1499 39-65 (559)
322 PRK14531 adenylate kinase; Pro 81.6 1.1 2.4E-05 49.3 2.9 19 1474-1492 4-22 (183)
323 KOG0741 AAA+-type ATPase [Post 81.6 1.1 2.3E-05 57.0 3.1 27 1476-1503 260-286 (744)
324 TIGR00235 udk uridine kinase. 81.4 1.2 2.7E-05 49.8 3.3 26 1470-1495 4-29 (207)
325 cd02027 APSK Adenosine 5'-phos 81.3 1.2 2.6E-05 47.7 3.1 24 1474-1497 1-24 (149)
326 PRK07994 DNA polymerase III su 81.3 1.9 4.2E-05 56.6 5.4 40 1456-1499 26-65 (647)
327 PLN02200 adenylate kinase fami 81.3 1.3 2.8E-05 51.3 3.5 22 1472-1493 43-64 (234)
328 PRK10867 signal recognition pa 81.3 1.3 2.9E-05 55.6 3.9 28 1472-1499 100-127 (433)
329 COG1936 Predicted nucleotide k 81.1 1.1 2.3E-05 50.3 2.6 20 1474-1494 2-21 (180)
330 PRK06305 DNA polymerase III su 81.1 1.9 4.1E-05 54.5 5.1 27 1473-1499 40-66 (451)
331 CHL00081 chlI Mg-protoporyphyr 81.0 1.9 4.2E-05 52.9 5.0 39 1454-1497 25-63 (350)
332 PRK13768 GTPase; Provisional 81.0 1.3 2.8E-05 51.7 3.4 25 1474-1498 4-28 (253)
333 TIGR02903 spore_lon_C ATP-depe 80.9 1.9 4.1E-05 56.5 5.1 22 1473-1494 176-197 (615)
334 TIGR02012 tigrfam_recA protein 80.9 1.4 3.1E-05 53.4 3.8 27 1472-1498 55-81 (321)
335 PRK08118 topology modulation p 80.8 1.2 2.6E-05 48.8 2.8 14 1475-1488 4-17 (167)
336 COG0552 FtsY Signal recognitio 80.8 2 4.4E-05 52.2 5.0 28 1471-1498 138-165 (340)
337 TIGR00176 mobB molybdopterin-g 80.7 1.3 2.8E-05 48.1 3.1 24 1475-1498 2-25 (155)
338 cd01983 Fer4_NifH The Fer4_Nif 80.7 1.5 3.2E-05 41.2 3.1 24 1475-1498 2-25 (99)
339 PRK14954 DNA polymerase III su 80.7 2 4.2E-05 56.4 5.2 27 1473-1499 39-65 (620)
340 PF07088 GvpD: GvpD gas vesicl 80.6 0.73 1.6E-05 56.9 1.2 27 1473-1499 11-37 (484)
341 PF04665 Pox_A32: Poxvirus A32 80.5 1.8 3.9E-05 50.7 4.3 21 1476-1496 17-37 (241)
342 TIGR02655 circ_KaiC circadian 80.5 1.3 2.7E-05 56.4 3.3 24 1472-1495 21-44 (484)
343 TIGR00764 lon_rel lon-related 80.4 1.6 3.5E-05 57.0 4.3 24 1473-1496 38-61 (608)
344 cd01125 repA Hexameric Replica 80.4 1.3 2.8E-05 50.7 3.1 25 1474-1498 3-27 (239)
345 PRK13947 shikimate kinase; Pro 80.4 1.3 2.7E-05 47.6 2.8 17 1475-1491 4-20 (171)
346 PF12846 AAA_10: AAA-like doma 80.4 1.4 3E-05 50.5 3.3 26 1474-1499 3-28 (304)
347 PRK06547 hypothetical protein; 80.4 1.7 3.7E-05 48.1 3.9 26 1470-1495 13-38 (172)
348 PRK12724 flagellar biosynthesi 80.3 1.4 3E-05 55.4 3.5 25 1473-1497 224-248 (432)
349 PRK08451 DNA polymerase III su 80.3 2.1 4.5E-05 55.3 5.1 41 1455-1499 23-63 (535)
350 TIGR00416 sms DNA repair prote 80.2 3.1 6.7E-05 52.7 6.5 27 1472-1498 94-120 (454)
351 PLN03137 ATP-dependent DNA hel 80.1 5.1 0.00011 55.5 8.8 40 1448-1497 459-498 (1195)
352 PRK03839 putative kinase; Prov 80.1 1.4 3.1E-05 47.9 3.2 17 1475-1491 3-19 (180)
353 PRK06696 uridine kinase; Valid 80.0 2.6 5.6E-05 47.9 5.3 26 1471-1496 21-46 (223)
354 PRK06851 hypothetical protein; 80.0 1.5 3.2E-05 54.2 3.5 27 1473-1499 215-241 (367)
355 PTZ00202 tuzin; Provisional 79.9 2.1 4.5E-05 54.1 4.8 41 1453-1495 269-309 (550)
356 PRK09435 membrane ATPase/prote 79.9 2.4 5.2E-05 51.8 5.2 29 1471-1499 55-83 (332)
357 PRK14528 adenylate kinase; Pro 79.9 1.3 2.9E-05 49.0 2.9 19 1474-1492 3-21 (186)
358 PF00485 PRK: Phosphoribulokin 79.9 1.4 3.1E-05 48.8 3.1 24 1474-1497 1-24 (194)
359 PRK07667 uridine kinase; Provi 79.8 2.4 5.3E-05 47.2 4.9 25 1472-1496 17-41 (193)
360 PRK14532 adenylate kinase; Pro 79.7 1.2 2.7E-05 48.6 2.6 15 1475-1489 3-17 (188)
361 PF00005 ABC_tran: ABC transpo 79.6 1.1 2.3E-05 46.3 1.9 23 1472-1494 11-33 (137)
362 TIGR02902 spore_lonB ATP-depen 79.5 2.1 4.5E-05 55.1 4.8 22 1473-1494 87-108 (531)
363 PRK05342 clpX ATP-dependent pr 79.4 1.4 2.9E-05 55.2 3.0 22 1473-1494 109-130 (412)
364 PRK02496 adk adenylate kinase; 79.3 1.4 3.1E-05 48.1 2.9 19 1475-1493 4-22 (184)
365 cd00227 CPT Chloramphenicol (C 79.2 1.7 3.7E-05 47.3 3.5 23 1473-1495 3-25 (175)
366 KOG1942 DNA helicase, TBP-inte 79.2 1.4 3.1E-05 52.6 2.9 27 1473-1499 65-91 (456)
367 PRK10865 protein disaggregatio 79.2 1.4 3.1E-05 59.6 3.4 27 1472-1498 199-225 (857)
368 PRK01184 hypothetical protein; 79.0 1.4 3.1E-05 48.0 2.8 15 1474-1488 3-17 (184)
369 COG1074 RecB ATP-dependent exo 78.8 3 6.5E-05 58.3 6.3 54 1473-1577 17-70 (1139)
370 PRK07261 topology modulation p 78.7 1.6 3.4E-05 48.0 2.9 19 1475-1493 3-21 (171)
371 PF03205 MobB: Molybdopterin g 78.7 1.9 4E-05 46.3 3.4 26 1474-1499 2-27 (140)
372 PRK14959 DNA polymerase III su 78.6 2.4 5.3E-05 55.5 5.0 26 1473-1498 39-64 (624)
373 PRK07471 DNA polymerase III su 78.5 2.9 6.3E-05 51.5 5.5 42 1455-1500 28-69 (365)
374 TIGR01243 CDC48 AAA family ATP 78.5 1.3 2.9E-05 58.8 2.8 20 1475-1494 490-509 (733)
375 cd02020 CMPK Cytidine monophos 78.4 1.7 3.8E-05 44.8 3.0 20 1475-1494 2-21 (147)
376 PF02399 Herpes_ori_bp: Origin 78.2 4.4 9.4E-05 54.3 7.1 57 1470-1581 47-103 (824)
377 cd00983 recA RecA is a bacter 78.1 2 4.3E-05 52.3 3.8 27 1472-1498 55-81 (325)
378 PRK09087 hypothetical protein; 78.1 2.1 4.5E-05 49.3 3.8 22 1472-1493 44-65 (226)
379 PRK10463 hydrogenase nickel in 78.0 3 6.4E-05 50.2 5.1 44 1450-1498 87-130 (290)
380 PF00406 ADK: Adenylate kinase 78.0 1.5 3.3E-05 46.5 2.5 18 1477-1494 1-18 (151)
381 COG1198 PriA Primosomal protei 77.9 5.4 0.00012 53.2 7.9 47 1449-1499 198-244 (730)
382 PRK06995 flhF flagellar biosyn 77.9 1.9 4.1E-05 55.0 3.7 27 1472-1498 256-282 (484)
383 COG0507 RecD ATP-dependent exo 77.9 3.9 8.5E-05 54.1 6.7 44 1448-1499 318-361 (696)
384 PF13177 DNA_pol3_delta2: DNA 77.7 3.2 7E-05 45.3 5.0 28 1472-1499 19-46 (162)
385 PF08477 Miro: Miro-like prote 77.7 1.8 4E-05 43.1 2.9 21 1475-1495 2-22 (119)
386 KOG0990 Replication factor C, 77.6 1 2.2E-05 54.4 1.2 26 1473-1498 63-88 (360)
387 PRK14953 DNA polymerase III su 77.4 3 6.4E-05 53.3 5.2 25 1473-1497 39-63 (486)
388 PRK13765 ATP-dependent proteas 77.3 2.6 5.6E-05 55.5 4.8 24 1473-1496 51-74 (637)
389 PRK00300 gmk guanylate kinase; 77.3 1.9 4.2E-05 47.6 3.2 24 1471-1494 4-27 (205)
390 COG1102 Cmk Cytidylate kinase 77.3 1.4 3E-05 49.1 2.0 20 1475-1499 3-22 (179)
391 PRK14530 adenylate kinase; Pro 77.3 2 4.4E-05 48.4 3.4 19 1474-1492 5-23 (215)
392 COG0419 SbcC ATPase involved i 77.0 1.8 3.9E-05 58.9 3.4 30 1472-1501 25-54 (908)
393 cd03112 CobW_like The function 76.9 1.9 4E-05 46.8 2.8 23 1473-1495 1-23 (158)
394 cd02025 PanK Pantothenate kina 76.8 1.9 4E-05 49.4 3.0 22 1475-1496 2-23 (220)
395 CHL00095 clpC Clp protease ATP 76.8 3 6.4E-05 56.4 5.2 43 1451-1498 184-226 (821)
396 PRK14086 dnaA chromosomal repl 76.7 4.2 9E-05 53.3 6.3 26 1474-1499 316-341 (617)
397 CHL00206 ycf2 Ycf2; Provisiona 76.7 1.6 3.4E-05 62.5 2.7 21 1474-1494 1632-1652(2281)
398 TIGR03346 chaperone_ClpB ATP-d 76.7 3 6.4E-05 56.6 5.2 27 1472-1498 595-621 (852)
399 PRK15455 PrkA family serine pr 76.6 3 6.6E-05 54.2 5.0 26 1471-1496 102-127 (644)
400 TIGR02639 ClpA ATP-dependent C 76.3 1.8 3.9E-05 57.6 3.1 25 1475-1499 206-230 (731)
401 PRK07246 bifunctional ATP-depe 76.3 7.4 0.00016 52.8 8.6 32 1449-1487 245-279 (820)
402 COG3854 SpoIIIAA ncharacterize 76.2 2.1 4.5E-05 50.1 3.0 20 1475-1494 140-159 (308)
403 PRK05439 pantothenate kinase; 76.1 3.8 8.3E-05 49.7 5.4 28 1470-1498 84-111 (311)
404 TIGR03346 chaperone_ClpB ATP-d 76.0 2 4.4E-05 58.2 3.4 27 1472-1498 194-220 (852)
405 KOG3347 Predicted nucleotide k 76.0 2 4.4E-05 47.3 2.8 20 1474-1493 9-28 (176)
406 TIGR00554 panK_bact pantothena 76.0 3.7 8E-05 49.3 5.2 28 1470-1498 60-87 (290)
407 cd02028 UMPK_like Uridine mono 75.7 2.2 4.8E-05 47.2 3.1 24 1474-1497 1-24 (179)
408 TIGR00382 clpX endopeptidase C 75.6 2.1 4.5E-05 53.7 3.1 22 1473-1494 117-138 (413)
409 KOG0727 26S proteasome regulat 75.5 1.8 3.8E-05 50.9 2.3 21 1472-1492 189-209 (408)
410 PF01745 IPT: Isopentenyl tran 75.5 1.9 4E-05 50.0 2.4 22 1473-1494 2-23 (233)
411 PRK07764 DNA polymerase III su 75.4 3.3 7.2E-05 56.0 5.1 26 1473-1498 38-63 (824)
412 PHA02530 pseT polynucleotide k 75.4 1.9 4.2E-05 50.5 2.7 23 1473-1495 3-25 (300)
413 KOG0734 AAA+-type ATPase conta 75.4 1.6 3.5E-05 55.5 2.1 22 1473-1494 338-359 (752)
414 KOG0736 Peroxisome assembly fa 75.3 2.7 5.9E-05 55.5 4.1 26 1470-1495 429-454 (953)
415 PRK09354 recA recombinase A; P 75.3 2.6 5.7E-05 51.8 3.8 27 1472-1498 60-86 (349)
416 TIGR03345 VI_ClpV1 type VI sec 75.3 3.7 7.9E-05 55.8 5.5 27 1472-1498 596-622 (852)
417 TIGR03263 guanyl_kin guanylate 75.2 2.2 4.9E-05 46.1 2.9 22 1473-1494 2-23 (180)
418 PRK05564 DNA polymerase III su 75.2 3.9 8.5E-05 48.8 5.2 44 1452-1499 10-53 (313)
419 cd00464 SK Shikimate kinase (S 75.1 2.3 5E-05 44.5 2.9 17 1476-1492 3-19 (154)
420 COG0606 Predicted ATPase with 75.1 1.2 2.6E-05 56.2 0.9 19 1475-1493 201-219 (490)
421 PRK10751 molybdopterin-guanine 75.1 2.6 5.7E-05 47.1 3.4 27 1472-1498 6-32 (173)
422 TIGR03574 selen_PSTK L-seryl-t 74.9 2.3 4.9E-05 49.0 3.0 22 1475-1496 2-23 (249)
423 PRK10078 ribose 1,5-bisphospho 74.9 2.2 4.7E-05 47.1 2.8 20 1473-1492 3-22 (186)
424 PRK00279 adk adenylate kinase; 74.8 2.2 4.8E-05 48.1 2.9 16 1475-1490 3-18 (215)
425 PRK12608 transcription termina 74.8 2.4 5.2E-05 52.6 3.3 26 1474-1499 135-160 (380)
426 KOG1970 Checkpoint RAD17-RFC c 74.8 2.2 4.9E-05 54.6 3.1 25 1472-1496 110-134 (634)
427 TIGR00455 apsK adenylylsulfate 74.7 2.8 6.1E-05 45.9 3.6 26 1472-1497 18-43 (184)
428 TIGR02688 conserved hypothetic 74.7 1.9 4.1E-05 54.2 2.4 21 1475-1495 212-232 (449)
429 PRK11131 ATP-dependent RNA hel 74.5 5.6 0.00012 56.0 6.9 31 1455-1492 79-109 (1294)
430 PRK14738 gmk guanylate kinase; 74.3 2.5 5.4E-05 47.7 3.1 23 1471-1493 12-34 (206)
431 TIGR01351 adk adenylate kinase 74.1 2.2 4.8E-05 47.9 2.6 18 1475-1492 2-19 (210)
432 PF05127 Helicase_RecD: Helica 74.0 0.86 1.9E-05 51.0 -0.6 21 1557-1577 27-47 (177)
433 TIGR00368 Mg chelatase-related 74.0 3 6.5E-05 53.5 4.0 36 1452-1494 198-233 (499)
434 TIGR02621 cas3_GSU0051 CRISPR- 74.0 6.8 0.00015 53.1 7.4 35 1448-1489 14-48 (844)
435 PRK11034 clpA ATP-dependent Cl 74.0 3.9 8.6E-05 54.8 5.2 23 1473-1495 489-511 (758)
436 PRK11747 dinG ATP-dependent DN 73.9 7.3 0.00016 51.9 7.6 70 1450-1576 26-98 (697)
437 cd04163 Era Era subfamily. Er 73.9 2.2 4.7E-05 43.7 2.3 22 1473-1494 4-25 (168)
438 TIGR02788 VirB11 P-type DNA tr 73.8 3.3 7.1E-05 49.7 4.1 23 1473-1495 145-167 (308)
439 PRK13695 putative NTPase; Prov 73.8 2.7 5.9E-05 45.7 3.1 23 1475-1497 3-25 (174)
440 PLN03187 meiotic recombination 73.7 2.3 5.1E-05 52.1 2.9 22 1471-1492 125-146 (344)
441 KOG0962 DNA repair protein RAD 73.7 2.1 4.5E-05 59.3 2.6 24 1473-1496 28-51 (1294)
442 TIGR02238 recomb_DMC1 meiotic 73.7 2.4 5.1E-05 51.3 2.9 23 1471-1493 95-117 (313)
443 TIGR00041 DTMP_kinase thymidyl 73.6 2.9 6.2E-05 45.9 3.3 24 1473-1496 4-27 (195)
444 PRK05707 DNA polymerase III su 73.5 2.2 4.8E-05 51.8 2.6 27 1473-1499 23-49 (328)
445 PRK12337 2-phosphoglycerate ki 73.5 4.7 0.0001 51.4 5.4 26 1471-1496 254-279 (475)
446 TIGR00390 hslU ATP-dependent p 73.4 2.8 6E-05 52.8 3.4 23 1473-1495 48-70 (441)
447 PRK12727 flagellar biosynthesi 73.3 3.1 6.8E-05 53.6 3.9 28 1471-1498 349-376 (559)
448 PF02463 SMC_N: RecF/RecN/SMC 73.2 2.6 5.6E-05 47.2 2.9 25 1472-1496 24-48 (220)
449 PRK13975 thymidylate kinase; P 73.1 2.9 6.3E-05 45.9 3.2 23 1473-1495 3-25 (196)
450 PF00519 PPV_E1_C: Papillomavi 73.1 4.8 0.0001 50.2 5.2 38 1455-1496 249-286 (432)
451 COG1618 Predicted nucleotide k 73.0 2.7 5.9E-05 46.9 2.8 25 1475-1499 8-32 (179)
452 TIGR00101 ureG urease accessor 72.8 2.9 6.2E-05 47.2 3.1 23 1474-1496 3-25 (199)
453 KOG0736 Peroxisome assembly fa 72.7 2.1 4.6E-05 56.5 2.2 21 1471-1492 705-725 (953)
454 PF03308 ArgK: ArgK protein; 72.6 3.5 7.5E-05 49.0 3.8 27 1473-1499 30-56 (266)
455 PF03029 ATP_bind_1: Conserved 72.6 2.3 4.9E-05 49.5 2.3 21 1477-1497 1-21 (238)
456 PRK12339 2-phosphoglycerate ki 72.5 2.9 6.2E-05 47.4 3.0 22 1473-1494 4-25 (197)
457 PRK09825 idnK D-gluconate kina 72.4 3.1 6.8E-05 46.0 3.3 22 1473-1494 4-25 (176)
458 TIGR00073 hypB hydrogenase acc 72.4 3.2 7E-05 46.6 3.4 24 1473-1496 23-46 (207)
459 COG0378 HypB Ni2+-binding GTPa 72.3 2.5 5.5E-05 48.2 2.5 26 1474-1499 15-40 (202)
460 PRK06761 hypothetical protein; 72.3 2.8 6.1E-05 50.1 3.0 24 1473-1496 4-27 (282)
461 PTZ00035 Rad51 protein; Provis 72.1 3 6.6E-05 50.8 3.3 24 1471-1494 117-140 (337)
462 CHL00095 clpC Clp protease ATP 72.1 4.3 9.3E-05 54.9 5.0 25 1473-1497 540-564 (821)
463 KOG0739 AAA+-type ATPase [Post 72.1 2.3 5E-05 51.1 2.2 27 1555-1581 266-294 (439)
464 KOG0742 AAA+-type ATPase [Post 72.1 2.2 4.7E-05 53.0 2.1 19 1475-1493 387-405 (630)
465 PRK13949 shikimate kinase; Pro 71.9 2.7 5.9E-05 46.1 2.6 16 1475-1490 4-19 (169)
466 PRK10733 hflB ATP-dependent me 71.9 2.6 5.6E-05 55.5 2.8 21 1475-1495 188-208 (644)
467 PRK08058 DNA polymerase III su 71.9 5.1 0.00011 48.6 5.1 28 1472-1499 28-55 (329)
468 KOG0652 26S proteasome regulat 71.8 2.6 5.7E-05 49.7 2.5 19 1473-1491 206-224 (424)
469 PF07724 AAA_2: AAA domain (Cd 71.8 3.6 7.8E-05 45.6 3.5 25 1473-1497 4-28 (171)
470 PRK11034 clpA ATP-dependent Cl 71.7 2.8 6.2E-05 56.1 3.2 25 1475-1499 210-234 (758)
471 KOG1533 Predicted GTPase [Gene 71.7 2.4 5.3E-05 49.6 2.2 24 1475-1499 5-28 (290)
472 PRK14712 conjugal transfer nic 71.4 9.3 0.0002 54.9 8.0 65 1449-1575 281-346 (1623)
473 PF00158 Sigma54_activat: Sigm 71.4 4.2 9.1E-05 44.9 3.9 22 1473-1499 23-44 (168)
474 cd00876 Ras Ras family. The R 71.4 2.8 6E-05 43.3 2.4 20 1475-1494 2-21 (160)
475 PRK14737 gmk guanylate kinase; 71.3 3.3 7.2E-05 46.3 3.1 24 1472-1495 4-27 (186)
476 cd03275 ABC_SMC1_euk Eukaryoti 71.2 3.5 7.6E-05 47.6 3.4 24 1473-1496 23-46 (247)
477 KOG2108 3'-5' DNA helicase [Re 71.1 2.7 5.9E-05 55.9 2.8 74 1447-1583 11-84 (853)
478 TIGR03819 heli_sec_ATPase heli 71.1 4.7 0.0001 49.3 4.6 40 1449-1495 162-201 (340)
479 TIGR03345 VI_ClpV1 type VI sec 71.0 2.7 5.9E-05 57.0 2.8 25 1474-1498 210-234 (852)
480 cd03116 MobB Molybdenum is an 70.8 3.8 8.2E-05 45.0 3.4 25 1474-1498 3-27 (159)
481 PRK10787 DNA-binding ATP-depen 70.7 3.5 7.5E-05 55.5 3.7 25 1471-1495 348-372 (784)
482 PRK08699 DNA polymerase III su 70.6 5.2 0.00011 48.7 4.8 27 1473-1499 22-48 (325)
483 smart00173 RAS Ras subfamily o 70.5 3.3 7E-05 43.5 2.7 19 1476-1494 4-22 (164)
484 TIGR02639 ClpA ATP-dependent C 70.5 5.2 0.00011 53.4 5.2 24 1473-1496 485-508 (731)
485 cd01918 HprK_C HprK/P, the bif 70.4 3.2 7E-05 45.4 2.7 21 1474-1494 16-36 (149)
486 KOG0735 AAA+-type ATPase [Post 70.4 2.7 5.9E-05 55.1 2.5 21 1474-1494 703-723 (952)
487 PRK09270 nucleoside triphospha 70.3 3.9 8.5E-05 46.7 3.5 27 1471-1497 32-58 (229)
488 cd03114 ArgK-like The function 70.0 3.6 7.9E-05 44.3 3.0 24 1475-1498 2-25 (148)
489 PRK04220 2-phosphoglycerate ki 69.7 4 8.6E-05 49.3 3.5 25 1472-1496 92-116 (301)
490 cd03272 ABC_SMC3_euk Eukaryoti 69.5 3.9 8.6E-05 46.5 3.3 24 1473-1496 24-47 (243)
491 KOG0979 Structural maintenance 69.2 3.5 7.7E-05 55.5 3.2 28 1469-1496 39-66 (1072)
492 KOG0737 AAA+-type ATPase [Post 69.0 2.6 5.6E-05 51.9 1.8 22 1472-1493 127-148 (386)
493 PF01926 MMR_HSR1: 50S ribosom 68.6 3.5 7.6E-05 41.5 2.4 20 1475-1494 2-21 (116)
494 cd04155 Arl3 Arl3 subfamily. 68.6 3.3 7.2E-05 43.9 2.3 22 1473-1494 15-36 (173)
495 PTZ00301 uridine kinase; Provi 68.6 4.5 9.7E-05 46.4 3.5 26 1473-1498 4-29 (210)
496 PRK14526 adenylate kinase; Pro 68.5 3.7 8E-05 47.0 2.8 17 1475-1491 3-19 (211)
497 KOG1969 DNA replication checkp 68.5 16 0.00034 48.7 8.5 25 1470-1499 324-348 (877)
498 PRK03918 chromosome segregatio 68.4 3.8 8.2E-05 55.2 3.3 27 1472-1498 23-49 (880)
499 cd03255 ABC_MJ0796_Lo1CDE_FtsE 68.3 3.7 8.1E-05 45.9 2.8 23 1472-1494 30-52 (218)
500 cd00820 PEPCK_HprK Phosphoenol 68.3 4 8.7E-05 42.5 2.8 22 1472-1493 15-36 (107)
No 1
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=4.6e-33 Score=334.01 Aligned_cols=358 Identities=27% Similarity=0.361 Sum_probs=225.5
Q ss_pred hHHHHhhhHHHHHHHHHHHHhhhhccc--cccccccceEEEEe------eeeeCCeEEEEEeecCCCCccccCCCCCcEE
Q 000248 1257 EQFVSIFRPLVLEEFKAQLHSSFLEMS--SWEDMYYGSLSVLS------VERVDDFHLVRFVHDDNDSVTSKIFSENDLV 1328 (1789)
Q Consensus 1257 eEY~~tFePLLLEE~~AQLqsSleEis--saEd~~~g~IsVlS------~ervDdF~~V~f~~~~~d~le~~~fseGDLV 1328 (1789)
+++...|.+||-.|..+.+.-.-.... +.+........+.+ .....+.+++.|..+. +..+...|++||+|
T Consensus 3 ~~f~sk~~~ll~~er~~ei~~t~~~~~~~~ie~l~~~g~~i~nl~~v~~~tGl~g~~li~f~~~~-~~lp~~~~~~gd~v 81 (649)
T KOG1803|consen 3 EEFVSKMSELLDHERKAEISVTEKSLDNVPIEALQRKGLAILNLWLVSVRTGLGGKSLIVFSKNR-EVLPSNSFGPGDVV 81 (649)
T ss_pred hHHHHHHHHHHHhhhhcchhhhhHhhhcCCHHHHHhccceeeeEEEEEEeecccceEEEEeccCc-cccCcCCCCCCcEE
Confidence 678889999999999888863211111 11111111122221 2223456788887765 45667899999999
Q ss_pred EEEecCCCCCCCceEEEEEEEEeeccCCCCceEEEEEEEecCCcchhHHHhhhhhcccchhhhhcccccHHHHHHHhhcc
Q 000248 1329 LLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFHALSS 1408 (1789)
Q Consensus 1329 LLSk~kPe~s~~~v~aLGkVer~e~d~~r~~~iL~LRf~l~n~ssrLnq~~~~L~~~S~w~l~KL~SLTTilREy~AL~s 1408 (1789)
.|... +........+-|.|.+...+ .+.+.|. + ........+...+.++.|-.|+.|+..++..
T Consensus 82 ~lr~~-~~~~~~~~~~~GvV~~~~~~------~i~~a~e--e-------~~d~~~~~~~l~l~kl~n~vty~R~~~~~i~ 145 (649)
T KOG1803|consen 82 WLRTD-KLNNKSKPCTEGVVYRVAED------SIDVAFE--E-------EVDKPLTLSSLRLLKLENKVTYRRMKDTMIC 145 (649)
T ss_pred EEEcc-cccccCcccccceeEeeccc------hhhHhHH--h-------hhcccchhhHHHHHHhhhhhhheecHHHHhh
Confidence 99843 33333334567888876542 1222221 0 0000001124566788899999999998876
Q ss_pred CCC--CC-----ccccccCCCCCCCCCCCCccccccchhhHHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCC
Q 000248 1409 LKS--IP-----LLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPP 1481 (1789)
Q Consensus 1409 L~~--~P-----L~~~ILsP~~~s~~~~~s~~v~l~kip~L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPP 1481 (1789)
+.. .| +...++......+..+ .... -..++..++|.||.+||..++... .+.+|||||
T Consensus 146 l~~~~~~~~~~~vv~~l~~~~~~~~~~~----~~~~----~~~~~~~~ln~SQk~Av~~~~~~k-------~l~~I~GPP 210 (649)
T KOG1803|consen 146 LSKFSNPGPSSDVVETLFGDRKPIPSPN----IEIK----KITFFNKNLNSSQKAAVSFAINNK-------DLLIIHGPP 210 (649)
T ss_pred HhhhcCccchhhhHHHHhccccCCCCch----hhhc----ccccCCccccHHHHHHHHHHhccC-------CceEeeCCC
Confidence 643 11 2223333221111100 0000 123455789999999999997542 699999999
Q ss_pred CCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEE
Q 000248 1482 GTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLI 1561 (1789)
Q Consensus 1482 GTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILV 1561 (1789)
|||||+|++.||..++.. ++||||
T Consensus 211 GTGKT~TlvEiI~qlvk~--------------------------------------------------------~k~VLV 234 (649)
T KOG1803|consen 211 GTGKTRTLVEIISQLVKQ--------------------------------------------------------KKRVLV 234 (649)
T ss_pred CCCceeeHHHHHHHHHHc--------------------------------------------------------CCeEEE
Confidence 999999999999988763 579999
Q ss_pred EeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEcccccccCCCccccHHHHHHHHHHHhhhccCCCcccccccchHHH
Q 000248 1562 CAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLR 1641 (1789)
Q Consensus 1562 CAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~eaVhs~V~~vsLD~LVeqRLs~e~~~~~d~k~~~~~ess~Lr 1641 (1789)
|||||.|||+|++||.-.|+ ++||+|.+.+..+.+.+.+||.++...-+. ......+
T Consensus 235 caPSn~AVdNiverl~~~~~----------~l~R~g~paRl~~~~~~~sld~~~~t~d~~-------------~~~~~~s 291 (649)
T KOG1803|consen 235 CAPSNVAVDNIVERLTHLKL----------NLVRVGHPARLLESVADHSLDLLSNTKDNS-------------QNAKDIS 291 (649)
T ss_pred EcCchHHHHHHHHHhccccc----------chhhcCchhhhhhhhhhhHHHHHHhcCchh-------------hhhhhhH
Confidence 99999999999999984443 799999999999999999999887553110 0011122
Q ss_pred HHHHHHHHHHHHHHHhhhcccCCCCCCCCccccccccCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 000248 1642 SNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQEKKSYEET 1721 (1789)
Q Consensus 1642 ~kLekL~~~i~~~ea~R~~~~~g~~~~k~~l~~~w~kg~~~gis~~eLe~kL~kL~eqRrqL~~EL~~~~~~ekk~~re~ 1721 (1789)
++++...+... ..+ -...++.+.+++..+++ ++
T Consensus 292 k~~d~~~~~~~-------~tk---------------------------------~~~~~~~~~~~i~~lrk-------dl 324 (649)
T KOG1803|consen 292 KDIDILFQKNT-------KTK---------------------------------NDKLRKGIRKEIKLLRK-------DL 324 (649)
T ss_pred HHHHHHhhhhh-------ccc---------------------------------chHHHHHHHHHHHHHHH-------HH
Confidence 22222221100 000 01122333334433332 33
Q ss_pred HHHHHHHHHHHhccCcEEEEeCCCCCcCccccccccccCcccCCCCCCCCCCEEEEecCcccccccC
Q 000248 1722 KALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHE 1788 (1789)
Q Consensus 1722 e~~Rrkir~~IL~eAdIVCSTLSGSG~ells~c~eT~aaakf~~ll~~~~FDtVIIDEAAQAvElS~ 1788 (1789)
++.+++.-.+|+.+|+||+|||.||...++ .+..||+|||||||||+|++|
T Consensus 325 ~kre~~~v~eii~n~~VVfaTl~ga~~~~~----------------~~~~fD~vIIDEaaQamE~~c 375 (649)
T KOG1803|consen 325 RKRERKTVKEIISNSRVVFATLGGALDRLL----------------RKRTFDLVIIDEAAQAMEPQC 375 (649)
T ss_pred HHHHHHHHHHhhcccceEEEeccchhhhhh----------------cccCCCEEEEehhhhhccchh
Confidence 344567789999999999999999997443 356899999999999999987
No 2
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=5.4e-32 Score=323.47 Aligned_cols=349 Identities=25% Similarity=0.280 Sum_probs=216.9
Q ss_pred cccccCcccCChhHHHHhhhHHHHHHHHHHHHhhhhccccccccccceEEEEeeeeeCCeEEEEEeecCCCCccccCCCC
Q 000248 1245 KLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDMYYGSLSVLSVERVDDFHLVRFVHDDNDSVTSKIFSE 1324 (1789)
Q Consensus 1245 ~LkkVP~TFsSveEY~~tFePLLLEE~~AQLqsSleEissaEd~~~g~IsVlS~ervDdF~~V~f~~~~~d~le~~~fse 1324 (1789)
+...|-.+|.+..+|.++|.||+-.|+...- .+.|..+.+ .+.|..---.+..+.-.|.....+ ....+..
T Consensus 228 ~~~hv~~ry~da~~y~~vf~pliklea~ydk--~~Kes~~q~-----~~tvRW~~gLnkk~~a~f~~~k~~--~e~kl~~ 298 (935)
T KOG1802|consen 228 EPPHVQLRYEDAYEYQNVFSPLIKLEADYDK--RLKESQTQE-----NGTVRWDIGLNKKRLAYFTLPKLD--SELKLAI 298 (935)
T ss_pred CCCcccccccchHHHhhhcchhhhhhhhhhh--hhhhhcccc-----cceEEeeeccccceEEEEecCCCc--chhcccc
Confidence 5667889999999999999999999986544 222221111 122222111223334444433321 2457888
Q ss_pred CcEEEEEecCCCCCCCceEEEEEEEEeeccCCCCceEEEEEEEecCCcchhHHHhhhhhcccchhhhhcccccHHHHHHH
Q 000248 1325 NDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFH 1404 (1789)
Q Consensus 1325 GDLVLLSk~kPe~s~~~v~aLGkVer~e~d~~r~~~iL~LRf~l~n~ssrLnq~~~~L~~~S~w~l~KL~SLTTilREy~ 1404 (1789)
||-+.|..+.... ....-+|.|.+.-.++. ....+.+++.. + .+ ....+.+.+..+-+-+++.|++.
T Consensus 299 GdE~~L~y~~~~~--~~w~~~g~v~~~pd~~~-dE~~lEl~~~~-~--~p-------~e~~~~Ftvd~vwk~ts~drm~~ 365 (935)
T KOG1802|consen 299 GDEIRLTYSGGLV--LPWNGIGSVLKIPDNNG-DEVKLELEFSQ-D--PP-------IEVTHGFTVDFVWKSTSFDRMQL 365 (935)
T ss_pred CCeeEEEecCCcC--CcccccceEEecCCCCc-ceeEEEeecCC-C--CC-------cccccceEEEEEEcCccHHHHHH
Confidence 9988888764322 12445788877654331 22234444321 1 11 11223344445667789999999
Q ss_pred hhccCC-------CCCccccccCCCCCCCCCCCCccccccchhh-HHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeE
Q 000248 1405 ALSSLK-------SIPLLPIILNPVNVSRGYNESRELDLGKLSQ-LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSL 1476 (1789)
Q Consensus 1405 AL~sL~-------~~PL~~~ILsP~~~s~~~~~s~~v~l~kip~-L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSL 1476 (1789)
||..+. .|-+...+..|..+.... ..+|. +...--.+||.||..|++.+|.+ +++|
T Consensus 366 alk~la~D~~~vs~y~y~klLgh~~~~~~~k--------~~LP~~~s~~~lpkLN~SQ~~AV~~VL~r--------plsL 429 (935)
T KOG1802|consen 366 ALKLLAVDEKKVSGYLYHKLLGHPVEDSSLK--------KLLPRRFSVPNLPKLNASQSNAVKHVLQR--------PLSL 429 (935)
T ss_pred HHHHhhhccccchhhhhhHHhcCcchhhhhc--------ccCchhhcCCCchhhchHHHHHHHHHHcC--------Ccee
Confidence 997663 222223333333221110 11222 00000137999999999999975 5999
Q ss_pred EeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccC
Q 000248 1477 IQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVR 1556 (1789)
Q Consensus 1477 IQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k 1556 (1789)
||||||||||-|+.+||.+|... ..
T Consensus 430 IQGPPGTGKTvtsa~IVyhl~~~-------------------------------------------------------~~ 454 (935)
T KOG1802|consen 430 IQGPPGTGKTVTSATIVYHLARQ-------------------------------------------------------HA 454 (935)
T ss_pred eecCCCCCceehhHHHHHHHHHh-------------------------------------------------------cC
Confidence 99999999999999999988764 24
Q ss_pred CeEEEEeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEccccc--ccCCCccccHHHHHHHHHHHhhhccCCCccccc
Q 000248 1557 ARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKT--VHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFC 1634 (1789)
Q Consensus 1557 ~RILVCAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~ea--Vhs~V~~vsLD~LVeqRLs~e~~~~~d~k~~~~ 1634 (1789)
.+||||||||.|||+|+++|.+.|+ +|||+-.+++ +.+++..++|.++++.. . +
T Consensus 455 ~~VLvcApSNiAVDqLaeKIh~tgL----------KVvRl~aksRE~~~S~vs~L~lh~~~~~~------~----~---- 510 (935)
T KOG1802|consen 455 GPVLVCAPSNIAVDQLAEKIHKTGL----------KVVRLCAKSREDIESDVSFLSLHEQLRNM------D----K---- 510 (935)
T ss_pred CceEEEcccchhHHHHHHHHHhcCc----------eEeeeehhhhhhccCCccHHHHHHHHhcc------C----c----
Confidence 5899999999999999999999887 7999998755 34444455655554321 0 0
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCccccccccCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 000248 1635 TRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQE 1714 (1789)
Q Consensus 1635 ~ess~Lr~kLekL~~~i~~~ea~R~~~~~g~~~~k~~l~~~w~kg~~~gis~~eLe~kL~kL~eqRrqL~~EL~~~~~~e 1714 (1789)
.+|+++.+. ++ +. +.++.. .
T Consensus 511 -------pELq~l~kl------kd---e~------------------gelS~s-------------------------D- 530 (935)
T KOG1802|consen 511 -------PELQKLLKL------KD---EG------------------GELSSS-------------------------D- 530 (935)
T ss_pred -------HHHHHHHhh------hh---hc------------------ccccch-------------------------h-
Confidence 123333210 00 00 001100 0
Q ss_pred HHHHHHHHHHHHHHHHHHhccCcEEEEeCCCCCcCccccccccccCcccCCCCCCCCCCEEEEecCcccccccCC
Q 000248 1715 KKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHEL 1789 (1789)
Q Consensus 1715 kk~~re~e~~Rrkir~~IL~eAdIVCSTLSGSG~ells~c~eT~aaakf~~ll~~~~FDtVIIDEAAQAvElS~L 1789 (1789)
....+.+.+.+..++|.+|||||||+.|+|...|+ ..+|.+||||||+||+||+||
T Consensus 531 ---~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~----------------~~kfr~VLiDEaTQatEpe~L 586 (935)
T KOG1802|consen 531 ---EKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLS----------------KFKFRTVLIDEATQATEPECL 586 (935)
T ss_pred ---hHHHHHHHHHHHHHHHhhcCEEEEecccccchhhc----------------cccccEEEEecccccCCcchh
Confidence 01233456778899999999999999999986653 358999999999999999986
No 3
>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=99.98 E-value=1.1e-30 Score=326.99 Aligned_cols=336 Identities=26% Similarity=0.335 Sum_probs=215.8
Q ss_pred EEEeeeeeCCeEEEEEeecCCCCccccCCCCCcEEEEEecCCCCCCCceEEEEEEEEeeccCCCCceEEEEEEEecCCcc
Q 000248 1294 SVLSVERVDDFHLVRFVHDDNDSVTSKIFSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSV 1373 (1789)
Q Consensus 1294 sVlS~ervDdF~~V~f~~~~~d~le~~~fseGDLVLLSk~kPe~s~~~v~aLGkVer~e~d~~r~~~iL~LRf~l~n~ss 1373 (1789)
.+.......+.++++|..... ....|..||+|+++..++. ...+-|.|.++..+ .+.+.+....+
T Consensus 33 ~~~~~~~~~g~~~~~f~~~~~---~~~~~~~GD~v~i~~~~~~----~~~~~g~V~~v~~~------~i~v~~~~~~~-- 97 (637)
T TIGR00376 33 QGKIRGGLLGFLLVRFGRRKA---IATEISVGDIVLVSRGNPL----QSDLTGVVTRVGKR------FITVALEESVP-- 97 (637)
T ss_pred EEEEEeCCCCeEEEEEecCCC---CCCcCCCCCEEEEecCCCC----CCCcEEEEEEEcCc------EEEEEECCCCC--
Confidence 333333345688999986432 2468999999999976543 23468999988652 35555532100
Q ss_pred hhHHHhhhhhcccchhhhhcccccHHHHHHHhhccCCCC--CccccccCCCCCCCCCCCCccccccchhhHHHHhhcCCC
Q 000248 1374 RLNQARRNLLERSKWHATLIMSITPQLREFHALSSLKSI--PLLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFN 1451 (1789)
Q Consensus 1374 rLnq~~~~L~~~S~w~l~KL~SLTTilREy~AL~sL~~~--PL~~~ILsP~~~s~~~~~s~~v~l~kip~L~~~Lk~~LN 1451 (1789)
. .....|.+.++.|-+|+.|++.||..+... ++.+.||+...+.... . ... + ..+...+|
T Consensus 98 -------~-~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l~~~llg~~~p~~~~-~--~~~------~-~~~~~~ln 159 (637)
T TIGR00376 98 -------Q-WSLKRVRIDLYANDVTFKRMKEALRALTENHSRLLEFILGREAPSKAS-E--IHD------F-QFFDPNLN 159 (637)
T ss_pred -------c-ccCceEEEEEecCccHHHHHHHHHHHHHhchhhHHHHHhCCCCCCccc-c--ccc------c-cccCCCCC
Confidence 0 011237788889999999999999988643 5777888754322100 0 000 1 12335899
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1531 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W 1531 (1789)
++|.+||..++... +++|||||||||||+||++++..++..
T Consensus 160 ~~Q~~Av~~~l~~~-------~~~lI~GpPGTGKT~t~~~ii~~~~~~-------------------------------- 200 (637)
T TIGR00376 160 ESQKEAVSFALSSK-------DLFLIHGPPGTGKTRTLVELIRQLVKR-------------------------------- 200 (637)
T ss_pred HHHHHHHHHHhcCC-------CeEEEEcCCCCCHHHHHHHHHHHHHHc--------------------------------
Confidence 99999999997643 599999999999999999999877642
Q ss_pred HHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEcccccccCCCccccH
Q 000248 1532 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFI 1611 (1789)
Q Consensus 1532 ~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~eaVhs~V~~vsL 1611 (1789)
+.+||||||||.|||+|++||.+.| .++||+|++.++.+.+..++|
T Consensus 201 ------------------------g~~VLv~a~sn~Avd~l~e~l~~~~----------~~vvRlg~~~r~~~~~~~~sl 246 (637)
T TIGR00376 201 ------------------------GLRVLVTAPSNIAVDNLLERLALCD----------QKIVRLGHPARLLKSNKQHSL 246 (637)
T ss_pred ------------------------CCCEEEEcCcHHHHHHHHHHHHhCC----------CcEEEeCCchhcchhHHhccH
Confidence 3489999999999999999999653 479999999999999999999
Q ss_pred HHHHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCccccccccCCCcccchHHHHH
Q 000248 1612 DTLVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEA 1691 (1789)
Q Consensus 1612 D~LVeqRLs~e~~~~~d~k~~~~~ess~Lr~kLekL~~~i~~~ea~R~~~~~g~~~~k~~l~~~w~kg~~~gis~~eLe~ 1691 (1789)
|+++...-. ......++.+++++.++...+ ..+. .+| .+++++..+.
T Consensus 247 ~~~~~~~~~-------------~~~~~~~~~~i~~~~~~~~~~---~~~~------------~~~----~~~~~~~~~l- 293 (637)
T TIGR00376 247 DYLIENHPK-------------YQIVADIREKIDELIEERNKK---LKPS------------PQK----RRGLSDIKIL- 293 (637)
T ss_pred HHHHhcChh-------------HHHHHHHHHHHHHHHHHHHhh---ccch------------HhH----hhccchHHHH-
Confidence 988764211 011223444454444321110 0000 001 1122222111
Q ss_pred HHHHHHHHH--HHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcEEEEeCCCCCcCccccccccccCcc
Q 000248 1692 KLRKLYEQK--KQIYR-------ELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFK 1762 (1789)
Q Consensus 1692 kL~kL~eqR--rqL~~-------EL~~~~~~ekk~~re~e~~Rrkir~~IL~eAdIVCSTLSGSG~ells~c~eT~aaak 1762 (1789)
++..++| +.+.. .+..+....++..+++++.+.++..+||++|+||||| +|+..|
T Consensus 294 --~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st---~~~~~l----------- 357 (637)
T TIGR00376 294 --RKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQST---NSSAGL----------- 357 (637)
T ss_pred --HHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEec---cCcHhh-----------
Confidence 1111111 11111 1112222333444556667788999999999999887 445444
Q ss_pred cCCCCCCCCCCEEEEecCcccccccCC
Q 000248 1763 FGNPSENTLFDAVVIDEAAQVVLVHEL 1789 (1789)
Q Consensus 1763 f~~ll~~~~FDtVIIDEAAQAvElS~L 1789 (1789)
....||+||||||+|++|+++|
T Consensus 358 -----~~~~Fd~vIIDEAsQ~~ep~~l 379 (637)
T TIGR00376 358 -----KGWEFDVAVIDEASQAMEPSCL 379 (637)
T ss_pred -----ccCCCCEEEEECccccchHHHH
Confidence 3568999999999999999864
No 4
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.96 E-value=3.2e-29 Score=269.51 Aligned_cols=208 Identities=36% Similarity=0.574 Sum_probs=116.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
+||++|++||..++... .+++||||||||||+||++++..++.....
T Consensus 1 ~ln~~Q~~Ai~~~~~~~-------~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~-------------------------- 47 (236)
T PF13086_consen 1 KLNESQREAIQSALSSN-------GITLIQGPPGTGKTTTLASIIAQLLQRFKS-------------------------- 47 (236)
T ss_dssp ---HHHHHHHHHHCTSS-------E-EEEE-STTSSHHHHHHHHHHHH--------------------------------
T ss_pred CCCHHHHHHHHHHHcCC-------CCEEEECCCCCChHHHHHHHHHHhccchhh--------------------------
Confidence 48999999999997653 379999999999999999999988542000
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEcccc-cccCCCc
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVK-TVHPNSL 1607 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~e-aVhs~V~ 1607 (1789)
.....+.+||||||||+|||+++.||.+ +.+.++..+.+.++|+|+.. ..++++.
T Consensus 48 ----------------------~~~~~~~~il~~~~sN~avd~~~~~l~~--~~~~~~~~~~~~~ir~~~~~~~~~~~~~ 103 (236)
T PF13086_consen 48 ----------------------RSADRGKKILVVSPSNAAVDNILERLKK--LLDEDGKVYKPKIIRLGSEEEKIHEDLQ 103 (236)
T ss_dssp -----------------------HCCCSS-EEEEESSHHHHHHHHHHHHC----------TT--EEE---GGTTS--TTG
T ss_pred ----------------------hhhhccccceeecCCchhHHHHHHHHHh--hccccccccccchhhhcccccccccccc
Confidence 0013578999999999999999999995 66777888889999999988 6788888
Q ss_pred cccHHHHHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCccccccccCCCcccchH
Q 000248 1608 PFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDV 1687 (1789)
Q Consensus 1608 ~vsLD~LVeqRLs~e~~~~~d~k~~~~~ess~Lr~kLekL~~~i~~~ea~R~~~~~g~~~~k~~l~~~w~kg~~~gis~~ 1687 (1789)
++++++.+.++.... ...++.+++++.+.+.......
T Consensus 104 ~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~----------------------------- 140 (236)
T PF13086_consen 104 KFSLESKLEQRFESK--------------LKRLREQLEELQQKIRLSELKE----------------------------- 140 (236)
T ss_dssp GGBHHHHHHTTT-------------------------THHHCHHHHHHHHH-----------------------------
T ss_pred ccccccccccccccc--------------chhhhHHHHHHHHhhhhhhhhh-----------------------------
Confidence 888887766543100 0111222222221110000000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcEEEEeCCCCCcCccccccccccCcccCCCC
Q 000248 1688 ELEAKLRKLYEQKKQIYRELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPS 1767 (1789)
Q Consensus 1688 eLe~kL~kL~eqRrqL~~EL~~~~~~ekk~~re~e~~Rrkir~~IL~eAdIVCSTLSGSG~ells~c~eT~aaakf~~ll 1767 (1789)
+.........+..+..+..++.+...++++++||+||+++|++..+...
T Consensus 141 ------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~------------- 189 (236)
T PF13086_consen 141 ------------------EKKKLKKSIKRLRKELEKIREELRRFILKEADVIFTTLSSAASPFLSNF------------- 189 (236)
T ss_dssp ------------------HHCCSSCHHHHHHHHHHHHHHHHHHHHHHT-SEEEEETCGGG-CCGTT--------------
T ss_pred ------------------hhhhcchhcccccccccccccchhhhhcccccccccccccchhhHhhhh-------------
Confidence 0000000011122334445667779999999999999999987665321
Q ss_pred CCCCCCEEEEecCcccccccC
Q 000248 1768 ENTLFDAVVIDEAAQVVLVHE 1788 (1789)
Q Consensus 1768 ~~~~FDtVIIDEAAQAvElS~ 1788 (1789)
...||+||||||+|+.|+++
T Consensus 190 -~~~~d~vIvDEAsq~~e~~~ 209 (236)
T PF13086_consen 190 -KEKFDVVIVDEASQITEPEA 209 (236)
T ss_dssp -----SEEEETTGGGS-HHHH
T ss_pred -cccCCEEEEeCCCCcchHHH
Confidence 12899999999999999875
No 5
>PF12726 SEN1_N: SEN1 N terminal; InterPro: IPR024481 The yeast helicase Sen1 is an RNA polymerase II termination factor for noncoding RNA genes []. The C-terminal domain of Sen1 is essential for cell growth, while the N-terminal domain appears to be dispensible []. This entry represents the N-terminal domain.
Probab=99.93 E-value=5.2e-25 Score=280.35 Aligned_cols=548 Identities=20% Similarity=0.328 Sum_probs=391.5
Q ss_pred HHHHHHHhhhhHhHHHHHHHHHHHH----hhhccccCccchHHHHHhhhhHHHHHHHHHHHHhhhccccCCCCCCCcchh
Q 000248 91 LWKRISGEMQHCIQCVSQHHQAQEM----YSMEYESGVIGPLLDVLRSLDEERVTKYLREINARLAHQEYYPQIDNNQVI 166 (1789)
Q Consensus 91 ~w~r~s~~l~~C~~CV~~yH~a~e~----~~~e~~~~~~~~L~~vL~~lD~~Rl~~~l~~~~~~~~l~~~~~~~~~~e~~ 166 (1789)
+|+|++..|..|.+||..||++|.. |..+|.++.|..+.+.|...|.+||+++|+++....+..+-.+. ..++.
T Consensus 2 ~~~~l~~~L~~C~~CV~~~~~~k~~~~~~~~~~~~~e~V~~f~~~l~~wd~~rI~~~L~~~~~~~~~~~~~~~--~~~~~ 79 (727)
T PF12726_consen 2 WKNRLSECLSSCDKCVRNYHRGKKSLRQRFAESFPEENVDQFFNMLDNWDIQRILPGLDKAKSILESIEPMTR--SRALL 79 (727)
T ss_pred cHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCc--cchHH
Confidence 5899999999999999999988877 56667999999999999999999999999988665443322222 25688
Q ss_pred hhHHHhhccccccc-ccchhHHHHHHHHHHhccccccccccccCCeeeeeecch-hhHHHHHHHHHHHhCCC---cCcCc
Q 000248 167 CIMYEVLMFPVLLD-DQSLFTEFETFIEAVDNMHELALDGHQLFPGVFALFFFN-RRVRTIGRRLARSMGKL---RRATD 241 (1789)
Q Consensus 167 ~~l~EvL~yp~LL~-d~~l~~~~~~~l~~~~~~~e~~f~~~~~~Pgvy~lL~h~-~~~R~~a~~~ar~~g~~---~~~~d 241 (1789)
+.+||+|++|.+|. ++.+.+.|..++..+-....+... ...+||++.||||+ +..|+||.....+++.- ...++
T Consensus 80 ~aiyE~L~~p~lLr~~~~l~~~F~~~f~~~~~~~~~~~~-~~~lPG~~~~Lf~~~~~~r~WA~~~~~~l~~~~~~~t~~~ 158 (727)
T PF12726_consen 80 LAIYECLCNPALLRDDEELRELFDAIFSSLQSKKPLKLP-KELLPGMTYFLFDGNPERRRWAERWWQRLKRPPYSITDEE 158 (727)
T ss_pred HHHHHHHhCHHHHcCcHHHHHHHHHHHHHHhccCCcccc-ccccchhhhhhhcCCHHHHHHHHHHHHHcCCCccCCchhh
Confidence 88999999999996 566999999999999999865544 89999999999999 99999999999999883 24666
Q ss_pred cc-cchHHHHHHhhhhcccccccccCCCCcccccccchhhhhhhHhhhhcCchhhhhcccc--ccchhhhhhhhcccCC-
Q 000248 242 LE-PMQPLLKKFIGFLETEVLTSTFKTSRPRARLKRLPIWLGITSLLEFLEPPALEEGILE--RYPIFFDIVLNHISGD- 317 (1789)
Q Consensus 242 ~~-~l~~~l~~~~~~~e~~l~~s~~~~~~~~~~~~~~~~W~gi~~lL~~le~~A~~~~~l~--~~p~~~~~~l~~~~~~- 317 (1789)
++ ++.+.|.-.+.-+..+. .++ ..+ -.+|.|++.+|..|+.++++..+.. -+| +...+++|++..
T Consensus 159 ~~~av~~~l~~~l~~i~~~~-~~~-----~~~----~~fW~g~~~Il~~ld~~~i~~~l~~~~~~~-i~~L~~~hL~~~~ 227 (727)
T PF12726_consen 159 FDWAVLDELSSHLYRISPNN-YNP-----DSV----IRFWSGFSLILRLLDKEQITHSLRALELDP-IYRLLLNHLSSNL 227 (727)
T ss_pred hhHHHHHHHHHHHHHhccCC-CCh-----hHH----HHHHHHHHHHHHHccHHHHHHHHhccccch-HHHHHHHHhhccc
Confidence 75 56666666665552221 111 111 1269999999999999999877765 567 999999999997
Q ss_pred CCcchhhhhhHHHHHHHhcchhhhcc-cCCchhhhhhccccc----------ccCcchhh--hhcccccchhhhhhhhhh
Q 000248 318 SPEFSHAVSCLRELFKMLGYKLWLRS-TLSPSVMRNTLLGQC----------FHTRSEKI--HKDIFDLFPPFLQSLEAL 384 (1789)
Q Consensus 318 s~~fw~a~~C~~~ll~~lG~~~w~~~-~~~p~~~~~~~~~~~----------~~~~~~~~--~k~~~~~~~~~~~s~~a~ 384 (1789)
+++|+..+.||..||+.+|.+-|-+. ...|.++.+++-+.- .....+.- .++++.|++||++|+...
T Consensus 228 ~~~l~~lL~~l~~lL~k~~~~FW~~~~~~~p~~ild~If~np~f~~~L~~~~~~~~~~~~~~~~~~~sWi~pf~~SL~~~ 307 (727)
T PF12726_consen 228 SPPLPILLRCLSILLEKLGSDFWDAMGPISPQVILDQIFDNPAFKKLLLQSQEDEISESDDDLPDLLSWISPFLRSLSPS 307 (727)
T ss_pred chhHHHHHHHHHHHHHhCHHHHhcccCCCCHHHHHHHHhCChHHHHHHHhhccCCccccchhhHHHHHHHHHHHHHhccc
Confidence 88899999999999999999999964 557888877554432 11111111 467899999999999988
Q ss_pred ccchhhHHHhHhhhhhhhccccccchhhhHHHHHHHHH---HHHHhcCCCCCCCCCccccccccccccccccc-----cc
Q 000248 385 QDGEHEKQRRHFLYFLLYQVPVSSNFSVLTAQMACKIS---LLIIHRGYKMNPPCPPFECAHMWGPFLVSSLK-----DS 456 (1789)
Q Consensus 385 ~~~~~~~~~~~~l~~ll~~v~~~s~~~~l~~~~~~~~~---~~~~~~~~~~~p~~~~~~c~~~~~p~l~~~~~-----~~ 456 (1789)
+. ..+-+.++.+|+.++-.. .+....++++-+.+ ++-...++.-+.=. .++=+++-.-...+-+. +.
T Consensus 308 ~~---~~~~~~l~~~Ll~~~q~~-~~~~~~r~~c~~~~~~~L~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 382 (727)
T PF12726_consen 308 QR---SQACRKLLHFLLERLQHD-RFPDEARAACLRAGLDALLSTLRSFNDNERS-DFSTALITINDTRNLVSNYIIRDA 382 (727)
T ss_pred ch---hhHHHHHHHHHHHHHhcc-ccchhHHHHHHHHHHHHHHHHHHhccccccc-ccchhHhhHHHHHHHHHhhhhhhh
Confidence 74 445566777777665442 22233444443332 33344554433211 33333322222111111 11
Q ss_pred -----------ccccccccchHHHHHHHHHhchHHHHHHHhhcCCCCCccceeeeeccccCCCCCCCCCCCccccCCCCc
Q 000248 457 -----------SLHSSLRQPAFDLIQTIIVSDAAALVTSVLKSARPLRTETIISVEMNEDEDDLKFPFDPDVDEKDDNSS 525 (1789)
Q Consensus 457 -----------~l~~~~r~~a~~l~~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~ 525 (1789)
.......+.|.+++...|--|+.+|..-+.+--+. + |-.+.+
T Consensus 383 ~~~~~~~~~~~~~~~~~~~~a~~vi~~~l~~D~~~l~~~~~~l~~~-~------------------~~~~~~-------- 435 (727)
T PF12726_consen 383 IIPAAKFKIEGWSNSSVSNSAMKVIRNALALDILSLCEESQALLRG-K------------------PLQPAV-------- 435 (727)
T ss_pred ccChhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-C------------------CcCCcc--------
Confidence 12234566778888888888888888776665111 0 000111
Q ss_pred hhhhhhhhccccccccceeechhHHHHHHhhcCCCcccchhhhHHHhhcccccccccccccccccchhhhhccccccccc
Q 000248 526 WNEFTAQSRITSQEFRVWMCIPMLWIDVLVDINPSVLPVSFSKVVFWARSHFSIVEPEISAEMALDVRAWLSSSATEISS 605 (1789)
Q Consensus 526 ~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~wa~s~~~~~e~~~~~~~~~~~~~~~~~~a~~~~~ 605 (1789)
+ +.-|.+|=.++..+.++.+. ++|+++=|..++.-+|.-....
T Consensus 436 ----------~-------~~~~~lW~~l~~~~~~~~~~--la~~lL~~~~~l~~l~~~~~~~------------------ 478 (727)
T PF12726_consen 436 ----------S-------RISPNLWKALLKSLDSDNPD--LAKALLKSLSPLIGLEKFPPKK------------------ 478 (727)
T ss_pred ----------h-------hhhHHHHHHHHHhhcCCChH--HHHHHHHHHHHhccccccCCcc------------------
Confidence 0 33466999999999988876 8899998888877665432111
Q ss_pred ccccccCcCCCCCCCCccccccceeeccchhHHHHHHhhhhhhhhhcccccccccceecccccceeeecccCCChhHhHH
Q 000248 606 TFGWKAPTGCDDGGAGKVSKNSMEVSTMCLPLIRAFKRLTAHFIVQIGQGELRKQWTWEPRMGESLILSLVDPNDNVRQF 685 (1789)
Q Consensus 606 ~~~w~~~~g~ddg~~gk~~~n~~~~s~~~~~l~~~~kr~~~~~~~~~~~~~~~~~w~w~~~m~e~~il~l~~~~~~~r~~ 685 (1789)
+-++--+.|.-.|.. +..+.-...+++-|++.- .+..|.+=.. +|..+..++-+|+-|+++++|.
T Consensus 479 --------~~~~~~~~~~~~N~~-~~~~~~~~~~il~rls~~-----~~~~L~~l~~-d~~~~~~i~s~lfsp~~~l~qa 543 (727)
T PF12726_consen 479 --------EKDELDPAKTQFNKS-LGQITDLISQILERLSDF-----DPSHLKELLS-DPDAAQAIWSLLFSPDDDLYQA 543 (727)
T ss_pred --------cccCcchHHHHHHHH-HHHHHHHHHHHHHHHhcC-----CHHHHHHHHc-CcchhhHHHhheeCCChHHHHH
Confidence 334444555666653 466777788888888765 6666666666 8899999999999999999999
Q ss_pred HHHHHHHhhcccCcccccceecccccchhHHHhhhHHHHHHhhhhcccccccccch
Q 000248 686 GKCILEQVSNTRGLASGLKFLSSSTSSLSAIFLGLKHALKLVQLDSVLLKFQSLHH 741 (1789)
Q Consensus 686 ~~~~l~~~s~~~gl~~~l~f~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~~~~~~h 741 (1789)
|..||.+++..-|=.-|++=|=+ ..++.+..|+..+|+.+.--.. |.+.-+
T Consensus 544 A~~llk~~~d~~~R~e~i~~ll~--~~~~~tL~ai~~~l~~~~~~~~---~~p~pr 594 (727)
T PF12726_consen 544 AQDLLKQAFDVDGRLEAIQALLQ--SNFSPTLSAINWSLRQLTKLKF---FEPCPR 594 (727)
T ss_pred HHHHHHHHhcCCcHHHHHHHHHH--HhHHHHHHHHHHHHHHHHhhhh---hcchHH
Confidence 99999999998887777776543 5678889999999987744333 444444
No 6
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.84 E-value=1.5e-20 Score=234.46 Aligned_cols=120 Identities=28% Similarity=0.465 Sum_probs=92.8
Q ss_pred ccccccCCCCCCCCCCCCccccccchhhHHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHH
Q 000248 1414 LLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1414 L~~~ILsP~~~s~~~~~s~~v~l~kip~L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
|.+.|..-.++.+....... .+|....+....||..|++||..+|... .++||.|-||||||+||+.+|
T Consensus 638 lRdlivd~~pP~f~~~~~~~----~~p~~~~~~~~~LN~dQr~A~~k~L~ae-------dy~LI~GMPGTGKTTtI~~LI 706 (1100)
T KOG1805|consen 638 LRDLIVDLKPPKFVDALSKV----LIPKIKKIILLRLNNDQRQALLKALAAE-------DYALILGMPGTGKTTTISLLI 706 (1100)
T ss_pred HHHHhhhcCCchhhcccccc----cCchhhHHHHhhcCHHHHHHHHHHHhcc-------chheeecCCCCCchhhHHHHH
Confidence 44555554444433222211 2343344344689999999999999765 499999999999999999999
Q ss_pred HHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHH
Q 000248 1494 SALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELV 1573 (1789)
Q Consensus 1494 saLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV 1573 (1789)
..|+.. ++|||+.|+||.|||+|+
T Consensus 707 kiL~~~--------------------------------------------------------gkkVLLtsyThsAVDNIL 730 (1100)
T KOG1805|consen 707 KILVAL--------------------------------------------------------GKKVLLTSYTHSAVDNIL 730 (1100)
T ss_pred HHHHHc--------------------------------------------------------CCeEEEEehhhHHHHHHH
Confidence 998764 579999999999999999
Q ss_pred HHHHhcCCcCCCCCcCCCcEEEEcccccccCCCcccc
Q 000248 1574 SRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFF 1610 (1789)
Q Consensus 1574 ~RLlk~GI~d~dG~~ykP~VVRIG~~eaVhs~V~~vs 1610 (1789)
.+|...|+ .++|+|...++|++++.++
T Consensus 731 iKL~~~~i----------~~lRLG~~~kih~~v~e~~ 757 (1100)
T KOG1805|consen 731 IKLKGFGI----------YILRLGSEEKIHPDVEEFT 757 (1100)
T ss_pred HHHhccCc----------ceeecCCccccchHHHHHh
Confidence 99997665 5999999999999875544
No 7
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=99.72 E-value=1.6e-16 Score=194.35 Aligned_cols=269 Identities=21% Similarity=0.260 Sum_probs=156.9
Q ss_pred ccCcccCChhHHHHhhhHHHHHHHHHHHHhhhhcccc--------ccccccceEEEEeeeeeCCeEE---------EEEe
Q 000248 1248 EVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSS--------WEDMYYGSLSVLSVERVDDFHL---------VRFV 1310 (1789)
Q Consensus 1248 kVP~TFsSveEY~~tFePLLLEE~~AQLqsSleEiss--------aEd~~~g~IsVlS~ervDdF~~---------V~f~ 1310 (1789)
.|-..|+|+.+|+++..-||-|.+-.-+..+...... ++..+|..++|....++|+... +.|.
T Consensus 154 ~i~gkyds~~~yld~hfrllrEdfVsplregilllkkn~n~~g~r~~~akcddisiy~~~ridg~~~ss~sgi~~k~qf~ 233 (1025)
T KOG1807|consen 154 RIGGKYDSLWSYLDLHFRLLREDFVSPLREGILLLKKNKNLLGARAAVAKCDDISIYILSRIDGMLLSSHSGILLKHQFY 233 (1025)
T ss_pred ccccchhHHHHHHHHHHhhHHHHhhhHHHHHHHHHhhCchhhhhhhccCCCccceeeeeecccceEeecccceEEEEeeh
Confidence 4667899999999999999999998888776544321 1222455566666666555322 2222
Q ss_pred ec---CCCCccccCCCCCcEEEEEecCCCCCCCceEEEEEEEEeeccCCCCceEEEEEEEecCCcchhHHHhhhhhcccc
Q 000248 1311 HD---DNDSVTSKIFSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSK 1387 (1789)
Q Consensus 1311 ~~---~~d~le~~~fseGDLVLLSk~kPe~s~~~v~aLGkVer~e~d~~r~~~iL~LRf~l~n~ssrLnq~~~~L~~~S~ 1387 (1789)
.. ...+.+......|++|+++.++...+ ..+|.|-. ++-++ +..+.+.+. .....+.++..
T Consensus 234 ~~~~k~kklansrrl~~gslV~ls~dnF~et----f~~gtv~~-s~L~r--~le~~~~~~---------~~~ap~~p~de 297 (1025)
T KOG1807|consen 234 ELVEKYKKLANSRRLDMGSLVELSTDNFSET----FKGGTVPT-SGLNR--PLETLLGKD---------ATKAPNEPEDE 297 (1025)
T ss_pred HHHHHHHHhccchhccccceEEEecCchhhh----eeeeeecc-hhccc--cchhhhhhh---------hhcCCCCCccc
Confidence 10 01133456788999999999876432 55777765 22111 111211111 00011111111
Q ss_pred hh-----hhhcccccHHHHHHHhhccCCCCCccccccCCCCCCCCC---CCCcccc----ccchhh-HHHHhh------c
Q 000248 1388 WH-----ATLIMSITPQLREFHALSSLKSIPLLPIILNPVNVSRGY---NESRELD----LGKLSQ-LQQILK------T 1448 (1789)
Q Consensus 1388 w~-----l~KL~SLTTilREy~AL~sL~~~PL~~~ILsP~~~s~~~---~~s~~v~----l~kip~-L~~~Lk------~ 1448 (1789)
+. ..++-.+--++|+.+-+....-.|+.+.+..-....... -...... +.+.++ ..+.+. .
T Consensus 298 ylm~e~t~~Y~eayrhVLr~lqr~s~~~~vpf~rylvhc~s~~~~pr~L~~~~rytinp~~~n~s~~~~n~lePp~~g~~ 377 (1025)
T KOG1807|consen 298 YLMSEKTVKYVEAYRHVLRELQRASLVEFVPFLRYLVHCDSLKQQPRLLWSDVRYTINPQFANASRHIVNALEPPGPGLV 377 (1025)
T ss_pred eeehhhHHHHHHHHHHHHHHhhhcccccccchhhhhccchhhhhchHHhhcCCceecCccccCchhhhhhhcCCCCCCce
Confidence 10 011222334556555555555567766665422110000 0000000 001111 111121 2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.++.||+.|..+++.. .++|||||||||||.+.+-+|-.||...-.
T Consensus 378 ildsSq~~A~qs~lty--------elsliqgppGTgkt~vtlkav~tLL~n~s~-------------------------- 423 (1025)
T KOG1807|consen 378 ILDSSQQFAKQSKLTY--------ELSLIQGPPGTGKTLVTLKAVDTLLLNSSG-------------------------- 423 (1025)
T ss_pred eecHHHHHHHHHHhhh--------hhheeecCCCCCceeehHHHHHHHHhcccc--------------------------
Confidence 5789999999999865 599999999999999999999999975210
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEccc
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNV 1599 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~ 1599 (1789)
-....+|||.+.||+|||+++.|+.. ..+|+|+|+|..
T Consensus 424 ------------------------~~~~epIlvvC~Tnhavdq~ligiy~---------~qrpsImr~gsr 461 (1025)
T KOG1807|consen 424 ------------------------YTEPEPILVVCLTNHAVDQYLIGIYY---------HQRPSIMRQGSR 461 (1025)
T ss_pred ------------------------cccccceeeeehhhHHHHHHHHHHHh---------cCCceEEEeccc
Confidence 12356899999999999999999984 124789999975
No 8
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.23 E-value=1.4e-11 Score=159.82 Aligned_cols=277 Identities=19% Similarity=0.190 Sum_probs=149.4
Q ss_pred CccchhhhceeecCCccCCCCCccccccccccccccCcccCChhHHHHhhhHHHHHHHHHHHHhhhhcccccccc---cc
Q 000248 1214 LDDWYKPILEIDYFATVGLASSREDENRVHCKLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDM---YY 1290 (1789)
Q Consensus 1214 Ld~L~K~ILSWDy~~~~~~p~~~~~e~l~~~~LkkVP~TFsSveEY~~tFePLLLEE~~AQLqsSleEissaEd~---~~ 1290 (1789)
..++....++|.+.+..+ + ..+|.+|.+.++|+..|.|.++||+++++.++.......... ..
T Consensus 5 ~~~~~~~~~~~~~~~~~~-------------~-~~~~~~~~~~~~~~~~~~p~~~ee~~~~l~~s~~~~~~~~~~~~~~~ 70 (827)
T KOG1801|consen 5 GTDLLDSSLSWSLRDVEN-------------E-ETEPETFQSMEEYIREFFPPLLEECRSSLVSSSRKLKAPFLLEKPEQ 70 (827)
T ss_pred cccHHHHhHHHHhhhhhh-------------h-hccchhhhhHHHHHHHhhhhhhHHHHHHHhhhhhhhccchhhhhhhh
Confidence 346678889998876532 1 779999999999999999999999999998776554321100 00
Q ss_pred ceEEEEeeee--eCCeEEEEEe---ec-CCCCccccCCCCCcEEEEEecCCCC-CCCceEEEEEEEEeeccCCCCceEEE
Q 000248 1291 GSLSVLSVER--VDDFHLVRFV---HD-DNDSVTSKIFSENDLVLLTRVSPQK-TPHDVHMVGKVERRERDNNRRSSILL 1363 (1789)
Q Consensus 1291 g~IsVlS~er--vDdF~~V~f~---~~-~~d~le~~~fseGDLVLLSk~kPe~-s~~~v~aLGkVer~e~d~~r~~~iL~ 1363 (1789)
..+.+..... .+.++..... .. .............|++-.+...+.. ....+..+.++..-.... +
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~----- 143 (827)
T KOG1801|consen 71 EQIAITKNNPTSKDLRQLTNEKNIFTKEKSEKTASSVEKHLDNIRHSDAIGFAASDHIPGLLPYLASPDLEK--G----- 143 (827)
T ss_pred hhhhcccCCCCchhhhcchhHHHHHhhhhccccccccccccchhhhcccCCccccccChhhhhhhccccccc--c-----
Confidence 0000100000 0111111000 00 1111112234556666555322211 111111122222111100 0
Q ss_pred EEEEecCCcchhHHHhhhhhcccchhhhhcccccHHHHHHHhhccCCCCCccccccCCCCCCCCCCC-----Cccccccc
Q 000248 1364 IRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFHALSSLKSIPLLPIILNPVNVSRGYNE-----SRELDLGK 1438 (1789)
Q Consensus 1364 LRf~l~n~ssrLnq~~~~L~~~S~w~l~KL~SLTTilREy~AL~sL~~~PL~~~ILsP~~~s~~~~~-----s~~v~l~k 1438 (1789)
.+...........+...++...+..+++..++|.+++..... .. +..+........+ ........
T Consensus 144 -------~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 213 (827)
T KOG1801|consen 144 -------PSVDLSLAATKSLPSLICAGAFLRVLVENKNEYILIACHANN--HG-LHRPDLRFNEVNERTVHKVFENFSVI 213 (827)
T ss_pred -------cccccccchhccccccchHHHHHHHHhhcchhhhhccccccc--cc-cccccccccccccccccccccccccc
Confidence 000000000000111123356788999999999999876541 11 1111000000000 00000000
Q ss_pred hhh-HHHHhh-cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCC--CchhHHHHHHHHHHhccCCCCcccccCcccc
Q 000248 1439 LSQ-LQQILK-TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGT--GKTRTIVAIVSALLATRTSPKSHLKQNYSSC 1514 (1789)
Q Consensus 1439 ip~-L~~~Lk-~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGT--GKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~ 1514 (1789)
.+. ..+.+. ..+|.+|..++...+...+ |.+...+++|+||||| |||+|...+...++..
T Consensus 214 ~~~~~~d~~~~~~l~~~~~~~~~~~l~~~~-~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~--------------- 277 (827)
T KOG1801|consen 214 GSLFVGDVIRFTKLSRDQEPLIRGVLSQRN-CEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGL--------------- 277 (827)
T ss_pred cccchhhhhhhcccchhhHHHHhhccCccc-cccccceeeeeCCCCccccceeccchHHHHHHhc---------------
Confidence 001 223332 4799999999999998876 8888999999999999 9999888887776543
Q ss_pred cCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1515 INSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1515 ~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
..++++|++||.+|=+...|+.+
T Consensus 278 -----------------------------------------~~~~~~~s~~~~~~~~~~~r~~~ 300 (827)
T KOG1801|consen 278 -----------------------------------------DCQMLVCSLSNSNILLLTSRLYK 300 (827)
T ss_pred -----------------------------------------ccceeEeeccccchhhhHHHHHh
Confidence 45899999999999888888884
No 9
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.11 E-value=3.9e-10 Score=144.34 Aligned_cols=228 Identities=26% Similarity=0.335 Sum_probs=132.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..++..|..++...... ...+.+.+||||||||..+ .++..+....
T Consensus 273 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~--------------------------- 318 (767)
T COG1112 273 KELDNEQKLAVKRLLSL------NDLFLIHQGPFGTGKTRSV-TILELIIELL--------------------------- 318 (767)
T ss_pred hhccchhHHHHHHHhcc------cceeEeecCCCCCCcchHH-HHHHHHHHHH---------------------------
Confidence 46788899998887654 2356666799999999955 2222222110
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCCcCCCCCcCCCcEEEEcccccccCCCc
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSL 1607 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d~dG~~ykP~VVRIG~~eaVhs~V~ 1607 (1789)
...+.++|.|+|+|.++|+++.++.+... . ...+|+|..........
T Consensus 319 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-------~~~~~~~~~~~~~~~~~ 365 (767)
T COG1112 319 -------------------------ENNKLKILPTAESNAAVDNLLRRLKRTVI-K-------VELLRIGHPSRVLKKLK 365 (767)
T ss_pred -------------------------HhcccceEEecCcccchhhHHHHHHhhcc-c-------cceEEcCCcchhhhhhh
Confidence 01267999999999999999999995332 1 23999999887777766
Q ss_pred cccHHHHHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCccccccccCCCcccchH
Q 000248 1608 PFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDV 1687 (1789)
Q Consensus 1608 ~vsLD~LVeqRLs~e~~~~~d~k~~~~~ess~Lr~kLekL~~~i~~~ea~R~~~~~g~~~~k~~l~~~w~kg~~~gis~~ 1687 (1789)
..++.+.+..... ..+ ....+...+..+..+.... ... ...+..+ ....
T Consensus 366 ~~~l~~~~~~~~~--------~~~----~~~~~~~~~~~~~~~~~~~-------------~~~--~~~~~~~----~~~~ 414 (767)
T COG1112 366 LDTLEELLEKHEI--------PGN----KIAALDKVIRELREEGERI-------------IRE--IAKLRER----LERK 414 (767)
T ss_pred hhHHHHHHHhccc--------ccc----hhHHHHHHHHHHhhhhhcc-------------cee--cHHHHhh----hhhh
Confidence 6666655443211 000 1111111111111110000 000 0000000 0000
Q ss_pred HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcEEEEeCCCCCcCccccccccccCc
Q 000248 1688 ELE------AKLRKLYEQKKQIYRELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGF 1761 (1789)
Q Consensus 1688 eLe------~kL~kL~eqRrqL~~EL~~~~~~ekk~~re~e~~Rrkir~~IL~eAdIVCSTLSGSG~ells~c~eT~aaa 1761 (1789)
.+. ...+.+.......................+.+..+......+...+++||||+++|++..++
T Consensus 415 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~--------- 485 (767)
T COG1112 415 RLDKISHLNVALRGILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILK--------- 485 (767)
T ss_pred HHHHHHHhhhhhcchhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhc---------
Confidence 000 00011111111222223333333445566677778889999999999999999999987763
Q ss_pred ccCCCCCCCCCCEEEEecCcccccccCC
Q 000248 1762 KFGNPSENTLFDAVVIDEAAQVVLVHEL 1789 (1789)
Q Consensus 1762 kf~~ll~~~~FDtVIIDEAAQAvElS~L 1789 (1789)
...||+||||||+|++|+.++
T Consensus 486 -------~~~fd~viiDEAsQ~~~~~~~ 506 (767)
T COG1112 486 -------KYEFDYVIIDEASQATEPSAL 506 (767)
T ss_pred -------ccccCEEEEcchhcccchhHH
Confidence 237999999999999998764
No 10
>PF13245 AAA_19: Part of AAA domain
Probab=99.10 E-value=1.6e-10 Score=110.13 Aligned_cols=62 Identities=45% Similarity=0.691 Sum_probs=50.8
Q ss_pred HHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHH
Q 000248 1456 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAA 1535 (1789)
Q Consensus 1456 qAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daa 1535 (1789)
+||..++. . .++.+|+||||||||+|++.++..++....
T Consensus 1 ~av~~al~-~------~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~---------------------------------- 39 (76)
T PF13245_consen 1 EAVRRALA-G------SPLFVVQGPPGTGKTTTLAARIAELLAARA---------------------------------- 39 (76)
T ss_pred CHHHHHHh-h------CCeEEEECCCCCCHHHHHHHHHHHHHHHhc----------------------------------
Confidence 36776665 2 369999999999999999999998875310
Q ss_pred HHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHH
Q 000248 1536 LARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1576 (1789)
Q Consensus 1536 larql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RL 1576 (1789)
.. +++|||++|+|+|+|+|.+|+
T Consensus 40 -----------------~~-~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 40 -----------------DP-GKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred -----------------CC-CCeEEEECCCHHHHHHHHHHH
Confidence 12 679999999999999999999
No 11
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.86 E-value=5.9e-09 Score=114.85 Aligned_cols=66 Identities=36% Similarity=0.483 Sum_probs=52.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
+||+.|.+||...+.+. .++++||||||||||+++..++.++...
T Consensus 1 ~L~~~Q~~a~~~~l~~~------~~~~~l~G~aGtGKT~~l~~~~~~~~~~----------------------------- 45 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSG------DRVSVLQGPAGTGKTTLLKALAEALEAA----------------------------- 45 (196)
T ss_dssp -S-HHHHHHHHHHHHCT------CSEEEEEESTTSTHHHHHHHHHHHHHHT-----------------------------
T ss_pred CCCHHHHHHHHHHHhcC------CeEEEEEECCCCCHHHHHHHHHHHHHhC-----------------------------
Confidence 48999999999998653 3699999999999999988877655331
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHH
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1576 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RL 1576 (1789)
+.+|++|||||.|++++..++
T Consensus 46 ---------------------------g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 46 ---------------------------GKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp ---------------------------T--EEEEESSHHHHHHHHHHH
T ss_pred ---------------------------CCeEEEECCcHHHHHHHHHhh
Confidence 469999999999999988885
No 12
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=98.39 E-value=6.8e-07 Score=113.68 Aligned_cols=67 Identities=31% Similarity=0.470 Sum_probs=56.0
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHH
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARA 1530 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~ 1530 (1789)
.+.|+.|+..++.. +|++|.||||||||+|+..++..++...
T Consensus 154 ~d~Qk~Av~~a~~~--------~~~vItGgpGTGKTt~v~~ll~~l~~~~------------------------------ 195 (615)
T PRK10875 154 VDWQKVAAAVALTR--------RISVISGGPGTGKTTTVAKLLAALIQLA------------------------------ 195 (615)
T ss_pred CHHHHHHHHHHhcC--------CeEEEEeCCCCCHHHHHHHHHHHHHHhc------------------------------
Confidence 37899999998754 5999999999999999999999887531
Q ss_pred HHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1531 WQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1531 W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
..+..+|++||||+.|..++.+++-
T Consensus 196 ----------------------~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 196 ----------------------DGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred ----------------------CCCCcEEEEECCcHHHHHHHHHHHH
Confidence 0124689999999999999988774
No 13
>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=98.34 E-value=8.2e-07 Score=101.15 Aligned_cols=67 Identities=27% Similarity=0.356 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHH
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIAR 1529 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar 1529 (1789)
||+.|.++|.. . .+..+|+|+||||||+|++..+..++....
T Consensus 1 l~~eQ~~~i~~-~---------~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~---------------------------- 42 (315)
T PF00580_consen 1 LTDEQRRIIRS-T---------EGPLLVNAGAGSGKTTTLLERIAYLLYEGG---------------------------- 42 (315)
T ss_dssp S-HHHHHHHHS-----------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSS----------------------------
T ss_pred CCHHHHHHHhC-C---------CCCEEEEeCCCCCchHHHHHHHHHhhcccc----------------------------
Confidence 68999999976 2 368999999999999999999998887520
Q ss_pred HHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1530 AWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1530 ~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.+..+|||.++||+|.+|+-.||.+
T Consensus 43 ------------------------~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 43 ------------------------VPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp ------------------------STGGGEEEEESSHHHHHHHHHHHHH
T ss_pred ------------------------CChHHheecccCHHHHHHHHHHHHH
Confidence 1246799999999999999999985
No 14
>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=98.31 E-value=1.1e-06 Score=111.57 Aligned_cols=67 Identities=30% Similarity=0.452 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1531 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W 1531 (1789)
+.|+.|+..++.+ +|++|+|+||||||+|+..|+..+.....
T Consensus 148 ~~Qk~A~~~al~~--------~~~vitGgpGTGKTt~v~~ll~~l~~~~~------------------------------ 189 (586)
T TIGR01447 148 NWQKVAVALALKS--------NFSLITGGPGTGKTTTVARLLLALVKQSP------------------------------ 189 (586)
T ss_pred HHHHHHHHHHhhC--------CeEEEEcCCCCCHHHHHHHHHHHHHHhcc------------------------------
Confidence 6899999999764 59999999999999999999998865310
Q ss_pred HHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1532 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1532 ~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
...+.+|++||||+.|.+++-+.+.
T Consensus 190 ---------------------~~~~~~I~l~APTGkAA~rL~e~~~ 214 (586)
T TIGR01447 190 ---------------------KQGKLRIALAAPTGKAAARLAESLR 214 (586)
T ss_pred ---------------------ccCCCcEEEECCcHHHHHHHHHHHH
Confidence 0013589999999999999988775
No 15
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=98.23 E-value=1.4e-06 Score=111.57 Aligned_cols=70 Identities=37% Similarity=0.574 Sum_probs=60.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.+|..|.+||.+.. .+|.+.+-||||||||-+.+-||+.+-+.
T Consensus 738 ~ft~~qveai~sg~--------qpgltmvvgppgtgktd~avqil~~lyhn----------------------------- 780 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGM--------QPGLTMVVGPPGTGKTDVAVQILSVLYHN----------------------------- 780 (1320)
T ss_pred ccCHHHHHHHHhcC--------CCCceeeecCCCCCCcchhhhhhhhhhhc-----------------------------
Confidence 68999999998863 35899999999999999999999987664
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
.+..|.||.+.||+|...+-++++...
T Consensus 781 -------------------------~p~qrTlivthsnqaln~lfeKi~~~d 807 (1320)
T KOG1806|consen 781 -------------------------SPNQRTLIVTHSNQALNQLFEKIMALD 807 (1320)
T ss_pred -------------------------CCCcceEEEEecccchhHHHHHHHhcc
Confidence 246799999999999999999998543
No 16
>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=98.15 E-value=3.9e-06 Score=108.90 Aligned_cols=41 Identities=37% Similarity=0.531 Sum_probs=35.9
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..||+.|++||..++.. ++++|+|+||||||+++.+++..+
T Consensus 322 ~~l~~~Q~~Ai~~~~~~--------~~~iitGgpGTGKTt~l~~i~~~~ 362 (720)
T TIGR01448 322 KGLSEEQKQALDTAIQH--------KVVILTGGPGTGKTTITRAIIELA 362 (720)
T ss_pred CCCCHHHHHHHHHHHhC--------CeEEEECCCCCCHHHHHHHHHHHH
Confidence 47999999999998642 599999999999999998888765
No 17
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.08 E-value=1.7e-06 Score=111.02 Aligned_cols=45 Identities=20% Similarity=0.226 Sum_probs=33.9
Q ss_pred HhccCcEEEEeCCCCCcCccccccccccCcccCCCCCCCCCCEEEEecCcccccccCC
Q 000248 1732 ILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHEL 1789 (1789)
Q Consensus 1732 IL~eAdIVCSTLSGSG~ells~c~eT~aaakf~~ll~~~~FDtVIIDEAAQAvElS~L 1789 (1789)
.+-.-.|+.||+++||- + ..+.+ +-..|-.++||||+||+|+.+|
T Consensus 416 ~~~~~~i~i~t~~sag~--~-------~~~g~----~v~~f~hil~DeAg~stEpe~l 460 (775)
T KOG1804|consen 416 KVWPYRWGITTCTSAGC--V-------TSYGF----QVGHFRHILVDEAGVSTEPELL 460 (775)
T ss_pred hccceEEEEeeccceee--e-------ecccc----cccceeeeeecccccccCcccc
Confidence 55677899999999992 2 11122 2357999999999999999875
No 18
>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=98.03 E-value=8.8e-06 Score=106.00 Aligned_cols=42 Identities=26% Similarity=0.418 Sum_probs=35.6
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..||+.|++||..++.. .+|++|+||||||||+++.+++.++
T Consensus 351 ~~Ls~~Q~~Av~~i~~s-------~~~~il~G~aGTGKTtll~~i~~~~ 392 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGS-------GDIAVVVGRAGTGKSTMLKAAREAW 392 (744)
T ss_pred CCCCHHHHHHHHHHhcC-------CCEEEEEecCCCCHHHHHHHHHHHH
Confidence 47999999999998753 2599999999999999988876644
No 19
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=97.87 E-value=1.9e-05 Score=101.90 Aligned_cols=68 Identities=24% Similarity=0.324 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++||... .|-.||-+.||||||+||+.-|..|+....
T Consensus 2 ~Ln~~Q~~av~~~----------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~--------------------------- 44 (672)
T PRK10919 2 RLNPGQQQAVEFV----------TGPCLVLAGAGSGKTRVITNKIAHLIRGCG--------------------------- 44 (672)
T ss_pred CCCHHHHHHHhCC----------CCCEEEEecCCCCHHHHHHHHHHHHHHhcC---------------------------
Confidence 5899999998642 256788899999999999999999986310
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
-++.+||+.+.||.|.+|+..||.+
T Consensus 45 -------------------------v~p~~IL~lTFT~kAA~em~~Rl~~ 69 (672)
T PRK10919 45 -------------------------YQARHIAAVTFTNKAAREMKERVAQ 69 (672)
T ss_pred -------------------------CCHHHeeeEechHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 20
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.86 E-value=2.4e-05 Score=107.27 Aligned_cols=44 Identities=27% Similarity=0.400 Sum_probs=38.3
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..||+.|++||..+|...+ +|++|||+||||||+++.+++.++-
T Consensus 834 ~~Lt~~Qr~Av~~iLts~d------r~~~IqG~AGTGKTT~l~~i~~~~~ 877 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSD------RFTVVQGYAGVGKTTQFRAVMSAVN 877 (1623)
T ss_pred cccCHHHHHHHHHHHhCCC------ceEEEEeCCCCCHHHHHHHHHHHHH
Confidence 4799999999999987543 6999999999999999988887653
No 21
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=97.83 E-value=2.6e-05 Score=101.29 Aligned_cols=68 Identities=24% Similarity=0.347 Sum_probs=57.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++||... .+-.||-|.||||||+|++.-|..|+....
T Consensus 4 ~Ln~~Q~~av~~~----------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~--------------------------- 46 (715)
T TIGR01075 4 GLNDKQREAVAAP----------PGNLLVLAGAGSGKTRVLTHRIAWLLSVEN--------------------------- 46 (715)
T ss_pred ccCHHHHHHHcCC----------CCCEEEEecCCCCHHHHHHHHHHHHHHcCC---------------------------
Confidence 6999999998642 256899999999999999999999986410
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
-++.+||+.+.||.|.+|+-.||.+
T Consensus 47 -------------------------v~p~~IL~lTFTnkAA~em~~Rl~~ 71 (715)
T TIGR01075 47 -------------------------ASPHSIMAVTFTNKAAAEMRHRIGA 71 (715)
T ss_pred -------------------------CCHHHeEeeeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 22
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.83 E-value=3e-05 Score=103.04 Aligned_cols=39 Identities=21% Similarity=0.288 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.||+.|++||..+++.. ++++|+|+||||||+++..++.
T Consensus 346 ~Ls~eQr~Av~~il~s~-------~v~vv~G~AGTGKTT~l~~~~~ 384 (988)
T PRK13889 346 VLSGEQADALAHVTDGR-------DLGVVVGYAGTGKSAMLGVARE 384 (988)
T ss_pred CCCHHHHHHHHHHhcCC-------CeEEEEeCCCCCHHHHHHHHHH
Confidence 69999999999987542 4999999999999998655544
No 23
>PRK11054 helD DNA helicase IV; Provisional
Probab=97.80 E-value=2.7e-05 Score=100.64 Aligned_cols=69 Identities=29% Similarity=0.366 Sum_probs=57.4
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..||++|++||... .+-.||.|.||||||+|+++-+..|+....
T Consensus 195 ~~L~~~Q~~av~~~----------~~~~lV~agaGSGKT~vl~~r~ayLl~~~~-------------------------- 238 (684)
T PRK11054 195 SPLNPSQARAVVNG----------EDSLLVLAGAGSGKTSVLVARAGWLLARGQ-------------------------- 238 (684)
T ss_pred CCCCHHHHHHHhCC----------CCCeEEEEeCCCCHHHHHHHHHHHHHHhCC--------------------------
Confidence 47999999999743 134699999999999999999999986411
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
..+.+||+.|+||.|.+|+-.||.+
T Consensus 239 --------------------------~~~~~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 239 --------------------------AQPEQILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred --------------------------CCHHHeEEEeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 24
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=97.79 E-value=3.5e-05 Score=100.23 Aligned_cols=69 Identities=25% Similarity=0.368 Sum_probs=57.5
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..||+.|++||... .+-.||-|.||||||+||+.-|..|+....
T Consensus 8 ~~Ln~~Q~~av~~~----------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~-------------------------- 51 (721)
T PRK11773 8 DSLNDKQREAVAAP----------LGNMLVLAGAGSGKTRVLVHRIAWLMQVEN-------------------------- 51 (721)
T ss_pred HhcCHHHHHHHhCC----------CCCEEEEecCCCCHHHHHHHHHHHHHHcCC--------------------------
Confidence 37999999999642 256889999999999999999999886310
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.++.+||+.+.||.|.+|+-.|+.+
T Consensus 52 --------------------------v~p~~IL~lTFT~kAA~Em~~Rl~~ 76 (721)
T PRK11773 52 --------------------------ASPYSIMAVTFTNKAAAEMRHRIEQ 76 (721)
T ss_pred --------------------------CChhHeEeeeccHHHHHHHHHHHHH
Confidence 1246899999999999999999985
No 25
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.76 E-value=5.1e-05 Score=105.27 Aligned_cols=44 Identities=25% Similarity=0.363 Sum_probs=38.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..||+.|++||..++.+. .+|++|||+||||||+++..++..+-
T Consensus 966 ~~Lt~~Q~~Av~~il~s~------dr~~~I~G~AGTGKTT~l~~v~~~~~ 1009 (1747)
T PRK13709 966 EGLTSGQRAATRMILEST------DRFTVVQGYAGVGKTTQFRAVMSAVN 1009 (1747)
T ss_pred CCCCHHHHHHHHHHHhCC------CcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 479999999999998753 26999999999999999988887653
No 26
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=97.70 E-value=5e-05 Score=97.64 Aligned_cols=68 Identities=24% Similarity=0.323 Sum_probs=56.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++||... .+-.+|-|.||||||+|++.-|..++....
T Consensus 1 ~Ln~~Q~~av~~~----------~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~--------------------------- 43 (664)
T TIGR01074 1 KLNPQQQEAVEYV----------TGPCLVLAGAGSGKTRVITNKIAYLIQNCG--------------------------- 43 (664)
T ss_pred CCCHHHHHHHhCC----------CCCEEEEecCCCCHHHHHHHHHHHHHHhcC---------------------------
Confidence 4899999998642 256899999999999999999999886310
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.++.+||+.++||.|..|+-.||.+
T Consensus 44 -------------------------~~p~~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 44 -------------------------YKARNIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred -------------------------CCHHHeEEEeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 27
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.67 E-value=0.00014 Score=75.89 Aligned_cols=71 Identities=20% Similarity=0.264 Sum_probs=56.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.+++-|.+++...+... ...+|.||+|||||.++...+...+..
T Consensus 8 ~~~~~Q~~~~~~~~~~~-------~~~~i~~~~GsGKT~~~~~~~~~~~~~----------------------------- 51 (201)
T smart00487 8 PLRPYQKEAIEALLSGL-------RDVILAAPTGSGKTLAALLPALEALKR----------------------------- 51 (201)
T ss_pred CCCHHHHHHHHHHHcCC-------CcEEEECCCCCchhHHHHHHHHHHhcc-----------------------------
Confidence 68999999999886531 478999999999999877776655432
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
....++||++|++++++++..++.+.+
T Consensus 52 -------------------------~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 52 -------------------------GKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred -------------------------cCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 114689999999999999999998543
No 28
>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=97.65 E-value=9.7e-05 Score=72.59 Aligned_cols=51 Identities=24% Similarity=0.393 Sum_probs=43.0
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccccc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSES 1553 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~ 1553 (1789)
-.+|+||||||||.++..++..+...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~------------------------------------------------------ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS------------------------------------------------------ 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc------------------------------------------------------
Confidence 46899999999999999988876542
Q ss_pred ccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1554 SVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1554 ~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
...++++|++|++..+++...++.+
T Consensus 28 ~~~~~~lv~~p~~~l~~~~~~~~~~ 52 (144)
T cd00046 28 LKGGQVLVLAPTRELANQVAERLKE 52 (144)
T ss_pred ccCCCEEEEcCcHHHHHHHHHHHHH
Confidence 1256999999999999999998884
No 29
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=97.61 E-value=0.00011 Score=98.64 Aligned_cols=41 Identities=27% Similarity=0.380 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.||+.|.+||...++. .+|++|+|+||||||+++..++.++
T Consensus 381 ~Ls~eQ~~Av~~i~~~-------~r~~~v~G~AGTGKTt~l~~~~~~~ 421 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGP-------ARIAAVVGRAGAGKTTMMKAAREAW 421 (1102)
T ss_pred CCCHHHHHHHHHHhcc-------CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence 6999999999986532 3699999999999999888876543
No 30
>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=97.55 E-value=0.00012 Score=103.61 Aligned_cols=45 Identities=27% Similarity=0.375 Sum_probs=38.2
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..||+.|++||..++...+ .|++|||+||||||+++..++.++..
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~------~~~~i~G~AGtGKTt~l~~~~~~i~~ 1062 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKD------RFVAVQGLAGVGKTTMLESRYKPVLQ 1062 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCC------cEEEEEeCCCCCHHHhHHHHHHHHHH
Confidence 4799999999999986543 69999999999999999887776654
No 31
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=97.51 E-value=0.00014 Score=94.78 Aligned_cols=68 Identities=26% Similarity=0.361 Sum_probs=56.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++||... .+-.||-|.||||||+||+.-|..|+....
T Consensus 4 ~Ln~~Q~~av~~~----------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~--------------------------- 46 (726)
T TIGR01073 4 HLNPEQREAVKTT----------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKN--------------------------- 46 (726)
T ss_pred ccCHHHHHHHhCC----------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCC---------------------------
Confidence 6999999999642 256889999999999999999999986410
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
-.+.+||+.+.||.|.+|+..|+.+
T Consensus 47 -------------------------i~P~~IL~lTFT~kAA~em~~Rl~~ 71 (726)
T TIGR01073 47 -------------------------VAPWNILAITFTNKAAREMKERVEK 71 (726)
T ss_pred -------------------------CCHHHeeeeeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 32
>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=97.50 E-value=0.00019 Score=101.75 Aligned_cols=65 Identities=18% Similarity=0.223 Sum_probs=54.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++||..++.+. ..|.+|+|+||||||+++.+++..+-.
T Consensus 429 ~Ls~~Q~~Av~~il~s~------~~v~ii~G~aGTGKTt~l~~l~~~~~~------------------------------ 472 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFTST------KRFIIINGFGGTGSTEIAQLLLHLASE------------------------------ 472 (1960)
T ss_pred CCCHHHHHHHHHHHhCC------CCeEEEEECCCCCHHHHHHHHHHHHHh------------------------------
Confidence 79999999999998754 379999999999999998888764311
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHH
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSR 1575 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~R 1575 (1789)
.+.+|.+||||+.|...+.+.
T Consensus 473 --------------------------~G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 473 --------------------------QGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred --------------------------cCCeEEEEeCCHHHHHHHHHH
Confidence 246899999999999988765
No 33
>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=97.33 E-value=0.00029 Score=85.04 Aligned_cols=46 Identities=30% Similarity=0.418 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+||+.|++++..++..-. ...+....|.||+|||||++|-.|+..+
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~--~~~~~~~fv~G~~GtGKs~l~~~i~~~~ 46 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIE--NEEGLNFFVTGPAGTGKSFLIKAIIDYL 46 (364)
T ss_pred CCCHHHHHHHHHHHHHHH--ccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence 489999999766644321 2345688999999999999998888754
No 34
>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=97.24 E-value=0.00061 Score=71.76 Aligned_cols=69 Identities=28% Similarity=0.371 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
+|.+.|.+||...+..-. .....+-.||++|+|||||.+++.++..+.
T Consensus 3 ~lr~~Q~~ai~~i~~~~~-~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------------------------------- 50 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLE-NKKEERRVLLNAPTGSGKTIIALALILELA------------------------------- 50 (184)
T ss_dssp EE-HHHHHHHHHHHHHHH-TTSGCSEEEEEESTTSSHHHHHHHHHHHHH-------------------------------
T ss_pred CCCHHHHHHHHHHHHHHH-hcCCCCCEEEEECCCCCcChhhhhhhhccc-------------------------------
Confidence 578899999998875311 001247899999999999998887665432
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
+ ++|+++|+..-+++....+.
T Consensus 51 ---------------------------~-~~l~~~p~~~l~~Q~~~~~~ 71 (184)
T PF04851_consen 51 ---------------------------R-KVLIVAPNISLLEQWYDEFD 71 (184)
T ss_dssp ---------------------------C-EEEEEESSHHHHHHHHHHHH
T ss_pred ---------------------------c-ceeEecCHHHHHHHHHHHHH
Confidence 1 89999999999999998884
No 35
>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=96.79 E-value=0.0052 Score=64.48 Aligned_cols=67 Identities=30% Similarity=0.298 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1531 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W 1531 (1789)
+-|.+|+..++.. .-.+|+||+|+|||..+...+...+..
T Consensus 2 ~~Q~~~~~~i~~~--------~~~li~aptGsGKT~~~~~~~l~~~~~-------------------------------- 41 (169)
T PF00270_consen 2 PLQQEAIEAIISG--------KNVLISAPTGSGKTLAYILPALNRLQE-------------------------------- 41 (169)
T ss_dssp HHHHHHHHHHHTT--------SEEEEECSTTSSHHHHHHHHHHHHHHT--------------------------------
T ss_pred HHHHHHHHHHHcC--------CCEEEECCCCCccHHHHHHHHHhhhcc--------------------------------
Confidence 5799999998732 248999999999999766544433321
Q ss_pred HHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1532 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1532 ~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
....++++.+|+.+-+++...++.+.+
T Consensus 42 ----------------------~~~~~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 42 ----------------------GKDARVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp ----------------------TSSSEEEEEESSHHHHHHHHHHHHHHT
T ss_pred ----------------------CCCceEEEEeecccccccccccccccc
Confidence 123599999999999999999998543
No 36
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.50 E-value=0.0025 Score=75.33 Aligned_cols=39 Identities=38% Similarity=0.462 Sum_probs=30.1
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+++..++.. ...+..|.+||||||||.||.++-.+|.-
T Consensus 45 V~~L~~a~~~-----~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 45 VQVLKNALLR-----RILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred HHHHHHHHhh-----cCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 3445555543 23478999999999999999999888875
No 37
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=96.39 E-value=0.0049 Score=79.54 Aligned_cols=68 Identities=25% Similarity=0.302 Sum_probs=55.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.||+.|++|+... .|-.||-..||||||+||..-|..|+....
T Consensus 2 ~Ln~~Q~~av~~~----------~gp~lV~AGaGsGKT~vlt~Ria~li~~~~--------------------------- 44 (655)
T COG0210 2 KLNPEQREAVLHP----------DGPLLVLAGAGSGKTRVLTERIAYLIAAGG--------------------------- 44 (655)
T ss_pred CCCHHHHHHHhcC----------CCCeEEEECCCCCchhhHHHHHHHHHHcCC---------------------------
Confidence 6899999999754 256777777999999999999999887521
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
-...+||+.+.||.|+.|+..|+.+
T Consensus 45 -------------------------v~p~~Il~vTFTnkAA~em~~Rl~~ 69 (655)
T COG0210 45 -------------------------VDPEQILAITFTNKAAAEMRERLLK 69 (655)
T ss_pred -------------------------cChHHeeeeechHHHHHHHHHHHHH
Confidence 1134699999999999999999985
No 38
>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=96.38 E-value=0.005 Score=61.23 Aligned_cols=42 Identities=38% Similarity=0.559 Sum_probs=31.0
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
++.+.++|...+... .....+|.||||||||+++..+...+.
T Consensus 3 ~~~~~~~i~~~~~~~-----~~~~v~i~G~~G~GKT~l~~~i~~~~~ 44 (151)
T cd00009 3 QEEAIEALREALELP-----PPKNLLLYGPPGTGKTTLARAIANELF 44 (151)
T ss_pred hHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence 455667777766432 246899999999999988777777654
No 39
>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=96.25 E-value=0.018 Score=62.84 Aligned_cols=70 Identities=20% Similarity=0.177 Sum_probs=52.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+++-|.+|+...+.. .-.||.+|+|+|||.++ ..++..+....
T Consensus 21 ~~~~~Q~~~~~~~~~~--------~~~li~~~TG~GKT~~~~~~~l~~~~~~~--------------------------- 65 (203)
T cd00268 21 KPTPIQARAIPPLLSG--------RDVIGQAQTGSGKTAAFLIPILEKLDPSP--------------------------- 65 (203)
T ss_pred CCCHHHHHHHHHHhcC--------CcEEEECCCCCcHHHHHHHHHHHHHHhhc---------------------------
Confidence 5899999999988753 24899999999999873 34444332210
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
...+.|++|++|+.+-+.++...+.+
T Consensus 66 -------------------------~~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 66 -------------------------KKDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred -------------------------ccCCceEEEEcCCHHHHHHHHHHHHH
Confidence 01357999999999999999888764
No 40
>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=96.06 E-value=0.0038 Score=61.13 Aligned_cols=24 Identities=50% Similarity=0.793 Sum_probs=20.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...+|.||||||||++...+...+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~ 26 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALAREL 26 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhcc
Confidence 588999999999999888877654
No 41
>PRK06851 hypothetical protein; Provisional
Probab=95.91 E-value=0.033 Score=68.02 Aligned_cols=59 Identities=22% Similarity=0.406 Sum_probs=48.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSE 1552 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~ 1552 (1789)
.+.+|.||||||||+++..++..+....
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g---------------------------------------------------- 58 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKG---------------------------------------------------- 58 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC----------------------------------------------------
Confidence 5899999999999999999988775530
Q ss_pred cccCCeEEEEeCchHHHHHHHHHHHhcCCcCCC
Q 000248 1553 SSVRARVLICAQSNAAVDELVSRISKEGLYGSD 1585 (1789)
Q Consensus 1553 ~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d~d 1585 (1789)
..--.++|+..|-+||-|+-+=++.++.|..
T Consensus 59 --~~Ve~~~~~~d~~slDgviip~l~~aivDgt 89 (367)
T PRK06851 59 --YDVEFLHCSSDNDSLDGVIIPELKIAILDGT 89 (367)
T ss_pred --CeEEEEEcCCCCCceeeEEecCCCEEEEcCC
Confidence 1235899999999999999888778888754
No 42
>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=95.85 E-value=0.0051 Score=61.84 Aligned_cols=22 Identities=50% Similarity=0.794 Sum_probs=18.6
Q ss_pred eEEeCCCCCCchhHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.||.||||||||+++..+...+
T Consensus 1 ill~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHT
T ss_pred CEEECcCCCCeeHHHHHHHhhc
Confidence 3899999999999888777754
No 43
>PTZ00424 helicase 45; Provisional
Probab=95.72 E-value=0.029 Score=67.73 Aligned_cols=33 Identities=27% Similarity=0.205 Sum_probs=27.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1489 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI 1489 (1789)
.+|+-|.+||..++... =.+|++|+|||||.+.
T Consensus 50 ~~~~~Q~~ai~~i~~~~--------d~ii~apTGsGKT~~~ 82 (401)
T PTZ00424 50 KPSAIQQRGIKPILDGY--------DTIGQAQSGTGKTATF 82 (401)
T ss_pred CCCHHHHHHHHHHhCCC--------CEEEECCCCChHHHHH
Confidence 57999999999987643 2679999999999743
No 44
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=95.65 E-value=0.011 Score=62.83 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.|.+.+...+... ........+|.||||||||+++..+...+-.
T Consensus 6 ~~e~~~l~~~l~~~--~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~ 50 (185)
T PF13191_consen 6 EEEIERLRDLLDAA--QSGSPRNLLLTGESGSGKTSLLRALLDRLAE 50 (185)
T ss_dssp HHHHHHHHHTTGGT--SS-----EEE-B-TTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH--HcCCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 45677777777422 2445689999999999999998887776654
No 45
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=95.63 E-value=0.021 Score=79.07 Aligned_cols=67 Identities=27% Similarity=0.359 Sum_probs=52.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
++++.|.+||..- ..-.||-+.+|||||+|++.-+..++...
T Consensus 1 ~~t~~Q~~ai~~~----------~~~~lv~A~AGsGKT~~lv~r~~~~~~~~---------------------------- 42 (1232)
T TIGR02785 1 QWTDEQWQAIYTR----------GQNILVSASAGSGKTAVLVERIIKKILRG---------------------------- 42 (1232)
T ss_pred CCCHHHHHHHhCC----------CCCEEEEecCCCcHHHHHHHHHHHHHhcC----------------------------
Confidence 4789999999731 13578999999999999999877665430
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
....+|||.+.||+|..|+-.||.+
T Consensus 43 -------------------------~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 43 -------------------------VDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred -------------------------CCHhhEEEEeccHHHHHHHHHHHHH
Confidence 0125799999999999999999874
No 46
>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=95.60 E-value=0.012 Score=70.35 Aligned_cols=47 Identities=21% Similarity=0.239 Sum_probs=32.6
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-+.|.++|...+...- .....+..+|.||||||||+++..++..+-.
T Consensus 20 Re~e~~~l~~~l~~~~-~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 20 RDEQIEELAKALRPIL-RGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred cHHHHHHHHHHHHHHH-cCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4566666666554210 0123467899999999999999999887653
No 47
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.50 E-value=0.026 Score=65.43 Aligned_cols=48 Identities=31% Similarity=0.428 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
++.|..|+..+..-...-.......++.||||||||+++.+|...+..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~ 125 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLL 125 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence 455666665554211100111236799999999999999999887764
No 48
>PHA02558 uvsW UvsW helicase; Provisional
Probab=95.47 E-value=0.042 Score=69.35 Aligned_cols=69 Identities=16% Similarity=0.181 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.+.+-|.+||..++... -.+++.|+|+|||.++..++..++..
T Consensus 114 ~~r~~Q~~av~~~l~~~--------~~il~apTGsGKT~i~~~l~~~~~~~----------------------------- 156 (501)
T PHA02558 114 EPHWYQYDAVYEGLKNN--------RRLLNLPTSAGKSLIQYLLSRYYLEN----------------------------- 156 (501)
T ss_pred CCCHHHHHHHHHHHhcC--------ceEEEeCCCCCHHHHHHHHHHHHHhc-----------------------------
Confidence 57789999999987642 35899999999999766554333221
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
.+.++||++||.+-++++..++.+-+
T Consensus 157 --------------------------~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 157 --------------------------YEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred --------------------------CCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 13489999999999999999998644
No 49
>PLN03025 replication factor C subunit; Provisional
Probab=95.37 E-value=0.021 Score=67.91 Aligned_cols=44 Identities=34% Similarity=0.517 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-|+...+.+...+.... .+-.|++||||||||+++.++...++.
T Consensus 17 g~~~~~~~L~~~~~~~~-----~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 17 GNEDAVSRLQVIARDGN-----MPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred CcHHHHHHHHHHHhcCC-----CceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 45566666666654322 235799999999999999999888764
No 50
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.33 E-value=0.021 Score=78.19 Aligned_cols=56 Identities=34% Similarity=0.388 Sum_probs=47.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSS 1551 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss 1551 (1789)
.|..||-.-+|||||+||.+++-.|+....
T Consensus 9 ~G~~lieAsAGtGKT~ti~~~~lrll~~~~-------------------------------------------------- 38 (1087)
T TIGR00609 9 NGTFLIEASAGTGKTFTIAQLYLRLLLEGG-------------------------------------------------- 38 (1087)
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHHhcCC--------------------------------------------------
Confidence 479999999999999999999988876410
Q ss_pred ccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1552 ESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1552 ~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.....+|||.+.||+|.-|+-.|+.+
T Consensus 39 -~~~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 39 -PLTVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred -CCChhhEEEEehhHHHHHHHHHHHHH
Confidence 01246899999999999999999984
No 51
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=95.26 E-value=0.059 Score=66.30 Aligned_cols=72 Identities=24% Similarity=0.246 Sum_probs=50.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+..-|.+||..++... =.|+++|+|||||.+. +.++..++...
T Consensus 23 ~p~~iQ~~ai~~~~~g~--------d~l~~apTGsGKT~~~~lp~l~~l~~~~--------------------------- 67 (434)
T PRK11192 23 RPTAIQAEAIPPALDGR--------DVLGSAPTGTGKTAAFLLPALQHLLDFP--------------------------- 67 (434)
T ss_pred CCCHHHHHHHHHHhCCC--------CEEEECCCCChHHHHHHHHHHHHHhhcc---------------------------
Confidence 46689999999998542 3899999999999753 23344333210
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.......++||++||.+-+.++...+..
T Consensus 68 -----------------------~~~~~~~~~lil~Pt~eLa~Q~~~~~~~ 95 (434)
T PRK11192 68 -----------------------RRKSGPPRILILTPTRELAMQVADQARE 95 (434)
T ss_pred -----------------------ccCCCCceEEEECCcHHHHHHHHHHHHH
Confidence 0011346899999999998888776653
No 52
>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=95.25 E-value=0.02 Score=66.19 Aligned_cols=25 Identities=28% Similarity=0.380 Sum_probs=20.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.-.|+.||||||||++...+...+.
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~ 67 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFK 67 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHH
Confidence 4568999999999998888776654
No 53
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.10 E-value=0.062 Score=70.43 Aligned_cols=70 Identities=20% Similarity=0.324 Sum_probs=53.0
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..+++.|.+|+...+... .....|++||+|+|||.+.+.++...+..
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~-----~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~---------------------------- 189 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAA-----GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ---------------------------- 189 (679)
T ss_pred CCCCHHHHHHHHHHHhcc-----CCCcEEEECCCCChHHHHHHHHHHHHHHc----------------------------
Confidence 368999999999986531 12469999999999998766554433321
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
++++||.+|+-+=+++++.++.+
T Consensus 190 ----------------------------g~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 190 ----------------------------GKQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred ----------------------------CCeEEEEeCcHHHHHHHHHHHHH
Confidence 35789999999999999888874
No 54
>PRK12377 putative replication protein; Provisional
Probab=95.09 E-value=0.018 Score=66.96 Aligned_cols=27 Identities=41% Similarity=0.527 Sum_probs=23.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+|.||||||||++..+|...++..
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~ 128 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAK 128 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 467999999999999999999988754
No 55
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.02 E-value=0.015 Score=69.31 Aligned_cols=25 Identities=48% Similarity=0.757 Sum_probs=20.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+.+.|++||||||||+.-.++-..|
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkL 201 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKL 201 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhh
Confidence 3699999999999999777765543
No 56
>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=94.91 E-value=0.048 Score=58.71 Aligned_cols=24 Identities=42% Similarity=0.580 Sum_probs=19.3
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
++||-||||||||.....++...+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 378999999999997777766544
No 57
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=94.81 E-value=0.018 Score=66.08 Aligned_cols=28 Identities=43% Similarity=0.744 Sum_probs=24.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+=-+|-||||||||++|..+-..||-.
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG~ 75 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLGD 75 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhCh
Confidence 3567899999999999999999888863
No 58
>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=94.79 E-value=0.053 Score=61.61 Aligned_cols=42 Identities=33% Similarity=0.455 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..|..|..++.+.+.. .++.+.||+|||||...++.-..++.
T Consensus 4 p~~~~Q~~~~~al~~~--------~~v~~~G~AGTGKT~LA~a~Al~~v~ 45 (205)
T PF02562_consen 4 PKNEEQKFALDALLNN--------DLVIVNGPAGTGKTFLALAAALELVK 45 (205)
T ss_dssp --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHHHH
Confidence 5799999999988732 59999999999999977766555544
No 59
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=94.72 E-value=0.092 Score=68.23 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=30.7
Q ss_pred HhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH
Q 000248 1445 ILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1489 (1789)
Q Consensus 1445 ~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI 1489 (1789)
.+-..+++.|.+||...+.... ...+--.|||||.|||||-+.
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~--~~~~~~~Ll~g~TGSGKT~va 273 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLK--SDVPMNRLLQGDVGSGKTLVA 273 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhc--cCCCccEEEECCCCCcHHHHH
Confidence 3445789999999988875421 111224699999999999754
No 60
>PRK10536 hypothetical protein; Provisional
Probab=94.60 E-value=0.07 Score=62.60 Aligned_cols=41 Identities=27% Similarity=0.281 Sum_probs=33.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..|..|..++..... .++++|.||+|||||++.+++....+
T Consensus 59 p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l 99 (262)
T PRK10536 59 ARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEAL 99 (262)
T ss_pred CCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 689999999886532 25999999999999999988877444
No 61
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=94.60 E-value=0.044 Score=64.03 Aligned_cols=43 Identities=26% Similarity=0.441 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+.|.+++..++... .++.+|-||+|+|||+|+.+++..+.
T Consensus 63 g~~~~~~~~l~~~~~~~------~GlilisG~tGSGKTT~l~all~~i~ 105 (264)
T cd01129 63 GLKPENLEIFRKLLEKP------HGIILVTGPTGSGKTTTLYSALSELN 105 (264)
T ss_pred CCCHHHHHHHHHHHhcC------CCEEEEECCCCCcHHHHHHHHHhhhC
Confidence 57888999998887543 37999999999999999999888764
No 62
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.57 E-value=0.046 Score=64.32 Aligned_cols=43 Identities=30% Similarity=0.550 Sum_probs=31.8
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
++...+.+..++... ..+..||.||||||||+++.++...+..
T Consensus 20 ~~~~~~~L~~~~~~~-----~~~~lll~Gp~GtGKT~la~~~~~~l~~ 62 (337)
T PRK12402 20 QDEVVERLSRAVDSP-----NLPHLLVQGPPGSGKTAAVRALARELYG 62 (337)
T ss_pred CHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 566666677766542 2245899999999999999998877653
No 63
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=94.46 E-value=0.071 Score=73.22 Aligned_cols=75 Identities=23% Similarity=0.227 Sum_probs=56.9
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHH
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIAR 1529 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar 1529 (1789)
+=.-|.+||.+....- .+...=.||+.|.|||||.|.++++..|+...
T Consensus 414 lR~YQ~~AI~ai~~a~---~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~----------------------------- 461 (1123)
T PRK11448 414 LRYYQEDAIQAVEKAI---VEGQREILLAMATGTGKTRTAIALMYRLLKAK----------------------------- 461 (1123)
T ss_pred CCHHHHHHHHHHHHHH---HhccCCeEEEeCCCCCHHHHHHHHHHHHHhcC-----------------------------
Confidence 4568999997765321 11123489999999999999999988876531
Q ss_pred HHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCC
Q 000248 1530 AWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGL 1581 (1789)
Q Consensus 1530 ~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI 1581 (1789)
..+|||+.+|+++=+++....+.+.|+
T Consensus 462 -------------------------~~~rVLfLvDR~~L~~Qa~~~F~~~~~ 488 (1123)
T PRK11448 462 -------------------------RFRRILFLVDRSALGEQAEDAFKDTKI 488 (1123)
T ss_pred -------------------------ccCeEEEEecHHHHHHHHHHHHHhccc
Confidence 135999999999999999998886554
No 64
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=94.38 E-value=0.13 Score=63.90 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=27.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1488 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkT 1488 (1789)
.+++-|.+||...+... =.+|++|.|||||.+
T Consensus 26 ~~t~iQ~~ai~~~l~g~--------dvi~~a~TGsGKT~a 57 (460)
T PRK11776 26 EMTPIQAQSLPAILAGK--------DVIAQAKTGSGKTAA 57 (460)
T ss_pred CCCHHHHHHHHHHhcCC--------CEEEECCCCCcHHHH
Confidence 57899999999987542 489999999999953
No 65
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.34 E-value=0.14 Score=67.16 Aligned_cols=46 Identities=20% Similarity=0.187 Sum_probs=32.2
Q ss_pred HHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH
Q 000248 1443 QQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1443 ~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv 1490 (1789)
.+.+-..+++.|.+||...+.... ...+.-.|||||.|||||-+..
T Consensus 255 ~~~l~f~lt~~Q~~ai~~I~~d~~--~~~~~~~Ll~~~TGSGKT~va~ 300 (681)
T PRK10917 255 LASLPFELTGAQKRVVAEILADLA--SPKPMNRLLQGDVGSGKTVVAA 300 (681)
T ss_pred HHhCCCCCCHHHHHHHHHHHHhhh--ccCCceEEEECCCCCcHHHHHH
Confidence 334445799999999988765321 1122357999999999997444
No 66
>PRK08181 transposase; Validated
Probab=94.33 E-value=0.049 Score=64.04 Aligned_cols=47 Identities=30% Similarity=0.373 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+|..|..|+..+-.- .+...-.+|.||||||||+...+|...++..
T Consensus 87 ~~~~~~~~~L~~~~~~----~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 87 MVSKAQVMAIAAGDSW----LAKGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred CCCHHHHHHHHHHHHH----HhcCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 5788888887655211 1122358999999999999999998877653
No 67
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=94.28 E-value=0.03 Score=56.72 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=20.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++.+|.||||+|||+++..+...+..
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~ 30 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNA 30 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHH
Confidence 468999999999999999988887654
No 68
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.27 E-value=0.046 Score=66.07 Aligned_cols=27 Identities=44% Similarity=0.587 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+..+|.||||||||+++..+...+-.
T Consensus 55 ~~~~lI~G~~GtGKT~l~~~v~~~l~~ 81 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTVKKVFEELEE 81 (394)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 356799999999999999998887644
No 69
>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=94.22 E-value=0.032 Score=57.81 Aligned_cols=22 Identities=45% Similarity=0.758 Sum_probs=19.0
Q ss_pred eEEeCCCCCCchhHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.||.||||||||+++-.+...+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999999888877666
No 70
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.22 E-value=0.14 Score=67.36 Aligned_cols=51 Identities=10% Similarity=0.174 Sum_probs=32.8
Q ss_pred CCeEEEEeCchHHHHHHHHHHHhcC--CcCCCCCcCCCcEEEEcccccc--cCCC
Q 000248 1556 RARVLICAQSNAAVDELVSRISKEG--LYGSDGKTYKPYLVRVGNVKTV--HPNS 1606 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLlk~G--I~d~dG~~ykP~VVRIG~~eaV--hs~V 1606 (1789)
..||..|+.|++-+.+++.-|.+.. .....|..-..+.|=+|..+.+ |+.+
T Consensus 60 ~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~~~~~~i~~v~L~SR~~lCin~~v 114 (705)
T TIGR00604 60 VRKIIYASRTHSQLEQATEELRKLMSYRTPRIGEESPVSGLSLASRKNLCLHPEV 114 (705)
T ss_pred cccEEEEcccchHHHHHHHHHHhhhhccccccccCCceeEEEechHhhcccChHH
Confidence 3699999999999999999998532 1111111112456777876654 4444
No 71
>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=94.05 E-value=0.036 Score=61.18 Aligned_cols=27 Identities=44% Similarity=0.692 Sum_probs=23.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.=.+|+||||||||+..++|...++..
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~ 74 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRK 74 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccC
Confidence 458899999999999999999888764
No 72
>PRK06893 DNA replication initiation factor; Validated
Probab=94.04 E-value=0.044 Score=62.44 Aligned_cols=28 Identities=21% Similarity=0.281 Sum_probs=24.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.++.+|+||||||||+...++...+...
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~ 66 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLN 66 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3678999999999999999998887654
No 73
>PRK06526 transposase; Provisional
Probab=93.89 E-value=0.059 Score=62.77 Aligned_cols=27 Identities=33% Similarity=0.506 Sum_probs=23.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+|.||||||||++..+|...+...
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 457999999999999999998877653
No 74
>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=93.88 E-value=0.06 Score=62.99 Aligned_cols=24 Identities=38% Similarity=0.638 Sum_probs=19.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+-.+|.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 458999999999999888775543
No 75
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=93.88 E-value=0.086 Score=72.98 Aligned_cols=62 Identities=32% Similarity=0.394 Sum_probs=46.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSS 1551 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss 1551 (1789)
.|..||----|||||+||.++.-.|+-..... ..+ .+
T Consensus 17 ~G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~-----~~~-----~~--------------------------------- 53 (1181)
T PRK10876 17 QGERLIEASAGTGKTFTIAALYLRLLLGLGGS-----AAF-----PR--------------------------------- 53 (1181)
T ss_pred CCCEEEEeCCCCcHHHHHHHHHHHHHccCCcc-----ccc-----cC---------------------------------
Confidence 47999999999999999999988777532100 000 00
Q ss_pred ccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1552 ESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1552 ~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.-....|||.+.||+|.-|+-.||.
T Consensus 54 -~L~~~~ILvvTFT~aAt~Elr~RIr 78 (1181)
T PRK10876 54 -PLTVEEILVVTFTEAATEELRGRIR 78 (1181)
T ss_pred -CCChhhEEEEechHHHHHHHHHHHH
Confidence 0124689999999999999999996
No 76
>PRK08084 DNA replication initiation factor; Provisional
Probab=93.87 E-value=0.086 Score=60.36 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-|.....++....... ..+..+|.||||||||+...++...+..
T Consensus 28 ~n~~a~~~l~~~~~~~-----~~~~l~l~Gp~G~GKThLl~a~~~~~~~ 71 (235)
T PRK08084 28 DNDSLLAALQNALRQE-----HSGYIYLWSREGAGRSHLLHAACAELSQ 71 (235)
T ss_pred ccHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 5666666666654322 2357899999999999999888776654
No 77
>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=93.85 E-value=0.062 Score=67.93 Aligned_cols=43 Identities=30% Similarity=0.424 Sum_probs=36.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+.|.+.+..++... .|+.||-||+|+|||+|+.+++..+-
T Consensus 225 g~~~~~~~~l~~~~~~~------~GlilitGptGSGKTTtL~a~L~~l~ 267 (486)
T TIGR02533 225 GMSPELLSRFERLIRRP------HGIILVTGPTGSGKTTTLYAALSRLN 267 (486)
T ss_pred CCCHHHHHHHHHHHhcC------CCEEEEEcCCCCCHHHHHHHHHhccC
Confidence 68899999999887543 48999999999999999988887663
No 78
>PRK00254 ski2-like helicase; Provisional
Probab=93.85 E-value=0.19 Score=66.25 Aligned_cols=67 Identities=16% Similarity=0.210 Sum_probs=50.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+|+-|.+||...+... .=.+|+.|.|+|||.+. +.++..++.
T Consensus 23 ~l~~~Q~~ai~~~~~~g-------~nvlv~apTGsGKT~~~~l~il~~l~~----------------------------- 66 (720)
T PRK00254 23 ELYPPQAEALKSGVLEG-------KNLVLAIPTASGKTLVAEIVMVNKLLR----------------------------- 66 (720)
T ss_pred CCCHHHHHHHHHHHhCC-------CcEEEECCCCcHHHHHHHHHHHHHHHh-----------------------------
Confidence 79999999998744321 24799999999999755 233332221
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.+.|+|+++|+-+=+++...++.+
T Consensus 67 ---------------------------~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 67 ---------------------------EGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred ---------------------------cCCeEEEEeChHHHHHHHHHHHHH
Confidence 145899999999999999998874
No 79
>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=93.82 E-value=0.045 Score=56.35 Aligned_cols=24 Identities=33% Similarity=0.595 Sum_probs=20.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+++|.||||||||+++..+...+.
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIA 24 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHH
Confidence 478999999999999999887664
No 80
>PRK01172 ski2-like helicase; Provisional
Probab=93.77 E-value=0.2 Score=65.47 Aligned_cols=66 Identities=18% Similarity=0.165 Sum_probs=48.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.+++-|.+||...+.. .-.+|++|.|+|||....- +++..
T Consensus 22 ~l~~~Q~~ai~~l~~~--------~nvlv~apTGSGKTl~a~l---ail~~----------------------------- 61 (674)
T PRK01172 22 ELYDHQRMAIEQLRKG--------ENVIVSVPTAAGKTLIAYS---AIYET----------------------------- 61 (674)
T ss_pred CCCHHHHHHHHHHhcC--------CcEEEECCCCchHHHHHHH---HHHHH-----------------------------
Confidence 5899999999986443 2589999999999974321 11111
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
| ..+.++++++|+.+=+++...++.+
T Consensus 62 --l----------------------~~~~k~v~i~P~raLa~q~~~~~~~ 87 (674)
T PRK01172 62 --F----------------------LAGLKSIYIVPLRSLAMEKYEELSR 87 (674)
T ss_pred --H----------------------HhCCcEEEEechHHHHHHHHHHHHH
Confidence 0 0135899999999999999998874
No 81
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=93.68 E-value=0.29 Score=61.20 Aligned_cols=74 Identities=18% Similarity=0.226 Sum_probs=51.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv-gLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+++-|.+||..++... =.||+.|.|||||.+.+ .++..+......
T Consensus 23 ~pt~iQ~~ai~~il~g~--------dvlv~apTGsGKTla~~lpil~~l~~~~~~------------------------- 69 (456)
T PRK10590 23 EPTPIQQQAIPAVLEGR--------DLMASAQTGTGKTAGFTLPLLQHLITRQPH------------------------- 69 (456)
T ss_pred CCCHHHHHHHHHHhCCC--------CEEEECCCCCcHHHHHHHHHHHHhhhcccc-------------------------
Confidence 67899999999987542 27999999999997533 333333221000
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.......++||.+||.+-+.++...+.+
T Consensus 70 -----------------------~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 70 -----------------------AKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred -----------------------cccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 0011245899999999999999888774
No 82
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.60 E-value=0.22 Score=62.52 Aligned_cols=31 Identities=29% Similarity=0.366 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
.+++-|.+||..++... =.+|+.|.|+|||-
T Consensus 11 ~~r~~Q~~ai~~~l~g~--------dvlv~apTGsGKTl 41 (470)
T TIGR00614 11 SFRPVQLEVINAVLLGR--------DCFVVMPTGGGKSL 41 (470)
T ss_pred CCCHHHHHHHHHHHcCC--------CEEEEcCCCCcHhH
Confidence 68999999999998643 37999999999994
No 83
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=93.58 E-value=0.27 Score=64.21 Aligned_cols=32 Identities=22% Similarity=0.141 Sum_probs=27.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1488 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkT 1488 (1789)
..++-|.+||...+.. .-.|+|+|+|||||.+
T Consensus 28 ~ptpiQ~~ai~~ll~g--------~dvl~~ApTGsGKT~a 59 (629)
T PRK11634 28 KPSPIQAECIPHLLNG--------RDVLGMAQTGSGKTAA 59 (629)
T ss_pred CCCHHHHHHHHHHHcC--------CCEEEEcCCCCcHHHH
Confidence 5789999999998754 2489999999999975
No 84
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.57 E-value=0.27 Score=63.42 Aligned_cols=76 Identities=21% Similarity=0.202 Sum_probs=53.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHH-HHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVA-IVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvg-LVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..++-|.+||-.++... =.+|++|.|||||.+.+- ++..++.... ..
T Consensus 31 ~ptpiQ~~~ip~~l~G~--------Dvi~~ApTGSGKTlafllpil~~l~~~~~-------------------~~----- 78 (572)
T PRK04537 31 RCTPIQALTLPVALPGG--------DVAGQAQTGTGKTLAFLVAVMNRLLSRPA-------------------LA----- 78 (572)
T ss_pred CCCHHHHHHHHHHhCCC--------CEEEEcCCCCcHHHHHHHHHHHHHHhccc-------------------cc-----
Confidence 57899999999998653 389999999999976433 3444433200 00
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhc
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1579 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1579 (1789)
.......++||++||.+-+.++..++.+.
T Consensus 79 -----------------------~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 79 -----------------------DRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred -----------------------ccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 00112468999999999999999887643
No 85
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=93.51 E-value=0.13 Score=68.62 Aligned_cols=21 Identities=10% Similarity=0.360 Sum_probs=19.5
Q ss_pred CeEEEEeCchHHHHHHHHHHH
Q 000248 1557 ARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1557 ~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.+|+|+.|+-.|.-+++.|+.
T Consensus 49 ~~ilvlqPrR~aA~qia~rva 69 (812)
T PRK11664 49 GKIIMLEPRRLAARNVAQRLA 69 (812)
T ss_pred CeEEEECChHHHHHHHHHHHH
Confidence 489999999999999999986
No 86
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=93.38 E-value=0.077 Score=63.34 Aligned_cols=25 Identities=36% Similarity=0.604 Sum_probs=20.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+-.||.||||||||+++..+...+
T Consensus 51 ~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 51 LDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CCcEEEECCCCccHHHHHHHHHHHh
Confidence 4578999999999999888765543
No 87
>PRK14974 cell division protein FtsY; Provisional
Probab=93.38 E-value=0.18 Score=61.22 Aligned_cols=26 Identities=35% Similarity=0.364 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+.++-||||+|||+||..+...+.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~ 165 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLK 165 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 46899999999999999999987654
No 88
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=93.35 E-value=0.27 Score=61.55 Aligned_cols=71 Identities=18% Similarity=0.226 Sum_probs=55.9
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..+++-|.+|+.+...... . .+-.+|.-|+|+|||.+.+.++..+
T Consensus 35 ~~lr~yQ~~al~a~~~~~~---~-~~~gvivlpTGaGKT~va~~~~~~~------------------------------- 79 (442)
T COG1061 35 FELRPYQEEALDALVKNRR---T-ERRGVIVLPTGAGKTVVAAEAIAEL------------------------------- 79 (442)
T ss_pred CCCcHHHHHHHHHHHhhcc---c-CCceEEEeCCCCCHHHHHHHHHHHh-------------------------------
Confidence 3688999999999876532 1 4678999999999999777766532
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCC
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGL 1581 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI 1581 (1789)
+.++||++|+..-+++-..++.+...
T Consensus 80 ----------------------------~~~~Lvlv~~~~L~~Qw~~~~~~~~~ 105 (442)
T COG1061 80 ----------------------------KRSTLVLVPTKELLDQWAEALKKFLL 105 (442)
T ss_pred ----------------------------cCCEEEEECcHHHHHHHHHHHHHhcC
Confidence 23499999999999999988885443
No 89
>PF05729 NACHT: NACHT domain
Probab=93.34 E-value=0.074 Score=55.35 Aligned_cols=26 Identities=27% Similarity=0.524 Sum_probs=23.4
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+.+|.|+||+|||++...++..+...
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~ 27 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEE 27 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhc
Confidence 68999999999999999998888765
No 90
>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=93.31 E-value=0.19 Score=67.30 Aligned_cols=21 Identities=10% Similarity=0.302 Sum_probs=19.7
Q ss_pred CeEEEEeCchHHHHHHHHHHH
Q 000248 1557 ARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1557 ~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.+|+|+.|+-.|.-+++.|+.
T Consensus 46 ~~ilvlqPrR~aA~qiA~rva 66 (819)
T TIGR01970 46 GKIIMLEPRRLAARSAAQRLA 66 (819)
T ss_pred CeEEEEeCcHHHHHHHHHHHH
Confidence 589999999999999999996
No 91
>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=93.31 E-value=0.06 Score=63.50 Aligned_cols=25 Identities=32% Similarity=0.454 Sum_probs=19.9
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-.||.||||||||++..++...+..
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~ 84 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHR 84 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4789999999999987776665543
No 92
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=93.30 E-value=0.1 Score=63.08 Aligned_cols=41 Identities=29% Similarity=0.467 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+|++-..+|..++... +-.||.||||||||+++..+...+
T Consensus 48 ~f~~~~~~~vl~~l~~~-------~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 48 LFDKATTKAICAGFAYD-------RRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCHHHHHHHHHHHhcC-------CcEEEEeCCCChHHHHHHHHHHHH
Confidence 57888888898888543 358999999999999777765544
No 93
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.19 E-value=0.059 Score=65.24 Aligned_cols=22 Identities=45% Similarity=0.641 Sum_probs=18.5
Q ss_pred eeEEeCCCCCCchhHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
-.||.||||||||+++.++...
T Consensus 158 gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4899999999999988877653
No 94
>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=93.11 E-value=0.071 Score=59.49 Aligned_cols=26 Identities=35% Similarity=0.691 Sum_probs=23.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
|+.+|-||+|+|||+|+.+++..+..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~ 27 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINK 27 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhh
Confidence 78999999999999999998887653
No 95
>PRK10436 hypothetical protein; Provisional
Probab=93.09 E-value=0.11 Score=65.27 Aligned_cols=43 Identities=30% Similarity=0.455 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+.|.+.+..++... .|+.||-||.|+|||+|+.+++..+.
T Consensus 201 G~~~~~~~~l~~~~~~~------~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQP------QGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhc------CCeEEEECCCCCChHHHHHHHHHhhC
Confidence 57788888998887543 48999999999999999999888753
No 96
>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=92.99 E-value=0.14 Score=56.33 Aligned_cols=41 Identities=27% Similarity=0.378 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+++.|.+.+..++.. ..+.+|-||+|+|||+++.+|++.+
T Consensus 9 ~~~~~~~~~l~~~v~~-------g~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 9 TFSPLQAAYLWLAVEA-------RKNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CCCHHHHHHHHHHHhC-------CCEEEEECCCCCCHHHHHHHHHhhc
Confidence 5788899999888754 2699999999999999988877643
No 97
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.96 E-value=0.05 Score=67.40 Aligned_cols=23 Identities=48% Similarity=0.730 Sum_probs=19.5
Q ss_pred eeEEeCCCCCCchhHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
=-|..||||||||+.|.+|-+.|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 47999999999999998886643
No 98
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=92.96 E-value=0.14 Score=59.84 Aligned_cols=43 Identities=28% Similarity=0.468 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
++.+.+.+...+... ..+..||.||||||||+++..+...+..
T Consensus 22 ~~~~~~~l~~~i~~~-----~~~~~ll~G~~G~GKt~~~~~l~~~l~~ 64 (319)
T PRK00440 22 QEEIVERLKSYVKEK-----NMPHLLFAGPPGTGKTTAALALARELYG 64 (319)
T ss_pred cHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHcC
Confidence 456667777776542 2234699999999999999888877654
No 99
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=92.91 E-value=0.16 Score=57.11 Aligned_cols=46 Identities=13% Similarity=0.135 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.-|.....++...... ....+..+|.||||||||+...++...+..
T Consensus 23 ~~~~~~~~~l~~~~~~----~~~~~~~~l~G~~G~GKT~La~ai~~~~~~ 68 (227)
T PRK08903 23 GENAELVARLRELAAG----PVADRFFYLWGEAGSGRSHLLQALVADASY 68 (227)
T ss_pred CCcHHHHHHHHHHHhc----cCCCCeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 4455666666665431 123467899999999999988888776544
No 100
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=92.90 E-value=0.13 Score=60.45 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..++...+.+...+... ..+.+.||.||||||||+++.++...+
T Consensus 24 ~~~~~~~~~l~~~~~~~----~~~~~lll~G~~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 24 ILPAADKETFKSIVKKG----RIPNMLLHSPSPGTGKTTVAKALCNEV 67 (316)
T ss_pred cCcHHHHHHHHHHHhcC----CCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence 35666667777666532 234688889999999999888876543
No 101
>PRK08116 hypothetical protein; Validated
Probab=92.89 E-value=0.13 Score=60.37 Aligned_cols=26 Identities=35% Similarity=0.422 Sum_probs=23.3
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-.+|+||||||||+...+|...++..
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~ 141 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEK 141 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 47999999999999999999988764
No 102
>CHL00181 cbbX CbbX; Provisional
Probab=92.80 E-value=0.13 Score=61.06 Aligned_cols=24 Identities=33% Similarity=0.533 Sum_probs=19.4
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
-.|+.||||||||++...+...+.
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~ 84 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILY 84 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 378999999999998887766543
No 103
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=92.76 E-value=0.13 Score=66.21 Aligned_cols=42 Identities=29% Similarity=0.438 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+.+.|.+.+..++... .|+.||-||+|+|||+|+.+++..+
T Consensus 299 g~~~~~~~~l~~~~~~~------~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKP------QGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCCHHHHHHHHHHHHhc------CCeEEEECCCCCCHHHHHHHHHHhh
Confidence 67888999998886543 4899999999999999999988866
No 104
>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=92.75 E-value=0.17 Score=56.46 Aligned_cols=43 Identities=23% Similarity=0.209 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
-|..-.+++...+.. ...+..+|.||||||||++...+.....
T Consensus 21 ~~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 21 GNAELLAALRQLAAG-----KGDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred CcHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 344445555554321 2346899999999999998888776654
No 105
>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=92.69 E-value=0.24 Score=53.92 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=19.2
Q ss_pred cCCeEEEEeCchHHHHHHHHHHH
Q 000248 1555 VRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1555 ~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.+.|+||.+||-+.++|+.+-|.
T Consensus 32 ~~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 32 RRLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp TT--EEEEESSHHHHHHHHHHTT
T ss_pred ccCeEEEecccHHHHHHHHHHHh
Confidence 36899999999999999998886
No 106
>PRK13767 ATP-dependent helicase; Provisional
Probab=92.66 E-value=0.4 Score=64.78 Aligned_cols=80 Identities=23% Similarity=0.298 Sum_probs=55.0
Q ss_pred HHHHhh---cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcccccCC
Q 000248 1442 LQQILK---TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINS 1517 (1789)
Q Consensus 1442 L~~~Lk---~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~s~~~~ 1517 (1789)
++++++ ..+++-|.+||...+... =+||+.|.|||||-.. +.++..++.....
T Consensus 22 v~~~~~~~~~~~tpiQ~~Ai~~il~g~--------nvli~APTGSGKTlaa~Lpil~~l~~~~~~--------------- 78 (876)
T PRK13767 22 VREWFKEKFGTFTPPQRYAIPLIHEGK--------NVLISSPTGSGKTLAAFLAIIDELFRLGRE--------------- 78 (876)
T ss_pred HHHHHHHccCCCCHHHHHHHHHHHcCC--------CEEEECCCCCcHHHHHHHHHHHHHHhhccc---------------
Confidence 555554 258999999999886542 4899999999999753 3444444432000
Q ss_pred CCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1518 RPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1518 rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.....+.++|+.+|+.+-+.++..+|.
T Consensus 79 ---------------------------------~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 79 ---------------------------------GELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred ---------------------------------cCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 001235689999999999998887765
No 107
>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=92.56 E-value=0.22 Score=59.57 Aligned_cols=23 Identities=22% Similarity=0.434 Sum_probs=21.1
Q ss_pred CCeEEEEeCchHHHHHHHHHHHh
Q 000248 1556 RARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
..|+++++|+.+.++++..++.+
T Consensus 29 ~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 29 ADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred CCeEEEEeehHHHHHHHHHHHHH
Confidence 46999999999999999999985
No 108
>PRK04195 replication factor C large subunit; Provisional
Probab=92.55 E-value=0.12 Score=65.04 Aligned_cols=46 Identities=28% Similarity=0.253 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.|+.+.+.+...+.... -.......||.||||||||+++..+...+
T Consensus 18 g~~~~~~~l~~~l~~~~-~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 18 GNEKAKEQLREWIESWL-KGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 46666666655543211 01114689999999999999887776543
No 109
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=92.49 E-value=0.21 Score=60.37 Aligned_cols=50 Identities=28% Similarity=0.391 Sum_probs=38.4
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1442 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1442 L~~~Lk~-~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.++++. .+++.|.+.+..++... +-.||-||+|+|||+++.+|+..+..
T Consensus 120 l~~lv~~g~~~~~~~~~L~~~v~~~-------~nilI~G~tGSGKTTll~aL~~~i~~ 170 (323)
T PRK13833 120 LDDYVTSKIMTEAQASVIRSAIDSR-------LNIVISGGTGSGKTTLANAVIAEIVA 170 (323)
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHcC-------CeEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3444443 58889999999887643 35699999999999999998887653
No 110
>PRK09401 reverse gyrase; Reviewed
Probab=92.42 E-value=0.38 Score=66.79 Aligned_cols=70 Identities=20% Similarity=0.127 Sum_probs=50.9
Q ss_pred hcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHH
Q 000248 1447 KTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAA 1526 (1789)
Q Consensus 1447 k~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~a 1526 (1789)
.....+-|..+|..++... =.+|++|.|||||.... +.++...
T Consensus 78 G~~pt~iQ~~~i~~il~g~--------dv~i~ApTGsGKT~f~l--~~~~~l~--------------------------- 120 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLLLGE--------SFAIIAPTGVGKTTFGL--VMSLYLA--------------------------- 120 (1176)
T ss_pred CCCCcHHHHHHHHHHHCCC--------cEEEEcCCCCCHHHHHH--HHHHHHH---------------------------
Confidence 3467889999999987643 36899999999995322 2111110
Q ss_pred HHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1527 IARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1527 var~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
..+.++||.+||-.=++++..++.+.|
T Consensus 121 ---------------------------~~g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 121 ---------------------------KKGKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred ---------------------------hcCCeEEEEeccHHHHHHHHHHHHHHh
Confidence 014689999999999999999998654
No 111
>PRK09183 transposase/IS protein; Provisional
Probab=92.39 E-value=0.15 Score=59.60 Aligned_cols=44 Identities=25% Similarity=0.351 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..|..|...+...- ........+|.||||||||+...+|...+.
T Consensus 84 ~~~~~~i~~L~~~~-----~i~~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 84 GAPQKQLQSLRSLS-----FIERNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred CCCHHHHHHHhcCC-----chhcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 55666666654320 112235688999999999999998865544
No 112
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.35 E-value=0.14 Score=64.01 Aligned_cols=23 Identities=39% Similarity=0.629 Sum_probs=19.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.-.||.||||||||.++-++-..
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~e 240 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANE 240 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh
Confidence 46889999999999988777653
No 113
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=92.34 E-value=0.19 Score=69.43 Aligned_cols=51 Identities=24% Similarity=0.353 Sum_probs=42.6
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESS 1554 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~ 1554 (1789)
.+|.+++|||||++++.-+..++... .
T Consensus 13 ~~~~a~agsgkt~~l~~~~~~~~~~~-----------------------------------------------------~ 39 (1141)
T TIGR02784 13 AWVSANAGSGKTHVLTQRVIRLLLNG-----------------------------------------------------V 39 (1141)
T ss_pred EEEEEECCCCHHHHHHHHHHHHHHcC-----------------------------------------------------C
Confidence 56999999999999998888777531 1
Q ss_pred cCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1555 VRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1555 ~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
...+||+.+.||.|.-|+-.|+.+
T Consensus 40 ~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 40 PPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCCeEEEEecCHHHHHHHHHHHHH
Confidence 246999999999999999999983
No 114
>PRK04296 thymidine kinase; Provisional
Probab=92.31 E-value=0.16 Score=56.34 Aligned_cols=26 Identities=19% Similarity=0.312 Sum_probs=22.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+.||-||||+|||+.+.+++..+..
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~ 28 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEE 28 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHH
Confidence 38999999999999988888776654
No 115
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=92.29 E-value=0.28 Score=64.32 Aligned_cols=76 Identities=20% Similarity=0.220 Sum_probs=56.6
Q ss_pred CHHHHHHHHHHHccCCC--CccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1451 NESQLQAISVAIGLSSS--WKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~--~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
..-|..||..++..... ......-.||+-|.|||||.|++.++..|+..
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~----------------------------- 290 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALEL----------------------------- 290 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhh-----------------------------
Confidence 34589999887655210 01123578999999999999999999877632
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
....||||.+|.+.=++++...+.+.|
T Consensus 291 -------------------------~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 291 -------------------------LKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred -------------------------cCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 124689999999999999998888654
No 116
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=92.27 E-value=0.17 Score=60.18 Aligned_cols=46 Identities=30% Similarity=0.312 Sum_probs=33.6
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-++...+.+..++... +.+...|+.||||||||+++..+...++..
T Consensus 18 g~~~~~~~l~~~~~~~----~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~ 63 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNG----RIAHAYLFSGPRGTGKTSIARIFAKALNCQ 63 (355)
T ss_pred CcHHHHHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 3566666676666542 223467999999999999999988887643
No 117
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.23 E-value=0.17 Score=63.40 Aligned_cols=41 Identities=27% Similarity=0.442 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
-..+...+.+..++... +-.+++||||||||+++..+-..+
T Consensus 178 ~i~e~~le~l~~~L~~~-------~~iil~GppGtGKT~lA~~la~~l 218 (459)
T PRK11331 178 FIPETTIETILKRLTIK-------KNIILQGPPGVGKTFVARRLAYLL 218 (459)
T ss_pred cCCHHHHHHHHHHHhcC-------CCEEEECCCCCCHHHHHHHHHHHh
Confidence 34667777777777543 478889999999999887765544
No 118
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=92.14 E-value=0.09 Score=54.24 Aligned_cols=21 Identities=33% Similarity=0.714 Sum_probs=17.6
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+.++-||||+|||+.+-.+..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 468899999999998777764
No 119
>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=92.13 E-value=0.21 Score=56.89 Aligned_cols=49 Identities=22% Similarity=0.243 Sum_probs=34.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
...|+-=..|+.......+ .......|.||+|||||+.+.++...+...
T Consensus 13 g~~N~~a~~~~~~ia~~~~---~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~ 61 (219)
T PF00308_consen 13 GESNELAYAAAKAIAENPG---ERYNPLFLYGPSGLGKTHLLQAIANEAQKQ 61 (219)
T ss_dssp TTTTHHHHHHHHHHHHSTT---TSSSEEEEEESTTSSHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHhcCC---CCCCceEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3456655566665544432 122346899999999999999999888765
No 120
>PTZ00110 helicase; Provisional
Probab=92.11 E-value=0.56 Score=60.23 Aligned_cols=85 Identities=19% Similarity=0.207 Sum_probs=55.9
Q ss_pred hhh-HHHHhh----cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcc
Q 000248 1439 LSQ-LQQILK----TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYS 1512 (1789)
Q Consensus 1439 ip~-L~~~Lk----~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~ 1512 (1789)
+|+ +.+.++ ....+-|.+||-.++...+ .++++|.|||||.+- +.++..++....
T Consensus 137 l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~d--------vI~~ApTGSGKTlaylLP~l~~i~~~~~----------- 197 (545)
T PTZ00110 137 FPDYILKSLKNAGFTEPTPIQVQGWPIALSGRD--------MIGIAETGSGKTLAFLLPAIVHINAQPL----------- 197 (545)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCC--------EEEEeCCCChHHHHHHHHHHHHHHhccc-----------
Confidence 444 444553 2568999999999986532 578999999999752 233333332100
Q ss_pred cccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1513 SCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1513 s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
........+||.+||.+-+.++...+.+.+
T Consensus 198 --------------------------------------~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~ 227 (545)
T PTZ00110 198 --------------------------------------LRYGDGPIVLVLAPTRELAEQIREQCNKFG 227 (545)
T ss_pred --------------------------------------ccCCCCcEEEEECChHHHHHHHHHHHHHHh
Confidence 001134689999999999998888877543
No 121
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=92.09 E-value=0.15 Score=59.25 Aligned_cols=22 Identities=32% Similarity=0.513 Sum_probs=18.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-.||.||||||||+.+..+-.
T Consensus 22 ~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 22 YPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH
Confidence 3678999999999998777654
No 122
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=92.07 E-value=0.13 Score=59.87 Aligned_cols=27 Identities=44% Similarity=0.660 Sum_probs=23.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..-.++-||||||||+..++|-..++.
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~ 131 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELLK 131 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence 346788999999999999999998883
No 123
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=92.07 E-value=0.64 Score=59.27 Aligned_cols=41 Identities=32% Similarity=0.361 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhH-HHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT-IVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkT-IvgLVsaLL 1497 (1789)
.+++-|.+||..++... =.+++.|.|||||-. ++.++..++
T Consensus 143 ~ptpiQ~~aip~il~g~--------dviv~ApTGSGKTlayllPil~~l~ 184 (518)
T PLN00206 143 FPTPIQMQAIPAALSGR--------SLLVSADTGSGKTASFLVPIISRCC 184 (518)
T ss_pred CCCHHHHHHHHHHhcCC--------CEEEEecCCCCccHHHHHHHHHHHH
Confidence 57899999999998643 379999999999964 334444443
No 124
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=92.06 E-value=0.51 Score=61.34 Aligned_cols=45 Identities=27% Similarity=0.341 Sum_probs=32.7
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1442 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1442 L~~~Lk~-~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+++.+.. .+.+.|.+||..++... =+++.+|.|+|||- +.++.++
T Consensus 17 l~~~fG~~~~r~~Q~~ai~~il~g~--------dvlv~apTGsGKTl--~y~lpal 62 (607)
T PRK11057 17 LQETFGYQQFRPGQQEIIDAVLSGR--------DCLVVMPTGGGKSL--CYQIPAL 62 (607)
T ss_pred HHHHcCCCCCCHHHHHHHHHHHcCC--------CEEEEcCCCchHHH--HHHHHHH
Confidence 5555543 68899999999987643 36889999999984 3444444
No 125
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.05 E-value=0.58 Score=57.79 Aligned_cols=74 Identities=20% Similarity=0.196 Sum_probs=50.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv-gLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
..++-|.+||..++... =.++++|.|||||.+.+ .++..++.....
T Consensus 30 ~pt~iQ~~aip~il~g~--------dvi~~ApTGsGKTla~llp~l~~l~~~~~~------------------------- 76 (423)
T PRK04837 30 NCTPIQALALPLTLAGR--------DVAGQAQTGTGKTMAFLTATFHYLLSHPAP------------------------- 76 (423)
T ss_pred CCCHHHHHHHHHHhCCC--------cEEEECCCCchHHHHHHHHHHHHHHhcccc-------------------------
Confidence 56899999999988653 27999999999998643 233333332000
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
......+.++||.+|+.+-+.++...+.
T Consensus 77 ----------------------~~~~~~~~~~lil~PtreLa~Qi~~~~~ 104 (423)
T PRK04837 77 ----------------------EDRKVNQPRALIMAPTRELAVQIHADAE 104 (423)
T ss_pred ----------------------cccccCCceEEEECCcHHHHHHHHHHHH
Confidence 0001235789999999999999876654
No 126
>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=92.01 E-value=0.52 Score=64.02 Aligned_cols=47 Identities=21% Similarity=0.149 Sum_probs=31.6
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH
Q 000248 1442 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1442 L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv 1490 (1789)
+.+.+...+++.|.+||...+.... ...+.=.|||||.|||||-+.+
T Consensus 444 ~~~~~~f~~T~~Q~~aI~~I~~d~~--~~~~~d~Ll~adTGsGKT~val 490 (926)
T TIGR00580 444 FEDSFPFEETPDQLKAIEEIKADME--SPRPMDRLVCGDVGFGKTEVAM 490 (926)
T ss_pred HHHhCCCCCCHHHHHHHHHHHhhhc--ccCcCCEEEECCCCccHHHHHH
Confidence 3334445689999999998875321 1111236999999999997543
No 127
>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=91.97 E-value=0.25 Score=55.50 Aligned_cols=26 Identities=35% Similarity=0.572 Sum_probs=21.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+.++-||+|.|||+|+.-|-..+..
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~ 27 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKL 27 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhh
Confidence 47788999999999999998776543
No 128
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=91.97 E-value=0.26 Score=59.40 Aligned_cols=49 Identities=29% Similarity=0.422 Sum_probs=37.9
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1442 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1442 L~~~Lk~-~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.++.+. .+++.|.+.+..++... +-.+|-||||+|||+++.+|+..+.
T Consensus 124 l~~l~~~g~~~~~~~~~L~~~v~~~-------~~ilI~G~tGSGKTTll~aL~~~~~ 173 (319)
T PRK13894 124 LDQYVERGIMTAAQREAIIAAVRAH-------RNILVIGGTGSGKTTLVNAIINEMV 173 (319)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHcC-------CeEEEECCCCCCHHHHHHHHHHhhh
Confidence 4444443 57888999998887543 5789999999999999988887654
No 129
>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=91.97 E-value=0.31 Score=54.83 Aligned_cols=24 Identities=38% Similarity=0.685 Sum_probs=19.8
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..++||-||||||||.....++..
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~ 42 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYN 42 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHH
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHH
Confidence 469999999999999976666553
No 130
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.88 E-value=0.16 Score=67.48 Aligned_cols=48 Identities=23% Similarity=0.366 Sum_probs=31.4
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
=+.|.+.|..+|...-.-.....+.+|-||||||||.|+..++..|-.
T Consensus 760 REeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 366777776665431000111234569999999999999999877643
No 131
>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=91.82 E-value=0.13 Score=51.76 Aligned_cols=22 Identities=32% Similarity=0.708 Sum_probs=16.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+.+|.||||+||||+...|...
T Consensus 1 vI~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 3579999999999966555443
No 132
>PHA00729 NTP-binding motif containing protein
Probab=91.70 E-value=0.13 Score=59.44 Aligned_cols=24 Identities=25% Similarity=0.465 Sum_probs=21.2
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
-.+|.||||||||+...+|...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999999888765
No 133
>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=91.66 E-value=0.14 Score=51.71 Aligned_cols=25 Identities=36% Similarity=0.591 Sum_probs=22.1
Q ss_pred EEeCCCCCCchhHHHHHHHHHHhcc
Q 000248 1476 LIQGPPGTGKTRTIVAIVSALLATR 1500 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsaLLs~~ 1500 (1789)
.|.||||+|||+..-.|+..++...
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~~ 26 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKHI 26 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHh
Confidence 5899999999999999998888763
No 134
>PRK06921 hypothetical protein; Provisional
Probab=91.56 E-value=0.15 Score=59.83 Aligned_cols=27 Identities=30% Similarity=0.524 Sum_probs=23.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.++.||||||||+++.+|...++..
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 468999999999999999999988753
No 135
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.44 E-value=0.48 Score=62.65 Aligned_cols=67 Identities=18% Similarity=0.225 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1528 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~ava 1528 (1789)
.+=+-|.+||...+... ..+-.+|.-|+|+|||.|.++++..+
T Consensus 255 ~LRpYQ~eAl~~~~~~g-----r~r~GIIvLPtGaGKTlvai~aa~~l-------------------------------- 297 (732)
T TIGR00603 255 QIRPYQEKSLSKMFGNG-----RARSGIIVLPCGAGKSLVGVTAACTV-------------------------------- 297 (732)
T ss_pred CcCHHHHHHHHHHHhcC-----CCCCcEEEeCCCCChHHHHHHHHHHh--------------------------------
Confidence 45678999999887532 12357899999999999877654321
Q ss_pred HHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhc
Q 000248 1529 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1579 (1789)
Q Consensus 1529 r~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1579 (1789)
++++||.+||...|++....+.+-
T Consensus 298 ---------------------------~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 298 ---------------------------KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred ---------------------------CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 357999999999999999998853
No 136
>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=91.44 E-value=0.14 Score=58.61 Aligned_cols=25 Identities=36% Similarity=0.488 Sum_probs=21.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.++.+|.||||+|||+++..+...+
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 4699999999999999888776543
No 137
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.43 E-value=0.24 Score=62.66 Aligned_cols=25 Identities=32% Similarity=0.494 Sum_probs=21.1
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..|+.||||||||+++..+...+..
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4699999999999988888777654
No 138
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=91.41 E-value=0.23 Score=57.48 Aligned_cols=27 Identities=19% Similarity=0.283 Sum_probs=17.4
Q ss_pred CCeEEEEeC---chHHHHHHHHHHHhcCCc
Q 000248 1556 RARVLICAQ---SNAAVDELVSRISKEGLY 1582 (1789)
Q Consensus 1556 k~RILVCAP---SNAAVDEIV~RLlk~GI~ 1582 (1789)
...||..-- =|.++.|++.-.++.|..
T Consensus 101 ~~~ILFIDEIHRlnk~~qe~LlpamEd~~i 130 (233)
T PF05496_consen 101 EGDILFIDEIHRLNKAQQEILLPAMEDGKI 130 (233)
T ss_dssp TT-EEEECTCCC--HHHHHHHHHHHHCSEE
T ss_pred CCcEEEEechhhccHHHHHHHHHHhccCeE
Confidence 345666643 478999999888877654
No 139
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=91.33 E-value=0.38 Score=52.38 Aligned_cols=28 Identities=46% Similarity=0.775 Sum_probs=24.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..+++|-||||+|||+.+..++.++...
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g 59 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATG 59 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT-
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence 3699999999999999999999988753
No 140
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=91.30 E-value=0.12 Score=57.56 Aligned_cols=21 Identities=29% Similarity=0.643 Sum_probs=19.2
Q ss_pred EEeCCCCCCchhHHHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+|+||||+|||+.|..++...
T Consensus 2 vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 2 VVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred EEEcCCCCCHHHHHHHHHHhc
Confidence 799999999999999998874
No 141
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=91.27 E-value=0.37 Score=55.29 Aligned_cols=26 Identities=31% Similarity=0.381 Sum_probs=21.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..+++|-||||||||++...++..++
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~ 49 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFL 49 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35999999999999998777666544
No 142
>PRK02362 ski2-like helicase; Provisional
Probab=91.22 E-value=0.66 Score=61.55 Aligned_cols=67 Identities=18% Similarity=0.159 Sum_probs=50.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv-gLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+++.|.+||...+... .=.||+.|.|+|||.... +++..+.
T Consensus 23 ~l~p~Q~~ai~~~~~~g-------~nvlv~APTGSGKTlia~lail~~l~------------------------------ 65 (737)
T PRK02362 23 ELYPPQAEAVEAGLLDG-------KNLLAAIPTASGKTLIAELAMLKAIA------------------------------ 65 (737)
T ss_pred cCCHHHHHHHHHHHhCC-------CcEEEECCCcchHHHHHHHHHHHHHh------------------------------
Confidence 68999999998755332 248999999999998432 2222211
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhc
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1579 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1579 (1789)
++.|+|+++|+-+=++|...++.+.
T Consensus 66 ---------------------------~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 66 ---------------------------RGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred ---------------------------cCCcEEEEeChHHHHHHHHHHHHHh
Confidence 2468999999999999999998853
No 143
>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=91.15 E-value=0.63 Score=64.70 Aligned_cols=35 Identities=20% Similarity=0.022 Sum_probs=27.3
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv 1490 (1789)
....+-|..+|..++... =.+|++|+|||||.+.+
T Consensus 77 ~~p~~iQ~~~i~~il~G~--------d~vi~ApTGsGKT~f~l 111 (1171)
T TIGR01054 77 SEPWSIQKMWAKRVLRGD--------SFAIIAPTGVGKTTFGL 111 (1171)
T ss_pred CCCcHHHHHHHHHHhCCC--------eEEEECCCCCCHHHHHH
Confidence 357789999999987653 35689999999997443
No 144
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=91.14 E-value=0.46 Score=57.27 Aligned_cols=27 Identities=30% Similarity=0.306 Sum_probs=22.8
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
...+.+|-||||.|||+|+..|...+.
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~ 139 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYK 139 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence 346888889999999999999887654
No 145
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=91.09 E-value=0.24 Score=63.23 Aligned_cols=25 Identities=36% Similarity=0.652 Sum_probs=21.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..+-|+.||||+|||+||..|-..+
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 4699999999999999998776654
No 146
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=91.07 E-value=0.69 Score=54.93 Aligned_cols=35 Identities=20% Similarity=0.479 Sum_probs=23.5
Q ss_pred HHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHH
Q 000248 1452 ESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1452 eSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.|.+ +|..++.. .+..+|+.|.|||||-+++...
T Consensus 11 ~~Q~~~m~~v~~~~~~-------~~~~~~eapTGtGKTl~~L~~a 48 (289)
T smart00489 11 PIQYEFMEELKRVLDR-------GKIGILESPTGTGKTLSLLCLT 48 (289)
T ss_pred HHHHHHHHHHHHHHHc-------CCcEEEECCCCcchhHHHHHHH
Confidence 45655 44445443 3589999999999997555433
No 147
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=91.07 E-value=0.69 Score=54.93 Aligned_cols=35 Identities=20% Similarity=0.479 Sum_probs=23.5
Q ss_pred HHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHH
Q 000248 1452 ESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1452 eSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.|.+ +|..++.. .+..+|+.|.|||||-+++...
T Consensus 11 ~~Q~~~m~~v~~~~~~-------~~~~~~eapTGtGKTl~~L~~a 48 (289)
T smart00488 11 PIQYEFMEELKRVLDR-------GKIGILESPTGTGKTLSLLCLT 48 (289)
T ss_pred HHHHHHHHHHHHHHHc-------CCcEEEECCCCcchhHHHHHHH
Confidence 45655 44445443 3589999999999997555433
No 148
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=91.03 E-value=0.5 Score=53.69 Aligned_cols=25 Identities=36% Similarity=0.347 Sum_probs=20.3
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
...+++|.||||||||+....++..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~ 48 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYG 48 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHH
Confidence 3479999999999999977666543
No 149
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=90.98 E-value=0.38 Score=61.56 Aligned_cols=48 Identities=25% Similarity=0.425 Sum_probs=37.7
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1442 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1442 L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
|++++ .+.-..|-++|+. .+.++.+|||-||||||+..+.-|..||..
T Consensus 206 mrdIV-~TIQkEQneIIR~---------ek~~ilVVQGaAGSGKTtiALHRvAyLlY~ 253 (747)
T COG3973 206 MRDIV-ETIQKEQNEIIRF---------EKNKILVVQGAAGSGKTTIALHRVAYLLYG 253 (747)
T ss_pred HHHHH-HHhhHhHHHHHhc---------cCCCeEEEecCCCCCchhHHHHHHHHHHhc
Confidence 44444 2566788888875 245799999999999999999999988875
No 150
>PRK06835 DNA replication protein DnaC; Validated
Probab=90.93 E-value=0.17 Score=61.15 Aligned_cols=27 Identities=41% Similarity=0.405 Sum_probs=24.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+|.||||||||+...+|...++..
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 468999999999999999999988764
No 151
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=90.92 E-value=0.29 Score=59.50 Aligned_cols=37 Identities=32% Similarity=0.481 Sum_probs=23.5
Q ss_pred HHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1453 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1453 SQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+|.--+.+.+... .-+-.+.|||||||||+ +..++..
T Consensus 148 ~q~gllrs~ieq~-----~ipSmIlWGppG~GKTt-----lArlia~ 184 (554)
T KOG2028|consen 148 GQDGLLRSLIEQN-----RIPSMILWGPPGTGKTT-----LARLIAS 184 (554)
T ss_pred CcchHHHHHHHcC-----CCCceEEecCCCCchHH-----HHHHHHh
Confidence 4444455555432 23456789999999998 5555554
No 152
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=90.90 E-value=0.26 Score=60.48 Aligned_cols=25 Identities=40% Similarity=0.635 Sum_probs=22.7
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+|-||||||||.|+.-+...+-..
T Consensus 45 ~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 45 IIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred EEEECCCCCCHhHHHHHHHHHHHhh
Confidence 8888999999999999999988765
No 153
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=90.82 E-value=0.29 Score=64.44 Aligned_cols=70 Identities=36% Similarity=0.384 Sum_probs=55.4
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHH
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARA 1530 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~ 1530 (1789)
-.-|..||......-. .+... .||+=-+|||||+|..+||..|+...
T Consensus 167 RyyQ~~AI~rv~Eaf~--~g~~r-aLlvMATGTGKTrTAiaii~rL~r~~------------------------------ 213 (875)
T COG4096 167 RYYQIIAIRRVIEAFS--KGQNR-ALLVMATGTGKTRTAIAIIDRLIKSG------------------------------ 213 (875)
T ss_pred hHHHHHHHHHHHHHHh--cCCce-EEEEEecCCCcceeHHHHHHHHHhcc------------------------------
Confidence 3568999887665542 23334 99999999999999999999998751
Q ss_pred HHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1531 WQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1531 W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
..+|||.-|-.|+=||+-.....
T Consensus 214 ------------------------~~KRVLFLaDR~~Lv~QA~~af~ 236 (875)
T COG4096 214 ------------------------WVKRVLFLADRNALVDQAYGAFE 236 (875)
T ss_pred ------------------------hhheeeEEechHHHHHHHHHHHH
Confidence 25799999999999999886655
No 154
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=90.70 E-value=0.81 Score=59.14 Aligned_cols=39 Identities=26% Similarity=0.320 Sum_probs=29.9
Q ss_pred HHHHhh-cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhH
Q 000248 1442 LQQILK-TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1488 (1789)
Q Consensus 1442 L~~~Lk-~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkT 1488 (1789)
|++++. .+|++-|.+||..++... =+++..|.|+|||-+
T Consensus 5 l~~~fg~~~fr~~Q~~~i~~il~g~--------dvlv~~PTG~GKTl~ 44 (591)
T TIGR01389 5 LKRTFGYDDFRPGQEEIISHVLDGR--------DVLVVMPTGGGKSLC 44 (591)
T ss_pred HHHhcCCCCCCHHHHHHHHHHHcCC--------CEEEEcCCCccHhHH
Confidence 334443 368999999999998643 378999999999964
No 155
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=90.69 E-value=0.17 Score=64.46 Aligned_cols=25 Identities=40% Similarity=0.616 Sum_probs=20.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.-.||.||||||||.++.++...+-
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHHhhc
Confidence 4579999999999998888877653
No 156
>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=90.65 E-value=0.52 Score=53.11 Aligned_cols=24 Identities=25% Similarity=0.333 Sum_probs=19.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..+++|-||||||||.....++..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~ 39 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQ 39 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 469999999999999966666543
No 157
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=90.62 E-value=0.18 Score=50.50 Aligned_cols=21 Identities=38% Similarity=0.556 Sum_probs=17.8
Q ss_pred EEeCCCCCCchhHHHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+|.|+||||||+++-.|...+
T Consensus 2 ~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 689999999999887777664
No 158
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.58 E-value=0.34 Score=61.22 Aligned_cols=122 Identities=24% Similarity=0.256 Sum_probs=70.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhH---
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSA--- 1525 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~--- 1525 (1789)
.+++.|.+.+..++..+ .|+.|+-||-|+|||+|.-++++.+.......-+...| ....-|++.|..
T Consensus 241 g~~~~~~~~~~~~~~~p------~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDP----VE~~~~gI~Q~qVN~ 310 (500)
T COG2804 241 GMSPFQLARLLRLLNRP------QGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDP----VEYQLPGINQVQVNP 310 (500)
T ss_pred CCCHHHHHHHHHHHhCC------CeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCC----eeeecCCcceeeccc
Confidence 67899999999998654 49999999999999999999999876543211111111 111222222210
Q ss_pred HHHHHHHH--HHHHhhh--------cccccc-cccccccccCCeEEEEeCchHHHHHHHHHHHhcCC
Q 000248 1526 AIARAWQD--AALARQI--------NEDSER-DKKSSESSVRARVLICAQSNAAVDELVSRISKEGL 1581 (1789)
Q Consensus 1526 avar~W~d--aalarql--------~~d~~~-~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI 1581 (1789)
.+..++.. .++.||- +.|... +..-....++.=||-.=++|.|..-|. ||.+.|+
T Consensus 311 k~gltfa~~LRa~LRqDPDvImVGEIRD~ETAeiavqAalTGHLVlSTlHtnda~~ai~-RL~~mGv 376 (500)
T COG2804 311 KIGLTFARALRAILRQDPDVIMVGEIRDLETAEIAVQAALTGHLVLSTLHTNDAPGAIT-RLLEMGV 376 (500)
T ss_pred ccCCCHHHHHHHHhccCCCeEEEeccCCHHHHHHHHHHHhcCCeEeeecccCchHHHHH-HHHHcCC
Confidence 00000100 1222321 011110 000012346778899999999998876 7887887
No 159
>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=90.57 E-value=0.63 Score=54.93 Aligned_cols=25 Identities=36% Similarity=0.514 Sum_probs=20.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.++-||||.|||+|+..|...+.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~ 97 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLK 97 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHH
Confidence 4666669999999999999987653
No 160
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=90.56 E-value=0.19 Score=61.80 Aligned_cols=23 Identities=43% Similarity=0.631 Sum_probs=18.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.-.||.||||||||.+..++-..
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHH
Confidence 35799999999999987777553
No 161
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.53 E-value=0.2 Score=59.84 Aligned_cols=28 Identities=32% Similarity=0.598 Sum_probs=24.9
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..|+.|+-||-|+|||+|+.+||..+=.
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~ 151 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINK 151 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhc
Confidence 3589999999999999999999997643
No 162
>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=90.49 E-value=0.37 Score=51.59 Aligned_cols=42 Identities=21% Similarity=0.340 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+.+.+++...++.. .+...+.++.||.|+|||+.+.+++..+
T Consensus 5 ~~~t~~l~~~l~~~---l~~~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 5 EKAMDKFGKAFAKP---LDFGTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred HHHHHHHHHHHHHh---CCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 34444444444331 2334699999999999999999998875
No 163
>PRK05973 replicative DNA helicase; Provisional
Probab=90.49 E-value=0.5 Score=54.94 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=21.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..++||-|+||+|||.....++....
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a 89 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAM 89 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 36999999999999998887766554
No 164
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=90.48 E-value=0.58 Score=58.80 Aligned_cols=28 Identities=21% Similarity=0.309 Sum_probs=23.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+.+.++-||||+|||+|+..+...+..
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~ 121 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKK 121 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHH
Confidence 3568899999999999999999876653
No 165
>PRK10689 transcription-repair coupling factor; Provisional
Probab=90.45 E-value=0.85 Score=63.34 Aligned_cols=43 Identities=23% Similarity=0.197 Sum_probs=30.9
Q ss_pred hhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHH
Q 000248 1446 LKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1446 Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIv 1490 (1789)
+...+.+.|.+||..++.... ...+.=.||+||.|+|||-+..
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~--~~~~~d~Ll~a~TGsGKT~val 639 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMC--QPLAMDRLVCGDVGFGKTEVAM 639 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhh--cCCCCCEEEEcCCCcCHHHHHH
Confidence 334788999999998876421 1112347999999999998643
No 166
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=90.44 E-value=0.2 Score=53.82 Aligned_cols=27 Identities=41% Similarity=0.530 Sum_probs=22.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+|+++|-||-|||||+++-+|..+|-.
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L~~ 45 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYALGG 45 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHS
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHHcC
Confidence 489999999999999988777666643
No 167
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.41 E-value=0.34 Score=59.06 Aligned_cols=26 Identities=27% Similarity=0.365 Sum_probs=22.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...|+.||||||||+++..+...+..
T Consensus 39 h~~L~~Gp~G~GKTtla~~la~~l~c 64 (363)
T PRK14961 39 HAWLLSGTRGVGKTTIARLLAKSLNC 64 (363)
T ss_pred eEEEEecCCCCCHHHHHHHHHHHhcC
Confidence 35699999999999999998887763
No 168
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=90.19 E-value=0.18 Score=62.46 Aligned_cols=22 Identities=45% Similarity=0.655 Sum_probs=18.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-.|+.||||||||.++-++..
T Consensus 180 kgvLL~GppGTGKT~LAkalA~ 201 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAH 201 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4588999999999998777654
No 169
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=90.18 E-value=0.21 Score=59.82 Aligned_cols=23 Identities=43% Similarity=0.559 Sum_probs=17.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
.+...||+||||||||...-.+.
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~Va 187 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAVA 187 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHHH
Confidence 34689999999999998544443
No 170
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=90.12 E-value=0.26 Score=60.71 Aligned_cols=29 Identities=24% Similarity=0.407 Sum_probs=25.1
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...++.++-||+|+|||+|+..|...+..
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~ 163 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVM 163 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34579999999999999999999987654
No 171
>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=90.11 E-value=0.21 Score=60.49 Aligned_cols=26 Identities=31% Similarity=0.641 Sum_probs=23.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.++.||.||+|+|||+|+.+++..+.
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~ 147 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYIN 147 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhC
Confidence 47999999999999999999887654
No 172
>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=90.05 E-value=0.42 Score=57.12 Aligned_cols=42 Identities=21% Similarity=0.287 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+.|.+.+..++... +-.||-||+|+|||+++.+|+..+-
T Consensus 116 ~~~~~~~~~L~~~v~~~-------~~ilI~G~tGSGKTTll~al~~~i~ 157 (299)
T TIGR02782 116 IMTAAQRDVLREAVLAR-------KNILVVGGTGSGKTTLANALLAEIA 157 (299)
T ss_pred CCCHHHHHHHHHHHHcC-------CeEEEECCCCCCHHHHHHHHHHHhh
Confidence 57788888888887542 4679999999999999988887553
No 173
>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=89.97 E-value=0.56 Score=54.14 Aligned_cols=26 Identities=27% Similarity=0.379 Sum_probs=22.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..+++|.||||+|||+++..+...+.
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~ 55 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLI 55 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 36999999999999998888876554
No 174
>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=89.92 E-value=0.55 Score=53.81 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=19.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..++||-||||||||....-++..
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~ 44 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWN 44 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999966655543
No 175
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=89.81 E-value=0.3 Score=55.77 Aligned_cols=36 Identities=36% Similarity=0.472 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+.-+.|+.-|.... .=.||.||||||||.+...+-+
T Consensus 9 e~aKrAL~iAAaG~-------h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 9 EEAKRALEIAAAGG-------HHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp HHHHHHHHHHHHCC---------EEEES-CCCTHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC-------CCeEEECCCCCCHHHHHHHHHH
Confidence 44556666555432 2479999999999987666654
No 176
>PHA02624 large T antigen; Provisional
Probab=89.78 E-value=0.35 Score=62.52 Aligned_cols=39 Identities=18% Similarity=0.266 Sum_probs=28.5
Q ss_pred HHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1454 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1454 QlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
=.+|++.-+... ......||.||||||||+.+.+|+..|
T Consensus 417 ~~~~lk~~l~gi----PKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 417 IYDILKLIVENV----PKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHhcC----CCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 344444444432 234699999999999999999999876
No 177
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=89.77 E-value=0.2 Score=63.25 Aligned_cols=22 Identities=45% Similarity=0.653 Sum_probs=18.6
Q ss_pred eeEEeCCCCCCchhHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
=.|+.||||||||+++.++...
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3899999999999988887553
No 178
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=89.77 E-value=0.45 Score=59.47 Aligned_cols=27 Identities=33% Similarity=0.377 Sum_probs=23.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+|.||||||||++..++...+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~ 175 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEK 175 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 457999999999999999988887654
No 179
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=89.71 E-value=0.24 Score=60.93 Aligned_cols=26 Identities=23% Similarity=0.128 Sum_probs=20.7
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+.+.+.+|+||||||||...-++...
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 34578999999999999976666554
No 180
>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=89.63 E-value=0.62 Score=49.67 Aligned_cols=44 Identities=20% Similarity=0.176 Sum_probs=27.1
Q ss_pred HHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1454 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1454 QlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
=..||..=+.+.+ +.++=+--.+||||||||++.--|..+|...
T Consensus 37 v~~ai~~~l~~~~--p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~ 80 (127)
T PF06309_consen 37 VVNAIKGHLANPN--PRKPLVLSFHGWTGTGKNFVSRLIAEHLYKS 80 (127)
T ss_pred HHHHHHHHHcCCC--CCCCEEEEeecCCCCcHHHHHHHHHHHHHhc
Confidence 3455655555432 2333344479999999999666666665543
No 181
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=89.60 E-value=0.32 Score=54.79 Aligned_cols=27 Identities=30% Similarity=0.549 Sum_probs=23.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|.||||||||+....++...+.
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~ 49 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAK 49 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999999988877664
No 182
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.55 E-value=0.38 Score=61.35 Aligned_cols=25 Identities=40% Similarity=0.494 Sum_probs=21.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.-|+.||||||||+++..+...+..
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhc
Confidence 4599999999999999988887764
No 183
>PRK08727 hypothetical protein; Validated
Probab=89.54 E-value=0.3 Score=56.02 Aligned_cols=27 Identities=33% Similarity=0.546 Sum_probs=23.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
...+|.||||||||+...++...+...
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~ 68 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQA 68 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 468999999999999999988876643
No 184
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.50 E-value=0.47 Score=57.47 Aligned_cols=45 Identities=20% Similarity=0.176 Sum_probs=32.1
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++...+.+...+... +-+...|+.||||||||+++..+...+..
T Consensus 21 g~~~~~~~l~~~i~~~----~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 21 GQSHITNTLLNAIENN----HLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred CcHHHHHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4555666677776542 23458899999999999988888665543
No 185
>PRK06620 hypothetical protein; Validated
Probab=89.50 E-value=0.39 Score=54.69 Aligned_cols=20 Identities=35% Similarity=0.385 Sum_probs=16.8
Q ss_pred ceeEEeCCCCCCchhHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgL 1492 (1789)
...+|.||||+|||+..-++
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~ 64 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIW 64 (214)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 45899999999999977653
No 186
>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=89.37 E-value=1 Score=54.93 Aligned_cols=28 Identities=21% Similarity=0.368 Sum_probs=22.9
Q ss_pred HHHHHHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1454 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1454 QlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
|.+|+.+..... .++.+|.+|+|+|||.
T Consensus 2 Q~~~~~~~~~~~------~~~~~i~apTGsGKT~ 29 (357)
T TIGR03158 2 QVATFEALQSKD------ADIIFNTAPTGAGKTL 29 (357)
T ss_pred HHHHHHHHHcCC------CCEEEEECCCCCCHHH
Confidence 888888876532 3689999999999996
No 187
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=89.36 E-value=0.16 Score=54.26 Aligned_cols=21 Identities=38% Similarity=0.651 Sum_probs=14.5
Q ss_pred eEEeCCCCCCchhHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.||.|+||+|||+++.++-.+
T Consensus 2 vLleg~PG~GKT~la~~lA~~ 22 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS 22 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH
T ss_pred EeeECCCccHHHHHHHHHHHH
Confidence 589999999999987766554
No 188
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=89.34 E-value=0.24 Score=57.79 Aligned_cols=26 Identities=42% Similarity=0.717 Sum_probs=23.6
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-.|+.||||||||+++..+-..|+..
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 58999999999999999999988854
No 189
>PRK08939 primosomal protein DnaI; Reviewed
Probab=89.32 E-value=0.27 Score=58.93 Aligned_cols=26 Identities=27% Similarity=0.313 Sum_probs=22.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
=.+|.||||||||+.+.+|...+...
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~ 183 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKK 183 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 47899999999999999999888753
No 190
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=89.32 E-value=0.47 Score=60.62 Aligned_cols=28 Identities=29% Similarity=0.326 Sum_probs=23.8
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
....|++||||||||+++..+...+...
T Consensus 43 ~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~ 70 (507)
T PRK06645 43 AGGYLLTGIRGVGKTTSARIIAKAVNCS 70 (507)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 3578999999999999999888877653
No 191
>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=89.26 E-value=0.32 Score=56.66 Aligned_cols=26 Identities=19% Similarity=0.206 Sum_probs=21.4
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..++||.||||||||+....++...+
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a 61 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQA 61 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 46999999999999998777666544
No 192
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=89.25 E-value=1.5 Score=55.21 Aligned_cols=75 Identities=21% Similarity=0.258 Sum_probs=50.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI-vgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+++-|.+||..++... =.+|+.|.|||||..- +.++..++..... .
T Consensus 109 ~~~~iQ~~ai~~~~~G~--------dvi~~apTGSGKTlay~lpil~~l~~~~~~-------~----------------- 156 (475)
T PRK01297 109 YCTPIQAQVLGYTLAGH--------DAIGRAQTGTGKTAAFLISIINQLLQTPPP-------K----------------- 156 (475)
T ss_pred CCCHHHHHHHHHHhCCC--------CEEEECCCCChHHHHHHHHHHHHHHhcCcc-------c-----------------
Confidence 57899999999987643 2679999999999542 2233333322000 0
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHh
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
.......++||.+||.+-+-++...+..
T Consensus 157 -----------------------~~~~~~~~aLil~PtreLa~Q~~~~~~~ 184 (475)
T PRK01297 157 -----------------------ERYMGEPRALIIAPTRELVVQIAKDAAA 184 (475)
T ss_pred -----------------------ccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 0001246899999999999998887764
No 193
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.25 E-value=0.5 Score=61.74 Aligned_cols=47 Identities=21% Similarity=0.351 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.++.+.+.+...+...........+.+|.||||||||+|+..+...+
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 45555556665554321111233589999999999999988776543
No 194
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=89.23 E-value=0.79 Score=59.70 Aligned_cols=23 Identities=17% Similarity=0.291 Sum_probs=21.2
Q ss_pred CCeEEEEeCchHHHHHHHHHHHh
Q 000248 1556 RARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
+++|.||++|++..|+++.+...
T Consensus 63 ~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 63 GKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCcEEEECCCHHHHHHHHHhhcc
Confidence 58999999999999999999984
No 195
>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=89.18 E-value=0.41 Score=58.58 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=24.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++.+|-||+|+|||+|+.+|+..+..
T Consensus 134 ~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 489999999999999999999887764
No 196
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=89.16 E-value=0.35 Score=45.65 Aligned_cols=26 Identities=38% Similarity=0.691 Sum_probs=22.9
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+++|.||.|+|||+.+=+|..+|...
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~L~~~ 50 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTVLYGN 50 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 89999999999999888888877653
No 197
>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=89.13 E-value=0.28 Score=54.00 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=19.5
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+|.||||+||||.+..++..+-.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~ 25 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKK 25 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHhhc
Confidence 378999999999999999877643
No 198
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.12 E-value=0.45 Score=60.32 Aligned_cols=39 Identities=23% Similarity=0.250 Sum_probs=27.1
Q ss_pred HHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1456 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1456 qAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+..++.... -....|+.||||||||+++..+...+..
T Consensus 28 ~~L~~~i~~~r----i~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 28 GALQNALKSGK----IGHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred HHHHHHHHcCC----CCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 34555554321 1235699999999999988888777654
No 199
>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=89.08 E-value=0.47 Score=58.18 Aligned_cols=25 Identities=24% Similarity=0.476 Sum_probs=21.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..+.+|.||||||||+..-.|...+
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHH
Confidence 4699999999999999777776655
No 200
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.05 E-value=0.54 Score=59.95 Aligned_cols=23 Identities=17% Similarity=0.244 Sum_probs=17.8
Q ss_pred CCeEEEEeCchHHHHHHHHHHHh
Q 000248 1556 RARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
++++||.+|+.+=+.+++.|+.+
T Consensus 25 g~~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 25 GKSVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHH
Confidence 35788888888888888888864
No 201
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=89.02 E-value=0.22 Score=63.65 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=18.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.=.|+|||||+|||...-+|-+.
T Consensus 224 rGvLlHGPPGCGKT~lA~AiAge 246 (802)
T KOG0733|consen 224 RGVLLHGPPGCGKTSLANAIAGE 246 (802)
T ss_pred CceeeeCCCCccHHHHHHHHhhh
Confidence 34799999999999977776553
No 202
>PRK14701 reverse gyrase; Provisional
Probab=88.99 E-value=1.1 Score=64.04 Aligned_cols=36 Identities=22% Similarity=0.138 Sum_probs=28.8
Q ss_pred HHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1444 QILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1444 ~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
+.+...+.+-|.++|..++... =.++++|.|||||.
T Consensus 74 ~~~G~~pt~iQ~~~i~~il~G~--------d~li~APTGsGKTl 109 (1638)
T PRK14701 74 KITGFEFWSIQKTWAKRILRGK--------SFSIVAPTGMGKST 109 (1638)
T ss_pred HhhCCCCCHHHHHHHHHHHcCC--------CEEEEEcCCCCHHH
Confidence 3333468899999999998653 35899999999998
No 203
>PRK05642 DNA replication initiation factor; Validated
Probab=88.99 E-value=0.64 Score=53.42 Aligned_cols=26 Identities=19% Similarity=0.305 Sum_probs=21.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...+|+||+|||||+...++...+..
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~ 71 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQ 71 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 46789999999999998888766653
No 204
>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=88.92 E-value=0.5 Score=54.44 Aligned_cols=41 Identities=20% Similarity=0.233 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
++..+.|...|.... ...++..|+|+||+|||++...+...
T Consensus 2 e~~~~~l~~~L~~~~---~~~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNS---NEVRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp HHHHHHHHHHHHTTT---TSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred HHHHHHHHHHhhCCC---CCeEEEEEEcCCcCCcceeeeecccc
Confidence 355677777776521 45689999999999999988777654
No 205
>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=88.79 E-value=0.38 Score=53.84 Aligned_cols=27 Identities=30% Similarity=0.567 Sum_probs=23.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|.||||||||+....++..+..
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~ 45 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAG 45 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 469999999999999999888776653
No 206
>PRK13342 recombination factor protein RarA; Reviewed
Probab=88.75 E-value=0.34 Score=60.01 Aligned_cols=22 Identities=41% Similarity=0.640 Sum_probs=17.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+-.||.||||||||+++..|..
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3578899999999997777644
No 207
>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=88.71 E-value=0.58 Score=57.63 Aligned_cols=27 Identities=33% Similarity=0.409 Sum_probs=23.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
...+|.||||||||+...++...+...
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 357899999999999999988877654
No 208
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=88.60 E-value=0.5 Score=51.83 Aligned_cols=28 Identities=36% Similarity=0.552 Sum_probs=24.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+..-|+.||||||||+++..+...++..
T Consensus 14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 14 AHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 4578999999999999999998888754
No 209
>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=88.38 E-value=0.69 Score=56.05 Aligned_cols=24 Identities=38% Similarity=0.567 Sum_probs=20.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+.+|+|.||||||-+...++..+
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHh
Confidence 388999999999999888887766
No 210
>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=88.37 E-value=0.4 Score=51.75 Aligned_cols=23 Identities=35% Similarity=0.576 Sum_probs=19.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
++.+|-||||+|||+++..|...
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999977666543
No 211
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=88.31 E-value=0.39 Score=56.75 Aligned_cols=28 Identities=25% Similarity=0.503 Sum_probs=23.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..++.+|-||+|+|||+|+..|...+..
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~ 220 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVL 220 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3468889999999999999999887754
No 212
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=88.30 E-value=0.47 Score=62.90 Aligned_cols=23 Identities=35% Similarity=0.561 Sum_probs=18.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+-.||.||||||||+++..+-..
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 34699999999999977776543
No 213
>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=88.25 E-value=0.44 Score=52.89 Aligned_cols=27 Identities=30% Similarity=0.533 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|-||||||||+....++.....
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~ 38 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAAR 38 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 469999999999999988877766554
No 214
>PRK13531 regulatory ATPase RavA; Provisional
Probab=88.24 E-value=0.38 Score=60.98 Aligned_cols=24 Identities=29% Similarity=0.462 Sum_probs=20.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+=.||.||||||||++..+|-.++
T Consensus 40 ~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 40 ESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred CCEEEECCCChhHHHHHHHHHHHh
Confidence 579999999999999887776543
No 215
>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=88.21 E-value=0.43 Score=51.48 Aligned_cols=25 Identities=32% Similarity=0.396 Sum_probs=21.3
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.+|-||||+|||+++..+...+..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~ 26 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKK 26 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH
Confidence 5788899999999999888876654
No 216
>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=88.17 E-value=0.42 Score=53.51 Aligned_cols=28 Identities=21% Similarity=0.271 Sum_probs=23.3
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...++.|.||||+|||+....++...+.
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~ 45 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQL 45 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhc
Confidence 3469999999999999998888776543
No 217
>PHA02244 ATPase-like protein
Probab=88.13 E-value=0.56 Score=57.79 Aligned_cols=22 Identities=27% Similarity=0.463 Sum_probs=18.4
Q ss_pred eeEEeCCCCCCchhHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
-.||.||||||||+.+.+|-..
T Consensus 121 PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 121 PVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4688999999999988777654
No 218
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=88.07 E-value=0.33 Score=59.85 Aligned_cols=14 Identities=57% Similarity=1.009 Sum_probs=12.4
Q ss_pred eeEEeCCCCCCchh
Q 000248 1474 LSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1474 fSLIQGPPGTGKTk 1487 (1789)
=.+.+||||||||+
T Consensus 50 SmIl~GPPG~GKTT 63 (436)
T COG2256 50 SMILWGPPGTGKTT 63 (436)
T ss_pred eeEEECCCCCCHHH
Confidence 46779999999998
No 219
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=87.98 E-value=0.37 Score=52.21 Aligned_cols=21 Identities=33% Similarity=0.631 Sum_probs=15.8
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+.+|-||||+|||+....|..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 358899999999995555433
No 220
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=87.92 E-value=1.1 Score=55.68 Aligned_cols=27 Identities=30% Similarity=0.485 Sum_probs=23.2
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+.++-||+|+|||+|+..|...+.
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 357999999999999999999887654
No 221
>PHA02653 RNA helicase NPH-II; Provisional
Probab=87.85 E-value=1.6 Score=57.69 Aligned_cols=23 Identities=13% Similarity=0.052 Sum_probs=20.3
Q ss_pred CCeEEEEeCchHHHHHHHHHHHh
Q 000248 1556 RARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
..+|+|.+|+-+|+-++..++.+
T Consensus 222 ~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 222 ERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHHH
Confidence 46899999999999999998864
No 222
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.82 E-value=0.61 Score=60.07 Aligned_cols=26 Identities=27% Similarity=0.294 Sum_probs=22.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...|+.||||||||+++..+...|..
T Consensus 39 ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 39 HAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 46799999999999988888877764
No 223
>CHL00195 ycf46 Ycf46; Provisional
Probab=87.81 E-value=0.36 Score=61.39 Aligned_cols=23 Identities=39% Similarity=0.411 Sum_probs=18.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.-.|+.||||||||.+.-++-..
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHH
Confidence 45699999999999988777554
No 224
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.73 E-value=0.64 Score=59.41 Aligned_cols=43 Identities=23% Similarity=0.239 Sum_probs=30.0
Q ss_pred HHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1453 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1453 SQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+++..++.... -+...|+.||||||||+++..+...|...
T Consensus 23 ~v~~~L~~~~~~~~----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 23 PVVRALSNALDQQY----LHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred HHHHHHHHHHHhCC----CCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 33445666665432 23467999999999999888888777643
No 225
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=87.69 E-value=0.49 Score=54.74 Aligned_cols=28 Identities=36% Similarity=0.489 Sum_probs=24.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..++||.||||||||......+...+..
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ 50 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGARE 50 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence 4799999999999999888888777664
No 226
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=87.60 E-value=0.33 Score=57.07 Aligned_cols=21 Identities=48% Similarity=0.702 Sum_probs=17.4
Q ss_pred ceeEEeCCCCCCchhHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
.=+|..||||||||.+..++-
T Consensus 152 knVLFyGppGTGKTm~Akala 172 (368)
T COG1223 152 KNVLFYGPPGTGKTMMAKALA 172 (368)
T ss_pred ceeEEECCCCccHHHHHHHHh
Confidence 458999999999999776654
No 227
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=87.56 E-value=0.41 Score=60.31 Aligned_cols=27 Identities=33% Similarity=0.636 Sum_probs=22.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhcc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLATR 1500 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~~ 1500 (1789)
|+-|-||||||||+.|..||..+-+..
T Consensus 71 IvavvGPpGtGKsTLirSlVrr~tk~t 97 (1077)
T COG5192 71 IVAVVGPPGTGKSTLIRSLVRRFTKQT 97 (1077)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHHhh
Confidence 455899999999999999998776553
No 228
>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=87.52 E-value=0.91 Score=56.97 Aligned_cols=26 Identities=23% Similarity=0.300 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+.++-||||+|||||+..|-..+-
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~ 125 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQ 125 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 57899999999999999999887654
No 229
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.50 E-value=0.65 Score=57.38 Aligned_cols=26 Identities=23% Similarity=0.271 Sum_probs=22.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.-.|++||||||||++...+...++.
T Consensus 39 ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 39 HGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred eeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35789999999999998888777765
No 230
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=87.33 E-value=0.46 Score=58.51 Aligned_cols=26 Identities=31% Similarity=0.387 Sum_probs=23.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+..||-||+|+|||+|+.+++..+..
T Consensus 150 GlilI~G~TGSGKTT~l~al~~~i~~ 175 (372)
T TIGR02525 150 GLGLICGETGSGKSTLAASIYQHCGE 175 (372)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 68999999999999999999988765
No 231
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=87.10 E-value=0.59 Score=55.70 Aligned_cols=42 Identities=33% Similarity=0.451 Sum_probs=25.0
Q ss_pred HHHHhhcCCCHHHHHH-HHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1442 LQQILKTSFNESQLQA-ISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1442 L~~~Lk~~LNeSQlqA-I~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
+.+++-+.-=..|++- |++|-.+ ...-.=+|+.||||+|||+
T Consensus 25 l~efiGQ~~vk~~L~ifI~AAk~r----~e~lDHvLl~GPPGlGKTT 67 (332)
T COG2255 25 LDEFIGQEKVKEQLQIFIKAAKKR----GEALDHVLLFGPPGLGKTT 67 (332)
T ss_pred HHHhcChHHHHHHHHHHHHHHHhc----CCCcCeEEeeCCCCCcHHH
Confidence 4444432222345554 4444332 2345679999999999997
No 232
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=86.89 E-value=2.1 Score=53.51 Aligned_cols=26 Identities=27% Similarity=0.456 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+.+|-||+|+|||+|+..|-..+.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~ 266 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFH 266 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 46889999999999999999987664
No 233
>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=86.87 E-value=0.58 Score=52.95 Aligned_cols=27 Identities=26% Similarity=0.421 Sum_probs=23.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+++|-||||||||+....++..+...
T Consensus 14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~ 40 (242)
T cd00984 14 DLIIIAARPSMGKTAFALNIAENIAKK 40 (242)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 599999999999999999988776654
No 234
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.74 E-value=0.63 Score=62.55 Aligned_cols=26 Identities=27% Similarity=0.318 Sum_probs=22.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...|+.||||||||+++..+...|..
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhccC
Confidence 46699999999999999888887764
No 235
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=86.71 E-value=0.79 Score=54.99 Aligned_cols=39 Identities=33% Similarity=0.492 Sum_probs=26.8
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+....++..++... +-.|+-||||||||..+-.+-..+
T Consensus 29 ~~~~~~~~l~a~~~~-------~~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 29 DEEVIELALLALLAG-------GHVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred cHHHHHHHHHHHHcC-------CCEEEECCCCccHHHHHHHHHHHh
Confidence 445555555555432 579999999999999766665543
No 236
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.65 E-value=0.78 Score=59.58 Aligned_cols=42 Identities=24% Similarity=0.333 Sum_probs=29.3
Q ss_pred HHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1453 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1453 SQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.-.+.+..++... .-....|+.||||||||++...+...|+.
T Consensus 20 ~i~~~L~~~i~~~----r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 20 HVTEPLSSALDAG----RINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred HHHHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 3334455555432 22346799999999999999998888774
No 237
>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=86.62 E-value=0.4 Score=55.48 Aligned_cols=25 Identities=36% Similarity=0.590 Sum_probs=21.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+..||-||+|+|||+|+.+++..+
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~~i 151 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLEEI 151 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHHHC
T ss_pred ceEEEEECCCccccchHHHHHhhhc
Confidence 3799999999999999998887754
No 238
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.53 E-value=0.79 Score=58.80 Aligned_cols=44 Identities=23% Similarity=0.270 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
++.-.+++..++.... -+...|+.||||||||++...+...|.-
T Consensus 21 q~~v~~~L~~~i~~~~----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 21 QEHVVRALTNALEQQR----LHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred cHHHHHHHHHHHHcCC----CCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3444455666665422 2235699999999999888887777654
No 239
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=86.52 E-value=1.5 Score=55.21 Aligned_cols=26 Identities=31% Similarity=0.316 Sum_probs=23.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+.++-||||+|||+|+..+...+.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~ 124 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLK 124 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence 46899999999999999999988865
No 240
>PRK13766 Hef nuclease; Provisional
Probab=86.44 E-value=1.8 Score=57.56 Aligned_cols=37 Identities=24% Similarity=0.259 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+-|.+++..++.. =+||..|.|+|||.+.+.++..++
T Consensus 18 ~yQ~~~~~~~l~~---------n~lv~~ptG~GKT~~a~~~i~~~l 54 (773)
T PRK13766 18 LYQQLLAATALKK---------NTLVVLPTGLGKTAIALLVIAERL 54 (773)
T ss_pred HHHHHHHHHHhcC---------CeEEEcCCCccHHHHHHHHHHHHH
Confidence 3477778777653 379999999999986555554443
No 241
>PF13173 AAA_14: AAA domain
Probab=86.36 E-value=0.63 Score=48.25 Aligned_cols=25 Identities=32% Similarity=0.668 Sum_probs=22.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
++.+|-||.|+|||+++..++..+.
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc
Confidence 6899999999999999988887766
No 242
>PRK08233 hypothetical protein; Provisional
Probab=86.33 E-value=0.48 Score=50.89 Aligned_cols=24 Identities=25% Similarity=0.324 Sum_probs=19.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+..|-||||+||||+...|...+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 578899999999999776666554
No 243
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=86.29 E-value=0.46 Score=54.73 Aligned_cols=23 Identities=48% Similarity=0.639 Sum_probs=18.5
Q ss_pred cCCceeEEeCCCCCCchhHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
..+...||-||||||||++...+
T Consensus 10 ~~~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 10 RIPNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CCCcEEEEECCCCCCHHHHHHhc
Confidence 34568999999999999966554
No 244
>PRK13909 putative recombination protein RecB; Provisional
Probab=86.24 E-value=1 Score=61.22 Aligned_cols=49 Identities=24% Similarity=0.336 Sum_probs=39.1
Q ss_pred EeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccccC
Q 000248 1477 IQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVR 1556 (1789)
Q Consensus 1477 IQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k 1556 (1789)
+.-+-|||||+|++...-.||... ...
T Consensus 3 ~~AsAGsGKT~~L~~~yl~ll~~~-----------------------------------------------------~~~ 29 (910)
T PRK13909 3 LKASAGSGKTFALSVRFLALLFKG-----------------------------------------------------ANP 29 (910)
T ss_pred eecCCCCchhHHHHHHHHHHHhcC-----------------------------------------------------CCc
Confidence 456789999999998777776531 013
Q ss_pred CeEEEEeCchHHHHHHHHHHHh
Q 000248 1557 ARVLICAQSNAAVDELVSRISK 1578 (1789)
Q Consensus 1557 ~RILVCAPSNAAVDEIV~RLlk 1578 (1789)
..||+.+.||.|..|+-.|+.+
T Consensus 30 ~~IlavTFT~kAa~Emk~Ri~~ 51 (910)
T PRK13909 30 SEILALTFTKKAANEMKERIID 51 (910)
T ss_pred ceEEEEeehHHHHHHHHHHHHH
Confidence 5899999999999999999984
No 245
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=86.17 E-value=0.42 Score=58.26 Aligned_cols=20 Identities=50% Similarity=0.727 Sum_probs=15.2
Q ss_pred ceeEEeCCCCCCchhHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgL 1492 (1789)
.=+|..||||||||-...+.
T Consensus 186 KGVLLYGPPGTGKTLLAkAV 205 (406)
T COG1222 186 KGVLLYGPPGTGKTLLAKAV 205 (406)
T ss_pred CceEeeCCCCCcHHHHHHHH
Confidence 34799999999999744443
No 246
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=86.14 E-value=0.61 Score=53.98 Aligned_cols=33 Identities=36% Similarity=0.538 Sum_probs=24.5
Q ss_pred HHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1456 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1456 qAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+|..|+... -...+.||+|||||.||..+-.+
T Consensus 23 ~~l~~al~~~-------~~~~~~GpagtGKtetik~La~~ 55 (231)
T PF12774_consen 23 LTLTQALSLN-------LGGALSGPAGTGKTETIKDLARA 55 (231)
T ss_dssp HHHHHHHCTT-------TEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHhccC-------CCCCCcCCCCCCchhHHHHHHHH
Confidence 3566666542 35678999999999999988553
No 247
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=86.10 E-value=1.2 Score=56.63 Aligned_cols=27 Identities=30% Similarity=0.374 Sum_probs=22.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..++||-||||||||+...-.+...+.
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~ 289 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA 289 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 369999999999999977777665544
No 248
>PRK04328 hypothetical protein; Provisional
Probab=85.99 E-value=1.5 Score=50.90 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=19.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..++||-||||||||.....++..
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~ 46 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWN 46 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999976665554
No 249
>PRK00131 aroK shikimate kinase; Reviewed
Probab=85.97 E-value=0.71 Score=48.99 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=17.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
...+|.||||||||++...|-..
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHH
Confidence 47888999999999965555443
No 250
>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=85.94 E-value=0.71 Score=52.05 Aligned_cols=27 Identities=30% Similarity=0.313 Sum_probs=22.4
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+.+|-||||||||+....++...+.
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~ 46 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLR 46 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHh
Confidence 469999999999999988887765543
No 251
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=85.93 E-value=1.5 Score=54.47 Aligned_cols=28 Identities=32% Similarity=0.456 Sum_probs=23.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...+.+|-||.|+|||+|+..|-..+..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~ 232 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLK 232 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3579999999999999999999876543
No 252
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.87 E-value=1 Score=57.46 Aligned_cols=43 Identities=26% Similarity=0.268 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.-.+.+..++... +-+.-.|+.||||||||++...+-.+|..
T Consensus 19 e~vv~~L~~a~~~~----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 19 DVLVRILRNAFTLN----KIPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred HHHHHHHHHHHHcC----CCCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 33344455555432 22346899999999999988777666654
No 253
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=85.81 E-value=0.97 Score=58.79 Aligned_cols=42 Identities=24% Similarity=0.211 Sum_probs=28.9
Q ss_pred HHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1454 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1454 QlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-.+.+..++... +.+.-.|+.||||||||++...+..+|+..
T Consensus 24 iv~~L~~aI~~~----rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 24 IKKILVNAILNN----KLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred HHHHHHHHHHcC----CCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 334455555332 122467899999999999999888887643
No 254
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.59 E-value=1 Score=59.09 Aligned_cols=40 Identities=25% Similarity=0.280 Sum_probs=28.5
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+++..++... +-....|+.||||||||++...+...+..
T Consensus 24 v~~L~~aI~~g----rl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 24 SRALSSALERG----RLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred HHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 44555555532 22357799999999999988888777754
No 255
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.49 E-value=0.97 Score=59.21 Aligned_cols=43 Identities=23% Similarity=0.264 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.-.+.+..++.... -....|+.||||||||++...+...|+.
T Consensus 22 e~vv~~L~~al~~gR----LpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 22 EHVVRALTHALEQQR----LHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred HHHHHHHHHHHHhCC----CceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 333445566665432 2346799999999999999999888875
No 256
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=85.44 E-value=0.42 Score=51.22 Aligned_cols=20 Identities=45% Similarity=0.667 Sum_probs=14.3
Q ss_pred EEeCCCCCCchhHHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsa 1495 (1789)
.|.|+||||||+++-.|-..
T Consensus 3 ~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 3 VITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEE--TTSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHc
Confidence 58899999999987766543
No 257
>CHL00176 ftsH cell division protein; Validated
Probab=85.29 E-value=0.57 Score=61.33 Aligned_cols=22 Identities=50% Similarity=0.685 Sum_probs=18.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-.|+.||||||||+++.++..
T Consensus 217 ~gVLL~GPpGTGKT~LAralA~ 238 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLAKAIAG 238 (638)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3489999999999998888755
No 258
>PRK05541 adenylylsulfate kinase; Provisional
Probab=85.26 E-value=0.83 Score=49.55 Aligned_cols=28 Identities=29% Similarity=0.329 Sum_probs=22.3
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+.+.+|.||||+|||+....|...|-
T Consensus 5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~ 32 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIAKALYERLK 32 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3446899999999999998877766654
No 259
>PRK05480 uridine/cytidine kinase; Provisional
Probab=85.26 E-value=0.73 Score=51.43 Aligned_cols=26 Identities=31% Similarity=0.342 Sum_probs=20.9
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...+..|.||||+||||+...|...+
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 45699999999999998776666654
No 260
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=85.21 E-value=1.1 Score=56.12 Aligned_cols=26 Identities=27% Similarity=0.331 Sum_probs=22.7
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-.+|.||||||||+...++...+...
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~ 157 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQN 157 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 48999999999999999888887654
No 261
>PHA02774 E1; Provisional
Probab=85.20 E-value=0.97 Score=58.40 Aligned_cols=24 Identities=33% Similarity=0.591 Sum_probs=21.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.-.+|.||||||||+...+|+..|
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999998875
No 262
>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=85.15 E-value=3.3 Score=55.40 Aligned_cols=77 Identities=17% Similarity=0.128 Sum_probs=54.1
Q ss_pred HHHHhhc----CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCC
Q 000248 1442 LQQILKT----SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINS 1517 (1789)
Q Consensus 1442 L~~~Lk~----~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~ 1517 (1789)
+.+.++. .+.+-|.+||..++... =.+|+-|.|||||-. .++..|-...
T Consensus 25 l~~~L~~~g~~~p~~~Q~~ai~~il~G~--------nvvv~apTGSGKTla--~~LPiL~~l~----------------- 77 (742)
T TIGR03817 25 VVAALEAAGIHRPWQHQARAAELAHAGR--------HVVVATGTASGKSLA--YQLPVLSALA----------------- 77 (742)
T ss_pred HHHHHHHcCCCcCCHHHHHHHHHHHCCC--------CEEEECCCCCcHHHH--HHHHHHHHHh-----------------
Confidence 5555542 58899999999987653 288999999999952 2222221100
Q ss_pred CCccchhHHHHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcC
Q 000248 1518 RPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1580 (1789)
Q Consensus 1518 rp~~s~s~avar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1580 (1789)
..++.++|+-+|+.+=..++..++.+.+
T Consensus 78 -----------------------------------~~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 78 -----------------------------------DDPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred -----------------------------------hCCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 0124689999999999999999988654
No 263
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=85.12 E-value=2.2 Score=49.10 Aligned_cols=46 Identities=26% Similarity=0.268 Sum_probs=27.7
Q ss_pred HHHHHHHHHccC-----CCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1454 QLQAISVAIGLS-----SSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1454 QlqAI~sALs~~-----~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
|++||...+... .......+=.||-=.+|+|||-+.++++..+...
T Consensus 2 Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~ 52 (299)
T PF00176_consen 2 QLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNE 52 (299)
T ss_dssp HHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhc
Confidence 777777766542 0001223455666679999999999999876654
No 264
>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=85.09 E-value=0.78 Score=43.14 Aligned_cols=22 Identities=27% Similarity=0.450 Sum_probs=17.4
Q ss_pred eEEeCCCCCCchhHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..|-||||+|||+....+...|
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 3577999999998777776665
No 265
>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=84.89 E-value=0.77 Score=50.36 Aligned_cols=25 Identities=32% Similarity=0.607 Sum_probs=21.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
....+|.||.|+|||+++..++..+
T Consensus 20 ~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 3689999999999999887777754
No 266
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=84.80 E-value=0.75 Score=57.55 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=22.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.++.++-||+|+|||+|+..|...+.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~ 246 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYA 246 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35788889999999999999988765
No 267
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=84.67 E-value=1.7 Score=53.60 Aligned_cols=27 Identities=30% Similarity=0.556 Sum_probs=22.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..++||.||||+|||+....+...+..
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~ 108 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAK 108 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 369999999999999998888776654
No 268
>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=84.63 E-value=0.62 Score=49.73 Aligned_cols=19 Identities=26% Similarity=0.538 Sum_probs=13.8
Q ss_pred EEeCCCCCCchhHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVs 1494 (1789)
+|.||||+|||++...|..
T Consensus 2 ~l~G~~GsGKSTla~~l~~ 20 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAH 20 (163)
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 5779999999975444443
No 269
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=84.57 E-value=1.1 Score=58.50 Aligned_cols=45 Identities=22% Similarity=0.277 Sum_probs=33.3
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
++...+.+.+++.... ...-.|++||||||||++...+...|+..
T Consensus 29 q~~~v~~L~~~~~~gr----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 29 QEAMVRTLTNAFETGR----IAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cHHHHHHHHHHHHcCC----CCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 5555666777765432 23467999999999999999998888754
No 270
>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=84.57 E-value=0.79 Score=51.64 Aligned_cols=25 Identities=24% Similarity=0.311 Sum_probs=21.2
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
...++.|.||||||||+....++..
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~ 42 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVT 42 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3479999999999999988877654
No 271
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=84.57 E-value=0.9 Score=55.32 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=18.7
Q ss_pred eeEEeCCCCCCchhHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
=.||.||||||||++..++-..|
T Consensus 31 ~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 31 GVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred cEEEEcCCCCCHHHHHHHHHHHC
Confidence 48999999999999777765543
No 272
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=84.56 E-value=0.63 Score=58.69 Aligned_cols=23 Identities=43% Similarity=0.559 Sum_probs=18.8
Q ss_pred CceeEEeCCCCCCchhHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
....|+.||||||||.+..++-.
T Consensus 276 ~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 276 PKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred CCeeEEECCCCCCHHHHHHHHHh
Confidence 45899999999999997766644
No 273
>PRK11823 DNA repair protein RadA; Provisional
Probab=84.54 E-value=1.7 Score=54.88 Aligned_cols=26 Identities=31% Similarity=0.593 Sum_probs=22.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..++||-||||||||+....+...+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a 105 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLA 105 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35999999999999999888877665
No 274
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.33 E-value=1.2 Score=57.87 Aligned_cols=44 Identities=30% Similarity=0.364 Sum_probs=29.7
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
++.-.+.+..++.... -....|+.||||||||+++..+...|+.
T Consensus 21 q~~~~~~L~~~i~~~~----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 21 QEHVVQTLRNAIAEGR----VAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred CHHHHHHHHHHHHhCC----CceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3344444555554321 1235699999999999999999888764
No 275
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=84.33 E-value=0.72 Score=56.31 Aligned_cols=27 Identities=44% Similarity=0.554 Sum_probs=22.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..-.||-||||||||-..+||-.-|=.
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eLG~ 91 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIARELGE 91 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHhCC
Confidence 357899999999999999988766543
No 276
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=84.32 E-value=1.4 Score=55.65 Aligned_cols=27 Identities=26% Similarity=0.325 Sum_probs=22.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.+|.||||||||+++.++...+...
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~ 168 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESN 168 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHh
Confidence 347899999999999998888777653
No 277
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=84.26 E-value=0.67 Score=50.90 Aligned_cols=22 Identities=32% Similarity=0.477 Sum_probs=19.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
++++|-|+.|+|||++|..++.
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~ 22 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK 22 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEEEcCCCCCHHHHHHHHHH
Confidence 4899999999999999988887
No 278
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=84.23 E-value=1.1 Score=54.58 Aligned_cols=24 Identities=29% Similarity=0.342 Sum_probs=20.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+-.||-||+|+|||+++.+|+..+
T Consensus 161 ~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 161 KNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred CcEEEECCCCCCHHHHHHHHHhhC
Confidence 579999999999999998877644
No 279
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=84.20 E-value=0.99 Score=55.15 Aligned_cols=39 Identities=26% Similarity=0.311 Sum_probs=27.1
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+....+.+..+... .+-.||-||+|+|||+++.+|+..+
T Consensus 148 ~~~~~~~l~~~v~~-------~~nilI~G~tGSGKTTll~aLl~~i 186 (344)
T PRK13851 148 NGDLEAFLHACVVG-------RLTMLLCGPTGSGKTTMSKTLISAI 186 (344)
T ss_pred cHHHHHHHHHHHHc-------CCeEEEECCCCccHHHHHHHHHccc
Confidence 34444445555433 2579999999999999988877643
No 280
>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=84.17 E-value=1.8 Score=60.61 Aligned_cols=31 Identities=32% Similarity=0.512 Sum_probs=23.3
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHH
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
++.|..++... .+++|+||||+|||+-|--+
T Consensus 72 ~~~Il~~l~~~-------~vvii~g~TGSGKTTqlPq~ 102 (1283)
T TIGR01967 72 REDIAEAIAEN-------QVVIIAGETGSGKTTQLPKI 102 (1283)
T ss_pred HHHHHHHHHhC-------ceEEEeCCCCCCcHHHHHHH
Confidence 45677776542 59999999999999965444
No 281
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=84.17 E-value=1.2 Score=57.66 Aligned_cols=44 Identities=23% Similarity=0.336 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+.-.+.+..++... +-....|+.||||||||+++..+..+++..
T Consensus 22 e~iv~~L~~~i~~~----~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 22 DFVVETLKHSIESN----KIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred HHHHHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 33444455555432 223467999999999999999998888753
No 282
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=84.17 E-value=1.2 Score=58.97 Aligned_cols=44 Identities=30% Similarity=0.364 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+...+.+..++... +-....|+.||||||||+++..+..+|+..
T Consensus 24 e~~v~~L~~aI~~~----rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 24 DHIVQTLKNIIKSN----KISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred HHHHHHHHHHHHcC----CCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 33445566666542 223467999999999999999988887754
No 283
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=84.06 E-value=0.78 Score=53.78 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=22.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.=+|++|+.|||||.+|.+++..+...
T Consensus 53 nnvLL~G~rGtGKSSlVkall~~y~~~ 79 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSLVKALLNEYADQ 79 (249)
T ss_pred cceEEecCCCCCHHHHHHHHHHHHhhc
Confidence 458999999999999999998876553
No 284
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=83.89 E-value=1.3 Score=58.56 Aligned_cols=44 Identities=23% Similarity=0.272 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+.-.+.+..++.... -..-.|+.||||||||+++..+...|...
T Consensus 22 e~vv~~L~~ai~~~r----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 22 EHVVKALQNALDEGR----LHHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred HHHHHHHHHHHHcCC----CCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 344455666655432 23467999999999999999888877643
No 285
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=83.88 E-value=0.77 Score=57.78 Aligned_cols=25 Identities=40% Similarity=0.527 Sum_probs=22.0
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-.+|.||||||||+...++...+..
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~ 167 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRE 167 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4689999999999999999888765
No 286
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=83.86 E-value=1.9 Score=54.86 Aligned_cols=25 Identities=32% Similarity=0.424 Sum_probs=20.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..++||-||||||||.....++...
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~ 297 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAA 297 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence 4699999999999999877776544
No 287
>PRK14527 adenylate kinase; Provisional
Probab=83.85 E-value=0.99 Score=49.85 Aligned_cols=23 Identities=26% Similarity=0.580 Sum_probs=18.3
Q ss_pred CCceeEEeCCCCCCchhHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
...+.+|-||||+|||+....|.
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La 27 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLA 27 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHH
Confidence 34699999999999998655554
No 288
>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=83.81 E-value=0.81 Score=49.59 Aligned_cols=23 Identities=26% Similarity=0.432 Sum_probs=19.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+.+|-||||+|||+++-.|...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 37889999999999988766554
No 289
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.58 E-value=1.3 Score=57.85 Aligned_cols=42 Identities=24% Similarity=0.258 Sum_probs=30.1
Q ss_pred HHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1453 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1453 SQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.=.+++..++.... -....|+.||||||||++...+...|+.
T Consensus 23 ~vv~~L~~~l~~~r----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 23 HVVQALTNALTQQR----LHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred HHHHHHHHHHHcCC----CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33345666665432 2346799999999999999988887764
No 290
>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=83.52 E-value=0.95 Score=53.90 Aligned_cols=30 Identities=27% Similarity=0.358 Sum_probs=24.8
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
....+..|-||||+|||+++..+...+...
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~ 61 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGMELRRR 61 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 345688888999999999999999876543
No 291
>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=83.49 E-value=0.79 Score=54.13 Aligned_cols=21 Identities=48% Similarity=0.694 Sum_probs=18.1
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
-.|+-||||||||.+|...+.
T Consensus 35 pvLl~G~~GtGKT~li~~~l~ 55 (272)
T PF12775_consen 35 PVLLVGPSGTGKTSLIQNFLS 55 (272)
T ss_dssp EEEEESSTTSSHHHHHHHHHH
T ss_pred cEEEECCCCCchhHHHHhhhc
Confidence 569999999999998877665
No 292
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=83.40 E-value=2.8 Score=57.30 Aligned_cols=40 Identities=30% Similarity=0.346 Sum_probs=29.1
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+-+.|.+ +|..++... ...+|..|+|||||. ..||-+++
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~-------~~~~iEA~TGtGKTl--aYLlpa~~ 299 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDS-------EHALIEAGTGTGKSL--AYLLPAAY 299 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcC-------CCEEEECCCCCchhH--HHHHHHHH
Confidence 56788888 777787542 578899999999996 33444443
No 293
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=83.40 E-value=0.83 Score=61.07 Aligned_cols=24 Identities=42% Similarity=0.621 Sum_probs=20.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
++.|+.||||||||+++..|-..+
T Consensus 348 ~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 348 PILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 578999999999999888887765
No 294
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.38 E-value=1.3 Score=57.41 Aligned_cols=45 Identities=27% Similarity=0.306 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
++...+.+..++... +-+...|+.||||||||+++..+..++...
T Consensus 21 q~~v~~~L~~~i~~~----~~~hayLf~Gp~G~GKtt~A~~lak~l~c~ 65 (576)
T PRK14965 21 QEHVSRTLQNAIDTG----RVAHAFLFTGARGVGKTSTARILAKALNCE 65 (576)
T ss_pred cHHHHHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHhhcCC
Confidence 344445555555432 223467999999999999999988887643
No 295
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=83.33 E-value=0.89 Score=60.35 Aligned_cols=22 Identities=45% Similarity=0.676 Sum_probs=17.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-.||.||||||||+.+.+|..
T Consensus 213 ~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHH
Confidence 4588999999999987666644
No 296
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.30 E-value=0.68 Score=57.02 Aligned_cols=20 Identities=50% Similarity=0.725 Sum_probs=16.1
Q ss_pred ceeEEeCCCCCCchhHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgL 1492 (1789)
.=.|..||||||||-...++
T Consensus 246 kgvLm~GPPGTGKTlLAKAv 265 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAV 265 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHH
Confidence 45788999999999766655
No 297
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=83.23 E-value=1.4 Score=53.88 Aligned_cols=24 Identities=29% Similarity=0.484 Sum_probs=19.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+=.||.||||||||+++.++-+.+
T Consensus 26 g~vli~G~~G~gKttl~r~~~~~~ 49 (337)
T TIGR02030 26 GGVMVMGDRGTGKSTAVRALAALL 49 (337)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHhh
Confidence 557899999999999888876654
No 298
>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=83.12 E-value=0.83 Score=48.05 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=15.0
Q ss_pred eeEEeCCCCCCchhHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.+|-||||+|||++...|.
T Consensus 1 li~l~G~~GsGKST~a~~l~ 20 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALA 20 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHH
Confidence 35788999999998555443
No 299
>PRK06762 hypothetical protein; Provisional
Probab=82.94 E-value=1 Score=48.25 Aligned_cols=23 Identities=30% Similarity=0.498 Sum_probs=17.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+.+|-||||+|||+....|...
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999855555443
No 300
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.94 E-value=1.3 Score=58.09 Aligned_cols=26 Identities=35% Similarity=0.496 Sum_probs=22.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
-.|+.||||||||+++..+...|+..
T Consensus 40 a~Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 40 AYLFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred eEEEECCCCCChHHHHHHHHHHhcCC
Confidence 46999999999999999998888753
No 301
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=82.87 E-value=0.92 Score=50.56 Aligned_cols=26 Identities=27% Similarity=0.537 Sum_probs=20.3
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+-+.+|-||||+|||+++..++..+
T Consensus 14 ~P~~~i~aG~~GsGKSt~~~~~~~~~ 39 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLARQLLEEF 39 (199)
T ss_dssp S-EEEEEES-TTSTTHHHHHHHHHHT
T ss_pred CCEEEEEeCCCCCCHHHHHHHhhhhc
Confidence 45688999999999999888777765
No 302
>PRK04040 adenylate kinase; Provisional
Probab=82.86 E-value=0.97 Score=50.54 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=19.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+.+|-|+||+|||+....+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 478999999999999776665544
No 303
>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=82.79 E-value=3.3 Score=54.52 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=19.2
Q ss_pred CCeEEEEeCchHHHHHHHHHHH
Q 000248 1556 RARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1556 k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
++||||.+||.+=.++++..+.
T Consensus 46 ~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 46 DQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred CceEEEECCcHHHHHHHHHHHH
Confidence 5799999999999999998554
No 304
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=82.79 E-value=1.5 Score=58.34 Aligned_cols=40 Identities=25% Similarity=0.250 Sum_probs=28.4
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+.+..++.... -....|+.||||||||+++..+...|..
T Consensus 25 v~~L~~aL~~gR----L~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 25 VRALTHALDGGR----LHHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred HHHHHHHHhcCC----CCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344555554322 2346799999999999998888877764
No 305
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=82.75 E-value=0.65 Score=48.77 Aligned_cols=15 Identities=53% Similarity=0.818 Sum_probs=13.0
Q ss_pred ceeEEeCCCCCCchh
Q 000248 1473 ELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTk 1487 (1789)
.-.||+|+|||||+.
T Consensus 22 ~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 22 SPVLITGEPGTGKSL 36 (138)
T ss_dssp S-EEEECCTTSSHHH
T ss_pred CcEEEEcCCCCCHHH
Confidence 467999999999998
No 306
>PRK10865 protein disaggregation chaperone; Provisional
Probab=82.51 E-value=1.5 Score=59.36 Aligned_cols=26 Identities=31% Similarity=0.457 Sum_probs=21.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+..|+.||||||||++...|...+..
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~ 624 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFD 624 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhc
Confidence 57899999999999999888766653
No 307
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=82.49 E-value=0.67 Score=57.04 Aligned_cols=26 Identities=50% Similarity=0.661 Sum_probs=20.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..-.||-||||||||-..+||-..|=
T Consensus 50 Gr~iLiaGppGtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 50 GRAILIAGPPGTGKTALAMAIAKELG 75 (398)
T ss_dssp T-EEEEEE-TTSSHHHHHHHHHHHCT
T ss_pred CcEEEEeCCCCCCchHHHHHHHHHhC
Confidence 46789999999999998888876553
No 308
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=82.44 E-value=1 Score=53.95 Aligned_cols=25 Identities=20% Similarity=0.299 Sum_probs=21.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..+++|.||||||||+....+....
T Consensus 102 g~vtei~G~~GsGKT~l~~~~~~~~ 126 (317)
T PRK04301 102 QSITEFYGEFGSGKTQICHQLAVNV 126 (317)
T ss_pred CcEEEEECCCCCCHhHHHHHHHHHh
Confidence 4799999999999999888886544
No 309
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=82.37 E-value=1.7 Score=53.30 Aligned_cols=44 Identities=23% Similarity=0.292 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+.-.+.+..++... +-+..-||.||+|+|||+++..+...|+..
T Consensus 29 ~~a~~~L~~a~~~g----rl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 29 EEAEAFLAQAYREG----KLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred HHHHHHHHHHHHcC----CCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 34445566666542 233479999999999999999999988873
No 310
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=82.27 E-value=0.93 Score=49.31 Aligned_cols=18 Identities=39% Similarity=0.765 Sum_probs=13.9
Q ss_pred eEEeCCCCCCchhHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgL 1492 (1789)
.+|-||||+|||+....|
T Consensus 2 I~i~G~pGsGKst~a~~L 19 (194)
T cd01428 2 ILLLGPPGSGKGTQAERL 19 (194)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 478899999999844443
No 311
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=82.20 E-value=1.5 Score=54.48 Aligned_cols=27 Identities=37% Similarity=0.615 Sum_probs=23.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.|+.||||+|||++...+..+++..
T Consensus 37 ha~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 37 HAWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 458899999999999999998887764
No 312
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=82.15 E-value=1.1 Score=53.28 Aligned_cols=24 Identities=21% Similarity=0.300 Sum_probs=20.5
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..+++|-||||||||+....+...
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~ 118 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVN 118 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999988877544
No 313
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=82.14 E-value=1.1 Score=49.91 Aligned_cols=26 Identities=31% Similarity=0.486 Sum_probs=21.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
=.||.|+||+|||.++..|+..++..
T Consensus 40 h~li~G~tgsGKS~~l~~ll~~l~~~ 65 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLLRTLLLSLALT 65 (205)
T ss_dssp SEEEE--TTSSHHHHHHHHHHHHHTT
T ss_pred eEEEEcCCCCCccHHHHHHHHHHHHH
Confidence 47999999999999999999998874
No 314
>PRK13764 ATPase; Provisional
Probab=82.12 E-value=1 Score=58.61 Aligned_cols=26 Identities=35% Similarity=0.452 Sum_probs=22.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+-.||-||||+||||++.+|+..+..
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 45799999999999999999887753
No 315
>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=82.08 E-value=3.6 Score=55.78 Aligned_cols=32 Identities=38% Similarity=0.531 Sum_probs=24.2
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1449 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1449 ~LNeSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
.+.+.|.+ +|..++.. ....+|+.|+|||||-
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~-------~~~~~~eA~TG~GKT~ 279 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTH-------SEKSLIEAPTGTGKTL 279 (850)
T ss_pred ccCHHHHHHHHHHHHHhcc-------CCcEEEECCCCCchhH
Confidence 56788997 45556543 2578899999999996
No 316
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=82.03 E-value=0.79 Score=60.62 Aligned_cols=43 Identities=40% Similarity=0.438 Sum_probs=28.7
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHH
Q 000248 1442 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1442 L~~~Lk~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.++++.==|+.|-+..=+ +-+.=+|+.||||||||-...++-
T Consensus 323 l~E~V~fLKNP~~Y~~lGA---------KiPkGvLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 323 LMEFVKFLKNPEQYQELGA---------KIPKGVLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred HHHHHHHhcCHHHHHHcCC---------cCcCceEEECCCCCcHHHHHHHHh
Confidence 4444433338888887532 123458999999999998766663
No 317
>PRK00889 adenylylsulfate kinase; Provisional
Probab=81.98 E-value=1.3 Score=48.04 Aligned_cols=26 Identities=27% Similarity=0.279 Sum_probs=20.8
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..+..|-|+||+|||++...|...+-
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~ 29 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLR 29 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35888899999999987777776653
No 318
>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=81.98 E-value=1.1 Score=49.67 Aligned_cols=23 Identities=35% Similarity=0.499 Sum_probs=18.9
Q ss_pred eeEEeCCCCCCchhHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+..|-||+|+|||+++-.|...+
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35688999999999888776655
No 319
>PRK09694 helicase Cas3; Provisional
Probab=81.77 E-value=3.3 Score=56.36 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..|+-|..+... . ..+++.+|..|.|+|||-..+.....++
T Consensus 286 ~p~p~Q~~~~~~--~------~~pgl~ileApTGsGKTEAAL~~A~~l~ 326 (878)
T PRK09694 286 QPRQLQTLVDAL--P------LQPGLTIIEAPTGSGKTEAALAYAWRLI 326 (878)
T ss_pred CChHHHHHHHhh--c------cCCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 456777766322 1 1357999999999999997655554444
No 320
>PF13479 AAA_24: AAA domain
Probab=81.68 E-value=0.76 Score=51.98 Aligned_cols=19 Identities=47% Similarity=0.812 Sum_probs=16.0
Q ss_pred eeEEeCCCCCCchhHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgL 1492 (1789)
-.||.||||+|||+++..+
T Consensus 5 ~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL 23 (213)
T ss_pred EEEEECCCCCCHHHHHHhC
Confidence 5799999999999966555
No 321
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=81.63 E-value=1.8 Score=56.05 Aligned_cols=27 Identities=33% Similarity=0.444 Sum_probs=22.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
...|+.||||||||++...+..++...
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c~ 65 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNCL 65 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 468899999999999998888877643
No 322
>PRK14531 adenylate kinase; Provisional
Probab=81.57 E-value=1.1 Score=49.34 Aligned_cols=19 Identities=37% Similarity=0.669 Sum_probs=14.6
Q ss_pred eeEEeCCCCCCchhHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgL 1492 (1789)
-.+|-||||+|||+....|
T Consensus 4 ~i~i~G~pGsGKsT~~~~l 22 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARL 22 (183)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4688999999999854333
No 323
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=81.56 E-value=1.1 Score=56.98 Aligned_cols=27 Identities=44% Similarity=0.780 Sum_probs=0.0
Q ss_pred EEeCCCCCCchhHHHHHHHHHHhccCCC
Q 000248 1476 LIQGPPGTGKTRTIVAIVSALLATRTSP 1503 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsaLLs~~~~~ 1503 (1789)
|.-|||||||| .|.-=|+.+|..+.+.
T Consensus 260 LLyGPPGTGKT-LiARqIGkMLNArePK 286 (744)
T KOG0741|consen 260 LLYGPPGTGKT-LIARQIGKMLNAREPK 286 (744)
T ss_pred EEECCCCCChh-HHHHHHHHHhcCCCCc
No 324
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=81.41 E-value=1.2 Score=49.77 Aligned_cols=26 Identities=27% Similarity=0.259 Sum_probs=19.8
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
++..+..|.||+|+||||....|...
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence 34567889999999999866665553
No 325
>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=81.34 E-value=1.2 Score=47.68 Aligned_cols=24 Identities=25% Similarity=0.441 Sum_probs=19.1
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.+|.|+||+|||+.+..|...+.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~ 24 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLF 24 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 467899999999987777776654
No 326
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=81.34 E-value=1.9 Score=56.65 Aligned_cols=40 Identities=25% Similarity=0.298 Sum_probs=28.7
Q ss_pred HHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1456 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1456 qAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+++..++.... -+...|+.||||||||+++..+...|+..
T Consensus 26 ~~L~~~l~~~r----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 26 TALANALDLGR----LHHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred HHHHHHHHcCC----CCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 45556655422 22357999999999999998888887764
No 327
>PLN02200 adenylate kinase family protein
Probab=81.29 E-value=1.3 Score=51.25 Aligned_cols=22 Identities=32% Similarity=0.516 Sum_probs=17.1
Q ss_pred CceeEEeCCCCCCchhHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.+.+|-||||+|||+....|.
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La 64 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIV 64 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHH
Confidence 3578999999999998555443
No 328
>PRK10867 signal recognition particle protein; Provisional
Probab=81.26 E-value=1.3 Score=55.58 Aligned_cols=28 Identities=25% Similarity=0.292 Sum_probs=24.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+.+.++-||||+|||+|+..+...+...
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~ 127 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK 127 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 4688999999999999999998876554
No 329
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=81.08 E-value=1.1 Score=50.28 Aligned_cols=20 Identities=40% Similarity=0.752 Sum_probs=14.8
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-+|.|+||||||+ ++..+.
T Consensus 2 ~I~ITGTPGvGKTT-~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTT-VCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHH-HHHHHH
Confidence 45799999999997 344444
No 330
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=81.06 E-value=1.9 Score=54.45 Aligned_cols=27 Identities=33% Similarity=0.335 Sum_probs=23.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
...|+.||||||||+++..+...++..
T Consensus 40 ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 40 HAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 468999999999999999998888754
No 331
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=81.05 E-value=1.9 Score=52.90 Aligned_cols=39 Identities=31% Similarity=0.288 Sum_probs=26.1
Q ss_pred HHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1454 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1454 QlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.|+..++-.. .-+=.||.||+|||||+++-++...+-
T Consensus 25 ~k~al~~~~~~p-----~~~~vli~G~~GtGKs~~ar~~~~~l~ 63 (350)
T CHL00081 25 MKLALILNVIDP-----KIGGVMIMGDRGTGKSTTIRALVDLLP 63 (350)
T ss_pred HHHHHHHhccCC-----CCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence 445555544332 234578999999999998877765543
No 332
>PRK13768 GTPase; Provisional
Probab=81.03 E-value=1.3 Score=51.67 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=22.5
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.+|.||||+|||+++.++..++..
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~ 28 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEE 28 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHh
Confidence 7889999999999999999888765
No 333
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=80.92 E-value=1.9 Score=56.51 Aligned_cols=22 Identities=32% Similarity=0.610 Sum_probs=18.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
...+|.||||||||+++-.+..
T Consensus 176 ~~vlL~Gp~GtGKTTLAr~i~~ 197 (615)
T TIGR02903 176 QHIILYGPPGVGKTTAARLALE 197 (615)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 4699999999999997766644
No 334
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=80.86 E-value=1.4 Score=53.43 Aligned_cols=27 Identities=22% Similarity=0.319 Sum_probs=22.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|-||||||||+....++.....
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~ 81 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQK 81 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999988887776554
No 335
>PRK08118 topology modulation protein; Reviewed
Probab=80.83 E-value=1.2 Score=48.84 Aligned_cols=14 Identities=29% Similarity=0.601 Sum_probs=12.2
Q ss_pred eEEeCCCCCCchhH
Q 000248 1475 SLIQGPPGTGKTRT 1488 (1789)
Q Consensus 1475 SLIQGPPGTGKTkT 1488 (1789)
.+|-||||+||||.
T Consensus 4 I~I~G~~GsGKSTl 17 (167)
T PRK08118 4 IILIGSGGSGKSTL 17 (167)
T ss_pred EEEECCCCCCHHHH
Confidence 57889999999973
No 336
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=80.83 E-value=2 Score=52.25 Aligned_cols=28 Identities=32% Similarity=0.338 Sum_probs=24.2
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+-+.|+-|..||||||||.-|-..+..
T Consensus 138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~ 165 (340)
T COG0552 138 KPFVILFVGVNGVGKTTTIAKLAKYLKQ 165 (340)
T ss_pred CcEEEEEEecCCCchHhHHHHHHHHHHH
Confidence 4678999999999999999998877664
No 337
>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=80.74 E-value=1.3 Score=48.14 Aligned_cols=24 Identities=46% Similarity=0.551 Sum_probs=20.7
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..|-||+|+|||+++..++..+-.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~ 25 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKA 25 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh
Confidence 457799999999999999998754
No 338
>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=80.70 E-value=1.5 Score=41.25 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=20.1
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+|.|.+|+|||++...+...+-.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~ 25 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAK 25 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 578899999999999888877654
No 339
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.68 E-value=2 Score=56.41 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=22.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.|+.||||||||+++..+...|+..
T Consensus 39 ha~Lf~Gp~GvGKttlA~~lAk~L~c~ 65 (620)
T PRK14954 39 HGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (620)
T ss_pred eeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 357899999999999999888887653
No 340
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=80.59 E-value=0.73 Score=56.90 Aligned_cols=27 Identities=37% Similarity=0.610 Sum_probs=23.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.--||+|-||||||+..+.++..|-..
T Consensus 11 ~TLLIKG~PGTGKTtfaLelL~~l~~~ 37 (484)
T PF07088_consen 11 QTLLIKGEPGTGKTTFALELLNSLKDH 37 (484)
T ss_pred cEEEEecCCCCCceeeehhhHHHHhcc
Confidence 467899999999999999999988754
No 341
>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=80.51 E-value=1.8 Score=50.69 Aligned_cols=21 Identities=38% Similarity=0.589 Sum_probs=18.2
Q ss_pred EEeCCCCCCchhHHHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+|-||+|||||++|..|+..+
T Consensus 17 viIG~sGSGKT~li~~lL~~~ 37 (241)
T PF04665_consen 17 VIIGKSGSGKTTLIKSLLYYL 37 (241)
T ss_pred EEECCCCCCHHHHHHHHHHhh
Confidence 478999999999999998654
No 342
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=80.47 E-value=1.3 Score=56.36 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=20.4
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..++||.||||||||+...-++..
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~ 44 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYN 44 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999987777654
No 343
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=80.43 E-value=1.6 Score=57.03 Aligned_cols=24 Identities=33% Similarity=0.493 Sum_probs=20.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...++.||||||||+.+.++...+
T Consensus 38 ~~~ll~G~pG~GKT~la~~la~~l 61 (608)
T TIGR00764 38 RNVLLIGEPGVGKSMLAKAMAELL 61 (608)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHc
Confidence 478899999999999888877655
No 344
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=80.41 E-value=1.3 Score=50.68 Aligned_cols=25 Identities=28% Similarity=0.505 Sum_probs=21.0
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+++|-||||||||+....+..++..
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~ 27 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMAL 27 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhc
Confidence 7899999999999988888666543
No 345
>PRK13947 shikimate kinase; Provisional
Probab=80.39 E-value=1.3 Score=47.62 Aligned_cols=17 Identities=35% Similarity=0.309 Sum_probs=13.1
Q ss_pred eEEeCCCCCCchhHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVA 1491 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvg 1491 (1789)
-+|.||||||||++...
T Consensus 4 I~l~G~~GsGKst~a~~ 20 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKR 20 (171)
T ss_pred EEEEcCCCCCHHHHHHH
Confidence 46789999999984433
No 346
>PF12846 AAA_10: AAA-like domain
Probab=80.39 E-value=1.4 Score=50.50 Aligned_cols=26 Identities=31% Similarity=0.544 Sum_probs=23.2
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
=++|-|++|+|||+++..++..++..
T Consensus 3 h~~i~G~tGsGKT~~~~~l~~~~~~~ 28 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLLEQLIRR 28 (304)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 47999999999999999999888765
No 347
>PRK06547 hypothetical protein; Provisional
Probab=80.35 E-value=1.7 Score=48.07 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=20.1
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+...+.+|-||||+|||++.-.|...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 34568999999999999976665543
No 348
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=80.32 E-value=1.4 Score=55.35 Aligned_cols=25 Identities=28% Similarity=0.651 Sum_probs=21.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+.+|.||+|+|||+|+..|...+.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~ 248 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYF 248 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH
Confidence 5788999999999999999987653
No 349
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=80.29 E-value=2.1 Score=55.26 Aligned_cols=41 Identities=24% Similarity=0.348 Sum_probs=29.2
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+.+..++... .-+...|+.||||||||+++..+..+++..
T Consensus 23 ~~~L~~~I~~g----rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~ 63 (535)
T PRK08451 23 SKTLSLALDNN----RLAHAYLFSGLRGSGKTSSARIFARALVCE 63 (535)
T ss_pred HHHHHHHHHcC----CCCeeEEEECCCCCcHHHHHHHHHHHhcCC
Confidence 34455555432 223456999999999999999999888753
No 350
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=80.18 E-value=3.1 Score=52.71 Aligned_cols=27 Identities=33% Similarity=0.576 Sum_probs=22.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..++||-|+||+|||+....+...+..
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~ 120 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAK 120 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 369999999999999998888776654
No 351
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=80.11 E-value=5.1 Score=55.54 Aligned_cols=40 Identities=25% Similarity=0.316 Sum_probs=31.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..|.+-|.+||..++... =+|+.-|.|+|||- +..|-+|+
T Consensus 459 ~sFRp~Q~eaI~aiL~Gr--------DVLVimPTGSGKSL--cYQLPAL~ 498 (1195)
T PLN03137 459 HSFRPNQREIINATMSGY--------DVFVLMPTGGGKSL--TYQLPALI 498 (1195)
T ss_pred CCCCHHHHHHHHHHHcCC--------CEEEEcCCCccHHH--HHHHHHHH
Confidence 478999999999998653 28899999999994 44555443
No 352
>PRK03839 putative kinase; Provisional
Probab=80.07 E-value=1.4 Score=47.93 Aligned_cols=17 Identities=41% Similarity=0.575 Sum_probs=13.0
Q ss_pred eEEeCCCCCCchhHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVA 1491 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvg 1491 (1789)
.+|-||||+||||....
T Consensus 3 I~l~G~pGsGKsT~~~~ 19 (180)
T PRK03839 3 IAITGTPGVGKTTVSKL 19 (180)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 56779999999984333
No 353
>PRK06696 uridine kinase; Validated
Probab=80.01 E-value=2.6 Score=47.92 Aligned_cols=26 Identities=19% Similarity=0.162 Sum_probs=21.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..-+..|-||||+||||+.-.|...|
T Consensus 21 ~~~iI~I~G~sgsGKSTlA~~L~~~l 46 (223)
T PRK06696 21 RPLRVAIDGITASGKTTFADELAEEI 46 (223)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHH
Confidence 45699999999999999887776665
No 354
>PRK06851 hypothetical protein; Provisional
Probab=79.97 E-value=1.5 Score=54.21 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=23.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+.+|-||||||||+++..+...+...
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~a~~~ 241 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKAAEER 241 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHHHHhC
Confidence 589999999999999999888877654
No 355
>PTZ00202 tuzin; Provisional
Probab=79.91 E-value=2.1 Score=54.12 Aligned_cols=41 Identities=12% Similarity=0.131 Sum_probs=27.7
Q ss_pred HHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1453 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1453 SQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+..++..++.... .....|.+|-||+|+|||+++..++..
T Consensus 269 aEla~Lr~VL~~~d--~~~privvLtG~~G~GKTTLlR~~~~~ 309 (550)
T PTZ00202 269 AEESWVRQVLRRLD--TAHPRIVVFTGFRGCGKSSLCRSAVRK 309 (550)
T ss_pred HHHHHHHHHHhccC--CCCceEEEEECCCCCCHHHHHHHHHhc
Confidence 44455555554322 223459999999999999988777754
No 356
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=79.88 E-value=2.4 Score=51.76 Aligned_cols=29 Identities=31% Similarity=0.369 Sum_probs=24.4
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..-+.-|.||||+|||+++-.++..+-..
T Consensus 55 ~~~~igi~G~~GaGKSTl~~~l~~~l~~~ 83 (332)
T PRK09435 55 NALRIGITGVPGVGKSTFIEALGMHLIEQ 83 (332)
T ss_pred CcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 34588899999999999999998887643
No 357
>PRK14528 adenylate kinase; Provisional
Probab=79.87 E-value=1.3 Score=49.05 Aligned_cols=19 Identities=32% Similarity=0.614 Sum_probs=15.0
Q ss_pred eeEEeCCCCCCchhHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgL 1492 (1789)
..+|-||||+|||++...|
T Consensus 3 ~i~i~G~pGsGKtt~a~~l 21 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKIL 21 (186)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4688999999999865444
No 358
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=79.86 E-value=1.4 Score=48.84 Aligned_cols=24 Identities=33% Similarity=0.475 Sum_probs=18.7
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+.-|.||||+|||++...|...|-
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~ 24 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILN 24 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred CEEEECCCCCCHHHHHHHHHHHhC
Confidence 356899999999997777666553
No 359
>PRK07667 uridine kinase; Provisional
Probab=79.84 E-value=2.4 Score=47.24 Aligned_cols=25 Identities=20% Similarity=0.227 Sum_probs=20.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.-+..|-||||+|||++.-.|...|
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l 41 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENM 41 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHH
Confidence 3588999999999999776666655
No 360
>PRK14532 adenylate kinase; Provisional
Probab=79.69 E-value=1.2 Score=48.65 Aligned_cols=15 Identities=33% Similarity=0.700 Sum_probs=12.4
Q ss_pred eEEeCCCCCCchhHH
Q 000248 1475 SLIQGPPGTGKTRTI 1489 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTI 1489 (1789)
.+|-||||+|||+..
T Consensus 3 i~~~G~pGsGKsT~a 17 (188)
T PRK14532 3 LILFGPPAAGKGTQA 17 (188)
T ss_pred EEEECCCCCCHHHHH
Confidence 467899999999943
No 361
>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=79.63 E-value=1.1 Score=46.26 Aligned_cols=23 Identities=35% Similarity=0.619 Sum_probs=18.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
..+..|.||+|+|||+.+..|.+
T Consensus 11 g~~~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 11 GEIVAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp TSEEEEEESTTSSHHHHHHHHTT
T ss_pred CCEEEEEccCCCccccceeeecc
Confidence 46999999999999997665544
No 362
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=79.46 E-value=2.1 Score=55.14 Aligned_cols=22 Identities=36% Similarity=0.693 Sum_probs=17.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.-.||.||||||||+..-.+..
T Consensus 87 ~~vLi~Ge~GtGKt~lAr~i~~ 108 (531)
T TIGR02902 87 QHVIIYGPPGVGKTAAARLVLE 108 (531)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 4569999999999996655543
No 363
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=79.40 E-value=1.4 Score=55.22 Aligned_cols=22 Identities=32% Similarity=0.493 Sum_probs=17.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+-.||.||||||||+..-.|-.
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHH
Confidence 4579999999999997666643
No 364
>PRK02496 adk adenylate kinase; Provisional
Probab=79.26 E-value=1.4 Score=48.07 Aligned_cols=19 Identities=37% Similarity=0.758 Sum_probs=14.6
Q ss_pred eEEeCCCCCCchhHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLV 1493 (1789)
.+|-||||+|||++...|.
T Consensus 4 i~i~G~pGsGKst~a~~la 22 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLA 22 (184)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5788999999998554443
No 365
>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=79.20 E-value=1.7 Score=47.32 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=18.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+.+|.||||+|||+....|...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 48899999999999977666554
No 366
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=79.19 E-value=1.4 Score=52.57 Aligned_cols=27 Identities=44% Similarity=0.651 Sum_probs=21.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.||-||||||||-..++|-.-|=..
T Consensus 65 ravLlaGppgtGKTAlAlaisqELG~k 91 (456)
T KOG1942|consen 65 RAVLLAGPPGTGKTALALAISQELGPK 91 (456)
T ss_pred cEEEEecCCCCchhHHHHHHHHHhCCC
Confidence 578999999999999888886655433
No 367
>PRK10865 protein disaggregation chaperone; Provisional
Probab=79.17 E-value=1.4 Score=59.56 Aligned_cols=27 Identities=22% Similarity=0.484 Sum_probs=22.6
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+..++.||||||||+++-++...+..
T Consensus 199 ~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 199 KNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 456788899999999999988877654
No 368
>PRK01184 hypothetical protein; Provisional
Probab=78.98 E-value=1.4 Score=47.97 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=13.3
Q ss_pred eeEEeCCCCCCchhH
Q 000248 1474 LSLIQGPPGTGKTRT 1488 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkT 1488 (1789)
+.+|-||||+||||.
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 678899999999993
No 369
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=78.79 E-value=3 Score=58.27 Aligned_cols=54 Identities=28% Similarity=0.330 Sum_probs=44.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSE 1552 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ss~ 1552 (1789)
+..||----|||||+||...+-.+|-... +
T Consensus 17 ~~~lveASAGSGKT~vL~~r~lrlLl~~~--------~------------------------------------------ 46 (1139)
T COG1074 17 QSVLVEASAGTGKTFVLAERVLRLLLEGG--------P------------------------------------------ 46 (1139)
T ss_pred CcEEEEEcCCCCchhHHHHHHHHHHhhcC--------C------------------------------------------
Confidence 57899999999999999999888776410 0
Q ss_pred cccCCeEEEEeCchHHHHHHHHHHH
Q 000248 1553 SSVRARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1553 ~~~k~RILVCAPSNAAVDEIV~RLl 1577 (1789)
....+|||.+.||+|--|+-.||.
T Consensus 47 -~~v~~ILvvTFT~aAa~Emk~RI~ 70 (1139)
T COG1074 47 -LDVDEILVVTFTKAAAAEMKERIR 70 (1139)
T ss_pred -CChhHeeeeeccHHHHHHHHHHHH
Confidence 123589999999999999999997
No 370
>PRK07261 topology modulation protein; Provisional
Probab=78.69 E-value=1.6 Score=47.95 Aligned_cols=19 Identities=26% Similarity=0.344 Sum_probs=15.4
Q ss_pred eEEeCCCCCCchhHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLV 1493 (1789)
.+|-||||+||||....|.
T Consensus 3 i~i~G~~GsGKSTla~~l~ 21 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLS 21 (171)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 5789999999999665543
No 371
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=78.65 E-value=1.9 Score=46.29 Aligned_cols=26 Identities=27% Similarity=0.470 Sum_probs=23.8
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+..|.||.|||||+.+..|+..|...
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~~ 27 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKRR 27 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhHc
Confidence 67899999999999999999998864
No 372
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.58 E-value=2.4 Score=55.49 Aligned_cols=26 Identities=31% Similarity=0.347 Sum_probs=22.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.-.|+.||||||||+++..+...++.
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhccc
Confidence 46889999999999999888887765
No 373
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=78.54 E-value=2.9 Score=51.53 Aligned_cols=42 Identities=31% Similarity=0.256 Sum_probs=31.5
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhcc
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATR 1500 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~ 1500 (1789)
.+.+..++.... -+.--|++||+|+||+++...+...|+...
T Consensus 28 ~~~L~~~~~~~r----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 28 EAALLDAYRSGR----LHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred HHHHHHHHHcCC----CCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 344566665432 234689999999999999999999999753
No 374
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=78.53 E-value=1.3 Score=58.75 Aligned_cols=20 Identities=50% Similarity=0.792 Sum_probs=16.8
Q ss_pred eEEeCCCCCCchhHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVs 1494 (1789)
.|+.||||||||.+..++-.
T Consensus 490 iLL~GppGtGKT~lakalA~ 509 (733)
T TIGR01243 490 VLLFGPPGTGKTLLAKAVAT 509 (733)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68899999999997777654
No 375
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=78.43 E-value=1.7 Score=44.85 Aligned_cols=20 Identities=30% Similarity=0.582 Sum_probs=15.2
Q ss_pred eEEeCCCCCCchhHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVs 1494 (1789)
-.|-||||+|||+....|..
T Consensus 2 I~i~G~~GsGKst~a~~la~ 21 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAK 21 (147)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 46889999999985555443
No 376
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=78.24 E-value=4.4 Score=54.27 Aligned_cols=57 Identities=25% Similarity=0.443 Sum_probs=44.7
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccc
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKK 1549 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~avar~W~daalarql~~d~~~~~~ 1549 (1789)
...++.+|..|=|||||+-+...+...+.
T Consensus 47 ~~~~V~vVRSpMGTGKTtaLi~wLk~~l~--------------------------------------------------- 75 (824)
T PF02399_consen 47 QKRGVLVVRSPMGTGKTTALIRWLKDALK--------------------------------------------------- 75 (824)
T ss_pred CCCCeEEEECCCCCCcHHHHHHHHHHhcc---------------------------------------------------
Confidence 34589999999999999955544433221
Q ss_pred ccccccCCeEEEEeCchHHHHHHHHHHHhcCC
Q 000248 1550 SSESSVRARVLICAQSNAAVDELVSRISKEGL 1581 (1789)
Q Consensus 1550 ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI 1581 (1789)
.+..+|||.+.-++=+.++..|+.+.|+
T Consensus 76 ----~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 76 ----NPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred ----CCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 2357999999999999999999987765
No 377
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=78.11 E-value=2 Score=52.35 Aligned_cols=27 Identities=22% Similarity=0.319 Sum_probs=22.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|-||||||||+....++.....
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~ 81 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQK 81 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999988887765543
No 378
>PRK09087 hypothetical protein; Validated
Probab=78.09 E-value=2.1 Score=49.28 Aligned_cols=22 Identities=27% Similarity=0.463 Sum_probs=18.1
Q ss_pred CceeEEeCCCCCCchhHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
.+...|.||+|+||||..-++.
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~ 65 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWR 65 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 3678999999999999776544
No 379
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=77.99 E-value=3 Score=50.17 Aligned_cols=44 Identities=16% Similarity=0.156 Sum_probs=33.1
Q ss_pred CCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1450 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1450 LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-|+..++..+.-+... ...+.=|-||||.|||+++..++..|-.
T Consensus 87 ~n~~~a~~~r~~~~~~-----~~~~v~l~G~pGsGKTTLl~~l~~~l~~ 130 (290)
T PRK10463 87 KNNRLAERNRARFAAR-----KQLVLNLVSSPGSGKTTLLTETLMRLKD 130 (290)
T ss_pred HhHHHHHHHHHHHHhc-----CCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4777777777766543 2346677899999999999999987643
No 380
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=77.96 E-value=1.5 Score=46.46 Aligned_cols=18 Identities=39% Similarity=0.754 Sum_probs=13.6
Q ss_pred EeCCCCCCchhHHHHHHH
Q 000248 1477 IQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1477 IQGPPGTGKTkTIvgLVs 1494 (1789)
|-||||+|||+....|..
T Consensus 1 i~G~PgsGK~t~~~~la~ 18 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAK 18 (151)
T ss_dssp EEESTTSSHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHH
Confidence 569999999985555443
No 381
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=77.94 E-value=5.4 Score=53.24 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.||..|..|+....+.. ....-.|++|.+|+|||-.-..+|...|..
T Consensus 198 ~Ln~~Q~~a~~~i~~~~----~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~ 244 (730)
T COG1198 198 ALNQEQQAAVEAILSSL----GGFAPFLLDGVTGSGKTEVYLEAIAKVLAQ 244 (730)
T ss_pred ccCHHHHHHHHHHHHhc----ccccceeEeCCCCCcHHHHHHHHHHHHHHc
Confidence 79999999998887652 234689999999999998777777766653
No 382
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=77.87 E-value=1.9 Score=54.97 Aligned_cols=27 Identities=26% Similarity=0.426 Sum_probs=23.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++.++-||+|.||||||..|.+.+..
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~ 282 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVM 282 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHH
Confidence 368999999999999999999987754
No 383
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=77.85 E-value=3.9 Score=54.06 Aligned_cols=44 Identities=34% Similarity=0.451 Sum_probs=38.3
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..|++.|..|+..++.. +++++-||||||||+++.+++..+...
T Consensus 318 ~~~~~~q~~a~~vl~~d--------e~smlt~~~~~~~~~~~~~~~~l~~~~ 361 (696)
T COG0507 318 LRLSLEQKEALDVLVVD--------EVSMLTGGPGTGKTTAIKAIARLIKEG 361 (696)
T ss_pred CCcCcccHHHHHHHhcC--------CeeEEeccCCcchHHHHHHHHHHHHhc
Confidence 47899999999998753 599999999999999999999876654
No 384
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=77.69 E-value=3.2 Score=45.28 Aligned_cols=28 Identities=36% Similarity=0.572 Sum_probs=23.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+..-|++||+|+||++.+..++..++..
T Consensus 19 ~ha~L~~G~~g~gk~~~a~~~a~~ll~~ 46 (162)
T PF13177_consen 19 PHALLFHGPSGSGKKTLALAFARALLCS 46 (162)
T ss_dssp -SEEEEECSTTSSHHHHHHHHHHHHC-T
T ss_pred ceeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 3467999999999999999999998875
No 385
>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=77.69 E-value=1.8 Score=43.14 Aligned_cols=21 Identities=29% Similarity=0.482 Sum_probs=17.2
Q ss_pred eEEeCCCCCCchhHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+|-|++|+|||+.|..+++.
T Consensus 2 I~V~G~~g~GKTsLi~~l~~~ 22 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCGG 22 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHHS
T ss_pred EEEECcCCCCHHHHHHHHhcC
Confidence 368899999999987777763
No 386
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=77.58 E-value=1 Score=54.43 Aligned_cols=26 Identities=46% Similarity=0.672 Sum_probs=21.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+=.|--||||||||.||.+.-..|-.
T Consensus 63 Ph~L~YgPPGtGktsti~a~a~~ly~ 88 (360)
T KOG0990|consen 63 PHLLFYGPPGTGKTSTILANARDFYS 88 (360)
T ss_pred CcccccCCCCCCCCCchhhhhhhhcC
Confidence 35788899999999999998765543
No 387
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.36 E-value=3 Score=53.31 Aligned_cols=25 Identities=32% Similarity=0.472 Sum_probs=18.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
...|+.||||||||++...+...+.
T Consensus 39 hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 39 HAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4668999999999776666655554
No 388
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=77.33 E-value=2.6 Score=55.48 Aligned_cols=24 Identities=33% Similarity=0.534 Sum_probs=20.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
++.||.||||||||+++..+...+
T Consensus 51 ~~~l~~G~~G~GKttla~~l~~~l 74 (637)
T PRK13765 51 RHVMMIGSPGTGKSMLAKAMAELL 74 (637)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHc
Confidence 489999999999999888876544
No 389
>PRK00300 gmk guanylate kinase; Provisional
Probab=77.32 E-value=1.9 Score=47.61 Aligned_cols=24 Identities=29% Similarity=0.585 Sum_probs=18.8
Q ss_pred CCceeEEeCCCCCCchhHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
...+..|-||+|+|||+++..|..
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~ 27 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLE 27 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHh
Confidence 346899999999999985555554
No 390
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=77.27 E-value=1.4 Score=49.06 Aligned_cols=20 Identities=50% Similarity=0.677 Sum_probs=14.8
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
--|-||||+|||| |+..|+.
T Consensus 3 ItIsG~pGsG~TT-----va~~lAe 22 (179)
T COG1102 3 ITISGLPGSGKTT-----VARELAE 22 (179)
T ss_pred EEeccCCCCChhH-----HHHHHHH
Confidence 3578999999998 5555544
No 391
>PRK14530 adenylate kinase; Provisional
Probab=77.25 E-value=2 Score=48.39 Aligned_cols=19 Identities=32% Similarity=0.546 Sum_probs=14.7
Q ss_pred eeEEeCCCCCCchhHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgL 1492 (1789)
..+|-||||+|||+....|
T Consensus 5 ~I~i~G~pGsGKsT~~~~L 23 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNL 23 (215)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 5678899999999844444
No 392
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=76.98 E-value=1.8 Score=58.95 Aligned_cols=30 Identities=37% Similarity=0.525 Sum_probs=27.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhccC
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLATRT 1501 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~ 1501 (1789)
.|+++|.||.|+|||+.+=+|..||.....
T Consensus 25 ~gi~lI~G~nGsGKSSIldAI~~ALyG~~~ 54 (908)
T COG0419 25 SGIFLIVGPNGAGKSSILDAITFALYGKTP 54 (908)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHcCCCC
Confidence 489999999999999999999999987643
No 393
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=76.87 E-value=1.9 Score=46.81 Aligned_cols=23 Identities=26% Similarity=0.479 Sum_probs=19.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
++++|-||+|+|||+++..++..
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~ 23 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTE 23 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhc
Confidence 47899999999999988877654
No 394
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=76.82 E-value=1.9 Score=49.42 Aligned_cols=22 Identities=27% Similarity=0.296 Sum_probs=17.8
Q ss_pred eEEeCCCCCCchhHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.-|-||+|+||||++..|...+
T Consensus 2 igI~G~sGSGKTTla~~L~~~l 23 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALL 23 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHH
Confidence 4577999999999987777654
No 395
>CHL00095 clpC Clp protease ATP binding subunit
Probab=76.80 E-value=3 Score=56.40 Aligned_cols=43 Identities=19% Similarity=0.441 Sum_probs=30.8
Q ss_pred CHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1451 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1451 NeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+.+.+.+...|.... .+. .|+.||||||||.++-++...+..
T Consensus 184 r~~ei~~~~~~L~r~~----~~n-~lL~G~pGvGKTal~~~la~~i~~ 226 (821)
T CHL00095 184 REKEIERVIQILGRRT----KNN-PILIGEPGVGKTAIAEGLAQRIVN 226 (821)
T ss_pred cHHHHHHHHHHHcccc----cCC-eEEECCCCCCHHHHHHHHHHHHHh
Confidence 4666677777776532 222 379999999999999888776654
No 396
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=76.71 E-value=4.2 Score=53.32 Aligned_cols=26 Identities=31% Similarity=0.252 Sum_probs=22.5
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..+|.||+|||||+.+.+|...+...
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~ 341 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRL 341 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 47999999999999999998877653
No 397
>CHL00206 ycf2 Ycf2; Provisional
Probab=76.71 E-value=1.6 Score=62.48 Aligned_cols=21 Identities=24% Similarity=0.379 Sum_probs=17.5
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
=.|+.||||||||..+.++-+
T Consensus 1632 GILLiGPPGTGKTlLAKALA~ 1652 (2281)
T CHL00206 1632 GILVIGSIGTGRSYLVKYLAT 1652 (2281)
T ss_pred ceEEECCCCCCHHHHHHHHHH
Confidence 357889999999998888754
No 398
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=76.67 E-value=3 Score=56.64 Aligned_cols=27 Identities=33% Similarity=0.437 Sum_probs=22.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.+..|+.||||||||++..+|-..+..
T Consensus 595 ~~~~Lf~Gp~GvGKt~lA~~La~~l~~ 621 (852)
T TIGR03346 595 IGSFLFLGPTGVGKTELAKALAEFLFD 621 (852)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 357899999999999988888776643
No 399
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=76.61 E-value=3 Score=54.20 Aligned_cols=26 Identities=23% Similarity=0.394 Sum_probs=20.4
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...+.++.||||||||+..-.|-.++
T Consensus 102 ~~~IL~LvGPpG~GKSsLa~~la~~l 127 (644)
T PRK15455 102 KKQILYLLGPVGGGKSSLAERLKSLM 127 (644)
T ss_pred CCceEEEecCCCCCchHHHHHHHHHH
Confidence 44699999999999998666665543
No 400
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=76.34 E-value=1.8 Score=57.60 Aligned_cols=25 Identities=28% Similarity=0.476 Sum_probs=20.9
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.|+.||||||||+++-++...+...
T Consensus 206 ~lL~G~pG~GKT~l~~~la~~~~~~ 230 (731)
T TIGR02639 206 PLLVGEPGVGKTAIAEGLALRIAEG 230 (731)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhC
Confidence 4788999999999988888877653
No 401
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=76.26 E-value=7.4 Score=52.83 Aligned_cols=32 Identities=22% Similarity=0.184 Sum_probs=26.2
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchh
Q 000248 1449 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1487 (1789)
Q Consensus 1449 ~LNeSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTk 1487 (1789)
.+.+.|.+ +|..++... ...+||.|+|||||.
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~-------~~~~~eA~tGtGKT~ 279 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDG-------PASFIEAQTGIGKTY 279 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCC-------CcEEEECCCCCcHHH
Confidence 56788888 888887542 578999999999996
No 402
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=76.18 E-value=2.1 Score=50.10 Aligned_cols=20 Identities=45% Similarity=0.727 Sum_probs=17.1
Q ss_pred eEEeCCCCCCchhHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVs 1494 (1789)
+||-||||+|||+.+.-|-.
T Consensus 140 tLiigpP~~GKTTlLRdiaR 159 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIAR 159 (308)
T ss_pred eEEecCCCCChHHHHHHHHH
Confidence 89999999999997776644
No 403
>PRK05439 pantothenate kinase; Provisional
Probab=76.13 E-value=3.8 Score=49.67 Aligned_cols=28 Identities=29% Similarity=0.246 Sum_probs=20.9
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.+-+..|-||||+||||+.-.|.. ++.
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~-~l~ 111 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQA-LLS 111 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH-HHH
Confidence 3445788999999999998766555 443
No 404
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=76.03 E-value=2 Score=58.17 Aligned_cols=27 Identities=22% Similarity=0.471 Sum_probs=22.1
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
....++.||||||||+.+-++...+..
T Consensus 194 ~~n~lL~G~pGvGKT~l~~~la~~i~~ 220 (852)
T TIGR03346 194 KNNPVLIGEPGVGKTAIVEGLAQRIVN 220 (852)
T ss_pred CCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence 356678899999999999988877654
No 405
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=76.00 E-value=2 Score=47.32 Aligned_cols=20 Identities=35% Similarity=0.586 Sum_probs=16.4
Q ss_pred eeEEeCCCCCCchhHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLV 1493 (1789)
=-||.|-||||||+|.-.|-
T Consensus 9 NILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 9 NILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CEEEeCCCCCCchhHHHHHH
Confidence 46999999999999766554
No 406
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=75.96 E-value=3.7 Score=49.32 Aligned_cols=28 Identities=36% Similarity=0.379 Sum_probs=21.2
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.+-+.-|-||+|+||||+. .++..++.
T Consensus 60 ~~p~IIGIaG~~GSGKSTla-r~L~~ll~ 87 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTA-RILQALLS 87 (290)
T ss_pred CCCEEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 45578889999999999977 44455554
No 407
>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=75.66 E-value=2.2 Score=47.17 Aligned_cols=24 Identities=33% Similarity=0.476 Sum_probs=18.7
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+..|-|+||+|||++.-.|...+-
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~ 24 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLR 24 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHH
Confidence 357899999999997776666553
No 408
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=75.62 E-value=2.1 Score=53.72 Aligned_cols=22 Identities=32% Similarity=0.493 Sum_probs=18.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
+-.||.||||||||.+.-.|-.
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~ 138 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLAR 138 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHH
Confidence 4689999999999997766653
No 409
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=75.54 E-value=1.8 Score=50.91 Aligned_cols=21 Identities=48% Similarity=0.638 Sum_probs=16.3
Q ss_pred CceeEEeCCCCCCchhHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
+.=+|.-||||||||-...+.
T Consensus 189 prgvllygppg~gktml~kav 209 (408)
T KOG0727|consen 189 PRGVLLYGPPGTGKTMLAKAV 209 (408)
T ss_pred CcceEEeCCCCCcHHHHHHHH
Confidence 345799999999999855544
No 410
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=75.52 E-value=1.9 Score=50.02 Aligned_cols=22 Identities=45% Similarity=0.745 Sum_probs=17.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
++.+|.||+|||||.+.+.+-.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~ 23 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQ 23 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHH
T ss_pred cEEEEECCCCCChhHHHHHHHH
Confidence 4789999999999997766644
No 411
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=75.43 E-value=3.3 Score=55.99 Aligned_cols=26 Identities=31% Similarity=0.478 Sum_probs=22.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
...|+.||||||||++...|...|+.
T Consensus 38 Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 38 HAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 36799999999999999998888774
No 412
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=75.39 E-value=1.9 Score=50.53 Aligned_cols=23 Identities=26% Similarity=0.453 Sum_probs=17.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+.++-||||||||+....|...
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~ 25 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAK 25 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHH
Confidence 37788999999999966665443
No 413
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=75.35 E-value=1.6 Score=55.51 Aligned_cols=22 Identities=45% Similarity=0.667 Sum_probs=16.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.=.|+-||||||||-...++-+
T Consensus 338 KGVLLvGPPGTGKTlLARAvAG 359 (752)
T KOG0734|consen 338 KGVLLVGPPGTGKTLLARAVAG 359 (752)
T ss_pred CceEEeCCCCCchhHHHHHhhc
Confidence 4578889999999976665543
No 414
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=75.30 E-value=2.7 Score=55.54 Aligned_cols=26 Identities=38% Similarity=0.636 Sum_probs=20.2
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+...+.|+|||||+|||+.+.+.-+.
T Consensus 429 ~~~~~vLLhG~~g~GK~t~V~~vas~ 454 (953)
T KOG0736|consen 429 TLNPSVLLHGPPGSGKTTVVRAVASE 454 (953)
T ss_pred ccceEEEEeCCCCCChHHHHHHHHHH
Confidence 34579999999999999866665443
No 415
>PRK09354 recA recombinase A; Provisional
Probab=75.26 E-value=2.6 Score=51.77 Aligned_cols=27 Identities=22% Similarity=0.329 Sum_probs=22.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+++|-||||||||+..+.++.....
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~ 86 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQK 86 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999988877765543
No 416
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=75.26 E-value=3.7 Score=55.81 Aligned_cols=27 Identities=37% Similarity=0.596 Sum_probs=22.4
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++.|+.||||||||.+..+|-..|..
T Consensus 596 ~~~~lf~Gp~GvGKT~lA~~La~~l~~ 622 (852)
T TIGR03345 596 LGVFLLVGPSGVGKTETALALAELLYG 622 (852)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence 356899999999999999888776653
No 417
>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=75.19 E-value=2.2 Score=46.09 Aligned_cols=22 Identities=36% Similarity=0.682 Sum_probs=17.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.+.+|-||+|+|||+.+..|..
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 3788999999999995555544
No 418
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=75.19 E-value=3.9 Score=48.81 Aligned_cols=44 Identities=23% Similarity=0.231 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+...+.+..++... .-+..-|+.||+|+|||+++..+...++..
T Consensus 10 ~~~~~~l~~~~~~~----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 10 ENIKNRIKNSIIKN----RFSHAHIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred HHHHHHHHHHHHcC----CCCceEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 33444455555432 223577999999999999999999888754
No 419
>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=75.13 E-value=2.3 Score=44.50 Aligned_cols=17 Identities=29% Similarity=0.372 Sum_probs=13.5
Q ss_pred EEeCCCCCCchhHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgL 1492 (1789)
+|-||||+|||+....|
T Consensus 3 ~l~G~~GsGKstla~~l 19 (154)
T cd00464 3 VLIGMMGAGKTTVGRLL 19 (154)
T ss_pred EEEcCCCCCHHHHHHHH
Confidence 67899999999855444
No 420
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=75.13 E-value=1.2 Score=56.25 Aligned_cols=19 Identities=47% Similarity=0.737 Sum_probs=15.5
Q ss_pred eEEeCCCCCCchhHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLV 1493 (1789)
-|+-||||||||.++.-+-
T Consensus 201 Ll~~GpPGtGKTmla~Rl~ 219 (490)
T COG0606 201 LLLVGPPGTGKTMLASRLP 219 (490)
T ss_pred EEEecCCCCchHHhhhhhc
Confidence 5777999999999876653
No 421
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=75.07 E-value=2.6 Score=47.09 Aligned_cols=27 Identities=37% Similarity=0.409 Sum_probs=23.2
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
.++.-|-||+|+|||+.|..|+..|-.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~ 32 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCA 32 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhh
Confidence 458888899999999999999987643
No 422
>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=74.95 E-value=2.3 Score=49.05 Aligned_cols=22 Identities=27% Similarity=0.520 Sum_probs=17.9
Q ss_pred eEEeCCCCCCchhHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+|-|+||+|||+....|...+
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l 23 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKL 23 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHH
Confidence 5788999999999777776554
No 423
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=74.86 E-value=2.2 Score=47.06 Aligned_cols=20 Identities=35% Similarity=0.727 Sum_probs=16.7
Q ss_pred ceeEEeCCCCCCchhHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgL 1492 (1789)
.+..|-||+|+|||+++-.|
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l 22 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAAL 22 (186)
T ss_pred cEEEEECCCCCCHHHHHHHH
Confidence 37889999999999966655
No 424
>PRK00279 adk adenylate kinase; Reviewed
Probab=74.85 E-value=2.2 Score=48.08 Aligned_cols=16 Identities=38% Similarity=0.769 Sum_probs=13.1
Q ss_pred eEEeCCCCCCchhHHH
Q 000248 1475 SLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIv 1490 (1789)
.+|-||||+|||+...
T Consensus 3 I~v~G~pGsGKsT~a~ 18 (215)
T PRK00279 3 LILLGPPGAGKGTQAK 18 (215)
T ss_pred EEEECCCCCCHHHHHH
Confidence 5789999999998433
No 425
>PRK12608 transcription termination factor Rho; Provisional
Probab=74.83 E-value=2.4 Score=52.56 Aligned_cols=26 Identities=38% Similarity=0.529 Sum_probs=21.5
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
=.||-||||||||+.+..|+..+...
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 35999999999999888877777653
No 426
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=74.77 E-value=2.2 Score=54.58 Aligned_cols=25 Identities=32% Similarity=0.663 Sum_probs=20.8
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
..+.||.||+|.|||+||-.|-.-+
T Consensus 110 ~~iLLltGPsGcGKSTtvkvLskel 134 (634)
T KOG1970|consen 110 SRILLLTGPSGCGKSTTVKVLSKEL 134 (634)
T ss_pred ceEEEEeCCCCCCchhHHHHHHHhh
Confidence 3599999999999999988765543
No 427
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=74.71 E-value=2.8 Score=45.92 Aligned_cols=26 Identities=23% Similarity=0.293 Sum_probs=21.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..+..|-|+||+|||++...|...+.
T Consensus 18 ~~~i~i~G~~GsGKstla~~l~~~l~ 43 (184)
T TIGR00455 18 GVVIWLTGLSGSGKSTIANALEKKLE 43 (184)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46999999999999998888777654
No 428
>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=74.68 E-value=1.9 Score=54.20 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=17.3
Q ss_pred eEEeCCCCCCchhHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.++-||||||||++..++-..
T Consensus 212 li~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 212 LIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred EEEECCCCCCHHHHHHHHhHH
Confidence 456699999999999887654
No 429
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=74.48 E-value=5.6 Score=55.98 Aligned_cols=31 Identities=32% Similarity=0.439 Sum_probs=22.6
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHH
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
++.|..++... .+++|.|++|||||+-|-.+
T Consensus 79 r~~Il~ai~~~-------~VviI~GeTGSGKTTqlPq~ 109 (1294)
T PRK11131 79 KQDILEAIRDH-------QVVIVAGETGSGKTTQLPKI 109 (1294)
T ss_pred HHHHHHHHHhC-------CeEEEECCCCCCHHHHHHHH
Confidence 34566666432 59999999999999965544
No 430
>PRK14738 gmk guanylate kinase; Provisional
Probab=74.34 E-value=2.5 Score=47.70 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=18.2
Q ss_pred CCceeEEeCCCCCCchhHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
...+.+|-||||+|||+++-.|.
T Consensus 12 ~~~~ivi~GpsG~GK~tl~~~L~ 34 (206)
T PRK14738 12 KPLLVVISGPSGVGKDAVLARMR 34 (206)
T ss_pred CCeEEEEECcCCCCHHHHHHHHH
Confidence 34688899999999999665553
No 431
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=74.06 E-value=2.2 Score=47.88 Aligned_cols=18 Identities=39% Similarity=0.744 Sum_probs=13.6
Q ss_pred eEEeCCCCCCchhHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgL 1492 (1789)
.+|-||||+|||+....|
T Consensus 2 I~i~G~pGsGKsT~a~~L 19 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRI 19 (210)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 368899999999844333
No 432
>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=74.04 E-value=0.86 Score=51.01 Aligned_cols=21 Identities=29% Similarity=0.343 Sum_probs=13.1
Q ss_pred CeEEEEeCchHHHHHHHHHHH
Q 000248 1557 ARVLICAQSNAAVDELVSRIS 1577 (1789)
Q Consensus 1557 ~RILVCAPSNAAVDEIV~RLl 1577 (1789)
.+|+||||+-.++..+...+.
T Consensus 27 ~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 27 IRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp --EEEE-SS--S-HHHHHCC-
T ss_pred ceEEEecCCHHHHHHHHHHHH
Confidence 689999999999999988776
No 433
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=74.00 E-value=3 Score=53.48 Aligned_cols=36 Identities=28% Similarity=0.398 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHH
Q 000248 1452 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1452 eSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
..-++|+..++.. ....+|.||||||||+++..|-+
T Consensus 198 ~~~~~al~~aa~~-------g~~vlliG~pGsGKTtlar~l~~ 233 (499)
T TIGR00368 198 QHAKRALEIAAAG-------GHNLLLFGPPGSGKTMLASRLQG 233 (499)
T ss_pred HHHHhhhhhhccC-------CCEEEEEecCCCCHHHHHHHHhc
Confidence 3345566655432 24899999999999997776543
No 434
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=73.98 E-value=6.8 Score=53.06 Aligned_cols=35 Identities=26% Similarity=0.113 Sum_probs=27.8
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHH
Q 000248 1448 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1489 (1789)
Q Consensus 1448 ~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTI 1489 (1789)
....+-|.++|..++... ...++|-|.|||||-++
T Consensus 14 ~~PtpiQ~~~i~~il~G~-------~~v~~~apTGSGKTaa~ 48 (844)
T TIGR02621 14 YSPFPWQLSLAERFVAGQ-------PPESCSTPTGLGKTSII 48 (844)
T ss_pred CCCCHHHHHHHHHHHcCC-------CcceEecCCCCcccHHH
Confidence 356789999999987532 25888999999999755
No 435
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=73.97 E-value=3.9 Score=54.84 Aligned_cols=23 Identities=39% Similarity=0.575 Sum_probs=18.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+..|+.||||||||.+...+-..
T Consensus 489 ~~~Lf~GP~GvGKT~lAk~LA~~ 511 (758)
T PRK11034 489 GSFLFAGPTGVGKTEVTVQLSKA 511 (758)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 56799999999999988765433
No 436
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=73.93 E-value=7.3 Score=51.91 Aligned_cols=70 Identities=20% Similarity=0.267 Sum_probs=46.3
Q ss_pred CCHHHHH---HHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHH
Q 000248 1450 FNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAA 1526 (1789)
Q Consensus 1450 LNeSQlq---AI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~a 1526 (1789)
+=+.|.+ +|..++.... ....+..+|..|.|||||. ..||.+++..
T Consensus 26 ~R~~Q~~M~~~V~~al~~~~--~~~~~~lviEAgTGtGKTl--aYLlPai~~A--------------------------- 74 (697)
T PRK11747 26 PRAGQRQMIAEVAKTLAGEY--LKDGRILVIEAGTGVGKTL--SYLLAGIPIA--------------------------- 74 (697)
T ss_pred cCHHHHHHHHHHHHHHhccc--ccccceEEEECCCCcchhH--HHHHHHHHHH---------------------------
Confidence 4456666 6777776420 1123689999999999994 3344433321
Q ss_pred HHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHH
Q 000248 1527 IARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1576 (1789)
Q Consensus 1527 var~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RL 1576 (1789)
...++||+|.+.|.+==++|+.+=
T Consensus 75 --------------------------~~~~k~vVIST~T~~LQeQL~~kD 98 (697)
T PRK11747 75 --------------------------RAEKKKLVISTATVALQEQLVSKD 98 (697)
T ss_pred --------------------------HHcCCeEEEEcCCHHHHHHHHhhh
Confidence 013678999999999989987653
No 437
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=73.87 E-value=2.2 Score=43.67 Aligned_cols=22 Identities=32% Similarity=0.525 Sum_probs=18.4
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
....+-||||.|||+++..+.+
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~ 25 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVG 25 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 4678899999999998887754
No 438
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=73.79 E-value=3.3 Score=49.66 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=19.8
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
...+|-||+|+|||+++.+|+..
T Consensus 145 ~~ili~G~tGsGKTTll~al~~~ 167 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVDE 167 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHcc
Confidence 58999999999999988777653
No 439
>PRK13695 putative NTPase; Provisional
Probab=73.76 E-value=2.7 Score=45.69 Aligned_cols=23 Identities=43% Similarity=0.674 Sum_probs=18.8
Q ss_pred eEEeCCCCCCchhHHHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
.+|.|+||+|||+++..+...+.
T Consensus 3 i~ltG~~G~GKTTll~~i~~~l~ 25 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAELLK 25 (174)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 57889999999998887766544
No 440
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=73.71 E-value=2.3 Score=52.07 Aligned_cols=22 Identities=18% Similarity=0.135 Sum_probs=18.3
Q ss_pred CCceeEEeCCCCCCchhHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
...++.|-||||||||+...-+
T Consensus 125 ~G~ItEI~G~~GsGKTql~lql 146 (344)
T PLN03187 125 TRCITEAFGEFRSGKTQLAHTL 146 (344)
T ss_pred CCeEEEEecCCCCChhHHHHHH
Confidence 4479999999999999966554
No 441
>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]
Probab=73.67 E-value=2.1 Score=59.25 Aligned_cols=24 Identities=46% Similarity=0.570 Sum_probs=20.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
|+|||-||.||||||+|=.+=.+.
T Consensus 28 PlTLIvG~NG~GKTTiIEcLKyat 51 (1294)
T KOG0962|consen 28 PLTLIVGANGTGKTTIIECLKYAT 51 (1294)
T ss_pred CeeeEecCCCCCchhHHHHHHHHh
Confidence 799999999999999887765543
No 442
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=73.65 E-value=2.4 Score=51.30 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=18.7
Q ss_pred CCceeEEeCCCCCCchhHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
...+++|-||||||||+...-+.
T Consensus 95 ~G~iteI~G~~GsGKTql~lqla 117 (313)
T TIGR02238 95 SMSITEVFGEFRCGKTQLSHTLC 117 (313)
T ss_pred CCeEEEEECCCCCCcCHHHHHHH
Confidence 34699999999999999765543
No 443
>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=73.63 E-value=2.9 Score=45.88 Aligned_cols=24 Identities=29% Similarity=0.392 Sum_probs=18.6
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+..|.||||+|||+.+-.|-..+
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l 27 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLL 27 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 478999999999998666555443
No 444
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=73.51 E-value=2.2 Score=51.79 Aligned_cols=27 Identities=33% Similarity=0.556 Sum_probs=24.3
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.--|+.||||+|||++...+..+|+-.
T Consensus 23 ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 23 HAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred eeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 467899999999999999999999864
No 445
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=73.49 E-value=4.7 Score=51.35 Aligned_cols=26 Identities=31% Similarity=0.293 Sum_probs=21.8
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+.+.+|-||||||||+++..|-..+
T Consensus 254 ~p~vil~~G~~G~GKSt~a~~LA~~l 279 (475)
T PRK12337 254 RPLHVLIGGVSGVGKSVLASALAYRL 279 (475)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 35799999999999999988876654
No 446
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=73.38 E-value=2.8 Score=52.77 Aligned_cols=23 Identities=30% Similarity=0.471 Sum_probs=18.0
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.-.|+.||||||||++...|-..
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~~ 70 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAKL 70 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999876666443
No 447
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=73.25 E-value=3.1 Score=53.64 Aligned_cols=28 Identities=32% Similarity=0.507 Sum_probs=23.5
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..++..|-||+|+|||+|+..|...+..
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3578888899999999999998876654
No 448
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=73.21 E-value=2.6 Score=47.23 Aligned_cols=25 Identities=40% Similarity=0.592 Sum_probs=21.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+++++|.||-|+|||..+-+|-.+|
T Consensus 24 ~~~~~i~G~NGsGKS~ileAi~~~l 48 (220)
T PF02463_consen 24 PGLNVIVGPNGSGKSNILEAIEFVL 48 (220)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred CCCEEEEcCCCCCHHHHHHHHHHHH
Confidence 4699999999999999888876554
No 449
>PRK13975 thymidylate kinase; Provisional
Probab=73.13 E-value=2.9 Score=45.86 Aligned_cols=23 Identities=22% Similarity=0.413 Sum_probs=17.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.|-.|.||||+|||+.+-.|-..
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~ 25 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEK 25 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 37889999999999865554443
No 450
>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species. The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.
Probab=73.08 E-value=4.8 Score=50.18 Aligned_cols=38 Identities=26% Similarity=0.341 Sum_probs=28.3
Q ss_pred HHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1455 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1455 lqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+.|++.-|... .+..--+|.|||+|||+.....|+..|
T Consensus 249 l~~lk~~Lkg~----PKKnClvi~GPPdTGKS~F~~SLi~Fl 286 (432)
T PF00519_consen 249 LIALKQFLKGI----PKKNCLVIYGPPDTGKSMFCMSLIKFL 286 (432)
T ss_dssp HHHHHHHHHTB----TTSSEEEEESSCCCSHHHHHHHHHHHH
T ss_pred HHHHHHHHhCC----CcccEEEEECCCCCchhHHHHHHHHHh
Confidence 45566666543 233578899999999999999999854
No 451
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=72.98 E-value=2.7 Score=46.91 Aligned_cols=25 Identities=36% Similarity=0.603 Sum_probs=20.6
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..|.||||.|||+.+.-|...|-..
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~ 32 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREK 32 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhc
Confidence 4789999999999888888766543
No 452
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=72.83 E-value=2.9 Score=47.22 Aligned_cols=23 Identities=43% Similarity=0.566 Sum_probs=18.9
Q ss_pred eeEEeCCCCCCchhHHHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...|-||+|+|||+++..++..+
T Consensus 3 ~i~i~G~~GsGKTTll~~l~~~l 25 (199)
T TIGR00101 3 KIGVAGPVGSGKTALIEALTRAL 25 (199)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 45677999999999998888654
No 453
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=72.67 E-value=2.1 Score=56.50 Aligned_cols=21 Identities=48% Similarity=0.714 Sum_probs=15.7
Q ss_pred CCceeEEeCCCCCCchhHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAI 1492 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgL 1492 (1789)
..| .|..||||||||-...++
T Consensus 705 RSG-ILLYGPPGTGKTLlAKAV 725 (953)
T KOG0736|consen 705 RSG-ILLYGPPGTGKTLLAKAV 725 (953)
T ss_pred cce-eEEECCCCCchHHHHHHH
Confidence 334 488999999999765554
No 454
>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=72.60 E-value=3.5 Score=48.97 Aligned_cols=27 Identities=37% Similarity=0.613 Sum_probs=22.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+.=|-||||.||++.|-.++..+...
T Consensus 30 ~~iGiTG~PGaGKSTli~~l~~~~~~~ 56 (266)
T PF03308_consen 30 HVIGITGPPGAGKSTLIDALIRELRER 56 (266)
T ss_dssp EEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred eEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence 455679999999999999999988764
No 455
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=72.58 E-value=2.3 Score=49.48 Aligned_cols=21 Identities=33% Similarity=0.493 Sum_probs=16.2
Q ss_pred EeCCCCCCchhHHHHHHHHHH
Q 000248 1477 IQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1477 IQGPPGTGKTkTIvgLVsaLL 1497 (1789)
|-||||+||||-+.++-..+-
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~ 21 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLE 21 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHHH
Confidence 469999999988877766553
No 456
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=72.48 E-value=2.9 Score=47.38 Aligned_cols=22 Identities=36% Similarity=0.513 Sum_probs=17.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.+.+|-|+||+|||+....+..
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~ 25 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIAR 25 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 4889999999999985555544
No 457
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=72.44 E-value=3.1 Score=46.01 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=17.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
.+..|.||+|+|||++...|..
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~ 25 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAA 25 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 5889999999999986655554
No 458
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=72.41 E-value=3.2 Score=46.59 Aligned_cols=24 Identities=29% Similarity=0.472 Sum_probs=20.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
++..|-||+|+|||++|..++..+
T Consensus 23 ~~i~~~G~~gsGKTTli~~l~~~~ 46 (207)
T TIGR00073 23 VVLNFMSSPGSGKTTLIEKLIDNL 46 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHH
Confidence 456688999999999999988765
No 459
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=72.33 E-value=2.5 Score=48.22 Aligned_cols=26 Identities=38% Similarity=0.521 Sum_probs=21.7
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
..-|=||||+|||..|..++..|-..
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~ 40 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE 40 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh
Confidence 34456999999999999999988665
No 460
>PRK06761 hypothetical protein; Provisional
Probab=72.28 E-value=2.8 Score=50.15 Aligned_cols=24 Identities=38% Similarity=0.596 Sum_probs=20.2
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
.+.+|-||||+|||+++..+...+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 488999999999999777777655
No 461
>PTZ00035 Rad51 protein; Provisional
Probab=72.15 E-value=3 Score=50.83 Aligned_cols=24 Identities=21% Similarity=0.217 Sum_probs=19.6
Q ss_pred CCceeEEeCCCCCCchhHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
...++.|.||||||||+....+..
T Consensus 117 ~G~iteI~G~~GsGKT~l~~~l~~ 140 (337)
T PTZ00035 117 TGSITELFGEFRTGKTQLCHTLCV 140 (337)
T ss_pred CCeEEEEECCCCCchhHHHHHHHH
Confidence 347999999999999997765543
No 462
>CHL00095 clpC Clp protease ATP binding subunit
Probab=72.14 E-value=4.3 Score=54.92 Aligned_cols=25 Identities=36% Similarity=0.529 Sum_probs=20.7
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+..|+.||||||||++...|-..++
T Consensus 540 ~~~lf~Gp~GvGKt~lA~~LA~~l~ 564 (821)
T CHL00095 540 ASFLFSGPTGVGKTELTKALASYFF 564 (821)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhc
Confidence 4568999999999998888877665
No 463
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=72.11 E-value=2.3 Score=51.10 Aligned_cols=27 Identities=19% Similarity=0.274 Sum_probs=18.2
Q ss_pred cCCeEEEEeCchH--HHHHHHHHHHhcCC
Q 000248 1555 VRARVLICAQSNA--AVDELVSRISKEGL 1581 (1789)
Q Consensus 1555 ~k~RILVCAPSNA--AVDEIV~RLlk~GI 1581 (1789)
....|||.+-||. ++|.-++|=-+..|
T Consensus 266 d~~gvLVLgATNiPw~LDsAIRRRFekRI 294 (439)
T KOG0739|consen 266 DNDGVLVLGATNIPWVLDSAIRRRFEKRI 294 (439)
T ss_pred CCCceEEEecCCCchhHHHHHHHHhhcce
Confidence 4568899999986 67776665543333
No 464
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=72.07 E-value=2.2 Score=52.96 Aligned_cols=19 Identities=47% Similarity=0.718 Sum_probs=15.2
Q ss_pred eEEeCCCCCCchhHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLV 1493 (1789)
.|..||||||||-....|-
T Consensus 387 ilfyGPPGTGKTm~ArelA 405 (630)
T KOG0742|consen 387 ILFYGPPGTGKTMFARELA 405 (630)
T ss_pred eeeeCCCCCCchHHHHHHH
Confidence 5788999999998665553
No 465
>PRK13949 shikimate kinase; Provisional
Probab=71.95 E-value=2.7 Score=46.13 Aligned_cols=16 Identities=31% Similarity=0.301 Sum_probs=12.7
Q ss_pred eEEeCCCCCCchhHHH
Q 000248 1475 SLIQGPPGTGKTRTIV 1490 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIv 1490 (1789)
.+|-||||+|||++..
T Consensus 4 I~liG~~GsGKstl~~ 19 (169)
T PRK13949 4 IFLVGYMGAGKTTLGK 19 (169)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4667999999998444
No 466
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=71.87 E-value=2.6 Score=55.53 Aligned_cols=21 Identities=52% Similarity=0.763 Sum_probs=18.1
Q ss_pred eEEeCCCCCCchhHHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.||.||||||||+++.++...
T Consensus 188 ill~G~~G~GKt~~~~~~a~~ 208 (644)
T PRK10733 188 VLMVGPPGTGKTLLAKAIAGE 208 (644)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 899999999999988777553
No 467
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=71.86 E-value=5.1 Score=48.59 Aligned_cols=28 Identities=29% Similarity=0.453 Sum_probs=24.7
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
+..-|+.||||+|||+++..+...++..
T Consensus 28 ~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 28 SHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 4578999999999999999999888864
No 468
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=71.85 E-value=2.6 Score=49.73 Aligned_cols=19 Identities=53% Similarity=0.712 Sum_probs=15.0
Q ss_pred ceeEEeCCCCCCchhHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVA 1491 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvg 1491 (1789)
.=+|.-||||||||-...+
T Consensus 206 KGvLmYGPPGTGKTlmARA 224 (424)
T KOG0652|consen 206 KGVLMYGPPGTGKTLMARA 224 (424)
T ss_pred CceEeeCCCCCcHHHHHHH
Confidence 4579999999999975444
No 469
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=71.82 E-value=3.6 Score=45.57 Aligned_cols=25 Identities=36% Similarity=0.553 Sum_probs=19.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
+..|+-||+|+|||.+...|-..+.
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~l~ 28 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAELLF 28 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4678899999999997766655544
No 470
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=71.73 E-value=2.8 Score=56.14 Aligned_cols=25 Identities=24% Similarity=0.401 Sum_probs=20.8
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.|+.||||||||.++-++...+...
T Consensus 210 ~LLvGppGvGKT~lae~la~~i~~~ 234 (758)
T PRK11034 210 PLLVGESGVGKTAIAEGLAWRIVQG 234 (758)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4889999999999988887766554
No 471
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=71.71 E-value=2.4 Score=49.55 Aligned_cols=24 Identities=29% Similarity=0.674 Sum_probs=18.3
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.+|-||||+||||-..|+- .+++.
T Consensus 5 qvVIGPPgSGKsTYc~g~~-~fls~ 28 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMS-QFLSA 28 (290)
T ss_pred eEEEcCCCCCccchhhhHH-HHHHH
Confidence 4788999999998877764 44544
No 472
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=71.41 E-value=9.3 Score=54.93 Aligned_cols=65 Identities=18% Similarity=0.185 Sum_probs=51.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCC-CCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPG-TGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1527 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPG-TGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~av 1527 (1789)
.+|..|..|+...+... +.|.+|+|+-| ||||+++..++..+=
T Consensus 281 ~~~~~q~~Av~~il~dr------~~v~iv~~~GgAtGKtt~l~~l~~~a~------------------------------ 324 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDR------PSLAIVSGQGGAAGQRERVAELVMMAR------------------------------ 324 (1623)
T ss_pred ccchhHHHHHHHHhcCC------CceEEEEecccccccHHHHHHHHHHHH------------------------------
Confidence 46789999999998543 47999999988 899998886655321
Q ss_pred HHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHH
Q 000248 1528 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSR 1575 (1789)
Q Consensus 1528 ar~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~R 1575 (1789)
..+.+|-+.||++.|+..+-..
T Consensus 325 --------------------------~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 325 --------------------------EQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred --------------------------hCCcEEEEEeCCHHHHHHHHhc
Confidence 1367999999999999988653
No 473
>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=71.37 E-value=4.2 Score=44.91 Aligned_cols=22 Identities=32% Similarity=0.430 Sum_probs=16.5
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.-.||+|++||||+. +...+|.
T Consensus 23 ~pVlI~GE~GtGK~~-----lA~~IH~ 44 (168)
T PF00158_consen 23 LPVLITGETGTGKEL-----LARAIHN 44 (168)
T ss_dssp S-EEEECSTTSSHHH-----HHHHHHH
T ss_pred CCEEEEcCCCCcHHH-----HHHHHHH
Confidence 578999999999998 4444454
No 474
>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=71.35 E-value=2.8 Score=43.26 Aligned_cols=20 Identities=25% Similarity=0.519 Sum_probs=16.2
Q ss_pred eEEeCCCCCCchhHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVs 1494 (1789)
.+|-||||+|||+.+-.++.
T Consensus 2 i~i~G~~~~GKTsli~~l~~ 21 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVK 21 (160)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 36889999999997766654
No 475
>PRK14737 gmk guanylate kinase; Provisional
Probab=71.34 E-value=3.3 Score=46.33 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=19.3
Q ss_pred CceeEEeCCCCCCchhHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
+.+.+|-||+|+|||+.+-.|+..
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhc
Confidence 358899999999999977666553
No 476
>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=71.25 E-value=3.5 Score=47.62 Aligned_cols=24 Identities=38% Similarity=0.591 Sum_probs=21.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+++.|-||-|+|||+++-+|..++
T Consensus 23 ~~~~i~G~NGsGKStll~ai~~~l 46 (247)
T cd03275 23 RFTCIIGPNGSGKSNLMDAISFVL 46 (247)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 699999999999999888877765
No 477
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=71.13 E-value=2.7 Score=55.94 Aligned_cols=74 Identities=24% Similarity=0.238 Sum_probs=54.3
Q ss_pred hcCCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHH
Q 000248 1447 KTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAA 1526 (1789)
Q Consensus 1447 k~~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~~~~~~s~~~~~~~s~~~~rp~~s~s~a 1526 (1789)
...+|.+|..+... +..+.-+|.| ||+|||.++..=+..++....
T Consensus 11 ~~~l~~~q~~~~~~---------~~~~~rviag-pgsgkt~~lt~~v~yli~~~~------------------------- 55 (853)
T KOG2108|consen 11 YSLLNKSQRFSALS---------PLRRKRVIAG-PGSGKTLVLTERVAYLINFNN------------------------- 55 (853)
T ss_pred hhhhhhhhhhhhcC---------CCcccceeec-CCCCccchhhHHHHHHHhccC-------------------------
Confidence 34678888876532 1346789999 999999999998888876521
Q ss_pred HHHHHHHHHHHhhhcccccccccccccccCCeEEEEeCchHHHHHHHHHHHhcCCcC
Q 000248 1527 IARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYG 1583 (1789)
Q Consensus 1527 var~W~daalarql~~d~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~GI~d 1583 (1789)
.+..-|++-+-+|-|+|++..++. .++.+
T Consensus 56 ---------------------------ik~~eI~~~t~tnka~~~~~~~l~-~il~~ 84 (853)
T KOG2108|consen 56 ---------------------------IKPDEILINTGTNKAADSIKLNLI-AILRT 84 (853)
T ss_pred ---------------------------CCHHHHHHHhcCCccHHHHHHhHH-HHhcC
Confidence 012347777799999999999998 45443
No 478
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=71.06 E-value=4.7 Score=49.32 Aligned_cols=40 Identities=23% Similarity=0.362 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1449 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1449 ~LNeSQlqAI~sALs~~~~~~~~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
.+++.+.+.+..++... +-.+|-||+|+|||+++.+++..
T Consensus 162 ~~~~~~~~~L~~~v~~~-------~~ili~G~tGsGKTTll~al~~~ 201 (340)
T TIGR03819 162 TFPPGVARLLRAIVAAR-------LAFLISGGTGSGKTTLLSALLAL 201 (340)
T ss_pred CCCHHHHHHHHHHHhCC-------CeEEEECCCCCCHHHHHHHHHcc
Confidence 46777777777766432 58999999999999988777653
No 479
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=70.97 E-value=2.7 Score=56.98 Aligned_cols=25 Identities=24% Similarity=0.449 Sum_probs=20.6
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
=.|+.||||||||+++-++...+..
T Consensus 210 n~lLvG~pGvGKTal~~~La~~i~~ 234 (852)
T TIGR03345 210 NPILTGEAGVGKTAVVEGLALRIAA 234 (852)
T ss_pred ceeEECCCCCCHHHHHHHHHHHHhh
Confidence 3478999999999999888877654
No 480
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=70.76 E-value=3.8 Score=45.04 Aligned_cols=25 Identities=32% Similarity=0.420 Sum_probs=21.9
Q ss_pred eeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+.-|-|++|+|||+.+..|+..|-.
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~ 27 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSA 27 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH
Confidence 6778999999999999999987654
No 481
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=70.67 E-value=3.5 Score=55.55 Aligned_cols=25 Identities=36% Similarity=0.526 Sum_probs=19.6
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSA 1495 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsa 1495 (1789)
..++.++.||||||||++...+...
T Consensus 348 ~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 348 KGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 3468999999999999766666544
No 482
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=70.57 E-value=5.2 Score=48.67 Aligned_cols=27 Identities=33% Similarity=0.338 Sum_probs=23.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
.--|++||||+|||+++..+..+++-.
T Consensus 22 hA~Lf~G~~G~GK~~la~~~a~~llC~ 48 (325)
T PRK08699 22 NAWLFAGKKGIGKTAFARFAAQALLCE 48 (325)
T ss_pred eEEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 467899999999999999999988854
No 483
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=70.48 E-value=3.3 Score=43.45 Aligned_cols=19 Identities=26% Similarity=0.555 Sum_probs=16.1
Q ss_pred EEeCCCCCCchhHHHHHHH
Q 000248 1476 LIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1476 LIQGPPGTGKTkTIvgLVs 1494 (1789)
+|-||||+|||+.+..++.
T Consensus 4 ~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 4 VVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEECCCCCCHHHHHHHHHh
Confidence 4569999999998888775
No 484
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=70.47 E-value=5.2 Score=53.45 Aligned_cols=24 Identities=38% Similarity=0.534 Sum_probs=19.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+..|+.||||||||.+...|-..+
T Consensus 485 ~~~lf~Gp~GvGKT~lA~~la~~l 508 (731)
T TIGR02639 485 GSFLFTGPTGVGKTELAKQLAEAL 508 (731)
T ss_pred eeEEEECCCCccHHHHHHHHHHHh
Confidence 457999999999998777765544
No 485
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=70.43 E-value=3.2 Score=45.42 Aligned_cols=21 Identities=33% Similarity=0.645 Sum_probs=18.3
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
=.||.||+|.|||++...++.
T Consensus 16 gvLi~G~sG~GKStlal~L~~ 36 (149)
T cd01918 16 GVLITGPSGIGKSELALELIK 36 (149)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 579999999999998877766
No 486
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=70.41 E-value=2.7 Score=55.13 Aligned_cols=21 Identities=52% Similarity=0.675 Sum_probs=16.4
Q ss_pred eeEEeCCCCCCchhHHHHHHH
Q 000248 1474 LSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1474 fSLIQGPPGTGKTkTIvgLVs 1494 (1789)
=.|..||||||||....++.+
T Consensus 703 giLLyGppGcGKT~la~a~a~ 723 (952)
T KOG0735|consen 703 GILLYGPPGCGKTLLASAIAS 723 (952)
T ss_pred ceEEECCCCCcHHHHHHHHHh
Confidence 358899999999996665554
No 487
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=70.32 E-value=3.9 Score=46.68 Aligned_cols=27 Identities=30% Similarity=0.441 Sum_probs=21.4
Q ss_pred CCceeEEeCCCCCCchhHHHHHHHHHH
Q 000248 1471 DCELSLIQGPPGTGKTRTIVAIVSALL 1497 (1789)
Q Consensus 1471 ~~gfSLIQGPPGTGKTkTIvgLVsaLL 1497 (1789)
..-+.-|-||+|+|||+++-.|...+-
T Consensus 32 ~~~iigi~G~~GsGKTTl~~~L~~~l~ 58 (229)
T PRK09270 32 RRTIVGIAGPPGAGKSTLAEFLEALLQ 58 (229)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence 346888899999999998877766553
No 488
>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=70.03 E-value=3.6 Score=44.35 Aligned_cols=24 Identities=46% Similarity=0.621 Sum_probs=19.1
Q ss_pred eEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1475 SLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
..+-||+|+|||+++..+...+..
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~ 25 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRA 25 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH
Confidence 345699999999999988776643
No 489
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=69.70 E-value=4 Score=49.34 Aligned_cols=25 Identities=28% Similarity=0.418 Sum_probs=19.4
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+-+.+|.||+|+|||++...|...|
T Consensus 92 p~iIlI~G~sgsGKStlA~~La~~l 116 (301)
T PRK04220 92 PIIILIGGASGVGTSTIAFELASRL 116 (301)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3588999999999999666655443
No 490
>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=69.53 E-value=3.9 Score=46.51 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=20.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
+++.|-||-|+|||+++-+|...+
T Consensus 24 ~~~~i~GpNGsGKStll~ai~~~l 47 (243)
T cd03272 24 KHNVVVGRNGSGKSNFFAAIRFVL 47 (243)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHH
Confidence 699999999999999888887544
No 491
>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=69.22 E-value=3.5 Score=55.54 Aligned_cols=28 Identities=36% Similarity=0.573 Sum_probs=24.1
Q ss_pred ccCCceeEEeCCCCCCchhHHHHHHHHH
Q 000248 1469 KKDCELSLIQGPPGTGKTRTIVAIVSAL 1496 (1789)
Q Consensus 1469 ~~~~gfSLIQGPPGTGKTkTIvgLVsaL 1496 (1789)
...+.+-+|-||.||||++.++||.-+|
T Consensus 39 ~pgpsLNmIiGpNGSGKSSiVcAIcLgl 66 (1072)
T KOG0979|consen 39 LPGPSLNMIIGPNGSGKSSIVCAICLGL 66 (1072)
T ss_pred cCCCceeeEECCCCCCchHHHHHHHHHc
Confidence 3455799999999999999999998765
No 492
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=69.05 E-value=2.6 Score=51.89 Aligned_cols=22 Identities=50% Similarity=0.625 Sum_probs=17.5
Q ss_pred CceeEEeCCCCCCchhHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
+.-.|..||||||||....++-
T Consensus 127 ~kGiLL~GPpG~GKTmlAKA~A 148 (386)
T KOG0737|consen 127 PKGILLYGPPGTGKTMLAKAIA 148 (386)
T ss_pred CccceecCCCCchHHHHHHHHH
Confidence 3467999999999998666653
No 493
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=68.64 E-value=3.5 Score=41.50 Aligned_cols=20 Identities=35% Similarity=0.514 Sum_probs=16.4
Q ss_pred eEEeCCCCCCchhHHHHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvgLVs 1494 (1789)
.+|-|+||+|||+.|-.|..
T Consensus 2 V~iiG~~~~GKSTlin~l~~ 21 (116)
T PF01926_consen 2 VAIIGRPNVGKSTLINALTG 21 (116)
T ss_dssp EEEEESTTSSHHHHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 36779999999998777763
No 494
>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=68.60 E-value=3.3 Score=43.89 Aligned_cols=22 Identities=32% Similarity=0.365 Sum_probs=18.1
Q ss_pred ceeEEeCCCCCCchhHHHHHHH
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
--.+|-||||+|||+.+..+.+
T Consensus 15 ~~v~i~G~~g~GKStLl~~l~~ 36 (173)
T cd04155 15 PRILILGLDNAGKTTILKQLAS 36 (173)
T ss_pred cEEEEEccCCCCHHHHHHHHhc
Confidence 3478899999999998777765
No 495
>PTZ00301 uridine kinase; Provisional
Probab=68.59 E-value=4.5 Score=46.36 Aligned_cols=26 Identities=38% Similarity=0.534 Sum_probs=21.9
Q ss_pred ceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1473 ELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1473 gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
-+..|-||||+||||....|+..|..
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHh
Confidence 47889999999999988888777754
No 496
>PRK14526 adenylate kinase; Provisional
Probab=68.51 E-value=3.7 Score=46.97 Aligned_cols=17 Identities=35% Similarity=0.659 Sum_probs=13.2
Q ss_pred eEEeCCCCCCchhHHHH
Q 000248 1475 SLIQGPPGTGKTRTIVA 1491 (1789)
Q Consensus 1475 SLIQGPPGTGKTkTIvg 1491 (1789)
.+|-||||+|||+....
T Consensus 3 i~l~G~pGsGKsT~a~~ 19 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKI 19 (211)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 35789999999985433
No 497
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=68.46 E-value=16 Score=48.71 Aligned_cols=25 Identities=36% Similarity=0.675 Sum_probs=19.7
Q ss_pred cCCceeEEeCCCCCCchhHHHHHHHHHHhc
Q 000248 1470 KDCELSLIQGPPGTGKTRTIVAIVSALLAT 1499 (1789)
Q Consensus 1470 ~~~gfSLIQGPPGTGKTkTIvgLVsaLLs~ 1499 (1789)
....+.|..||||-|||+ +.++++.
T Consensus 324 P~kKilLL~GppGlGKTT-----LAHViAk 348 (877)
T KOG1969|consen 324 PPKKILLLCGPPGLGKTT-----LAHVIAK 348 (877)
T ss_pred CccceEEeecCCCCChhH-----HHHHHHH
Confidence 345799999999999998 5555554
No 498
>PRK03918 chromosome segregation protein; Provisional
Probab=68.40 E-value=3.8 Score=55.24 Aligned_cols=27 Identities=33% Similarity=0.481 Sum_probs=23.0
Q ss_pred CceeEEeCCCCCCchhHHHHHHHHHHh
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVSALLA 1498 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVsaLLs 1498 (1789)
+|+++|.||-|||||+.+-+|..+|..
T Consensus 23 ~g~~~i~G~nG~GKStil~ai~~~l~~ 49 (880)
T PRK03918 23 DGINLIIGQNGSGKSSILEAILVGLYW 49 (880)
T ss_pred CCcEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 379999999999999988888777663
No 499
>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=68.33 E-value=3.7 Score=45.95 Aligned_cols=23 Identities=30% Similarity=0.524 Sum_probs=18.9
Q ss_pred CceeEEeCCCCCCchhHHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIVS 1494 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLVs 1494 (1789)
..+..|-||.|+|||+.+-.|.+
T Consensus 30 G~~~~l~G~nGsGKSTLl~~i~G 52 (218)
T cd03255 30 GEFVAIVGPSGSGKSTLLNILGG 52 (218)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhC
Confidence 36999999999999986666654
No 500
>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=68.29 E-value=4 Score=42.46 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=18.6
Q ss_pred CceeEEeCCCCCCchhHHHHHH
Q 000248 1472 CELSLIQGPPGTGKTRTIVAIV 1493 (1789)
Q Consensus 1472 ~gfSLIQGPPGTGKTkTIvgLV 1493 (1789)
..+..|-||.|+|||+++..+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 3689999999999999777754
Done!