Query 000413
Match_columns 1545
No_of_seqs 326 out of 1673
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 07:45:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000413.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000413hhsearch_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 1E-34 2.2E-39 343.8 22.0 358 1013-1544 3-375 (649)
2 TIGR00376 DNA helicase, putati 100.0 1.8E-33 4E-38 346.2 31.6 334 1052-1545 35-379 (637)
3 KOG1802 RNA helicase nonsense 100.0 6.6E-34 1.4E-38 336.0 26.1 349 1001-1545 228-586 (935)
4 PF13086 AAA_11: AAA domain; P 100.0 1.2E-30 2.6E-35 274.5 12.6 209 1205-1545 1-210 (236)
5 KOG1805 DNA replication helica 99.9 1.1E-21 2.4E-26 241.3 17.4 122 1169-1367 637-758 (1100)
6 KOG1807 Helicases [Replication 99.5 8.3E-13 1.8E-17 160.7 20.6 265 1004-1355 154-461 (1025)
7 KOG1801 tRNA-splicing endonucl 99.4 1.6E-12 3.4E-17 165.8 10.9 278 970-1334 5-300 (827)
8 COG1112 Superfamily I DNA and 99.3 2.9E-11 6.2E-16 151.5 15.1 228 1204-1545 273-506 (767)
9 PF13245 AAA_19: Part of AAA d 99.1 8.3E-11 1.8E-15 110.2 7.6 62 1212-1332 1-62 (76)
10 PF13604 AAA_30: AAA domain; P 98.9 2.6E-09 5.7E-14 115.5 9.3 66 1205-1332 1-66 (196)
11 PRK10875 recD exonuclease V su 98.5 3.9E-07 8.5E-12 113.9 9.5 66 1208-1333 155-220 (615)
12 TIGR01447 recD exodeoxyribonuc 98.4 6.3E-07 1.4E-11 111.7 8.7 67 1208-1333 148-214 (586)
13 PF00580 UvrD-helicase: UvrD/R 98.4 7.5E-07 1.6E-11 99.4 7.8 67 1206-1334 1-67 (315)
14 TIGR01448 recD_rel helicase, p 98.3 2.1E-06 4.5E-11 109.5 9.3 43 1203-1253 321-363 (720)
15 KOG1804 RNA helicase [RNA proc 98.2 1.2E-06 2.5E-11 110.9 4.4 45 1488-1545 416-460 (775)
16 TIGR02768 TraA_Ti Ti-type conj 98.1 4.7E-06 1E-10 106.6 8.6 42 1204-1252 351-392 (744)
17 PF12726 SEN1_N: SEN1 N termin 98.0 4.1E-06 8.8E-11 106.9 5.0 365 35-486 187-586 (727)
18 PRK14712 conjugal transfer nic 97.9 1.7E-05 3.6E-10 107.2 8.9 44 1204-1253 834-877 (1623)
19 PRK13889 conjugal transfer rel 97.9 1.7E-05 3.7E-10 103.7 8.3 39 1205-1250 346-384 (988)
20 PRK10919 ATP-dependent DNA hel 97.9 1.8E-05 3.9E-10 100.4 7.6 68 1205-1334 2-69 (672)
21 PRK13709 conjugal transfer nic 97.9 3E-05 6.4E-10 105.9 9.5 45 1203-1253 965-1009(1747)
22 TIGR01075 uvrD DNA helicase II 97.8 2.5E-05 5.3E-10 99.7 7.7 68 1205-1334 4-71 (715)
23 PRK11054 helD DNA helicase IV; 97.8 2.5E-05 5.4E-10 99.3 7.0 69 1204-1334 195-263 (684)
24 KOG1806 DEAD box containing he 97.8 2.5E-05 5.4E-10 99.4 6.8 69 1205-1335 738-806 (1320)
25 PRK11773 uvrD DNA-dependent he 97.8 3.7E-05 8E-10 98.3 8.0 69 1204-1334 8-76 (721)
26 smart00487 DEXDc DEAD-like hel 97.8 8.1E-05 1.8E-09 76.0 8.8 72 1204-1336 7-78 (201)
27 cd00046 DEXDc DEAD-like helica 97.7 6.4E-05 1.4E-09 72.2 6.7 51 1230-1334 2-52 (144)
28 PRK13826 Dtr system oriT relax 97.7 5.9E-05 1.3E-09 99.5 8.4 40 1205-1251 381-420 (1102)
29 TIGR01074 rep ATP-dependent DN 97.7 4.7E-05 1E-09 96.0 7.2 68 1205-1334 1-68 (664)
30 TIGR02760 TraI_TIGR conjugativ 97.7 7.3E-05 1.6E-09 104.1 8.1 45 1204-1254 1018-1062(1960)
31 TIGR02760 TraI_TIGR conjugativ 97.6 0.00012 2.5E-09 102.2 8.9 66 1204-1331 428-493 (1960)
32 TIGR01073 pcrA ATP-dependent D 97.5 0.00015 3.3E-09 92.8 7.5 68 1205-1334 4-71 (726)
33 PF05970 PIF1: PIF1-like helic 97.4 0.0002 4.2E-09 84.9 6.6 46 1205-1252 1-46 (364)
34 PF04851 ResIII: Type III rest 97.3 0.00053 1.2E-08 70.7 7.2 69 1205-1333 3-71 (184)
35 PF00270 DEAD: DEAD/DEAH box h 96.9 0.0037 8.1E-08 64.2 9.1 67 1208-1336 2-68 (169)
36 KOG0989 Replication factor C, 96.7 0.0015 3.3E-08 76.0 4.4 38 1212-1254 46-83 (346)
37 PRK06851 hypothetical protein; 96.6 0.0064 1.4E-07 72.9 9.1 59 1229-1341 31-89 (367)
38 cd00009 AAA The AAA+ (ATPases 96.6 0.0034 7.3E-08 61.1 5.5 42 1207-1253 3-44 (151)
39 cd00268 DEADc DEAD-box helicas 96.5 0.011 2.3E-07 63.3 9.5 70 1205-1334 21-91 (203)
40 smart00382 AAA ATPases associa 96.3 0.0023 5.1E-08 61.2 2.7 24 1229-1252 3-26 (148)
41 COG0210 UvrD Superfamily I DNA 96.3 0.0078 1.7E-07 76.3 7.6 68 1205-1334 2-69 (655)
42 PF00004 AAA: ATPase family as 96.1 0.0034 7.5E-08 61.7 2.8 22 1231-1252 1-22 (132)
43 PRK07952 DNA replication prote 95.9 0.015 3.3E-07 66.2 7.1 48 1207-1254 78-125 (244)
44 PTZ00424 helicase 45; Provisio 95.9 0.023 4.9E-07 67.3 8.8 33 1205-1245 50-82 (401)
45 PRK11192 ATP-dependent RNA hel 95.9 0.033 7.2E-07 67.1 10.3 71 1205-1333 23-94 (434)
46 PF13191 AAA_16: AAA ATPase do 95.9 0.0085 1.8E-07 62.5 4.5 46 1208-1255 6-51 (185)
47 TIGR02928 orc1/cdc6 family rep 95.8 0.0086 1.9E-07 70.0 4.7 47 1207-1254 20-66 (365)
48 PLN03025 replication factor C 95.8 0.013 2.8E-07 68.4 5.7 44 1206-1254 17-60 (319)
49 PHA02558 uvsW UvsW helicase; P 95.8 0.031 6.7E-07 69.3 9.3 69 1205-1336 114-182 (501)
50 TIGR02881 spore_V_K stage V sp 95.7 0.012 2.7E-07 66.5 5.1 26 1229-1254 43-68 (261)
51 PRK12377 putative replication 95.5 0.011 2.4E-07 67.4 3.9 27 1229-1255 102-128 (248)
52 PRK05580 primosome assembly pr 95.4 0.046 1E-06 70.3 9.3 70 1204-1334 143-212 (679)
53 KOG0744 AAA+-type ATPase [Post 95.4 0.01 2.2E-07 69.7 3.0 25 1228-1252 177-201 (423)
54 TIGR02785 addA_Gpos recombinat 95.3 0.032 7E-07 76.0 8.0 67 1205-1334 1-67 (1232)
55 PRK11776 ATP-dependent RNA hel 95.2 0.064 1.4E-06 65.4 9.2 32 1205-1244 26-57 (460)
56 cd01124 KaiC KaiC is a circadi 95.2 0.04 8.8E-07 58.1 6.5 24 1230-1253 1-24 (187)
57 TIGR00643 recG ATP-dependent D 95.1 0.064 1.4E-06 68.4 9.2 44 1200-1245 230-273 (630)
58 PRK12402 replication factor C 95.1 0.029 6.4E-07 64.6 5.6 43 1207-1254 20-62 (337)
59 PF02562 PhoH: PhoH-like prote 95.0 0.049 1.1E-06 60.9 6.8 42 1205-1254 4-45 (205)
60 PRK10536 hypothetical protein; 95.0 0.052 1.1E-06 62.6 7.2 41 1205-1253 59-99 (262)
61 KOG0991 Replication factor C, 95.0 0.016 3.4E-07 65.8 2.9 28 1228-1255 48-75 (333)
62 cd01129 PulE-GspE PulE/GspE Th 95.0 0.033 7.1E-07 63.9 5.5 43 1205-1253 63-105 (264)
63 TIGR00609 recB exodeoxyribonuc 94.9 0.035 7.6E-07 74.8 6.5 56 1228-1334 9-64 (1087)
64 PF07728 AAA_5: AAA domain (dy 94.8 0.022 4.7E-07 57.9 3.1 22 1231-1252 2-23 (139)
65 PRK10917 ATP-dependent DNA hel 94.7 0.11 2.3E-06 67.1 9.8 47 1198-1246 254-300 (681)
66 PRK00411 cdc6 cell division co 94.7 0.033 7.2E-07 66.0 4.9 26 1229-1254 56-81 (394)
67 PRK06893 DNA replication initi 94.7 0.026 5.7E-07 63.0 3.8 28 1228-1255 39-66 (229)
68 PRK08181 transposase; Validate 94.7 0.041 8.9E-07 63.6 5.3 47 1205-1255 87-133 (269)
69 PF13401 AAA_22: AAA domain; P 94.7 0.024 5.2E-07 56.3 3.0 27 1228-1254 4-30 (131)
70 PRK11448 hsdR type I restricti 94.6 0.07 1.5E-06 72.1 8.1 75 1206-1337 414-488 (1123)
71 PRK00254 ski2-like helicase; P 94.6 0.11 2.5E-06 67.1 9.7 67 1205-1334 23-90 (720)
72 PRK01172 ski2-like helicase; P 94.6 0.12 2.5E-06 66.3 9.6 33 1205-1245 22-54 (674)
73 PRK08084 DNA replication initi 94.6 0.053 1.1E-06 60.9 5.8 44 1206-1254 28-71 (235)
74 PF01695 IstB_IS21: IstB-like 94.5 0.028 6E-07 60.9 3.4 27 1229-1255 48-74 (178)
75 TIGR00635 ruvB Holliday juncti 94.5 0.04 8.6E-07 63.2 4.7 24 1229-1252 31-54 (305)
76 TIGR00604 rad3 DNA repair heli 94.5 0.12 2.6E-06 66.7 9.5 47 1312-1358 60-108 (705)
77 TIGR00614 recQ_fam ATP-depende 94.5 0.12 2.7E-06 63.5 9.0 31 1205-1243 11-41 (470)
78 PRK06526 transposase; Provisio 94.4 0.042 9.2E-07 62.9 4.7 27 1229-1255 99-125 (254)
79 cd01120 RecA-like_NTPases RecA 94.3 0.033 7.2E-07 56.1 3.1 24 1230-1253 1-24 (165)
80 TIGR02533 type_II_gspE general 94.3 0.048 1E-06 67.8 5.0 43 1205-1253 225-267 (486)
81 PRK00080 ruvB Holliday junctio 94.1 0.051 1.1E-06 63.6 4.5 25 1228-1252 51-75 (328)
82 TIGR02880 cbbX_cfxQ probable R 94.0 0.039 8.4E-07 63.9 3.4 25 1230-1254 60-84 (284)
83 TIGR01650 PD_CobS cobaltochela 94.0 0.066 1.4E-06 63.6 5.3 42 1204-1252 47-88 (327)
84 cd01130 VirB11-like_ATPase Typ 94.0 0.08 1.7E-06 57.2 5.5 41 1205-1252 9-49 (186)
85 PRK11634 ATP-dependent RNA hel 94.0 0.18 3.8E-06 64.7 9.4 33 1205-1245 28-60 (629)
86 PRK11664 ATP-dependent RNA hel 94.0 0.1 2.2E-06 68.5 7.4 21 1313-1333 49-69 (812)
87 PRK14974 cell division protein 93.9 0.13 2.8E-06 61.3 7.6 26 1228-1253 140-165 (336)
88 TIGR01970 DEAH_box_HrpB ATP-de 93.9 0.13 2.9E-06 67.5 8.3 23 1312-1334 45-67 (819)
89 PRK08903 DnaA regulatory inact 93.9 0.096 2.1E-06 57.8 6.0 46 1205-1254 23-68 (227)
90 PF07652 Flavi_DEAD: Flaviviru 93.9 0.12 2.5E-06 55.4 6.2 23 1311-1333 32-54 (148)
91 PF05729 NACHT: NACHT domain 93.8 0.055 1.2E-06 55.1 3.7 26 1230-1255 2-27 (166)
92 COG1061 SSL2 DNA or RNA helica 93.8 0.22 4.7E-06 61.2 9.4 71 1204-1337 35-105 (442)
93 PHA02544 44 clamp loader, smal 93.8 0.082 1.8E-06 61.0 5.5 44 1205-1252 24-67 (316)
94 CHL00181 cbbX CbbX; Provisiona 93.8 0.086 1.9E-06 61.3 5.6 24 1230-1253 61-84 (287)
95 cd01131 PilT Pilus retraction 93.7 0.051 1.1E-06 59.5 3.4 26 1229-1254 2-27 (198)
96 TIGR01242 26Sp45 26S proteasom 93.7 0.045 9.9E-07 65.0 3.3 22 1230-1251 158-179 (364)
97 PRK00440 rfc replication facto 93.6 0.097 2.1E-06 59.8 5.7 43 1207-1254 22-64 (319)
98 PRK04195 replication factor C 93.6 0.073 1.6E-06 65.8 4.8 46 1206-1252 18-63 (482)
99 KOG0743 AAA+-type ATPase [Post 93.6 0.037 7.9E-07 67.6 2.1 23 1230-1252 237-259 (457)
100 PRK10436 hypothetical protein; 93.5 0.092 2E-06 65.0 5.5 43 1205-1253 201-243 (462)
101 PRK10590 ATP-dependent RNA hel 93.5 0.36 7.8E-06 59.2 10.5 74 1205-1334 23-97 (456)
102 PRK04837 ATP-dependent RNA hel 93.5 0.36 7.8E-06 58.4 10.3 41 1205-1253 30-71 (423)
103 PRK13833 conjugal transfer pro 93.5 0.13 2.9E-06 61.0 6.5 50 1198-1254 120-170 (323)
104 TIGR03420 DnaA_homol_Hda DnaA 93.4 0.12 2.6E-06 56.4 5.7 44 1206-1254 21-64 (226)
105 PRK04296 thymidine kinase; Pro 93.4 0.1 2.2E-06 56.9 5.0 25 1230-1254 4-28 (190)
106 PRK11057 ATP-dependent DNA hel 93.4 0.28 6E-06 62.6 9.5 46 1198-1253 17-63 (607)
107 PRK09183 transposase/IS protei 93.3 0.095 2.1E-06 60.0 4.9 45 1205-1254 84-128 (259)
108 TIGR01587 cas3_core CRISPR-ass 93.3 0.16 3.4E-06 59.6 6.8 23 1312-1334 29-51 (358)
109 TIGR02538 type_IV_pilB type IV 93.3 0.099 2.1E-06 66.1 5.5 42 1205-1252 299-340 (564)
110 PRK09401 reverse gyrase; Revie 93.3 0.26 5.6E-06 67.2 9.5 72 1201-1336 76-147 (1176)
111 PRK13894 conjugal transfer ATP 93.3 0.15 3.3E-06 60.3 6.5 49 1198-1253 124-173 (319)
112 PRK13767 ATP-dependent helicas 93.2 0.34 7.4E-06 64.3 10.2 80 1198-1333 22-105 (876)
113 PF13671 AAA_33: AAA domain; P 93.2 0.058 1.3E-06 54.5 2.6 21 1230-1250 1-21 (143)
114 TIGR02397 dnaX_nterm DNA polym 93.1 0.12 2.6E-06 60.3 5.4 46 1206-1255 18-63 (355)
115 PF00448 SRP54: SRP54-type pro 93.1 0.17 3.6E-06 55.9 6.2 26 1229-1254 2-27 (196)
116 COG1484 DnaC DNA replication p 93.0 0.087 1.9E-06 60.3 4.0 27 1228-1254 105-131 (254)
117 PF13207 AAA_17: AAA domain; P 93.0 0.084 1.8E-06 52.1 3.3 23 1230-1252 1-23 (121)
118 PF00308 Bac_DnaA: Bacterial d 92.9 0.14 3.1E-06 57.1 5.5 49 1204-1255 13-61 (219)
119 PTZ00361 26 proteosome regulat 92.8 0.1 2.3E-06 64.1 4.5 24 1228-1251 217-240 (438)
120 PRK11331 5-methylcytosine-spec 92.8 0.14 3E-06 63.3 5.4 41 1206-1253 179-219 (459)
121 PTZ00110 helicase; Provisional 92.7 0.45 9.7E-06 60.0 9.9 74 1205-1335 152-226 (545)
122 TIGR00348 hsdR type I site-spe 92.7 0.25 5.4E-06 63.7 7.9 76 1207-1336 240-317 (667)
123 PRK04537 ATP-dependent RNA hel 92.7 0.41 8.9E-06 60.7 9.6 75 1205-1334 31-106 (572)
124 PHA00729 NTP-binding motif con 92.7 0.083 1.8E-06 59.9 3.2 24 1230-1253 19-42 (226)
125 TIGR02640 gas_vesic_GvpN gas v 92.7 0.13 2.8E-06 58.8 4.7 22 1229-1250 22-43 (262)
126 PF05496 RuvB_N: Holliday junc 92.6 0.11 2.4E-06 59.0 4.1 23 1228-1251 50-72 (233)
127 PRK10876 recB exonuclease V su 92.6 0.18 4E-06 68.7 6.8 62 1228-1333 17-78 (1181)
128 PRK08116 hypothetical protein; 92.6 0.094 2E-06 60.4 3.5 26 1230-1255 116-141 (268)
129 PRK02362 ski2-like helicase; P 92.6 0.4 8.8E-06 62.3 9.5 66 1205-1334 23-89 (737)
130 PLN00206 DEAD-box ATP-dependen 92.5 0.57 1.2E-05 58.6 10.5 41 1205-1253 143-184 (518)
131 PTZ00112 origin recognition co 92.5 0.12 2.7E-06 67.6 4.7 47 1208-1254 761-807 (1164)
132 TIGR00580 mfd transcription-re 92.5 0.44 9.6E-06 63.6 9.9 47 1198-1246 444-490 (926)
133 PRK06921 hypothetical protein; 92.5 0.093 2E-06 60.4 3.3 27 1229-1255 118-144 (266)
134 smart00488 DEXDc2 DEAD-like he 92.4 0.35 7.5E-06 56.4 7.9 43 1486-1539 206-248 (289)
135 smart00489 DEXDc3 DEAD-like he 92.4 0.35 7.5E-06 56.4 7.9 43 1486-1539 206-248 (289)
136 TIGR01389 recQ ATP-dependent D 92.4 0.44 9.5E-06 60.3 9.3 46 1198-1253 5-51 (591)
137 TIGR03015 pepcterm_ATPase puta 92.4 0.097 2.1E-06 58.6 3.2 25 1228-1252 43-67 (269)
138 PF06745 KaiC: KaiC; InterPro 92.3 0.28 6.1E-06 54.1 6.7 26 1227-1252 18-43 (226)
139 PF00910 RNA_helicase: RNA hel 92.3 0.11 2.4E-06 51.6 3.2 25 1232-1256 2-26 (107)
140 PF03215 Rad17: Rad17 cell cyc 92.3 0.15 3.3E-06 63.9 5.1 25 1228-1252 45-69 (519)
141 PRK14962 DNA polymerase III su 92.3 0.17 3.7E-06 62.8 5.5 25 1230-1254 38-62 (472)
142 PF13481 AAA_25: AAA domain; P 92.3 0.29 6.3E-06 52.2 6.6 28 1228-1255 32-59 (193)
143 PF01443 Viral_helicase1: Vira 92.2 0.087 1.9E-06 57.6 2.6 21 1232-1252 2-22 (234)
144 PRK10416 signal recognition pa 92.2 0.33 7.1E-06 57.5 7.4 27 1227-1253 113-139 (318)
145 TIGR01054 rgy reverse gyrase. 92.2 0.44 9.5E-06 65.1 9.4 35 1204-1246 77-111 (1171)
146 TIGR00150 HI0065_YjeE ATPase, 92.1 0.22 4.7E-06 52.4 5.1 42 1208-1252 5-46 (133)
147 TIGR02782 TrbB_P P-type conjug 92.0 0.28 6.1E-06 57.5 6.5 42 1205-1253 116-157 (299)
148 PRK03992 proteasome-activating 92.0 0.1 2.3E-06 62.9 3.0 23 1229-1251 166-188 (389)
149 TIGR02784 addA_alphas double-s 92.0 0.25 5.4E-06 67.2 6.8 51 1231-1334 13-63 (1141)
150 PRK06835 DNA replication prote 91.9 0.12 2.6E-06 61.4 3.5 27 1229-1255 184-210 (329)
151 PRK08533 flagellar accessory p 91.9 0.33 7.3E-06 54.6 6.7 26 1228-1253 24-49 (230)
152 PF13238 AAA_18: AAA domain; P 91.9 0.12 2.7E-06 50.6 2.9 21 1232-1252 2-22 (129)
153 TIGR03689 pup_AAA proteasome A 91.8 0.1 2.2E-06 65.3 2.8 25 1229-1253 217-241 (512)
154 PRK06067 flagellar accessory p 91.7 0.42 9.1E-06 53.2 7.2 25 1227-1251 24-48 (234)
155 cd03115 SRP The signal recogni 91.7 0.24 5.1E-06 52.4 5.0 24 1230-1253 2-25 (173)
156 PRK14961 DNA polymerase III su 91.7 0.21 4.5E-06 59.7 5.1 26 1229-1254 39-64 (363)
157 TIGR00603 rad25 DNA repair hel 91.7 0.46 9.9E-06 61.9 8.4 67 1205-1335 255-321 (732)
158 TIGR00362 DnaA chromosomal rep 91.6 0.18 3.8E-06 60.8 4.4 27 1229-1255 137-163 (405)
159 TIGR03880 KaiC_arch_3 KaiC dom 91.6 0.43 9.4E-06 52.7 7.1 24 1228-1251 16-39 (224)
160 TIGR00064 ftsY signal recognit 91.6 0.48 1E-05 54.9 7.6 26 1228-1253 72-97 (272)
161 PF13476 AAA_23: AAA domain; P 91.5 0.15 3.2E-06 53.7 3.3 27 1228-1254 19-45 (202)
162 COG2804 PulE Type II secretory 91.5 0.26 5.6E-06 61.3 5.6 45 1205-1255 241-285 (500)
163 PRK00771 signal recognition pa 91.4 0.43 9.4E-06 58.9 7.5 28 1227-1254 94-121 (437)
164 PTZ00454 26S protease regulato 91.4 0.12 2.6E-06 62.8 2.8 23 1229-1251 180-202 (398)
165 PRK00149 dnaA chromosomal repl 91.3 0.29 6.2E-06 60.1 5.8 27 1229-1255 149-175 (450)
166 COG1474 CDC6 Cdc6-related prot 91.3 0.24 5.2E-06 59.8 5.0 25 1231-1255 45-69 (366)
167 COG2805 PilT Tfp pilus assembl 91.2 0.16 3.5E-06 59.7 3.4 29 1227-1255 124-152 (353)
168 PRK01297 ATP-dependent RNA hel 91.2 0.89 1.9E-05 56.0 9.9 75 1205-1334 109-184 (475)
169 cd01122 GP4d_helicase GP4d_hel 91.2 0.43 9.4E-06 53.9 6.7 26 1228-1253 30-55 (271)
170 PRK14722 flhF flagellar biosyn 91.1 0.19 4.1E-06 60.8 4.0 29 1226-1254 135-163 (374)
171 PRK06851 hypothetical protein; 91.1 0.87 1.9E-05 55.2 9.4 26 1229-1254 215-240 (367)
172 PF01078 Mg_chelatase: Magnesi 91.1 0.21 4.5E-06 56.1 3.9 36 1208-1250 9-44 (206)
173 TIGR01241 FtsH_fam ATP-depende 91.0 0.14 3E-06 63.5 2.9 22 1230-1251 90-111 (495)
174 PRK10689 transcription-repair 91.0 0.74 1.6E-05 62.9 9.7 45 1200-1246 595-639 (1147)
175 PRK08727 hypothetical protein; 91.0 0.2 4.3E-06 56.4 3.7 27 1229-1255 42-68 (233)
176 TIGR01420 pilT_fam pilus retra 91.0 0.16 3.5E-06 60.3 3.2 26 1228-1253 122-147 (343)
177 COG0470 HolB ATPase involved i 90.9 0.15 3.3E-06 58.2 2.9 26 1230-1255 26-51 (325)
178 PF13555 AAA_29: P-loop contai 90.9 0.22 4.7E-06 46.3 3.2 26 1230-1255 25-50 (62)
179 PF07726 AAA_3: ATPase family 90.8 0.1 2.3E-06 54.8 1.2 21 1231-1251 2-22 (131)
180 PRK14970 DNA polymerase III su 90.8 0.33 7.2E-06 57.6 5.6 45 1206-1254 21-65 (367)
181 PRK05973 replicative DNA helic 90.8 0.49 1.1E-05 54.1 6.7 27 1227-1253 63-89 (237)
182 PRK06645 DNA polymerase III su 90.7 0.32 6.9E-06 61.1 5.5 28 1228-1255 43-70 (507)
183 TIGR03158 cas3_cyano CRISPR-as 90.7 0.71 1.5E-05 55.2 8.2 29 1210-1244 2-30 (357)
184 PF00931 NB-ARC: NB-ARC domain 90.7 0.32 7E-06 54.8 5.1 41 1208-1251 2-42 (287)
185 KOG0733 Nuclear AAA ATPase (VC 90.7 0.14 3E-06 64.6 2.3 23 1229-1251 224-246 (802)
186 PF06309 Torsin: Torsin; Inte 90.7 0.41 9E-06 50.2 5.4 43 1211-1255 38-80 (127)
187 PRK09361 radB DNA repair and r 90.6 0.24 5.2E-06 54.6 3.9 29 1227-1255 22-50 (225)
188 PRK06620 hypothetical protein; 90.6 0.3 6.5E-06 54.5 4.7 20 1229-1248 45-64 (214)
189 PHA02624 large T antigen; Prov 90.6 0.28 6E-06 62.5 4.8 26 1227-1252 430-455 (647)
190 PRK14956 DNA polymerase III su 90.6 0.31 6.7E-06 60.8 5.1 27 1229-1255 41-67 (484)
191 PRK08939 primosomal protein Dn 90.5 0.21 4.4E-06 58.9 3.5 26 1230-1255 158-183 (306)
192 PRK05642 DNA replication initi 90.5 0.43 9.3E-06 53.8 5.9 26 1229-1254 46-71 (234)
193 COG4096 HsdR Type I site-speci 90.5 0.33 7.1E-06 63.1 5.4 69 1208-1333 168-236 (875)
194 TIGR00595 priA primosomal prot 90.5 0.37 8.1E-06 60.3 5.8 22 1232-1253 1-22 (505)
195 smart00763 AAA_PrkA PrkA AAA d 90.4 0.35 7.7E-06 58.3 5.3 27 1228-1254 78-104 (361)
196 TIGR03877 thermo_KaiC_1 KaiC d 90.4 0.52 1.1E-05 53.0 6.4 24 1228-1251 21-44 (237)
197 PF03266 NTPase_1: NTPase; In 90.4 0.2 4.3E-06 54.2 2.9 24 1231-1254 2-25 (168)
198 PRK14963 DNA polymerase III su 90.4 0.36 7.7E-06 60.6 5.5 25 1230-1254 38-62 (504)
199 TIGR02524 dot_icm_DotB Dot/Icm 90.4 0.31 6.6E-06 58.7 4.8 27 1228-1254 134-160 (358)
200 TIGR00602 rad24 checkpoint pro 90.3 0.39 8.4E-06 61.8 5.8 47 1206-1252 88-134 (637)
201 PRK14701 reverse gyrase; Provi 90.3 0.83 1.8E-05 64.2 9.3 38 1199-1244 73-110 (1638)
202 PRK13342 recombination factor 90.2 0.2 4.3E-06 60.8 3.1 23 1229-1251 37-59 (413)
203 TIGR01360 aden_kin_iso1 adenyl 90.2 0.26 5.5E-06 52.2 3.5 23 1229-1251 4-26 (188)
204 COG1199 DinG Rad3-related DNA 90.2 0.66 1.4E-05 59.2 7.8 23 1312-1334 63-85 (654)
205 TIGR03878 thermo_KaiC_2 KaiC d 90.1 0.26 5.7E-06 56.3 3.8 26 1228-1253 36-61 (259)
206 TIGR00678 holB DNA polymerase 90.0 0.36 7.8E-06 51.9 4.5 28 1228-1255 14-41 (188)
207 PRK13341 recombination factor 89.9 0.32 6.9E-06 63.4 4.7 23 1229-1251 53-75 (725)
208 PF09848 DUF2075: Uncharacteri 89.9 0.49 1.1E-05 56.2 6.0 23 1230-1252 3-25 (352)
209 PRK13531 regulatory ATPase Rav 89.9 0.29 6.4E-06 61.0 4.2 24 1229-1252 40-63 (498)
210 cd01394 radB RadB. The archaea 89.9 0.29 6.3E-06 53.7 3.7 28 1227-1254 18-45 (218)
211 PHA02244 ATPase-like protein 89.8 0.38 8.3E-06 58.3 4.9 22 1230-1251 121-142 (383)
212 PLN00020 ribulose bisphosphate 89.8 0.24 5.2E-06 60.0 3.2 26 1226-1251 146-171 (413)
213 TIGR02237 recomb_radB DNA repa 89.7 0.31 6.7E-06 53.0 3.8 28 1227-1254 11-38 (209)
214 TIGR01359 UMP_CMP_kin_fam UMP- 89.6 0.25 5.5E-06 52.4 3.0 21 1230-1250 1-21 (183)
215 COG3973 Superfamily I DNA and 89.6 0.67 1.4E-05 58.7 6.8 42 1205-1255 212-253 (747)
216 TIGR03499 FlhF flagellar biosy 89.6 0.29 6.3E-06 56.8 3.6 28 1227-1254 193-220 (282)
217 PRK14955 DNA polymerase III su 89.5 0.41 9E-06 58.0 5.0 27 1229-1255 39-65 (397)
218 PRK14957 DNA polymerase III su 89.5 0.42 9.2E-06 60.5 5.2 26 1229-1254 39-64 (546)
219 KOG0651 26S proteasome regulat 89.4 0.26 5.7E-06 58.2 3.1 23 1227-1249 165-187 (388)
220 PRK14958 DNA polymerase III su 89.4 0.45 9.7E-06 59.8 5.3 41 1211-1255 25-65 (509)
221 PRK03918 chromosome segregatio 89.4 9.1 0.0002 50.7 17.4 27 1228-1254 23-49 (880)
222 cd01393 recA_like RecA is a b 89.3 0.32 7E-06 53.3 3.6 28 1227-1254 18-45 (226)
223 PF00437 T2SE: Type II/IV secr 89.3 0.3 6.4E-06 55.5 3.4 26 1228-1253 127-152 (270)
224 KOG2028 ATPase related to the 89.2 0.31 6.8E-06 58.5 3.6 46 1198-1248 137-182 (554)
225 PRK12723 flagellar biosynthesi 89.2 0.84 1.8E-05 55.7 7.2 27 1228-1254 174-200 (388)
226 PHA02653 RNA helicase NPH-II; 89.2 1.1 2.4E-05 58.1 8.7 34 1208-1249 167-200 (675)
227 COG1223 Predicted ATPase (AAA+ 89.2 0.23 5E-06 57.6 2.4 22 1229-1250 152-173 (368)
228 TIGR01425 SRP54_euk signal rec 89.1 0.63 1.4E-05 57.4 6.2 26 1228-1253 100-125 (429)
229 CHL00195 ycf46 Ycf46; Provisio 89.1 0.27 5.8E-06 61.4 3.1 23 1229-1251 260-282 (489)
230 COG0467 RAD55 RecA-superfamily 89.1 0.36 7.9E-06 54.7 3.9 29 1227-1255 22-50 (260)
231 PRK11889 flhF flagellar biosyn 89.0 1.4 3E-05 54.2 8.8 26 1228-1253 241-266 (436)
232 TIGR02525 plasmid_TraJ plasmid 88.8 0.34 7.4E-06 58.6 3.6 26 1229-1254 150-175 (372)
233 PRK00131 aroK shikimate kinase 88.6 0.42 9.2E-06 49.6 3.7 24 1229-1252 5-28 (175)
234 PRK14969 DNA polymerase III su 88.6 0.53 1.2E-05 59.3 5.2 44 1207-1254 21-64 (527)
235 COG5192 BMS1 GTP-binding prote 88.5 0.35 7.7E-06 60.1 3.4 27 1230-1256 71-97 (1077)
236 PRK14949 DNA polymerase III su 88.5 0.42 9.1E-06 63.2 4.3 27 1229-1255 39-65 (944)
237 PRK14952 DNA polymerase III su 88.4 0.55 1.2E-05 59.9 5.2 27 1229-1255 36-62 (584)
238 cd00984 DnaB_C DnaB helicase C 88.4 0.43 9.3E-06 52.9 3.8 28 1228-1255 13-40 (242)
239 COG0714 MoxR-like ATPases [Gen 88.4 0.58 1.3E-05 55.1 5.0 39 1207-1252 29-67 (329)
240 PRK08233 hypothetical protein; 88.2 0.34 7.3E-06 51.0 2.7 24 1229-1252 4-27 (182)
241 PF00176 SNF2_N: SNF2 family N 88.2 1.4 3E-05 49.6 7.7 46 1210-1255 2-52 (299)
242 COG2256 MGS1 ATPase related to 88.1 0.32 7E-06 59.1 2.7 17 1230-1246 50-66 (436)
243 PRK14088 dnaA chromosomal repl 88.0 0.67 1.4E-05 57.1 5.5 26 1230-1255 132-157 (440)
244 PRK13766 Hef nuclease; Provisi 88.0 1.5 3.3E-05 57.2 8.9 37 1208-1253 18-54 (773)
245 COG1222 RPT1 ATP-dependent 26S 88.0 0.31 6.7E-06 58.6 2.5 21 1228-1248 185-205 (406)
246 PRK14964 DNA polymerase III su 88.0 0.69 1.5E-05 57.9 5.5 43 1209-1255 20-62 (491)
247 PRK05896 DNA polymerase III su 87.9 0.66 1.4E-05 59.3 5.4 27 1229-1255 39-65 (605)
248 PRK14960 DNA polymerase III su 87.8 0.69 1.5E-05 59.7 5.5 40 1211-1254 24-63 (702)
249 PF13173 AAA_14: AAA domain 87.8 0.49 1.1E-05 48.1 3.4 25 1229-1253 3-27 (128)
250 TIGR00959 ffh signal recogniti 87.7 1.3 2.7E-05 54.8 7.4 26 1228-1253 99-124 (428)
251 TIGR03881 KaiC_arch_4 KaiC dom 87.7 0.52 1.1E-05 52.1 3.9 27 1228-1254 20-46 (229)
252 PRK10867 signal recognition pa 87.6 0.7 1.5E-05 57.1 5.3 28 1228-1255 100-127 (433)
253 PRK04328 hypothetical protein; 87.6 1.1 2.4E-05 51.1 6.5 24 1228-1251 23-46 (249)
254 TIGR01618 phage_P_loop phage n 87.4 0.38 8.1E-06 54.5 2.6 22 1227-1248 11-32 (220)
255 PF12774 AAA_6: Hydrolytic ATP 87.4 0.49 1.1E-05 53.8 3.5 32 1213-1251 24-55 (231)
256 PRK13407 bchI magnesium chelat 87.3 0.56 1.2E-05 56.1 4.1 23 1230-1252 31-53 (334)
257 cd02019 NK Nucleoside/nucleoti 87.3 0.54 1.2E-05 43.4 3.1 22 1231-1252 2-23 (69)
258 PRK05480 uridine/cytidine kina 87.3 0.51 1.1E-05 51.6 3.5 26 1227-1252 5-30 (209)
259 CHL00176 ftsH cell division pr 87.2 0.41 8.9E-06 61.6 3.1 22 1230-1251 218-239 (638)
260 PRK12323 DNA polymerase III su 87.1 0.74 1.6E-05 59.4 5.2 43 1209-1255 23-65 (700)
261 PF01637 Arch_ATPase: Archaeal 87.1 0.55 1.2E-05 50.4 3.6 24 1229-1252 21-44 (234)
262 PF13521 AAA_28: AAA domain; P 87.0 0.34 7.4E-06 50.9 1.9 20 1232-1251 3-22 (163)
263 PRK09111 DNA polymerase III su 87.0 0.73 1.6E-05 59.0 5.0 45 1207-1255 29-73 (598)
264 PRK05541 adenylylsulfate kinas 86.9 0.62 1.3E-05 49.6 3.8 27 1227-1253 6-32 (176)
265 COG2255 RuvB Holliday junction 86.9 0.76 1.6E-05 54.1 4.6 51 1198-1253 25-76 (332)
266 COG1224 TIP49 DNA helicase TIP 86.8 0.48 1E-05 57.0 3.1 27 1228-1254 65-91 (450)
267 PRK14087 dnaA chromosomal repl 86.7 0.92 2E-05 56.1 5.7 27 1229-1255 142-168 (450)
268 PRK07133 DNA polymerase III su 86.7 0.82 1.8E-05 59.6 5.3 44 1208-1255 24-67 (725)
269 TIGR02655 circ_KaiC circadian 86.6 1.2 2.6E-05 55.6 6.5 27 1228-1254 263-289 (484)
270 TIGR01313 therm_gnt_kin carboh 86.6 0.45 9.7E-06 49.8 2.5 20 1232-1251 2-21 (163)
271 PRK13900 type IV secretion sys 86.6 0.73 1.6E-05 55.0 4.5 24 1229-1252 161-184 (332)
272 PRK14527 adenylate kinase; Pro 86.6 0.61 1.3E-05 50.5 3.6 24 1227-1250 5-28 (191)
273 TIGR00750 lao LAO/AO transport 86.6 0.72 1.6E-05 53.9 4.4 30 1226-1255 32-61 (300)
274 PRK13851 type IV secretion sys 86.6 0.8 1.7E-05 55.0 4.8 39 1207-1252 148-186 (344)
275 PF02492 cobW: CobW/HypB/UreG, 86.6 0.48 1E-05 51.0 2.8 22 1229-1250 1-22 (178)
276 PRK14950 DNA polymerase III su 86.5 0.84 1.8E-05 58.1 5.3 43 1208-1254 22-64 (585)
277 PRK06647 DNA polymerase III su 86.5 0.84 1.8E-05 58.1 5.2 44 1208-1255 22-65 (563)
278 TIGR02322 phosphon_PhnN phosph 86.5 0.54 1.2E-05 50.0 3.0 23 1229-1251 2-24 (179)
279 PRK05703 flhF flagellar biosyn 86.4 0.58 1.3E-05 57.5 3.7 26 1228-1253 221-246 (424)
280 TIGR03817 DECH_helic helicase/ 86.4 2.8 6E-05 55.1 9.9 76 1198-1336 25-105 (742)
281 PRK12422 chromosomal replicati 86.4 0.55 1.2E-05 58.1 3.5 25 1230-1254 143-167 (445)
282 PHA02774 E1; Provisional 86.3 0.81 1.8E-05 58.2 4.9 24 1229-1252 435-458 (613)
283 cd01123 Rad51_DMC1_radA Rad51_ 86.2 0.62 1.3E-05 51.4 3.4 25 1227-1251 18-42 (235)
284 cd02021 GntK Gluconate kinase 86.1 0.53 1.1E-05 48.5 2.7 21 1230-1250 1-21 (150)
285 COG0464 SpoVK ATPases of the A 86.0 0.51 1.1E-05 58.4 2.9 23 1228-1250 276-298 (494)
286 PRK06762 hypothetical protein; 86.0 0.65 1.4E-05 48.8 3.3 24 1229-1252 3-26 (166)
287 PF12775 AAA_7: P-loop contain 86.0 0.54 1.2E-05 54.5 3.0 21 1230-1250 35-55 (272)
288 TIGR00763 lon ATP-dependent pr 85.9 0.57 1.2E-05 61.5 3.4 24 1229-1252 348-371 (775)
289 cd01121 Sms Sms (bacterial rad 85.9 1.5 3.3E-05 53.1 6.8 27 1228-1254 82-108 (372)
290 PF05673 DUF815: Protein of un 85.9 0.59 1.3E-05 53.9 3.1 27 1229-1255 53-79 (249)
291 KOG0738 AAA+-type ATPase [Post 85.8 0.46 1E-05 57.6 2.3 27 1311-1337 349-377 (491)
292 PRK08691 DNA polymerase III su 85.8 0.96 2.1E-05 58.7 5.2 44 1208-1255 22-65 (709)
293 PRK14965 DNA polymerase III su 85.7 0.94 2E-05 57.7 5.1 45 1207-1255 21-65 (576)
294 PRK11823 DNA repair protein Ra 85.7 1.5 3.3E-05 54.3 6.7 26 1228-1253 80-105 (446)
295 TIGR01967 DEAH_box_HrpA ATP-de 85.6 1.4 3.1E-05 60.5 7.0 29 1211-1246 72-100 (1283)
296 TIGR01243 CDC48 AAA family ATP 85.5 0.64 1.4E-05 60.5 3.6 23 1229-1251 213-235 (733)
297 PRK14951 DNA polymerase III su 85.5 1 2.2E-05 57.9 5.3 40 1211-1254 25-64 (618)
298 COG0552 FtsY Signal recognitio 85.5 1.1 2.3E-05 53.7 5.1 28 1227-1254 138-165 (340)
299 TIGR02030 BchI-ChlI magnesium 85.4 0.99 2.1E-05 54.1 4.8 24 1229-1252 26-49 (337)
300 PRK04040 adenylate kinase; Pro 85.4 0.68 1.5E-05 50.8 3.2 24 1229-1252 3-26 (188)
301 PRK09112 DNA polymerase III su 85.4 1.1 2.4E-05 53.9 5.2 44 1208-1255 29-72 (351)
302 PRK10865 protein disaggregatio 85.3 1 2.2E-05 59.9 5.4 26 1229-1254 599-624 (857)
303 PRK07940 DNA polymerase III su 85.1 1 2.2E-05 55.0 4.8 27 1229-1255 37-63 (394)
304 PF06068 TIP49: TIP49 C-termin 85.0 0.69 1.5E-05 56.1 3.2 26 1228-1253 50-75 (398)
305 PRK07003 DNA polymerase III su 84.9 1.1 2.4E-05 58.6 5.3 41 1211-1255 25-65 (830)
306 PRK14948 DNA polymerase III su 84.8 1.1 2.5E-05 57.5 5.3 27 1229-1255 39-65 (620)
307 cd01428 ADK Adenylate kinase ( 84.7 0.71 1.5E-05 49.2 2.9 20 1231-1250 2-21 (194)
308 cd02023 UMPK Uridine monophosp 84.6 0.74 1.6E-05 49.9 3.1 23 1230-1252 1-23 (198)
309 TIGR03117 cas_csf4 CRISPR-asso 84.5 2.6 5.6E-05 54.5 8.2 22 1312-1333 46-67 (636)
310 PRK09302 circadian clock prote 84.5 1.9 4.1E-05 53.9 6.9 26 1228-1253 273-298 (509)
311 PRK13764 ATPase; Provisional 84.4 0.75 1.6E-05 58.9 3.4 26 1229-1254 258-283 (602)
312 PRK00889 adenylylsulfate kinas 84.4 0.94 2E-05 48.1 3.7 26 1228-1253 4-29 (175)
313 KOG0731 AAA+-type ATPase conta 84.4 0.57 1.2E-05 61.0 2.4 43 1198-1249 323-365 (774)
314 PRK14531 adenylate kinase; Pro 84.3 0.76 1.6E-05 49.6 3.0 21 1230-1250 4-24 (183)
315 PF06414 Zeta_toxin: Zeta toxi 84.2 0.77 1.7E-05 50.2 3.0 26 1227-1252 14-39 (199)
316 TIGR00235 udk uridine kinase. 84.2 0.87 1.9E-05 50.0 3.4 26 1226-1251 4-29 (207)
317 PRK04301 radA DNA repair and r 84.1 0.81 1.8E-05 53.7 3.3 26 1227-1252 101-126 (317)
318 PRK12726 flagellar biosynthesi 84.1 2.2 4.8E-05 52.3 7.0 28 1227-1254 205-232 (407)
319 PRK09694 helicase Cas3; Provis 84.1 2.4 5.3E-05 56.6 7.9 42 1205-1254 286-327 (878)
320 PRK05563 DNA polymerase III su 84.1 1.3 2.9E-05 56.3 5.4 27 1229-1255 39-65 (559)
321 PF14532 Sigma54_activ_2: Sigm 84.1 0.55 1.2E-05 48.4 1.7 16 1229-1244 22-37 (138)
322 cd02027 APSK Adenosine 5'-phos 84.0 0.86 1.9E-05 47.9 3.2 24 1230-1253 1-24 (149)
323 PRK08118 topology modulation p 84.0 0.83 1.8E-05 49.1 3.1 18 1231-1248 4-21 (167)
324 PRK07994 DNA polymerase III su 84.0 1.4 3E-05 57.0 5.5 40 1212-1255 26-65 (647)
325 PRK06547 hypothetical protein; 83.9 1.1 2.4E-05 48.7 4.0 26 1226-1251 13-38 (172)
326 KOG1970 Checkpoint RAD17-RFC c 83.9 0.96 2.1E-05 56.9 3.9 23 1229-1251 111-133 (634)
327 PLN03137 ATP-dependent DNA hel 83.8 3.2 6.8E-05 56.6 8.7 40 1204-1253 459-498 (1195)
328 PLN02200 adenylate kinase fami 83.7 0.95 2.1E-05 51.4 3.5 23 1228-1250 43-65 (234)
329 PRK13947 shikimate kinase; Pro 83.7 0.83 1.8E-05 48.0 2.9 19 1231-1249 4-22 (171)
330 PRK06305 DNA polymerase III su 83.7 1.4 3E-05 54.7 5.2 27 1229-1255 40-66 (451)
331 TIGR02236 recomb_radA DNA repa 83.7 0.91 2E-05 52.9 3.5 25 1227-1251 94-118 (310)
332 PF01580 FtsK_SpoIIIE: FtsK/Sp 83.5 0.91 2E-05 49.4 3.2 26 1230-1255 40-65 (205)
333 PRK14954 DNA polymerase III su 83.5 1.4 3E-05 56.8 5.2 27 1229-1255 39-65 (620)
334 PRK08074 bifunctional ATP-depe 83.5 2.7 5.9E-05 56.5 8.1 41 1205-1254 257-300 (928)
335 CHL00081 chlI Mg-protoporyphyr 83.4 1.4 3.1E-05 53.1 5.1 26 1229-1254 39-64 (350)
336 PF00485 PRK: Phosphoribulokin 83.4 0.95 2.1E-05 49.2 3.3 24 1230-1253 1-24 (194)
337 PF04665 Pox_A32: Poxvirus A32 83.4 1.3 2.8E-05 51.0 4.5 22 1231-1252 16-37 (241)
338 PTZ00202 tuzin; Provisional 83.4 1.4 3E-05 54.9 4.9 42 1208-1251 268-309 (550)
339 PRK03839 putative kinase; Prov 83.3 0.96 2.1E-05 48.3 3.2 20 1231-1250 3-22 (180)
340 PF13479 AAA_24: AAA domain 83.3 0.63 1.4E-05 51.7 1.9 19 1230-1248 5-23 (213)
341 COG1936 Predicted nucleotide k 83.3 0.81 1.8E-05 50.4 2.6 20 1230-1250 2-21 (180)
342 PRK06696 uridine kinase; Valid 83.1 1.8 3.9E-05 48.2 5.4 26 1227-1252 21-46 (223)
343 PRK09435 membrane ATPase/prote 83.1 1.6 3.5E-05 52.3 5.3 29 1227-1255 55-83 (332)
344 TIGR00764 lon_rel lon-related 83.1 1.2 2.5E-05 57.3 4.4 25 1229-1253 38-62 (608)
345 PF03205 MobB: Molybdopterin g 83.1 1.1 2.5E-05 47.0 3.6 27 1229-1255 1-27 (140)
346 TIGR02903 spore_lon_C ATP-depe 83.1 1 2.2E-05 57.8 3.9 23 1229-1251 176-198 (615)
347 TIGR00176 mobB molybdopterin-g 83.1 1 2.2E-05 48.2 3.2 24 1231-1254 2-25 (155)
348 PRK13768 GTPase; Provisional 83.0 1 2.2E-05 51.5 3.5 25 1230-1254 4-28 (253)
349 PRK08451 DNA polymerase III su 83.0 1.5 3.3E-05 55.5 5.2 27 1229-1255 37-63 (535)
350 TIGR01407 dinG_rel DnaQ family 82.9 3.4 7.4E-05 55.0 8.6 33 1205-1244 245-280 (850)
351 PRK05342 clpX ATP-dependent pr 82.9 0.9 1.9E-05 55.8 3.1 22 1229-1250 109-130 (412)
352 cd01983 Fer4_NifH The Fer4_Nif 82.8 1.2 2.6E-05 41.0 3.2 24 1231-1254 2-25 (99)
353 PRK07667 uridine kinase; Provi 82.8 1.7 3.8E-05 47.5 5.0 25 1228-1252 17-41 (193)
354 PRK14532 adenylate kinase; Pro 82.7 0.86 1.9E-05 48.9 2.6 19 1231-1249 3-21 (188)
355 PF00005 ABC_tran: ABC transpo 82.7 0.76 1.7E-05 46.3 2.1 23 1228-1250 11-33 (137)
356 PRK07261 topology modulation p 82.5 1 2.2E-05 48.5 3.0 19 1231-1249 3-21 (171)
357 PRK14528 adenylate kinase; Pro 82.5 1 2.3E-05 48.9 3.2 20 1230-1249 3-22 (186)
358 PRK01184 hypothetical protein; 82.5 0.97 2.1E-05 48.3 2.9 15 1230-1244 3-17 (184)
359 PF12846 AAA_10: AAA-like doma 82.4 1.1 2.4E-05 50.2 3.4 26 1230-1255 3-28 (304)
360 TIGR02655 circ_KaiC circadian 82.4 1 2.2E-05 56.2 3.3 24 1228-1251 21-44 (484)
361 PRK02496 adk adenylate kinase; 82.4 1.1 2.3E-05 48.1 3.1 20 1231-1250 4-23 (184)
362 PRK12724 flagellar biosynthesi 82.4 1.1 2.5E-05 55.2 3.7 25 1229-1253 224-248 (432)
363 CHL00095 clpC Clp protease ATP 82.3 1.6 3.5E-05 57.8 5.3 43 1207-1254 184-226 (821)
364 cd00227 CPT Chloramphenicol (C 82.3 1.2 2.7E-05 47.5 3.5 23 1229-1251 3-25 (175)
365 PRK07471 DNA polymerase III su 82.2 2 4.3E-05 52.1 5.5 42 1211-1256 28-69 (365)
366 KOG1942 DNA helicase, TBP-inte 82.1 1 2.2E-05 53.1 3.0 26 1229-1254 65-90 (456)
367 COG1198 PriA Primosomal protei 82.1 3.7 8.1E-05 53.8 8.3 47 1204-1254 197-243 (730)
368 cd02020 CMPK Cytidine monophos 82.0 1.2 2.5E-05 45.1 3.1 21 1231-1251 2-22 (147)
369 PRK13909 putative recombinatio 81.9 2.1 4.6E-05 57.3 6.3 22 1313-1334 30-51 (910)
370 PF13177 DNA_pol3_delta2: DNA 81.9 2.1 4.5E-05 45.9 5.0 29 1228-1256 19-47 (162)
371 TIGR01243 CDC48 AAA family ATP 81.9 0.91 2E-05 59.2 2.8 21 1231-1251 490-510 (733)
372 PF07088 GvpD: GvpD gas vesicl 81.9 0.61 1.3E-05 56.8 1.2 27 1229-1255 11-37 (484)
373 TIGR02012 tigrfam_recA protein 81.8 1.3 2.8E-05 52.9 3.8 28 1227-1254 54-81 (321)
374 cd01125 repA Hexameric Replica 81.6 1.2 2.5E-05 50.1 3.2 25 1230-1254 3-27 (239)
375 TIGR00416 sms DNA repair prote 81.6 2.8 6.1E-05 52.1 6.7 27 1228-1254 94-120 (454)
376 COG0419 SbcC ATPase involved i 81.5 1.1 2.4E-05 59.8 3.4 31 1227-1257 24-54 (908)
377 PRK14086 dnaA chromosomal repl 81.4 2.5 5.5E-05 54.4 6.4 26 1230-1255 316-341 (617)
378 PRK09087 hypothetical protein; 81.4 1.5 3.3E-05 49.5 4.0 23 1228-1250 44-66 (226)
379 COG0507 RecD ATP-dependent exo 81.4 2.6 5.7E-05 54.6 6.6 44 1204-1255 318-361 (696)
380 TIGR02902 spore_lonB ATP-depen 81.2 1.7 3.8E-05 54.8 4.9 22 1229-1250 87-108 (531)
381 PRK06995 flhF flagellar biosyn 81.2 2.1 4.6E-05 53.7 5.5 28 1228-1255 256-283 (484)
382 PRK14959 DNA polymerase III su 81.0 1.9 4.1E-05 55.5 5.1 27 1229-1255 39-65 (624)
383 PRK00300 gmk guanylate kinase; 81.0 1.3 2.8E-05 48.1 3.2 25 1227-1251 4-28 (205)
384 PRK10865 protein disaggregatio 81.0 1.2 2.6E-05 59.3 3.5 27 1228-1254 199-225 (857)
385 PF00406 ADK: Adenylate kinase 80.9 1.2 2.5E-05 46.4 2.7 18 1233-1250 1-18 (151)
386 PRK15455 PrkA family serine pr 80.9 1.9 4.2E-05 55.1 5.0 27 1227-1253 102-128 (644)
387 PRK14953 DNA polymerase III su 80.8 2.1 4.5E-05 53.7 5.3 26 1229-1254 39-64 (486)
388 KOG0741 AAA+-type ATPase [Post 80.8 1.2 2.6E-05 55.9 3.1 27 1232-1259 260-286 (744)
389 PRK14530 adenylate kinase; Pro 80.7 1.4 3.1E-05 48.6 3.4 20 1230-1249 5-24 (215)
390 PF08477 Miro: Miro-like prote 80.6 1.4 3E-05 43.1 3.0 21 1231-1251 2-22 (119)
391 KOG0736 Peroxisome assembly fa 80.6 1.6 3.4E-05 56.8 4.1 26 1226-1251 429-454 (953)
392 TIGR03346 chaperone_ClpB ATP-d 80.5 2 4.4E-05 57.1 5.3 27 1228-1254 595-621 (852)
393 PF02399 Herpes_ori_bp: Origin 80.3 3.5 7.5E-05 54.3 7.1 57 1226-1337 47-103 (824)
394 cd02025 PanK Pantothenate kina 80.3 1.3 2.8E-05 49.7 3.0 22 1231-1252 2-23 (220)
395 PRK13765 ATP-dependent proteas 79.9 2 4.4E-05 55.5 4.9 24 1229-1252 51-74 (637)
396 TIGR03345 VI_ClpV1 type VI sec 79.9 2.3 5E-05 56.7 5.6 28 1227-1254 595-622 (852)
397 TIGR02639 ClpA ATP-dependent C 79.9 1.3 2.8E-05 58.0 3.1 25 1231-1255 206-230 (731)
398 cd03114 ArgK-like The function 79.8 2.6 5.6E-05 44.6 4.9 23 1231-1253 2-24 (148)
399 cd03112 CobW_like The function 79.8 1.4 3.1E-05 46.8 3.0 23 1229-1251 1-23 (158)
400 PRK10463 hydrogenase nickel in 79.7 2.5 5.5E-05 49.9 5.2 44 1206-1254 87-130 (290)
401 PRK05439 pantothenate kinase; 79.7 2.7 5.9E-05 50.0 5.5 28 1226-1254 84-111 (311)
402 CHL00206 ycf2 Ycf2; Provisiona 79.7 1.2 2.5E-05 62.8 2.8 21 1230-1250 1632-1652(2281)
403 TIGR03574 selen_PSTK L-seryl-t 79.6 1.5 3.1E-05 49.6 3.1 22 1231-1252 2-23 (249)
404 cd00464 SK Shikimate kinase (S 79.6 1.5 3.2E-05 45.0 2.9 20 1231-1250 2-21 (154)
405 TIGR00382 clpX endopeptidase C 79.5 1.3 2.7E-05 54.6 2.8 23 1229-1251 117-139 (413)
406 COG3854 SpoIIIAA ncharacterize 79.5 1.5 3.2E-05 50.6 3.1 22 1231-1252 140-161 (308)
407 cd00983 recA RecA is a bacter 79.4 1.8 3.8E-05 51.9 3.8 28 1227-1254 54-81 (325)
408 cd02028 UMPK_like Uridine mono 79.2 1.6 3.4E-05 47.4 3.2 24 1230-1253 1-24 (179)
409 PHA02530 pseT polynucleotide k 79.2 1.3 2.9E-05 50.8 2.7 24 1229-1252 3-26 (300)
410 PRK05564 DNA polymerase III su 79.1 2.7 5.9E-05 49.2 5.3 43 1209-1255 11-53 (313)
411 PRK07764 DNA polymerase III su 79.1 2.4 5.1E-05 56.4 5.2 27 1229-1255 38-64 (824)
412 KOG3347 Predicted nucleotide k 79.0 1.5 3.3E-05 47.7 2.8 22 1229-1250 8-29 (176)
413 PRK10078 ribose 1,5-bisphospho 78.9 1.4 3.1E-05 47.6 2.7 22 1229-1250 3-24 (186)
414 TIGR00554 panK_bact pantothena 78.8 2.9 6.2E-05 49.4 5.3 28 1226-1254 60-87 (290)
415 KOG0734 AAA+-type ATPase conta 78.8 1.2 2.7E-05 55.8 2.3 22 1229-1250 338-359 (752)
416 PF05127 Helicase_RecD: Helica 78.8 0.61 1.3E-05 51.3 -0.2 21 1313-1333 27-47 (177)
417 TIGR03263 guanyl_kin guanylate 78.7 1.6 3.5E-05 46.2 3.0 22 1229-1250 2-23 (180)
418 PRK00279 adk adenylate kinase; 78.5 1.7 3.6E-05 48.1 3.1 18 1231-1248 3-20 (215)
419 PRK11034 clpA ATP-dependent Cl 78.4 2.6 5.7E-05 55.5 5.3 25 1228-1252 488-512 (758)
420 PRK12608 transcription termina 78.4 1.6 3.5E-05 53.2 3.2 26 1230-1255 135-160 (380)
421 TIGR00455 apsK adenylylsulfate 78.3 2 4.4E-05 46.1 3.6 26 1228-1253 18-43 (184)
422 KOG0990 Replication factor C, 78.3 0.94 2E-05 54.0 1.1 26 1229-1254 63-88 (360)
423 TIGR00041 DTMP_kinase thymidyl 78.2 1.9 4.1E-05 46.3 3.4 24 1229-1252 4-27 (195)
424 TIGR03346 chaperone_ClpB ATP-d 78.2 1.7 3.6E-05 57.9 3.5 26 1229-1254 195-220 (852)
425 TIGR02788 VirB11 P-type DNA tr 78.2 2.1 4.5E-05 50.4 3.9 23 1229-1251 145-167 (308)
426 TIGR00390 hslU ATP-dependent p 78.0 1.7 3.6E-05 53.8 3.1 23 1229-1251 48-70 (441)
427 PRK10751 molybdopterin-guanine 78.0 1.9 4.1E-05 47.3 3.3 27 1228-1254 6-32 (173)
428 PRK13975 thymidylate kinase; P 77.9 1.9 4.1E-05 46.3 3.3 23 1230-1252 4-26 (196)
429 COG1102 Cmk Cytidylate kinase 77.7 1.5 3.3E-05 48.1 2.4 15 1231-1245 3-17 (179)
430 TIGR01351 adk adenylate kinase 77.6 1.6 3.5E-05 48.0 2.7 19 1231-1249 2-20 (210)
431 KOG0727 26S proteasome regulat 77.6 1.5 3.2E-05 50.9 2.4 22 1228-1249 189-210 (408)
432 KOG0962 DNA repair protein RAD 77.5 1.4 3.1E-05 59.8 2.6 25 1228-1252 27-51 (1294)
433 COG1618 Predicted nucleotide k 77.5 1.8 3.9E-05 47.6 2.9 25 1231-1255 8-32 (179)
434 PRK05707 DNA polymerase III su 77.4 1.6 3.4E-05 52.1 2.7 28 1229-1256 23-50 (328)
435 PRK13695 putative NTPase; Prov 77.4 2 4.3E-05 45.8 3.2 23 1231-1253 3-25 (174)
436 CHL00095 clpC Clp protease ATP 77.2 2.8 6E-05 55.7 5.1 26 1229-1254 540-565 (821)
437 PF02463 SMC_N: RecF/RecN/SMC 77.2 1.9 4.1E-05 47.3 3.1 25 1228-1252 24-48 (220)
438 PRK07246 bifunctional ATP-depe 77.1 7.1 0.00015 52.0 8.7 32 1205-1243 245-279 (820)
439 PF01745 IPT: Isopentenyl tran 77.1 2 4.4E-05 49.0 3.2 23 1229-1251 2-24 (233)
440 TIGR00101 ureG urease accessor 77.1 2 4.3E-05 47.6 3.1 23 1230-1252 3-25 (199)
441 PRK14738 gmk guanylate kinase; 77.0 2 4.3E-05 47.6 3.2 23 1227-1249 12-34 (206)
442 TIGR00368 Mg chelatase-related 77.0 2.3 5.1E-05 53.5 4.1 35 1209-1250 199-233 (499)
443 PF03029 ATP_bind_1: Conserved 76.9 1.6 3.5E-05 49.8 2.4 21 1233-1253 1-21 (238)
444 TIGR02688 conserved hypothetic 76.8 2 4.4E-05 53.2 3.4 21 1231-1251 212-232 (449)
445 cd04163 Era Era subfamily. Er 76.8 1.9 4.1E-05 43.2 2.7 22 1229-1250 4-25 (168)
446 PF07724 AAA_2: AAA domain (Cd 76.8 2.3 5.1E-05 46.2 3.6 25 1229-1253 4-28 (171)
447 COG1074 RecB ATP-dependent exo 76.6 4 8.6E-05 56.2 6.4 54 1229-1333 17-70 (1139)
448 PRK12339 2-phosphoglycerate ki 76.5 2 4.4E-05 47.7 3.1 23 1229-1251 4-26 (197)
449 PRK09825 idnK D-gluconate kina 76.5 2.2 4.8E-05 46.3 3.3 22 1229-1250 4-25 (176)
450 TIGR03819 heli_sec_ATPase heli 76.5 3.8 8.3E-05 49.2 5.5 40 1205-1251 162-201 (340)
451 PRK11131 ATP-dependent RNA hel 76.4 4.7 0.0001 55.8 6.9 29 1211-1246 79-107 (1294)
452 PRK12337 2-phosphoglycerate ki 76.4 3.7 8.1E-05 51.4 5.5 26 1227-1252 254-279 (475)
453 PRK09354 recA recombinase A; P 76.4 2.4 5.1E-05 51.3 3.8 28 1227-1254 59-86 (349)
454 TIGR02621 cas3_GSU0051 CRISPR- 76.2 5.6 0.00012 53.0 7.3 38 1201-1245 11-48 (844)
455 TIGR00073 hypB hydrogenase acc 76.0 2.4 5.2E-05 46.7 3.5 25 1228-1252 22-46 (207)
456 TIGR02238 recomb_DMC1 meiotic 76.0 1.9 4.2E-05 51.1 2.9 23 1227-1249 95-117 (313)
457 TIGR02639 ClpA ATP-dependent C 75.9 3.3 7.2E-05 54.2 5.2 24 1229-1252 485-508 (731)
458 PRK13949 shikimate kinase; Pro 75.9 2 4.2E-05 46.4 2.7 18 1231-1248 4-21 (169)
459 PRK06761 hypothetical protein; 75.9 2.1 4.5E-05 50.4 3.1 25 1229-1253 4-28 (282)
460 PRK12727 flagellar biosynthesi 75.8 2.6 5.5E-05 53.6 4.0 28 1227-1254 349-376 (559)
461 PRK10733 hflB ATP-dependent me 75.8 1.8 4E-05 55.8 2.9 21 1231-1251 188-208 (644)
462 PLN03187 meiotic recombination 75.6 2 4.4E-05 51.7 2.9 22 1227-1248 125-146 (344)
463 PRK08058 DNA polymerase III su 75.5 3.8 8.3E-05 48.7 5.2 28 1228-1255 28-55 (329)
464 PRK11034 clpA ATP-dependent Cl 75.3 2.1 4.5E-05 56.4 3.2 25 1231-1255 210-234 (758)
465 cd03275 ABC_SMC1_euk Eukaryoti 75.3 2.5 5.4E-05 47.8 3.5 24 1229-1252 23-46 (247)
466 cd01918 HprK_C HprK/P, the bif 75.2 2.2 4.8E-05 45.9 2.8 21 1230-1250 16-36 (149)
467 PRK08699 DNA polymerase III su 75.2 3.6 7.9E-05 49.1 4.9 27 1229-1255 22-48 (325)
468 PRK04220 2-phosphoglycerate ki 75.1 2.4 5.1E-05 50.4 3.3 25 1228-1252 92-116 (301)
469 KOG0736 Peroxisome assembly fa 75.1 1.7 3.7E-05 56.5 2.3 19 1231-1249 708-726 (953)
470 TIGR03345 VI_ClpV1 type VI sec 75.0 2 4.3E-05 57.3 2.9 25 1231-1255 211-235 (852)
471 COG0378 HypB Ni2+-binding GTPa 75.0 2 4.4E-05 48.2 2.5 25 1231-1255 16-40 (202)
472 TIGR00665 DnaB replicative DNA 74.9 5.9 0.00013 48.5 6.7 26 1228-1253 195-220 (434)
473 cd03116 MobB Molybdenum is an 74.8 2.7 5.9E-05 45.3 3.4 25 1230-1254 3-27 (159)
474 PRK10646 ADP-binding protein; 74.7 4.7 0.0001 43.7 5.1 43 1207-1252 10-52 (153)
475 cd00876 Ras Ras family. The R 74.7 2.3 4.9E-05 42.9 2.7 20 1231-1250 2-21 (160)
476 PF00158 Sigma54_activat: Sigm 74.6 3.3 7.2E-05 44.9 4.0 19 1229-1247 23-41 (168)
477 PRK14737 gmk guanylate kinase; 74.6 2.6 5.7E-05 46.3 3.3 24 1228-1251 4-27 (186)
478 PRK14712 conjugal transfer nic 74.6 7.4 0.00016 55.0 8.1 41 1205-1251 281-322 (1623)
479 cd03272 ABC_SMC3_euk Eukaryoti 74.5 2.7 5.8E-05 46.9 3.4 24 1229-1252 24-47 (243)
480 smart00173 RAS Ras subfamily o 74.5 2.4 5.2E-05 43.5 2.8 19 1232-1250 4-22 (164)
481 PTZ00035 Rad51 protein; Provis 74.3 2.4 5.1E-05 50.9 3.1 24 1227-1250 117-140 (337)
482 KOG1533 Predicted GTPase [Gene 74.1 2 4.3E-05 49.6 2.2 24 1231-1255 5-28 (290)
483 PRK10787 DNA-binding ATP-depen 74.1 2.6 5.5E-05 55.8 3.5 25 1227-1251 348-372 (784)
484 PTZ00301 uridine kinase; Provi 73.7 3 6.6E-05 46.8 3.5 26 1229-1254 4-29 (210)
485 KOG0742 AAA+-type ATPase [Post 73.6 1.9 4.2E-05 52.8 2.1 19 1231-1249 387-405 (630)
486 PF00519 PPV_E1_C: Papillomavi 73.5 5 0.00011 49.4 5.4 38 1211-1252 249-286 (432)
487 PRK09270 nucleoside triphospha 73.5 3.1 6.7E-05 46.6 3.6 27 1227-1253 32-58 (229)
488 cd00820 PEPCK_HprK Phosphoenol 73.4 2.8 6E-05 42.9 2.8 22 1228-1249 15-36 (107)
489 KOG0652 26S proteasome regulat 73.4 2.8 6E-05 49.0 3.1 21 1228-1248 205-225 (424)
490 KOG0735 AAA+-type ATPase [Post 73.2 2.2 4.8E-05 55.2 2.5 21 1230-1250 703-723 (952)
491 COG0802 Predicted ATPase or ki 73.2 5.6 0.00012 43.1 5.1 45 1207-1254 7-51 (149)
492 KOG0737 AAA+-type ATPase [Post 73.1 1.9 4.1E-05 52.3 1.8 24 1227-1250 126-149 (386)
493 cd03255 ABC_MJ0796_Lo1CDE_FtsE 73.1 2.6 5.7E-05 46.2 2.8 23 1228-1250 30-52 (218)
494 cd04155 Arl3 Arl3 subfamily. 73.0 2.4 5.2E-05 44.0 2.4 22 1229-1250 15-36 (173)
495 cd03273 ABC_SMC2_euk Eukaryoti 72.9 3.1 6.8E-05 47.1 3.5 25 1228-1252 25-49 (251)
496 cd01672 TMPK Thymidine monopho 72.9 3.2 7E-05 43.9 3.3 23 1230-1252 2-24 (200)
497 TIGR02173 cyt_kin_arch cytidyl 72.8 2.9 6.2E-05 43.6 2.9 21 1230-1250 2-22 (171)
498 PF01926 MMR_HSR1: 50S ribosom 72.8 2.7 5.9E-05 41.5 2.6 19 1231-1249 2-20 (116)
499 PRK00698 tmk thymidylate kinas 72.7 3.4 7.3E-05 44.5 3.5 24 1229-1252 4-27 (205)
500 PF03308 ArgK: ArgK protein; 72.6 6.6 0.00014 46.0 5.9 43 1210-1255 14-56 (266)
No 1
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=1e-34 Score=343.81 Aligned_cols=358 Identities=26% Similarity=0.348 Sum_probs=226.0
Q ss_pred hHHHHhhhhHHHHHHHHHHHhhhhhcccc--cccccceEEEEee------eeeCCeEEEEEeecCCCCccccCCCCCcEE
Q 000413 1013 EQFVSIFRPLVLEEFKAQLHSSFLEMSSW--EDMYYGSLSVLSV------ERVDDFHLVRFVHDDNDSVTSKIFSENDLV 1084 (1545)
Q Consensus 1013 eEY~~tFePLLLEE~rAQL~sS~eEissa--Ed~~~g~IsVlS~------ervDdF~lVrf~~~~~d~le~~~fsEGDLV 1084 (1545)
+++...+.+||-.|..+.+.-.-....+. +........+.++ .-..+.+++.|.... +..+...|++||+|
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 67888999999999988876332221111 1111111222222 112356788887655 45677899999999
Q ss_pred EEEecCCCCCCCceeEEEEEEEeeccCCCCceEEEEEEEecCCccchHHHhhhhhcccceeehhcccccHHhHHHHhhcc
Q 000413 1085 LLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFHALSS 1164 (1545)
Q Consensus 1085 LLSk~kPe~s~~~~~~LGkVeriekdnkr~~~iLsIR~~l~n~ssrLnq~~~~L~~rSkw~l~KL~SLTTilREy~AL~s 1164 (1545)
.|... +......+.+-|.|++...+ .+.+.+. +. .......+...+.++.|-.|+.|+..++..
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--EE-------VDKPLTLSSLRLLKLENKVTYRRMKDTMIC 145 (649)
T ss_pred EEEcc-cccccCcccccceeEeeccc------hhhHhHH--hh-------hcccchhhHHHHHHhhhhhhheecHHHHhh
Confidence 99833 23333344677888876542 1222211 00 000000113456678888999999998876
Q ss_pred CCC--C-----CCcccccCCCCCCCCCCCCccccccchhHHHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCC
Q 000413 1165 LKS--I-----PLLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPP 1237 (1545)
Q Consensus 1165 L~~--~-----PL~~~IL~P~~~s~~~~es~~v~l~kip~L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPP 1237 (1545)
+.. . .+...+.+...+.+..+ ..-.-..++..++|.||.+||..++... .+.+|||||
T Consensus 146 l~~~~~~~~~~~vv~~l~~~~~~~~~~~--------~~~~~~~~~~~~ln~SQk~Av~~~~~~k-------~l~~I~GPP 210 (649)
T KOG1803|consen 146 LSKFSNPGPSSDVVETLFGDRKPIPSPN--------IEIKKITFFNKNLNSSQKAAVSFAINNK-------DLLIIHGPP 210 (649)
T ss_pred HhhhcCccchhhhHHHHhccccCCCCch--------hhhcccccCCccccHHHHHHHHHHhccC-------CceEeeCCC
Confidence 643 1 12333333222111100 0000123455689999999999997553 599999999
Q ss_pred CCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccccccCCCeEEE
Q 000413 1238 GTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLI 1317 (1545)
Q Consensus 1238 GTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILV 1317 (1545)
|||||+|++.||..++.. ++||||
T Consensus 211 GTGKT~TlvEiI~qlvk~--------------------------------------------------------~k~VLV 234 (649)
T KOG1803|consen 211 GTGKTRTLVEIISQLVKQ--------------------------------------------------------KKRVLV 234 (649)
T ss_pred CCCceeeHHHHHHHHHHc--------------------------------------------------------CCeEEE
Confidence 999999999999998863 579999
Q ss_pred EeCChHHHHHHHHHHHhcCCCCCCCCcCCCceeEEccccccCCCCccccHHHHHHHHHHHhhhccCCCcccccccchHHH
Q 000413 1318 CAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLR 1397 (1545)
Q Consensus 1318 CAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~~aI~s~V~~vsLD~LVeqrL~~~~~~~~~~k~~~~~ess~Lr 1397 (1545)
|||||.|||+|++||.-.| .++||+|.+.++.+.+.+.+||.++...-+.. .....+
T Consensus 235 caPSn~AVdNiverl~~~~----------~~l~R~g~paRl~~~~~~~sld~~~~t~d~~~-------------~~~~~s 291 (649)
T KOG1803|consen 235 CAPSNVAVDNIVERLTHLK----------LNLVRVGHPARLLESVADHSLDLLSNTKDNSQ-------------NAKDIS 291 (649)
T ss_pred EcCchHHHHHHHHHhcccc----------cchhhcCchhhhhhhhhhhHHHHHHhcCchhh-------------hhhhhH
Confidence 9999999999999998444 37999999999999999999998876532110 001112
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccccCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Q 000413 1398 SNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQEKKSYEET 1477 (1545)
Q Consensus 1398 ~kLekL~~~Ir~~ea~Ra~~~~~~~d~~~~~~~es~kg~~~~lsd~eLe~kL~~L~~qRrql~~eL~~~r~~ekk~~re~ 1477 (1545)
++++..... .... + + ..+++.+.+++..+ +++.
T Consensus 292 k~~d~~~~~-------~~~t----------------k-------~----------~~~~~~~~~~i~~l-------rkdl 324 (649)
T KOG1803|consen 292 KDIDILFQK-------NTKT----------------K-------N----------DKLRKGIRKEIKLL-------RKDL 324 (649)
T ss_pred HHHHHHhhh-------hhcc----------------c-------c----------hHHHHHHHHHHHHH-------HHHH
Confidence 222222110 0000 0 0 01122222333332 3344
Q ss_pred HHHHHHHHHHHhcCCcEEEEcCCCCCccccccccccccCcccCCCCCCCCCcEEEEecCcccccccC
Q 000413 1478 KALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHE 1544 (1545)
Q Consensus 1478 e~lRrkirkeIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~~~~~FDtVIIDEAAQAvEpst 1544 (1545)
++.+++..++|+..|+||+|||.||+..++ .+..||+|||||||||+||+|
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 455677889999999999999999998554 246899999999999999987
No 2
>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=100.00 E-value=1.8e-33 Score=346.16 Aligned_cols=334 Identities=26% Similarity=0.348 Sum_probs=219.0
Q ss_pred EeeeeeCCeEEEEEeecCCCCccccCCCCCcEEEEEecCCCCCCCceeEEEEEEEeeccCCCCceEEEEEEEecCCccch
Q 000413 1052 LSVERVDDFHLVRFVHDDNDSVTSKIFSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRL 1131 (1545)
Q Consensus 1052 lS~ervDdF~lVrf~~~~~d~le~~~fsEGDLVLLSk~kPe~s~~~~~~LGkVeriekdnkr~~~iLsIR~~l~n~ssrL 1131 (1545)
.......+.++++|..... ....|..||+|+|+..++.. ..+.|.|.++..+ .+++.+.. ...
T Consensus 35 ~~~~~~~g~~~~~f~~~~~---~~~~~~~GD~v~i~~~~~~~----~~~~g~V~~v~~~------~i~v~~~~--~~~-- 97 (637)
T TIGR00376 35 KIRGGLLGFLLVRFGRRKA---IATEISVGDIVLVSRGNPLQ----SDLTGVVTRVGKR------FITVALEE--SVP-- 97 (637)
T ss_pred EEEeCCCCeEEEEEecCCC---CCCcCCCCCEEEEecCCCCC----CCcEEEEEEEcCc------EEEEEECC--CCC--
Confidence 3333445689999986442 24689999999999765432 3468999988642 35555421 100
Q ss_pred HHHhhhhhcccceeehhcccccHHhHHHHhhccCCCC--CCcccccCCCCCCCCCCCCccccccchhHHHHHhhcCCCHH
Q 000413 1132 NQARRNLLERSKWHATLIMSITPQLREFHALSSLKSI--PLLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNES 1209 (1545)
Q Consensus 1132 nq~~~~L~~rSkw~l~KL~SLTTilREy~AL~sL~~~--PL~~~IL~P~~~s~~~~es~~v~l~kip~L~~~Lk~~LNeS 1209 (1545)
. .....|.+.++.|-+|+.|++.||..+... ++.+.||+...+... .. .. .+ ......||++
T Consensus 98 -----~-~~~~~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l~~~llg~~~p~~~-~~--~~------~~-~~~~~~ln~~ 161 (637)
T TIGR00376 98 -----Q-WSLKRVRIDLYANDVTFKRMKEALRALTENHSRLLEFILGREAPSKA-SE--IH------DF-QFFDPNLNES 161 (637)
T ss_pred -----c-ccCceEEEEEecCccHHHHHHHHHHHHHhchhhHHHHHhCCCCCCcc-cc--cc------cc-cccCCCCCHH
Confidence 0 012347788899999999999999988653 577778875433211 00 00 01 1233589999
Q ss_pred HHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHH
Q 000413 1210 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQD 1289 (1545)
Q Consensus 1210 Q~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~d 1289 (1545)
|.+||..++... +++|||||||||||+||++++..++..
T Consensus 162 Q~~Av~~~l~~~-------~~~lI~GpPGTGKT~t~~~ii~~~~~~---------------------------------- 200 (637)
T TIGR00376 162 QKEAVSFALSSK-------DLFLIHGPPGTGKTRTLVELIRQLVKR---------------------------------- 200 (637)
T ss_pred HHHHHHHHhcCC-------CeEEEEcCCCCCHHHHHHHHHHHHHHc----------------------------------
Confidence 999999997643 599999999999999999999887642
Q ss_pred HHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcCCCCCCCCcCCCceeEEccccccCCCCccccHHH
Q 000413 1290 AALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFIDT 1369 (1545)
Q Consensus 1290 aala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~~aI~s~V~~vsLD~ 1369 (1545)
+.+||||||||.|||+|+.||.+.| .++||+|++.++.+.+.+++||+
T Consensus 201 ----------------------g~~VLv~a~sn~Avd~l~e~l~~~~----------~~vvRlg~~~r~~~~~~~~sl~~ 248 (637)
T TIGR00376 201 ----------------------GLRVLVTAPSNIAVDNLLERLALCD----------QKIVRLGHPARLLKSNKQHSLDY 248 (637)
T ss_pred ----------------------CCCEEEEcCcHHHHHHHHHHHHhCC----------CcEEEeCCchhcchhHHhccHHH
Confidence 3489999999999999999999653 47999999999999999999999
Q ss_pred HHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccccCCCccccHHHHHHHH
Q 000413 1370 LVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKL 1449 (1545)
Q Consensus 1370 LVeqrL~~~~~~~~~~k~~~~~ess~Lr~kLekL~~~Ir~~ea~Ra~~~~~~~d~~~~~~~es~kg~~~~lsd~eLe~kL 1449 (1545)
+++..-.. .....++++++++.++ |.+... .....++++++..+.
T Consensus 249 ~~~~~~~~-------------~~~~~~~~~i~~~~~~-------~~~~~~------------~~~~~~~~~~~~~~l--- 293 (637)
T TIGR00376 249 LIENHPKY-------------QIVADIREKIDELIEE-------RNKKLK------------PSPQKRRGLSDIKIL--- 293 (637)
T ss_pred HHhcChhH-------------HHHHHHHHHHHHHHHH-------HHhhcc------------chHhHhhccchHHHH---
Confidence 88643110 1112244444444332 111100 000011223333221
Q ss_pred HHHHHHHH--HH-------HHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcCCcEEEEcCCCCCccccccccccccCcccC
Q 000413 1450 RKLYEQKK--QI-------YRELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFG 1520 (1545)
Q Consensus 1450 ~~L~~qRr--ql-------~~eL~~~r~~ekk~~re~e~lRrkirkeIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~ 1520 (1545)
++..++|. .+ ...+..+....++..+++++.+.++.++||.+|+||||| +|+..|.
T Consensus 294 ~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~v~~st---~~~~~l~------------ 358 (637)
T TIGR00376 294 RKALKKREARGIESLKIASMAEWIETNKSIDRLLKLLPEIEERIENEILAESDVVQST---NSSAGLK------------ 358 (637)
T ss_pred HHHHhhhhhcccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhhCCEEEec---cCcHhhc------------
Confidence 11111111 11 112223333444556667777889999999999999888 4555542
Q ss_pred CCCCCCCCcEEEEecCcccccccCC
Q 000413 1521 NPSENTLFDAVVIDEAAQVVLVHEL 1545 (1545)
Q Consensus 1521 ~~~~~~~FDtVIIDEAAQAvEpstL 1545 (1545)
+..||+||||||+||+||++|
T Consensus 359 ----~~~Fd~vIIDEAsQ~~ep~~l 379 (637)
T TIGR00376 359 ----GWEFDVAVIDEASQAMEPSCL 379 (637)
T ss_pred ----cCCCCEEEEECccccchHHHH
Confidence 468999999999999999864
No 3
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=6.6e-34 Score=336.00 Aligned_cols=349 Identities=26% Similarity=0.287 Sum_probs=218.9
Q ss_pred cccccCccccChhHHHHhhhhHHHHHHHHHHHhhhhhcccccccccceEEEEeeeeeCCeEEEEEeecCCCCccccCCCC
Q 000413 1001 KLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDMYYGSLSVLSVERVDDFHLVRFVHDDNDSVTSKIFSE 1080 (1545)
Q Consensus 1001 kLkkVP~TFsSveEY~~tFePLLLEE~rAQL~sS~eEissaEd~~~g~IsVlS~ervDdF~lVrf~~~~~d~le~~~fsE 1080 (1545)
+...|-.+|.+..+|.++|.||+-.|+...- .+.|....+ .+.|..---.+..+...|..++.+ ....+..
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 5667889999999999999999999987643 333332111 122221111223344444444332 2357888
Q ss_pred CcEEEEEecCCCCCCCceeEEEEEEEeeccCCCCceEEEEEEEecCCccchHHHhhhhhcccceeehhcccccHHhHHHH
Q 000413 1081 NDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFH 1160 (1545)
Q Consensus 1081 GDLVLLSk~kPe~s~~~~~~LGkVeriekdnkr~~~iLsIR~~l~n~ssrLnq~~~~L~~rSkw~l~KL~SLTTilREy~ 1160 (1545)
||-+.|....... ....-+|.|.++...+. ....+.+++- .+ .+. ..++.+.+.++-+-|++.|++.
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-DEVKLELEFS--QD-PPI-------EVTHGFTVDFVWKSTSFDRMQL 365 (935)
T ss_pred CCeeEEEecCCcC--CcccccceEEecCCCCc-ceeEEEeecC--CC-CCc-------ccccceEEEEEEcCccHHHHHH
Confidence 9988888765332 12445788887754321 2222333322 11 111 1223344455667799999999
Q ss_pred hhccCCC-------CCCcccccCCCCCCCCCCCCccccccchhH-HHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEE
Q 000413 1161 ALSSLKS-------IPLLPIILNPVNVSRGYNESRELDLGKLSQ-LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSL 1232 (1545)
Q Consensus 1161 AL~sL~~-------~PL~~~IL~P~~~s~~~~es~~v~l~kip~-L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftL 1232 (1545)
||..|.. |-+...+-.|..+... ...+|. +-..--..||.||..||+++|.+ +++|
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 ALKLLAVDEKKVSGYLYHKLLGHPVEDSSL--------KKLLPRRFSVPNLPKLNASQSNAVKHVLQR--------PLSL 429 (935)
T ss_pred HHHHhhhccccchhhhhhHHhcCcchhhhh--------cccCchhhcCCCchhhchHHHHHHHHHHcC--------Ccee
Confidence 9987632 2222222223222110 011222 10000137999999999999976 5999
Q ss_pred EecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccccccCC
Q 000413 1233 IQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVR 1312 (1545)
Q Consensus 1233 IQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k 1312 (1545)
||||||||||.|+.+||.+|... ..
T Consensus 430 IQGPPGTGKTvtsa~IVyhl~~~-------------------------------------------------------~~ 454 (935)
T KOG1802|consen 430 IQGPPGTGKTVTSATIVYHLARQ-------------------------------------------------------HA 454 (935)
T ss_pred eecCCCCCceehhHHHHHHHHHh-------------------------------------------------------cC
Confidence 99999999999999999988764 14
Q ss_pred CeEEEEeCChHHHHHHHHHHHhcCCCCCCCCcCCCceeEEccccc--cCCCCccccHHHHHHHHHHHhhhccCCCccccc
Q 000413 1313 ARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKT--VHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFC 1390 (1545)
Q Consensus 1313 ~RILVCAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~~a--I~s~V~~vsLD~LVeqrL~~~~~~~~~~k~~~~ 1390 (1545)
.+||||||||.|||+|+++|.+.|+ +|||+-...+ +.++|...+|.++++.. . +
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 5799999999999999999999886 7999998644 55566666666655421 0 0
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccccCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 000413 1391 TRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQE 1470 (1545)
Q Consensus 1391 ~ess~Lr~kLekL~~~Ir~~ea~Ra~~~~~~~d~~~~~~~es~kg~~~~lsd~eLe~kL~~L~~qRrql~~eL~~~r~~e 1470 (1545)
.+|+++.+. ++. .| .++.. .
T Consensus 511 -------pELq~l~kl------kde---~g------------------elS~s-------------------------D- 530 (935)
T KOG1802|consen 511 -------PELQKLLKL------KDE---GG------------------ELSSS-------------------------D- 530 (935)
T ss_pred -------HHHHHHHhh------hhh---cc------------------cccch-------------------------h-
Confidence 123333211 000 00 00000 0
Q ss_pred hhHHHHHHHHHHHHHHHHhcCCcEEEEcCCCCCccccccccccccCcccCCCCCCCCCcEEEEecCcccccccCC
Q 000413 1471 KKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHEL 1545 (1545)
Q Consensus 1471 kk~~re~e~lRrkirkeIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~~~~~FDtVIIDEAAQAvEpstL 1545 (1545)
....+++++++.+++|..|||||||+.|||...|. ..+|.+|+||||+||+||+||
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 01123445677799999999999999999997763 358999999999999999997
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=99.97 E-value=1.2e-30 Score=274.54 Aligned_cols=209 Identities=36% Similarity=0.578 Sum_probs=117.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
+||++|++||..++... .+++||||||||||+||++++..++.....
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 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVK-TVHPNSL 1363 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~~-aI~s~V~ 1363 (1545)
.....+.+||||||||+|||+++.||.+ +.+..+..+.+.++|+|+.. ..++++.
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 0013478999999999999999999995 66777888889999999988 7788899
Q ss_pred cccHHHHHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccccCCCccccHH
Q 000413 1364 PFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDV 1443 (1545)
Q Consensus 1364 ~vsLD~LVeqrL~~~~~~~~~~k~~~~~ess~Lr~kLekL~~~Ir~~ea~Ra~~~~~~~d~~~~~~~es~kg~~~~lsd~ 1443 (1545)
++++++.++++.... ...++++++++...+.......
T Consensus 104 ~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~----------------------------- 140 (236)
T PF13086_consen 104 KFSLESKLEQRFESK--------------LKRLREQLEELQQKIRLSELKE----------------------------- 140 (236)
T ss_dssp GGBHHHHHHTTT-------------------------THHHCHHHHHHHHH-----------------------------
T ss_pred ccccccccccccccc--------------chhhhHHHHHHHHhhhhhhhhh-----------------------------
Confidence 999888776643200 0112222222221111000000
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcCCcEEEEcCCCCCccccccccccccCcccCCCC
Q 000413 1444 ELEAKLRKLYEQKKQIYRELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPS 1523 (1545)
Q Consensus 1444 eLe~kL~~L~~qRrql~~eL~~~r~~ekk~~re~e~lRrkirkeIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~ 1523 (1545)
+........++..+..+..++.+...++.+|+||+||++++++..+...
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 0000000111122333445667779999999999999999987766310
Q ss_pred CCCCCcEEEEecCcccccccCC
Q 000413 1524 ENTLFDAVVIDEAAQVVLVHEL 1545 (1545)
Q Consensus 1524 ~~~~FDtVIIDEAAQAvEpstL 1545 (1545)
...||+||||||+|+.|+++|
T Consensus 190 -~~~~d~vIvDEAsq~~e~~~l 210 (236)
T PF13086_consen 190 -KEKFDVVIVDEASQITEPEAL 210 (236)
T ss_dssp -----SEEEETTGGGS-HHHHH
T ss_pred -cccCCEEEEeCCCCcchHHHH
Confidence 127999999999999998753
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.87 E-value=1.1e-21 Score=241.29 Aligned_cols=122 Identities=28% Similarity=0.458 Sum_probs=94.4
Q ss_pred CCcccccCCCCCCCCCCCCccccccchhHHHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHH
Q 000413 1169 PLLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1169 PL~~~IL~P~~~s~~~~es~~v~l~kip~L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
-|.+.|..-.++.+....+.. -+|.........||..|++||..|+... .++||.|-||||||+||+.+
T Consensus 637 ~lRdlivd~~pP~f~~~~~~~----~~p~~~~~~~~~LN~dQr~A~~k~L~ae-------dy~LI~GMPGTGKTTtI~~L 705 (1100)
T KOG1805|consen 637 ILRDLIVDLKPPKFVDALSKV----LIPKIKKIILLRLNNDQRQALLKALAAE-------DYALILGMPGTGKTTTISLL 705 (1100)
T ss_pred hHHHHhhhcCCchhhcccccc----cCchhhHHHHhhcCHHHHHHHHHHHhcc-------chheeecCCCCCchhhHHHH
Confidence 355556655555443322221 1344334345689999999999998765 49999999999999999999
Q ss_pred HHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHH
Q 000413 1249 VSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDEL 1328 (1545)
Q Consensus 1249 VsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEI 1328 (1545)
|..|+.. +++||+.|.||.|||+|
T Consensus 706 IkiL~~~--------------------------------------------------------gkkVLLtsyThsAVDNI 729 (1100)
T KOG1805|consen 706 IKILVAL--------------------------------------------------------GKKVLLTSYTHSAVDNI 729 (1100)
T ss_pred HHHHHHc--------------------------------------------------------CCeEEEEehhhHHHHHH
Confidence 9988763 68999999999999999
Q ss_pred HHHHHhcCCCCCCCCcCCCceeEEccccccCCCCccccH
Q 000413 1329 VSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFI 1367 (1545)
Q Consensus 1329 V~RLlk~Gl~d~dGk~ykp~VVRVG~~~aI~s~V~~vsL 1367 (1545)
+.||...|+ .++|+|...+||++++.+++
T Consensus 730 LiKL~~~~i----------~~lRLG~~~kih~~v~e~~~ 758 (1100)
T KOG1805|consen 730 LIKLKGFGI----------YILRLGSEEKIHPDVEEFTL 758 (1100)
T ss_pred HHHHhccCc----------ceeecCCccccchHHHHHhc
Confidence 999996655 59999999999998865554
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=99.49 E-value=8.3e-13 Score=160.72 Aligned_cols=265 Identities=23% Similarity=0.280 Sum_probs=150.9
Q ss_pred ccCccccChhHHHHhhhhHHHHHHHHHHHhhhhhccc--------ccccccceEEEEeeeeeCCeEE---------EEEe
Q 000413 1004 EVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSS--------WEDMYYGSLSVLSVERVDDFHL---------VRFV 1066 (1545)
Q Consensus 1004 kVP~TFsSveEY~~tFePLLLEE~rAQL~sS~eEiss--------aEd~~~g~IsVlS~ervDdF~l---------Vrf~ 1066 (1545)
.|-..|+|..+|+++.+-||-|.+-.-+..+...... +...+|..++|....++|+... +.|.
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 4667899999999999999999988877766544431 1222455566666666665432 2221
Q ss_pred ec---CCCCccccCCCCCcEEEEEecCCCCCCCceeEEEEEEEeeccCCCCceEEEEEEEecCCccchHHHhhhhhcccc
Q 000413 1067 HD---DNDSVTSKIFSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSK 1143 (1545)
Q Consensus 1067 ~~---~~d~le~~~fsEGDLVLLSk~kPe~s~~~~~~LGkVeriekdnkr~~~iLsIR~~l~n~ssrLnq~~~~L~~rSk 1143 (1545)
.. ...+........|++|+++..+...+ ..+|.|-. +.-+ ++..+.+.+ .. ......++..
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-SGLN--RPLETLLGK--DA-------TKAPNEPEDE 297 (1025)
T ss_pred HHHHHHHHhccchhccccceEEEecCchhhh----eeeeeecc-hhcc--ccchhhhhh--hh-------hcCCCCCccc
Confidence 10 01123346778899999998876332 34677754 1111 011111110 00 0001111111
Q ss_pred eeehhccccc---------HHhHHHHhhccCCCCCCcccccCCCCCCCCC---CCCccc----cccchhH-HHHHhh---
Q 000413 1144 WHATLIMSIT---------PQLREFHALSSLKSIPLLPIILNPVNVSRGY---NESREL----DLGKLSQ-LQQILK--- 1203 (1545)
Q Consensus 1144 w~l~KL~SLT---------TilREy~AL~sL~~~PL~~~IL~P~~~s~~~---~es~~v----~l~kip~-L~~~Lk--- 1203 (1545)
++|.-+ ..+|+.+-+....-.|+.+++.....-.... ...... ...+.++ ..+.+.
T Consensus 298 ----ylm~e~t~~Y~eayrhVLr~lqr~s~~~~vpf~rylvhc~s~~~~pr~L~~~~rytinp~~~n~s~~~~n~lePp~ 373 (1025)
T KOG1807|consen 298 ----YLMSEKTVKYVEAYRHVLRELQRASLVEFVPFLRYLVHCDSLKQQPRLLWSDVRYTINPQFANASRHIVNALEPPG 373 (1025)
T ss_pred ----eeehhhHHHHHHHHHHHHHHhhhcccccccchhhhhccchhhhhchHHhhcCCceecCccccCchhhhhhhcCCCC
Confidence 122222 2344444444444456655554422110000 000000 0001111 111111
Q ss_pred ---cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchh
Q 000413 1204 ---TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQS 1280 (1545)
Q Consensus 1204 ---~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s 1280 (1545)
..++.||+.|.++++.. .++|||||||||||.+-+-++..||.....
T Consensus 374 ~g~~ildsSq~~A~qs~lty--------elsliqgppGTgkt~vtlkav~tLL~n~s~---------------------- 423 (1025)
T KOG1807|consen 374 PGLVILDSSQQFAKQSKLTY--------ELSLIQGPPGTGKTLVTLKAVDTLLLNSSG---------------------- 423 (1025)
T ss_pred CCceeecHHHHHHHHHHhhh--------hhheeecCCCCCceeehHHHHHHHHhcccc----------------------
Confidence 15789999999998765 599999999999999999999999975210
Q ss_pred HHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcCCCCCCCCcCCCceeEEccc
Q 000413 1281 AAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNV 1355 (1545)
Q Consensus 1281 ~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~ 1355 (1545)
-..+-+|||.+.||.|||+++.|+... .+|+|+|+|..
T Consensus 424 ----------------------------~~~~epIlvvC~Tnhavdq~ligiy~~---------qrpsImr~gsr 461 (1025)
T KOG1807|consen 424 ----------------------------YTEPEPILVVCLTNHAVDQYLIGIYYH---------QRPSIMRQGSR 461 (1025)
T ss_pred ----------------------------cccccceeeeehhhHHHHHHHHHHHhc---------CCceEEEeccc
Confidence 112567999999999999999999842 24889999975
No 7
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.36 E-value=1.6e-12 Score=165.77 Aligned_cols=278 Identities=17% Similarity=0.172 Sum_probs=150.9
Q ss_pred CchhhhhhcceecCcccCCCCCccchhhhcccccccCccccChhHHHHhhhhHHHHHHHHHHHhhhhhccccccc---cc
Q 000413 970 LDDWYKPILEIDYFATVGLASSREDENRVHCKLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDM---YY 1046 (1545)
Q Consensus 970 Ld~L~K~ILSWDyf~~~~~P~~~kd~nl~~~kLkkVP~TFsSveEY~~tFePLLLEE~rAQL~sS~eEissaEd~---~~ 1046 (1545)
..++....++|.+.+..+. ..+|.+|.+.++|+..|.|.++||+++++.++........-. ..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~p~~~ee~~~~l~~s~~~~~~~~~~~~~~~ 70 (827)
T KOG1801|consen 5 GTDLLDSSLSWSLRDVENE--------------ETEPETFQSMEEYIREFFPPLLEECRSSLVSSSRKLKAPFLLEKPEQ 70 (827)
T ss_pred cccHHHHhHHHHhhhhhhh--------------hccchhhhhHHHHHHHhhhhhhHHHHHHHhhhhhhhccchhhhhhhh
Confidence 3567788999988765321 669999999999999999999999999998876655421100 00
Q ss_pred ceEEEEeeee--eCCeEEEEE---eec-CCCCccccCCCCCcEEEEEecCCCCC-CCceeEEEEEEEeeccCCCCceEEE
Q 000413 1047 GSLSVLSVER--VDDFHLVRF---VHD-DNDSVTSKIFSENDLVLLTRVSPQKT-PHDVHMVGKVERRERDNNRRSSILL 1119 (1545)
Q Consensus 1047 g~IsVlS~er--vDdF~lVrf---~~~-~~d~le~~~fsEGDLVLLSk~kPe~s-~~~~~~LGkVeriekdnkr~~~iLs 1119 (1545)
..+.+..... .+.++.... ... .............|++-++...+... ...+..+.++..-..... ..
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~ 145 (827)
T KOG1801|consen 71 EQIAITKNNPTSKDLRQLTNEKNIFTKEKSEKTASSVEKHLDNIRHSDAIGFAASDHIPGLLPYLASPDLEKG-----PS 145 (827)
T ss_pred hhhhcccCCCCchhhhcchhHHHHHhhhhccccccccccccchhhhcccCCccccccChhhhhhhcccccccc-----cc
Confidence 0000110000 111111100 000 11111222345667766663332211 111122222222111000 00
Q ss_pred EEEEecCCccchHHHhhhhhcccceeehhcccccHHhHHHHhhccCCCCCCcccccCCCCCCCC----CCCCccccccch
Q 000413 1120 IRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFHALSSLKSIPLLPIILNPVNVSRG----YNESRELDLGKL 1195 (1545)
Q Consensus 1120 IR~~l~n~ssrLnq~~~~L~~rSkw~l~KL~SLTTilREy~AL~sL~~~PL~~~IL~P~~~s~~----~~es~~v~l~ki 1195 (1545)
... ........+...++..++..|++..|+|.+++..... ...+..+...... ............
T Consensus 146 ~~~---------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 214 (827)
T KOG1801|consen 146 VDL---------SLAATKSLPSLICAGAFLRVLVENKNEYILIACHANN--HGLHRPDLRFNEVNERTVHKVFENFSVIG 214 (827)
T ss_pred ccc---------ccchhccccccchHHHHHHHHhhcchhhhhccccccc--ccccccccccccccccccccccccccccc
Confidence 000 0000000011122346788999999999999876541 1111111000000 000000000000
Q ss_pred hH-HHHHhh-cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCC--CchHHHHHHHHHHHhccCCCCcccccCccccc
Q 000413 1196 SQ-LQQILK-TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGT--GKTRTIVAIVSALLATRTSPKSHLKQNYSSCI 1271 (1545)
Q Consensus 1196 p~-L~~~Lk-~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGT--GKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~ 1271 (1545)
.. ..+.+. ..+|.+|..++...+...+ |.+...+.+|+||||| |||+|...+...++..
T Consensus 215 ~~~~~d~~~~~~l~~~~~~~~~~~l~~~~-~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~---------------- 277 (827)
T KOG1801|consen 215 SLFVGDVIRFTKLSRDQEPLIRGVLSQRN-CEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGL---------------- 277 (827)
T ss_pred ccchhhhhhhcccchhhHHHHhhccCccc-cccccceeeeeCCCCccccceeccchHHHHHHhc----------------
Confidence 00 223332 4799999999999988776 7888899999999999 9999888887776653
Q ss_pred CCCCccchhHHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1272 NSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1272 ~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..++++|+|||.+|=+...|+++
T Consensus 278 ----------------------------------------~~~~~~~s~~~~~~~~~~~r~~~ 300 (827)
T KOG1801|consen 278 ----------------------------------------DCQMLVCSLSNSNILLLTSRLYK 300 (827)
T ss_pred ----------------------------------------ccceeEeeccccchhhhHHHHHh
Confidence 46799999999999888888884
No 8
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.27 E-value=2.9e-11 Score=151.53 Aligned_cols=228 Identities=26% Similarity=0.316 Sum_probs=135.7
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..++..|..++...... ...+.+.+||||||||... .+...+....
T Consensus 273 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~--------------------------- 318 (767)
T COG1112 273 KELDNEQKLAVKRLLSL------NDLFLIHQGPFGTGKTRSV-TILELIIELL--------------------------- 318 (767)
T ss_pred hhccchhHHHHHHHhcc------cceeEeecCCCCCCcchHH-HHHHHHHHHH---------------------------
Confidence 46788888888877543 2346666699999999955 3233222210
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcCCCCCCCCcCCCceeEEccccccCCCCc
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSL 1363 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl~d~dGk~ykp~VVRVG~~~aI~s~V~ 1363 (1545)
...+.+++.|+|+|.++|+.+.++.+... ....+|+|.+......+.
T Consensus 319 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~ 365 (767)
T COG1112 319 -------------------------ENNKLKILPTAESNAAVDNLLRRLKRTVI--------KVELLRIGHPSRVLKKLK 365 (767)
T ss_pred -------------------------HhcccceEEecCcccchhhHHHHHHhhcc--------ccceEEcCCcchhhhhhh
Confidence 01257899999999999999999995432 124999999888777777
Q ss_pred cccHHHHHHHHHHHhhhccCCCcccccccchHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCCcccccccCCCccccHH
Q 000413 1364 PFFIDTLVDHRLAEERMHLTDPKNEFCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDV 1443 (1545)
Q Consensus 1364 ~vsLD~LVeqrL~~~~~~~~~~k~~~~~ess~Lr~kLekL~~~Ir~~ea~Ra~~~~~~~d~~~~~~~es~kg~~~~lsd~ 1443 (1545)
..++...+...... .+ ....+...+..+..+.... .. .. .. ....+.+.
T Consensus 366 ~~~l~~~~~~~~~~--------~~----~~~~~~~~~~~~~~~~~~~-----~~------~~-------~~-~~~~~~~~ 414 (767)
T COG1112 366 LDTLEELLEKHEIP--------GN----KIAALDKVIRELREEGERI-----IR------EI-------AK-LRERLERK 414 (767)
T ss_pred hhHHHHHHHhcccc--------cc----hhHHHHHHHHHHhhhhhcc-----ce------ec-------HH-HHhhhhhh
Confidence 66766555442110 00 0111112222221110000 00 00 00 00000000
Q ss_pred HH------HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcCCcEEEEcCCCCCccccccccccccCc
Q 000413 1444 EL------EAKLRKLYEQKKQIYRELGVAQVQEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGF 1517 (1545)
Q Consensus 1444 eL------e~kL~~L~~qRrql~~eL~~~r~~ekk~~re~e~lRrkirkeIL~eAdVVCSTLSGSGhdll~~c~e~~~~~ 1517 (1545)
.+ ....+.+..........+.......+....+.+..+......+...++|||||+++||+..++
T Consensus 415 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~--------- 485 (767)
T COG1112 415 RLDKISHLNVALRGILPALNKSEALWISLEEKQKKILKELRRLKKKAVTKILEAADVVLSTLSIAGFSILK--------- 485 (767)
T ss_pred HHHHHHHhhhhhcchhHHHHHHHHHHHhhhhhHHhHHHHHhHhHHHHHHHHHHhcCeEEEeccchhHHHhc---------
Confidence 00 011112222222333334444444555667777788899999999999999999999998764
Q ss_pred ccCCCCCCCCCcEEEEecCcccccccCC
Q 000413 1518 KFGNPSENTLFDAVVIDEAAQVVLVHEL 1545 (1545)
Q Consensus 1518 kf~~~~~~~~FDtVIIDEAAQAvEpstL 1545 (1545)
...||+||||||+|++|+.++
T Consensus 486 -------~~~fd~viiDEAsQ~~~~~~~ 506 (767)
T COG1112 486 -------KYEFDYVIIDEASQATEPSAL 506 (767)
T ss_pred -------ccccCEEEEcchhcccchhHH
Confidence 237999999999999998864
No 9
>PF13245 AAA_19: Part of AAA domain
Probab=99.15 E-value=8.3e-11 Score=110.18 Aligned_cols=62 Identities=45% Similarity=0.691 Sum_probs=50.7
Q ss_pred HHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHH
Q 000413 1212 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAA 1291 (1545)
Q Consensus 1212 eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daa 1291 (1545)
+||..++. . .++++|+||||||||+|++.++..++....
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 1 369999999999999999999998875310
Q ss_pred HHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHH
Q 000413 1292 LARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1332 (1545)
Q Consensus 1292 la~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RL 1332 (1545)
.. +++|||++|+|+|+|+|..|+
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 578999999999999999999
No 10
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.93 E-value=2.6e-09 Score=115.46 Aligned_cols=66 Identities=36% Similarity=0.483 Sum_probs=52.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
+||+.|.+||..++.+. ..+++||||||||||+++..++.++...
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 58999999999998653 2699999999999999988877655431
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHH
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1332 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RL 1332 (1545)
+.+|++|||||.|++++..++
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 468999999999999988885
No 11
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=98.46 E-value=3.9e-07 Score=113.94 Aligned_cols=66 Identities=32% Similarity=0.485 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1287 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W 1287 (1545)
+.|+.|+..++.+ +|++|.|+||||||+|+..++..++....
T Consensus 155 d~Qk~Av~~a~~~--------~~~vItGgpGTGKTt~v~~ll~~l~~~~~------------------------------ 196 (615)
T PRK10875 155 DWQKVAAAVALTR--------RISVISGGPGTGKTTTVAKLLAALIQLAD------------------------------ 196 (615)
T ss_pred HHHHHHHHHHhcC--------CeEEEEeCCCCCHHHHHHHHHHHHHHhcC------------------------------
Confidence 7899999998754 59999999999999999999998876310
Q ss_pred HHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1288 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1288 ~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.+..+|++||||+.|..++.+++-
T Consensus 197 ----------------------~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 197 ----------------------GERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred ----------------------CCCcEEEEECCcHHHHHHHHHHHH
Confidence 124689999999999999988764
No 12
>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=98.38 E-value=6.3e-07 Score=111.72 Aligned_cols=67 Identities=30% Similarity=0.452 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1287 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W 1287 (1545)
+.|+.|+..++.+ .|++|+|+||||||+|+..|+..+.....
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 59999999999999999999998875310
Q ss_pred HHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1288 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1288 ~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
...+.+|++||||+.|.+++-+.+.
T Consensus 190 ---------------------~~~~~~I~l~APTGkAA~rL~e~~~ 214 (586)
T TIGR01447 190 ---------------------KQGKLRIALAAPTGKAAARLAESLR 214 (586)
T ss_pred ---------------------ccCCCcEEEECCcHHHHHHHHHHHH
Confidence 0013589999999999999888775
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=98.36 E-value=7.5e-07 Score=99.35 Aligned_cols=67 Identities=27% Similarity=0.359 Sum_probs=54.2
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHH
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIAR 1285 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar 1285 (1545)
||+.|.++|.. ..+..+|+|+||||||+|++.-+..++....
T Consensus 1 l~~eQ~~~i~~----------~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~---------------------------- 42 (315)
T PF00580_consen 1 LTDEQRRIIRS----------TEGPLLVNAGAGSGKTTTLLERIAYLLYEGG---------------------------- 42 (315)
T ss_dssp S-HHHHHHHHS-----------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSS----------------------------
T ss_pred CCHHHHHHHhC----------CCCCEEEEeCCCCCchHHHHHHHHHhhcccc----------------------------
Confidence 68999999975 1368999999999999999998888886511
Q ss_pred HHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1286 AWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1286 ~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..+.+||+.++||+|.+|+-.||.+
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
>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=98.25 E-value=2.1e-06 Score=109.45 Aligned_cols=43 Identities=35% Similarity=0.506 Sum_probs=36.6
Q ss_pred hcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1203 KTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1203 k~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...||+.|++||..++.. ++++|+|+||||||+++.+++..+-
T Consensus 321 ~~~l~~~Q~~Ai~~~~~~--------~~~iitGgpGTGKTt~l~~i~~~~~ 363 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQH--------KVVILTGGPGTGKTTITRAIIELAE 363 (720)
T ss_pred CCCCCHHHHHHHHHHHhC--------CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 357999999999998642 5999999999999999988887653
No 15
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=98.17 E-value=1.2e-06 Score=110.93 Aligned_cols=45 Identities=20% Similarity=0.206 Sum_probs=33.2
Q ss_pred HhcCCcEEEEcCCCCCccccccccccccCcccCCCCCCCCCcEEEEecCcccccccCC
Q 000413 1488 ILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHEL 1545 (1545)
Q Consensus 1488 IL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~~~~~FDtVIIDEAAQAvEpstL 1545 (1545)
.+...-|+.+|+++||- + ....|. -..|-.+.+|||+||+||++|
T Consensus 416 ~~~~~~i~i~t~~sag~--~-------~~~g~~----v~~f~hil~DeAg~stEpe~l 460 (775)
T KOG1804|consen 416 KVWPYRWGITTCTSAGC--V-------TSYGFQ----VGHFRHILVDEAGVSTEPELL 460 (775)
T ss_pred hccceEEEEeeccceee--e-------eccccc----ccceeeeeecccccccCcccc
Confidence 34455699999999994 1 112221 247999999999999999986
No 16
>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=98.12 E-value=4.7e-06 Score=106.65 Aligned_cols=42 Identities=26% Similarity=0.437 Sum_probs=35.4
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..||+.|++||..++... +|++|+||||||||+++.+++.++
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~-------~~~il~G~aGTGKTtll~~i~~~~ 392 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSG-------DIAVVVGRAGTGKSTMLKAAREAW 392 (744)
T ss_pred CCCCHHHHHHHHHHhcCC-------CEEEEEecCCCCHHHHHHHHHHHH
Confidence 479999999999887532 599999999999999988876654
No 17
>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=98.02 E-value=4.1e-06 Score=106.91 Aligned_cols=365 Identities=21% Similarity=0.337 Sum_probs=244.2
Q ss_pred hhhhhHHhhhhcCCccccccccc--cccceeehhhccccCC-CccchhhhhhHHHHHHHhhhhhhhh-ccCCCccccccc
Q 000413 35 IWLGITSLLEFLEPPALEEGILE--RYPIFFDIVLNHISGD-SPEFSHAVSCLRELFKMLGYKLWLR-STLSPSVMRNTL 110 (1545)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 110 (1545)
.|.||..|+.++...+|+.++.. -|| ++++++||++-. ++.|...+.||..|++.+|..-|=. ...+|.+.-.++
T Consensus 187 fW~g~~~Il~~ld~~~i~~~l~~~~~~~-i~~L~~~hL~~~~~~~l~~lL~~l~~lL~k~~~~FW~~~~~~~p~~ild~I 265 (727)
T PF12726_consen 187 FWSGFSLILRLLDKEQITHSLRALELDP-IYRLLLNHLSSNLSPPLPILLRCLSILLEKLGSDFWDAMGPISPQVILDQI 265 (727)
T ss_pred HHHHHHHHHHHccHHHHHHHHhccccch-HHHHHHHHhhcccchhHHHHHHHHHHHHHhCHHHHhcccCCCCHHHHHHHH
Confidence 89999999999999999998866 788 899999999998 9999999999999999999999973 466676543322
Q ss_pred ccc-----ccccccc-----cc--cccccccCchhhhhhhhhccchhHHHhhhhhhhhhhcccccCCchhhhHhhhhhhh
Q 000413 111 LGQ-----CFHTRSE-----KI--HKDIFDLFPPFLQSLEALQDGEHEKQRRHFLYFLLYQVPVSSNFSVLTAQMACKIS 178 (1545)
Q Consensus 111 ~~~-----~~~~~~~-----~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1545)
++. +...-.+ .- .+|++..++||++||.-.+- .-.=+.++.+|+-++-- ..+....+.++-..+
T Consensus 266 f~np~f~~~L~~~~~~~~~~~~~~~~~~~sWi~pf~~SL~~~~~---~~~~~~l~~~Ll~~~q~-~~~~~~~r~~c~~~~ 341 (727)
T PF12726_consen 266 FDNPAFKKLLLQSQEDEISESDDDLPDLLSWISPFLRSLSPSQR---SQACRKLLHFLLERLQH-DRFPDEARAACLRAG 341 (727)
T ss_pred hCChHHHHHHHhhccCCccccchhhHHHHHHHHHHHHHhcccch---hhHHHHHHHHHHHHHhc-cccchhHHHHHHHHH
Confidence 221 1111111 11 45889999999999987774 33345577888877544 333333333333323
Q ss_pred hhh---hhcCcccCCCCCccccccccccc---cccccc--cc-----------ccccccccchhhhhhhhhccchHHHHH
Q 000413 179 LLI---IHRGYKMNPPCPPFECAHMWGPF---LVSSLK--DS-----------SLHSSLRQPAFDLIQTIIVSDAAALVT 239 (1545)
Q Consensus 179 ~~~---~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~--d~-----------~l~~~~rq~a~~l~~~~~~~da~al~~ 239 (1545)
+.. ..+++.-+. ...++=+++---. ++...+ |. ....++.+.|.+++.-.+--|..+|..
T Consensus 342 ~~~L~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~vi~~~l~~D~~~l~~ 420 (727)
T PF12726_consen 342 LDALLSTLRSFNDNE-RSDFSTALITINDTRNLVSNYIIRDAIIPAAKFKIEGWSNSSVSNSAMKVIRNALALDILSLCE 420 (727)
T ss_pred HHHHHHHHHhccccc-ccccchhHhhHHHHHHHHHhhhhhhhccChhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 322 334433221 1122111111111 111111 21 123456777888888777778887777
Q ss_pred HHhhcCCCCCccceeeeecccCCCCCCCCCCCCcCccCCCCchhhhhhhhcccccccceeEechhHHHHHHhhcCCCccc
Q 000413 240 SVLKSARPLRTETIISVEMNEDEDDLKFPFDPDVDEKDDNSSWNEFTAQSRITSQEFRVWMCIPMLWIDVLVDINPSVLP 319 (1545)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~~~~~~d~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~ 319 (1545)
-+.+--+. -|-.+.+ . +.-|.+|=.++..+.++.+.
T Consensus 421 ~~~~l~~~-------------------~~~~~~~------------------~-------~~~~~lW~~l~~~~~~~~~~ 456 (727)
T PF12726_consen 421 ESQALLRG-------------------KPLQPAV------------------S-------RISPNLWKALLKSLDSDNPD 456 (727)
T ss_pred HHHHHhcC-------------------CCcCCcc------------------h-------hhhHHHHHHHHHhhcCCChH
Confidence 66555111 0011111 0 33466999999999988876
Q ss_pred chhhhHHHhhcccccccccccccccccchhhhhcccccccccccccccCcCCCCCCCCccccccceeeccchhHHHHHHh
Q 000413 320 VSFSKVVFWARSHFSIVEPEISAEMALDVRAWLSSSATEISSTFGWKAPTGCDDGGAGKVSKNSMEVSTMCLPLIRAFKR 399 (1545)
Q Consensus 320 ~~~~k~~~wa~s~~~~~e~~~~~~~~~~~~~wl~~~a~~~~~~~~w~~p~g~ddg~~gk~~~n~~~~s~~~~~l~~~~kr 399 (1545)
++|+++=|..++.-+|.-.... +-++--+.+.-.|.. +..+.-...+++-|
T Consensus 457 --la~~lL~~~~~l~~l~~~~~~~--------------------------~~~~~~~~~~~~N~~-~~~~~~~~~~il~r 507 (727)
T PF12726_consen 457 --LAKALLKSLSPLIGLEKFPPKK--------------------------EKDELDPAKTQFNKS-LGQITDLISQILER 507 (727)
T ss_pred --HHHHHHHHHHHhccccccCCcc--------------------------cccCcchHHHHHHHH-HHHHHHHHHHHHHH
Confidence 8899999888877665432211 334444556666653 46677788888888
Q ss_pred hhhhhhhhcccccccccceecccccceeeeeccCCChhHhHHHHHHHHHhhcccCccccceeecccccchhHHHhhhHHH
Q 000413 400 LTAHFIVQIGQGELRKQWTWEPRMGESLILSLVDPNDNVRQFGKCILEQVSNTRGLASGLKFLSSSTSSLSAIFLGLKHA 479 (1545)
Q Consensus 400 ~~~~~~~~~~~~~~~~~w~w~~~m~e~~il~l~~~~~~~r~~~~~~le~~s~~~gl~~~l~f~~~~~~~l~~~~~g~~~~ 479 (1545)
++.- .+..|.+=.. +|..+..++-+|+-|+++++|.|..||.+++..-|=.-|++=|=+ ..++.+..|+.++
T Consensus 508 ls~~-----~~~~L~~l~~-d~~~~~~i~s~lfsp~~~l~qaA~~llk~~~d~~~R~e~i~~ll~--~~~~~tL~ai~~~ 579 (727)
T PF12726_consen 508 LSDF-----DPSHLKELLS-DPDAAQAIWSLLFSPDDDLYQAAQDLLKQAFDVDGRLEAIQALLQ--SNFSPTLSAINWS 579 (727)
T ss_pred HhcC-----CHHHHHHHHc-CcchhhHHHhheeCCChHHHHHHHHHHHHHhcCCcHHHHHHHHHH--HhHHHHHHHHHHH
Confidence 8765 6666666666 889999999999999999999999999999998887777765543 5678889999999
Q ss_pred HHHhhhh
Q 000413 480 LKLVQLD 486 (1545)
Q Consensus 480 ~~~~~~~ 486 (1545)
|+.+.--
T Consensus 580 l~~~~~~ 586 (727)
T PF12726_consen 580 LRQLTKL 586 (727)
T ss_pred HHHHHhh
Confidence 9877433
No 18
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.94 E-value=1.7e-05 Score=107.16 Aligned_cols=44 Identities=27% Similarity=0.400 Sum_probs=38.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..||+.|++||..++...+ .|++|||+||||||+++.+++.++-
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 4799999999999986543 6999999999999999988887654
No 19
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=97.93 E-value=1.7e-05 Score=103.71 Aligned_cols=39 Identities=21% Similarity=0.288 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.||+.|++||..+++.. ++++|+|+||||||+++..++.
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 69999999999887542 4899999999999998655444
No 20
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=97.89 E-value=1.8e-05 Score=100.41 Aligned_cols=68 Identities=24% Similarity=0.324 Sum_probs=56.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.||+.|++||... .|-.||-+.||||||+||+.-+..|+....
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 256788999999999999999999886310
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
-++.+||+.+.||.|.+|+..||.+
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 21
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.87 E-value=3e-05 Score=105.92 Aligned_cols=45 Identities=24% Similarity=0.372 Sum_probs=38.4
Q ss_pred hcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1203 KTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1203 k~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...||+.|++||..++.+.+ .|++|||+||||||+++.+++..+-
T Consensus 965 ~~~Lt~~Q~~Av~~il~s~d------r~~~I~G~AGTGKTT~l~~v~~~~~ 1009 (1747)
T PRK13709 965 MEGLTSGQRAATRMILESTD------RFTVVQGYAGVGKTTQFRAVMSAVN 1009 (1747)
T ss_pred cCCCCHHHHHHHHHHHhCCC------cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 34799999999999986532 6999999999999999988887654
No 22
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=97.85 E-value=2.5e-05 Score=99.68 Aligned_cols=68 Identities=24% Similarity=0.347 Sum_probs=56.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.||+.|++||... .+-.||-|.||||||+|++.-+..|+....
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 6999999998632 256899999999999999999988886410
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.++.+||+.+.||.|.+|+-.||.+
T Consensus 47 -------------------------v~p~~IL~lTFTnkAA~em~~Rl~~ 71 (715)
T TIGR01075 47 -------------------------ASPHSIMAVTFTNKAAAEMRHRIGA 71 (715)
T ss_pred -------------------------CCHHHeEeeeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 23
>PRK11054 helD DNA helicase IV; Provisional
Probab=97.82 E-value=2.5e-05 Score=99.34 Aligned_cols=69 Identities=29% Similarity=0.366 Sum_probs=57.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..||+.|++||... .+-.||.|.||||||+|+++-+..|+....
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 47999999999643 134699999999999999999999886411
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..+.+||+.|.||.|.+|+-.||.+
T Consensus 239 --------------------------~~~~~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 239 --------------------------AQPEQILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred --------------------------CCHHHeEEEeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
No 24
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=97.82 E-value=2.5e-05 Score=99.43 Aligned_cols=69 Identities=38% Similarity=0.582 Sum_probs=59.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.+|..|.+||.+.. .+|.+.+-||||||||.+.+-||+.+-+.
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 57999999999864 34899999999999999999999988764
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhc
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1335 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1335 (1545)
.+..|.||.+.||+|...+-+++++.
T Consensus 781 -------------------------~p~qrTlivthsnqaln~lfeKi~~~ 806 (1320)
T KOG1806|consen 781 -------------------------SPNQRTLIVTHSNQALNQLFEKIMAL 806 (1320)
T ss_pred -------------------------CCCcceEEEEecccchhHHHHHHHhc
Confidence 13578999999999999999999854
No 25
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=97.79 E-value=3.7e-05 Score=98.28 Aligned_cols=69 Identities=25% Similarity=0.368 Sum_probs=57.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..||+.|++||... .+-.||-|.||||||+||+.-+..|+....
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 256889999999999999999988886310
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.++.+||+.+.||.|.+|+-.||.+
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 26
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.79 E-value=8.1e-05 Score=75.98 Aligned_cols=72 Identities=19% Similarity=0.260 Sum_probs=57.0
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.++++-|.+++...+... ...+|.||+|||||.++...+...+..
T Consensus 7 ~~~~~~Q~~~~~~~~~~~-------~~~~i~~~~GsGKT~~~~~~~~~~~~~---------------------------- 51 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL-------RDVILAAPTGSGKTLAALLPALEALKR---------------------------- 51 (201)
T ss_pred CCCCHHHHHHHHHHHcCC-------CcEEEECCCCCchhHHHHHHHHHHhcc----------------------------
Confidence 368999999999886531 478999999999999887776655432
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
....++||++|++++++++..++.+.+
T Consensus 52 --------------------------~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 52 --------------------------GKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred --------------------------cCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 114689999999999999999998543
No 27
>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=97.73 E-value=6.4e-05 Score=72.22 Aligned_cols=51 Identities=24% Similarity=0.393 Sum_probs=42.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccccc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSES 1309 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~ 1309 (1545)
-.+|+||||||||.++..++..+...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~------------------------------------------------------ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS------------------------------------------------------ 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc------------------------------------------------------
Confidence 47899999999999999888776542
Q ss_pred cCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1310 SVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1310 ~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
...++++|++|+++.+++...++.+
T Consensus 28 ~~~~~~lv~~p~~~l~~~~~~~~~~ 52 (144)
T cd00046 28 LKGGQVLVLAPTRELANQVAERLKE 52 (144)
T ss_pred ccCCCEEEEcCcHHHHHHHHHHHHH
Confidence 1257899999999999999998884
No 28
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=97.72 E-value=5.9e-05 Score=99.49 Aligned_cols=40 Identities=28% Similarity=0.395 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.||+.|++||....+. ..+++|+|+||||||+++..++.+
T Consensus 381 ~Ls~eQ~~Av~~i~~~-------~r~~~v~G~AGTGKTt~l~~~~~~ 420 (1102)
T PRK13826 381 RLSDEQKTAIEHVAGP-------ARIAAVVGRAGAGKTTMMKAAREA 420 (1102)
T ss_pred CCCHHHHHHHHHHhcc-------CCeEEEEeCCCCCHHHHHHHHHHH
Confidence 7999999999986432 369999999999999998877654
No 29
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=97.72 E-value=4.7e-05 Score=96.02 Aligned_cols=68 Identities=24% Similarity=0.323 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.||+.|++||... .+-.+|-|.||||||+|++.-+..++....
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 246899999999999999999998886310
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..+.+||+.+.||.|.+|+-.||.+
T Consensus 44 -------------------------~~p~~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 44 -------------------------YKARNIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred -------------------------CCHHHeEEEeccHHHHHHHHHHHHH
Confidence 1246899999999999999999984
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=97.65 E-value=7.3e-05 Score=104.08 Aligned_cols=45 Identities=27% Similarity=0.375 Sum_probs=38.1
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..||+.|++||..++.+.+ .|++|||+||||||+++..++..+..
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 4799999999999876543 69999999999999999887776654
No 31
>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=97.60 E-value=0.00012 Score=102.15 Aligned_cols=66 Identities=18% Similarity=0.209 Sum_probs=54.6
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..||+.|++||..++.+. ..|.+|+|+||||||+++.+++..+-.
T Consensus 428 ~~Ls~~Q~~Av~~il~s~------~~v~ii~G~aGTGKTt~l~~l~~~~~~----------------------------- 472 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTST------KRFIIINGFGGTGSTEIAQLLLHLASE----------------------------- 472 (1960)
T ss_pred CCCCHHHHHHHHHHHhCC------CCeEEEEECCCCCHHHHHHHHHHHHHh-----------------------------
Confidence 379999999999988653 369999999999999999888764311
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHH
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSR 1331 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~R 1331 (1545)
.+.+|.+||||+.|...+-..
T Consensus 473 ---------------------------~G~~V~~lAPTgrAA~~L~e~ 493 (1960)
T TIGR02760 473 ---------------------------QGYEIQIITAGSLSAQELRQK 493 (1960)
T ss_pred ---------------------------cCCeEEEEeCCHHHHHHHHHH
Confidence 256899999999999988765
No 32
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=97.51 E-value=0.00015 Score=92.78 Aligned_cols=68 Identities=26% Similarity=0.361 Sum_probs=56.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.||+.|++||... .+-.||-|.||||||+|++.-+..|+....
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 6999999999632 256899999999999999999998886410
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..+.+||+.+.||.|.+|+..||.+
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 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=97.43 E-value=0.0002 Score=84.95 Aligned_cols=46 Identities=30% Similarity=0.418 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.||+.|++++...+.... ...+....|.||+|||||++|-+|+..+
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 2345678999999999999998887754
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=97.30 E-value=0.00053 Score=70.67 Aligned_cols=69 Identities=28% Similarity=0.371 Sum_probs=52.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
+|.+.|.+||...+..-. .....+-.||++|+|||||.++++++..+.
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 578999999998875311 001246899999999999999887665432
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
+ ++|+++|+..-++.....+.
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 79999999999999998884
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=96.93 E-value=0.0037 Score=64.19 Aligned_cols=67 Identities=30% Similarity=0.298 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1287 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W 1287 (1545)
+-|.+|+..+++. .-.+|+||+|+|||..+...+...+..
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 5699999988732 248999999999999876544433322
Q ss_pred HHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1288 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1288 ~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
....++|+.+|+.+-+++...++.+.+
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 023589999999999999999998543
No 36
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.68 E-value=0.0015 Score=75.97 Aligned_cols=38 Identities=39% Similarity=0.459 Sum_probs=29.5
Q ss_pred HHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1212 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1212 eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+++..++.+ ...+.-|.+||||||||.||.++-.+|.-
T Consensus 46 ~~L~~a~~~-----~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 46 QVLKNALLR-----RILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred HHHHHHHhh-----cCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 444555543 23478999999999999999999988876
No 37
>PRK06851 hypothetical protein; Provisional
Probab=96.62 E-value=0.0064 Score=72.89 Aligned_cols=59 Identities=22% Similarity=0.406 Sum_probs=48.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSE 1308 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~ 1308 (1545)
.+.+|.||||||||+++..++..+....
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g---------------------------------------------------- 58 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKG---------------------------------------------------- 58 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcC----------------------------------------------------
Confidence 5899999999999999999988776530
Q ss_pred ccCCCeEEEEeCChHHHHHHHHHHHhcCCCCCC
Q 000413 1309 SSVRARVLICAQSNAAVDELVSRISKEGLYGSD 1341 (1545)
Q Consensus 1309 ~~~k~RILVCAPSNAAVDEIV~RLlk~Gl~d~d 1341 (1545)
..--.+.|+..|-+||-|+.+=++.+++|..
T Consensus 59 --~~Ve~~~~~~d~~slDgviip~l~~aivDgt 89 (367)
T PRK06851 59 --YDVEFLHCSSDNDSLDGVIIPELKIAILDGT 89 (367)
T ss_pred --CeEEEEEcCCCCCceeeEEecCCCEEEEcCC
Confidence 1235899999999999999887777787754
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=96.59 E-value=0.0034 Score=61.08 Aligned_cols=42 Identities=38% Similarity=0.559 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
++.+.++|..++... .....+|.||||||||+++..+...+.
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 455667777666432 235899999999999998877777654
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=96.54 E-value=0.011 Score=63.30 Aligned_cols=70 Identities=20% Similarity=0.174 Sum_probs=52.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.+++-|.+|+...+... -.||.+|+|+|||-++ ..++..+....
T Consensus 21 ~~~~~Q~~~~~~~~~~~--------~~li~~~TG~GKT~~~~~~~l~~~~~~~--------------------------- 65 (203)
T cd00268 21 KPTPIQARAIPPLLSGR--------DVIGQAQTGSGKTAAFLIPILEKLDPSP--------------------------- 65 (203)
T ss_pred CCCHHHHHHHHHHhcCC--------cEEEECCCCCcHHHHHHHHHHHHHHhhc---------------------------
Confidence 58999999999886532 4899999999999873 44444433210
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
...+.+++|++|+.+-+.++...+.+
T Consensus 66 -------------------------~~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 66 -------------------------KKDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred -------------------------ccCCceEEEEcCCHHHHHHHHHHHHH
Confidence 01367899999999999998887764
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=96.34 E-value=0.0023 Score=61.22 Aligned_cols=24 Identities=50% Similarity=0.793 Sum_probs=20.7
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...+|.||||||||+++..++..+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~ 26 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALAREL 26 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhcc
Confidence 579999999999999988887654
No 41
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=96.28 E-value=0.0078 Score=76.27 Aligned_cols=68 Identities=25% Similarity=0.302 Sum_probs=55.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.||+.|++|+... .|-.||-..||||||+||..=|..++....
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 6899999999753 356777778999999999998888887511
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
-.+.+||+.+-||.|..|+..|+.+
T Consensus 45 -------------------------v~p~~Il~vTFTnkAA~em~~Rl~~ 69 (655)
T COG0210 45 -------------------------VDPEQILAITFTNKAAAEMRERLLK 69 (655)
T ss_pred -------------------------cChHHeeeeechHHHHHHHHHHHHH
Confidence 1234599999999999999999985
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=96.14 E-value=0.0034 Score=61.73 Aligned_cols=22 Identities=50% Similarity=0.794 Sum_probs=18.8
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.||.||||||||+++..+...+
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 3899999999999988877764
No 43
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.95 E-value=0.015 Score=66.21 Aligned_cols=48 Identities=31% Similarity=0.428 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
++.|..|+..+..-...-.......++.||||||||+++.+|...+..
T Consensus 78 ~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~ 125 (244)
T PRK07952 78 CEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLL 125 (244)
T ss_pred CchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence 456666666554311000111236799999999999999999987764
No 44
>PTZ00424 helicase 45; Provisional
Probab=95.93 E-value=0.023 Score=67.29 Aligned_cols=33 Identities=27% Similarity=0.250 Sum_probs=27.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI 1245 (1545)
.+|+-|.+||..++...+ ++|++|+|||||.+.
T Consensus 50 ~~~~~Q~~ai~~i~~~~d--------~ii~apTGsGKT~~~ 82 (401)
T PTZ00424 50 KPSAIQQRGIKPILDGYD--------TIGQAQSGTGKTATF 82 (401)
T ss_pred CCCHHHHHHHHHHhCCCC--------EEEECCCCChHHHHH
Confidence 579999999999876532 679999999999754
No 45
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=95.93 E-value=0.033 Score=67.14 Aligned_cols=71 Identities=24% Similarity=0.244 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
....-|.+||..++... =.|+++|+|||||.+. +.++..++...
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 45689999999998653 2899999999999763 33444443210
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.......++||++||.+-+.++...+.
T Consensus 68 -----------------------~~~~~~~~~lil~Pt~eLa~Q~~~~~~ 94 (434)
T PRK11192 68 -----------------------RRKSGPPRILILTPTRELAMQVADQAR 94 (434)
T ss_pred -----------------------ccCCCCceEEEECCcHHHHHHHHHHHH
Confidence 001124689999999998888777655
No 46
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=95.90 E-value=0.0085 Score=62.49 Aligned_cols=46 Identities=20% Similarity=0.307 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.|.+.+...+... ........+|.||||||||+++..+...+-..
T Consensus 6 ~~e~~~l~~~l~~~--~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 6 EEEIERLRDLLDAA--QSGSPRNLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp HHHHHHHHHTTGGT--SS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH--HcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 45667777776422 23445799999999999999988877766543
No 47
>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=95.84 E-value=0.0086 Score=70.02 Aligned_cols=47 Identities=21% Similarity=0.239 Sum_probs=32.5
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-+.|.++|...+...- .....+..+|.||||||||+++..++..+-.
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 48
>PLN03025 replication factor C subunit; Provisional
Probab=95.77 E-value=0.013 Score=68.36 Aligned_cols=44 Identities=34% Similarity=0.527 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.|+...+.+...+... ..+-.|++||||||||+++.++...++.
T Consensus 17 g~~~~~~~L~~~~~~~-----~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 17 GNEDAVSRLQVIARDG-----NMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred CcHHHHHHHHHHHhcC-----CCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 4566666666665442 2235799999999999999999988864
No 49
>PHA02558 uvsW UvsW helicase; Provisional
Probab=95.77 E-value=0.031 Score=69.27 Aligned_cols=69 Identities=16% Similarity=0.181 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.+-+-|.+||..++... -.+++.|.|+|||.++..++..++..
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 57789999999887542 35899999999999776554433321
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
.+.++||++|+.+-++++..++.+-+
T Consensus 157 --------------------------~~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 157 --------------------------YEGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred --------------------------CCCeEEEEECcHHHHHHHHHHHHHhc
Confidence 13489999999999999999998643
No 50
>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=95.68 E-value=0.012 Score=66.52 Aligned_cols=26 Identities=27% Similarity=0.365 Sum_probs=21.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.-.|+.||||||||++...+...+..
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 45689999999999998888776643
No 51
>PRK12377 putative replication protein; Provisional
Probab=95.50 E-value=0.011 Score=67.40 Aligned_cols=27 Identities=41% Similarity=0.527 Sum_probs=23.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+|.||||||||++..+|...+...
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~~~ 128 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLLAK 128 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 467999999999999999999988753
No 52
>PRK05580 primosome assembly protein PriA; Validated
Probab=95.41 E-value=0.046 Score=70.32 Aligned_cols=70 Identities=20% Similarity=0.324 Sum_probs=52.8
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..+++.|.+|+...+... .....|++||+|+|||.+.+.++...+..
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 368999999999886531 12469999999999998876555443321
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
++++||.+|+-+=+++++.++.+
T Consensus 190 ----------------------------g~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 190 ----------------------------GKQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred ----------------------------CCeEEEEeCcHHHHHHHHHHHHH
Confidence 35788889999888888888874
No 53
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.37 E-value=0.01 Score=69.72 Aligned_cols=25 Identities=48% Similarity=0.757 Sum_probs=20.8
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..+.|+|||||||||+.-.|+...|
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkL 201 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKL 201 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhh
Confidence 4689999999999999877776544
No 54
>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=95.35 E-value=0.032 Score=76.00 Aligned_cols=67 Identities=27% Similarity=0.359 Sum_probs=52.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
++++.|.+||..- ..-.||-+.+|||||+|++.-+-.++...
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 13579999999999999998776655420
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
....+|||.+-||+|..|+-.||.+
T Consensus 43 -------------------------~~~~~il~~tFt~~aa~e~~~ri~~ 67 (1232)
T TIGR02785 43 -------------------------VDIDRLLVVTFTNAAAREMKERIEE 67 (1232)
T ss_pred -------------------------CCHhhEEEEeccHHHHHHHHHHHHH
Confidence 0125799999999999999998874
No 55
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=95.19 E-value=0.064 Score=65.36 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=27.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkT 1244 (1545)
.+++-|.+||...+... =.++++|.|||||.+
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 57899999999987643 389999999999954
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=95.18 E-value=0.04 Score=58.08 Aligned_cols=24 Identities=42% Similarity=0.580 Sum_probs=19.7
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
++||-||||||||.....++...+
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 379999999999998877766544
No 57
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=95.12 E-value=0.064 Score=68.43 Aligned_cols=44 Identities=20% Similarity=0.170 Sum_probs=31.4
Q ss_pred HHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH
Q 000413 1200 QILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1200 ~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI 1245 (1545)
+.+-..+.+.|.+||...+.... ...+--.|||||.|||||-+.
T Consensus 230 ~~lpf~lt~~Q~~ai~~I~~~~~--~~~~~~~Ll~g~TGSGKT~va 273 (630)
T TIGR00643 230 ASLPFKLTRAQKRVVKEILQDLK--SDVPMNRLLQGDVGSGKTLVA 273 (630)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhc--cCCCccEEEECCCCCcHHHHH
Confidence 34445889999999988775421 111224799999999999764
No 58
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=95.09 E-value=0.029 Score=64.60 Aligned_cols=43 Identities=30% Similarity=0.550 Sum_probs=32.0
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
++...+.+..++... ..+..||.||||||||+++.++...+..
T Consensus 20 ~~~~~~~L~~~~~~~-----~~~~lll~Gp~GtGKT~la~~~~~~l~~ 62 (337)
T PRK12402 20 QDEVVERLSRAVDSP-----NLPHLLVQGPPGSGKTAAVRALARELYG 62 (337)
T ss_pred CHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 566666677666542 2245899999999999999998877653
No 59
>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=95.01 E-value=0.049 Score=60.87 Aligned_cols=42 Identities=33% Similarity=0.455 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..|..|..|+.+.+.. +++.+.||+|||||.+.++.-..++.
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 59999999999999877766554444
No 60
>PRK10536 hypothetical protein; Provisional
Probab=95.00 E-value=0.052 Score=62.63 Aligned_cols=41 Identities=27% Similarity=0.281 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..|..|..++.+... .++++|.||+|||||++.+++....+
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 679999999885532 25999999999999999988877444
No 61
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=94.98 E-value=0.016 Score=65.83 Aligned_cols=28 Identities=43% Similarity=0.744 Sum_probs=24.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+=-+|-||||||||+.|..+-..||..
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG~ 75 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLGD 75 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhCh
Confidence 3567899999999999999999988864
No 62
>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=94.96 E-value=0.033 Score=63.91 Aligned_cols=43 Identities=26% Similarity=0.441 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+.|.+++..++... .++.+|-||+|+|||||+.+++..+.
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 57888999998876543 37999999999999999999888764
No 63
>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=94.93 E-value=0.035 Score=74.81 Aligned_cols=56 Identities=34% Similarity=0.388 Sum_probs=46.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSS 1307 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss 1307 (1545)
.|..||-.-+|||||.||.+++-.|+-...
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 000413 1308 ESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1308 ~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.....+|||.+-||+|.-|+-.|+.+
T Consensus 39 -~~~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 39 -PLTVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred -CCChhhEEEEehhHHHHHHHHHHHHH
Confidence 01246899999999999999999974
No 64
>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=94.78 E-value=0.022 Score=57.89 Aligned_cols=22 Identities=45% Similarity=0.758 Sum_probs=19.2
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.||.||||||||+++..+...+
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 5899999999999988877766
No 65
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.74 E-value=0.11 Score=67.06 Aligned_cols=47 Identities=19% Similarity=0.198 Sum_probs=33.0
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1198 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1198 L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
+.+.+...+.+.|.+||...+.... .....-.|||||.|||||-+..
T Consensus 254 ~~~~l~f~lt~~Q~~ai~~I~~d~~--~~~~~~~Ll~~~TGSGKT~va~ 300 (681)
T PRK10917 254 FLASLPFELTGAQKRVVAEILADLA--SPKPMNRLLQGDVGSGKTVVAA 300 (681)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHhhh--ccCCceEEEECCCCCcHHHHHH
Confidence 3444556899999999988765321 1112357999999999997554
No 66
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.72 E-value=0.033 Score=65.96 Aligned_cols=26 Identities=46% Similarity=0.649 Sum_probs=22.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+..+|.||||||||+++..++..+-.
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~l~~ 81 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEELEE 81 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 46799999999999999998887644
No 67
>PRK06893 DNA replication initiation factor; Validated
Probab=94.72 E-value=0.026 Score=63.01 Aligned_cols=28 Identities=21% Similarity=0.281 Sum_probs=24.4
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.++.+|+|||||||||.+.++...+...
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~ 66 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLN 66 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3678999999999999999999887654
No 68
>PRK08181 transposase; Validated
Probab=94.68 E-value=0.041 Score=63.60 Aligned_cols=47 Identities=30% Similarity=0.373 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+|..|..|+..+-.- .....-.+|.||||||||+...+|...++..
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 1112358999999999999999998887753
No 69
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=94.66 E-value=0.024 Score=56.30 Aligned_cols=27 Identities=41% Similarity=0.655 Sum_probs=20.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.++.+|.||||+|||+++..+...+..
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 468999999999999999888887654
No 70
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=94.65 E-value=0.07 Score=72.13 Aligned_cols=75 Identities=23% Similarity=0.227 Sum_probs=56.2
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHH
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIAR 1285 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar 1285 (1545)
+=.-|.+||.+....- .....=.||+.|.|||||.|.++++..++...
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 4468999997765321 01123489999999999999999988877531
Q ss_pred HHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcCC
Q 000413 1286 AWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGL 1337 (1545)
Q Consensus 1286 ~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl 1337 (1545)
..+|||+.+|+++=++.....+...|+
T Consensus 462 -------------------------~~~rVLfLvDR~~L~~Qa~~~F~~~~~ 488 (1123)
T PRK11448 462 -------------------------RFRRILFLVDRSALGEQAEDAFKDTKI 488 (1123)
T ss_pred -------------------------ccCeEEEEecHHHHHHHHHHHHHhccc
Confidence 136899999999999999988876544
No 71
>PRK00254 ski2-like helicase; Provisional
Probab=94.62 E-value=0.11 Score=67.06 Aligned_cols=67 Identities=16% Similarity=0.210 Sum_probs=50.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.+|+-|.+||...+... .=++|+.|.|+|||.+. ++++..++.
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 24799999999999766 333333321
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.+.++|+.+|+-+=+++...++.+
T Consensus 67 ---------------------------~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 67 ---------------------------EGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred ---------------------------cCCeEEEEeChHHHHHHHHHHHHH
Confidence 145899999999999999998874
No 72
>PRK01172 ski2-like helicase; Provisional
Probab=94.59 E-value=0.12 Score=66.33 Aligned_cols=33 Identities=24% Similarity=0.191 Sum_probs=27.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI 1245 (1545)
.+++.|.+||...... .-.+|++|.|+|||...
T Consensus 22 ~l~~~Q~~ai~~l~~~--------~nvlv~apTGSGKTl~a 54 (674)
T PRK01172 22 ELYDHQRMAIEQLRKG--------ENVIVSVPTAAGKTLIA 54 (674)
T ss_pred CCCHHHHHHHHHHhcC--------CcEEEECCCCchHHHHH
Confidence 6899999999986443 24899999999999753
No 73
>PRK08084 DNA replication initiation factor; Provisional
Probab=94.56 E-value=0.053 Score=60.91 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=32.2
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-|.....++....... .....+|.|||||||||.+.++...+..
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 6766666666654322 2357899999999999999988877664
No 74
>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=94.55 E-value=0.028 Score=60.93 Aligned_cols=27 Identities=44% Similarity=0.692 Sum_probs=23.5
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.=.+|+||||||||+..++|...++..
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 458899999999999999999988874
No 75
>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=94.49 E-value=0.04 Score=63.19 Aligned_cols=24 Identities=38% Similarity=0.638 Sum_probs=20.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+-.+|.||||||||+++..+...+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 458999999999999988876654
No 76
>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=94.48 E-value=0.12 Score=66.72 Aligned_cols=47 Identities=6% Similarity=0.093 Sum_probs=29.9
Q ss_pred CCeEEEEeCChHHHHHHHHHHHhcC--CCCCCCCcCCCceeEEcccccc
Q 000413 1312 RARVLICAQSNAAVDELVSRISKEG--LYGSDGKTYKPYLVRVGNVKTV 1358 (1545)
Q Consensus 1312 k~RILVCAPSNAAVDEIV~RLlk~G--l~d~dGk~ykp~VVRVG~~~aI 1358 (1545)
..||..|+.|++=+..++.-|.+.. .....|..-....|=+|..+.+
T Consensus 60 ~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~~~~~~i~~v~L~SR~~l 108 (705)
T TIGR00604 60 VRKIIYASRTHSQLEQATEELRKLMSYRTPRIGEESPVSGLSLASRKNL 108 (705)
T ss_pred cccEEEEcccchHHHHHHHHHHhhhhccccccccCCceeEEEechHhhc
Confidence 3689999999999999998887532 1111111112456677776653
No 77
>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=94.46 E-value=0.12 Score=63.49 Aligned_cols=31 Identities=29% Similarity=0.366 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1243 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTk 1243 (1545)
.+.+-|.+||.+++... =++|+.|.|+|||-
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 68899999999998653 37999999999994
No 78
>PRK06526 transposase; Provisional
Probab=94.42 E-value=0.042 Score=62.86 Aligned_cols=27 Identities=33% Similarity=0.506 Sum_probs=23.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+|.||||||||++..+|...+...
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 457999999999999999998877653
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=94.29 E-value=0.033 Score=56.10 Aligned_cols=24 Identities=33% Similarity=0.595 Sum_probs=20.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+++|.||||||||+++..+...+.
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIA 24 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHH
Confidence 478999999999999998887654
No 80
>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=94.27 E-value=0.048 Score=67.76 Aligned_cols=43 Identities=30% Similarity=0.424 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+.|.+++..++... .|+.||-||+|+|||||+.+++..+-
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 48999999999999999988877664
No 81
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.08 E-value=0.051 Score=63.62 Aligned_cols=25 Identities=36% Similarity=0.604 Sum_probs=20.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+-.||.||||||||+++..+...+
T Consensus 51 ~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 51 LDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CCcEEEECCCCccHHHHHHHHHHHh
Confidence 3578999999999999988776654
No 82
>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=94.04 E-value=0.039 Score=63.88 Aligned_cols=25 Identities=32% Similarity=0.454 Sum_probs=20.4
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-.||.||||||||++..++...+..
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~ 84 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHR 84 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4799999999999988777666544
No 83
>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=94.04 E-value=0.066 Score=63.56 Aligned_cols=42 Identities=29% Similarity=0.441 Sum_probs=33.0
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..+|+.-.++|..++... +-.||.||||||||+++..+...+
T Consensus 47 y~f~~~~~~~vl~~l~~~-------~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYD-------RRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred ccCCHHHHHHHHHHHhcC-------CcEEEEeCCCChHHHHHHHHHHHH
Confidence 357888888999888542 358999999999999887776544
No 84
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=94.01 E-value=0.08 Score=57.22 Aligned_cols=41 Identities=27% Similarity=0.394 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+++.|.+.+..++... .+.+|-||+|+|||+++.+|+..+
T Consensus 9 ~~~~~~~~~l~~~v~~g-------~~i~I~G~tGSGKTTll~aL~~~i 49 (186)
T cd01130 9 TFSPLQAAYLWLAVEAR-------KNILISGGTGSGKTTLLNALLAFI 49 (186)
T ss_pred CCCHHHHHHHHHHHhCC-------CEEEEECCCCCCHHHHHHHHHhhc
Confidence 57888999998887542 599999999999999998877643
No 85
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=93.99 E-value=0.18 Score=64.66 Aligned_cols=33 Identities=21% Similarity=0.140 Sum_probs=27.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI 1245 (1545)
..++-|.+||...+... -+|+|+|+|||||.+.
T Consensus 28 ~ptpiQ~~ai~~ll~g~--------dvl~~ApTGsGKT~af 60 (629)
T PRK11634 28 KPSPIQAECIPHLLNGR--------DVLGMAQTGSGKTAAF 60 (629)
T ss_pred CCCHHHHHHHHHHHcCC--------CEEEEcCCCCcHHHHH
Confidence 56799999999987542 4899999999999763
No 86
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=93.97 E-value=0.1 Score=68.52 Aligned_cols=21 Identities=10% Similarity=0.360 Sum_probs=19.5
Q ss_pred CeEEEEeCChHHHHHHHHHHH
Q 000413 1313 ARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1313 ~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.+|||+.|+..|.-.++.|+.
T Consensus 49 ~~ilvlqPrR~aA~qia~rva 69 (812)
T PRK11664 49 GKIIMLEPRRLAARNVAQRLA 69 (812)
T ss_pred CeEEEECChHHHHHHHHHHHH
Confidence 479999999999999999986
No 87
>PRK14974 cell division protein FtsY; Provisional
Probab=93.95 E-value=0.13 Score=61.32 Aligned_cols=26 Identities=35% Similarity=0.364 Sum_probs=22.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+.++-||||+|||||+..+...+.
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~ 165 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLK 165 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 46899999999999999998887653
No 88
>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=93.93 E-value=0.13 Score=67.51 Aligned_cols=23 Identities=9% Similarity=0.263 Sum_probs=20.4
Q ss_pred CCeEEEEeCChHHHHHHHHHHHh
Q 000413 1312 RARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1312 k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
+.+|+|++|+-.|.-.+..|+.+
T Consensus 45 ~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 45 GGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHH
Confidence 35899999999999999999963
No 89
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=93.90 E-value=0.096 Score=57.81 Aligned_cols=46 Identities=13% Similarity=0.135 Sum_probs=32.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.-|.....++...... .......+|.||||||||+...++...+..
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 3455566666655431 123457899999999999999888876654
No 90
>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=93.85 E-value=0.12 Score=55.38 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=19.1
Q ss_pred CCCeEEEEeCChHHHHHHHHHHH
Q 000413 1311 VRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1311 ~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.+.|+||.|||-+.++|+..-|.
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 91
>PF05729 NACHT: NACHT domain
Probab=93.83 E-value=0.055 Score=55.13 Aligned_cols=26 Identities=27% Similarity=0.524 Sum_probs=23.4
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.+|+|+||+|||++...++..+...
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~ 27 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEE 27 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhc
Confidence 68999999999999999998888765
No 92
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=93.82 E-value=0.22 Score=61.24 Aligned_cols=71 Identities=18% Similarity=0.226 Sum_probs=55.8
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..+++-|.+|+.+...... . ..-.+|+-|+|+|||.+.+.++..+
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 4688999999998876422 1 4578999999999999887776532
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcCC
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEGL 1337 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl 1337 (1545)
+.++||++|+..-++.-..++.+...
T Consensus 80 ----------------------------~~~~Lvlv~~~~L~~Qw~~~~~~~~~ 105 (442)
T COG1061 80 ----------------------------KRSTLVLVPTKELLDQWAEALKKFLL 105 (442)
T ss_pred ----------------------------cCCEEEEECcHHHHHHHHHHHHHhcC
Confidence 23499999999999999988875433
No 93
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.81 E-value=0.082 Score=60.96 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..|+...+.+...+... ..+.+.||.||||||||+++.++...+
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 45666666777666532 234688889999999999988886654
No 94
>CHL00181 cbbX CbbX; Provisional
Probab=93.80 E-value=0.086 Score=61.29 Aligned_cols=24 Identities=33% Similarity=0.533 Sum_probs=19.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
-.|+.||||||||++..++...+.
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~~ 84 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADILY 84 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 378999999999999888866554
No 95
>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=93.73 E-value=0.051 Score=59.50 Aligned_cols=26 Identities=35% Similarity=0.691 Sum_probs=23.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
|+.+|-||+|+|||||+.+++..+..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~ 27 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINK 27 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhh
Confidence 68999999999999999888887653
No 96
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.71 E-value=0.045 Score=64.98 Aligned_cols=22 Identities=45% Similarity=0.641 Sum_probs=18.8
Q ss_pred eEEEecCCCCCchHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
-.||.||||||||+++.++...
T Consensus 158 gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHh
Confidence 4899999999999998887654
No 97
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.65 E-value=0.097 Score=59.83 Aligned_cols=43 Identities=28% Similarity=0.468 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
++.+.+++..++... ..+..||.||||||||+++..+...+..
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 456667777766542 1234699999999999999888887754
No 98
>PRK04195 replication factor C large subunit; Provisional
Probab=93.57 E-value=0.073 Score=65.77 Aligned_cols=46 Identities=28% Similarity=0.253 Sum_probs=30.6
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.|+.+.+.+...+.... ........||.||||||||+++.++...+
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 56666666665543211 01124689999999999999988776654
No 99
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.037 Score=67.59 Aligned_cols=23 Identities=48% Similarity=0.730 Sum_probs=19.7
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
=-|..||||||||+.|.||-+.|
T Consensus 237 GYLLYGPPGTGKSS~IaAmAn~L 259 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSFIAAMANYL 259 (457)
T ss_pred cceeeCCCCCCHHHHHHHHHhhc
Confidence 36899999999999999987644
No 100
>PRK10436 hypothetical protein; Provisional
Probab=93.53 E-value=0.092 Score=64.98 Aligned_cols=43 Identities=30% Similarity=0.455 Sum_probs=36.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+.|.+.+..++... .|+.||-||.|+|||||+.+++..+.
T Consensus 201 G~~~~~~~~l~~~~~~~------~GliLvtGpTGSGKTTtL~a~l~~~~ 243 (462)
T PRK10436 201 GMTPAQLAQFRQALQQP------QGLILVTGPTGSGKTVTLYSALQTLN 243 (462)
T ss_pred CcCHHHHHHHHHHHHhc------CCeEEEECCCCCChHHHHHHHHHhhC
Confidence 57788888888876543 48999999999999999998888764
No 101
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=93.51 E-value=0.36 Score=59.21 Aligned_cols=74 Identities=18% Similarity=0.226 Sum_probs=51.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv-gLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.+++-|.+||..++... =.|++.|.|||||-+.+ .++..+......
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 67899999999987643 28999999999997643 334333321000
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.......++||.+|+.+-+.++...+.+
T Consensus 70 -----------------------~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 70 -----------------------AKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred -----------------------cccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 0011246899999999998888888764
No 102
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.50 E-value=0.36 Score=58.42 Aligned_cols=41 Identities=27% Similarity=0.265 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH-HHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv-gLVsaLL 1253 (1545)
..++-|.+||..++...+ .++|+|.|||||.+.+ .++..++
T Consensus 30 ~pt~iQ~~aip~il~g~d--------vi~~ApTGsGKTla~llp~l~~l~ 71 (423)
T PRK04837 30 NCTPIQALALPLTLAGRD--------VAGQAQTGTGKTMAFLTATFHYLL 71 (423)
T ss_pred CCCHHHHHHHHHHhCCCc--------EEEECCCCchHHHHHHHHHHHHHH
Confidence 568999999999886542 7999999999997643 3333443
No 103
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=93.46 E-value=0.13 Score=60.99 Aligned_cols=50 Identities=28% Similarity=0.391 Sum_probs=38.2
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1198 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1198 L~~~Lk~-~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.++++. .+++.|.+.+..|+... +-.||-||+|+|||+++.+|+..+..
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 3344433 58889999998887643 35699999999999999998887653
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=93.45 E-value=0.12 Score=56.43 Aligned_cols=44 Identities=23% Similarity=0.204 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-|..-.+++...+.. ...+..+|.||||||||+++..+......
T Consensus 21 ~~~~~~~~l~~~~~~-----~~~~~lll~G~~G~GKT~la~~~~~~~~~ 64 (226)
T TIGR03420 21 GNAELLAALRQLAAG-----KGDRFLYLWGESGSGKSHLLQAACAAAEE 64 (226)
T ss_pred CcHHHHHHHHHHHhc-----CCCCeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 344444555544321 23468999999999999999888776553
No 105
>PRK04296 thymidine kinase; Provisional
Probab=93.40 E-value=0.1 Score=56.95 Aligned_cols=25 Identities=20% Similarity=0.308 Sum_probs=21.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.||-||||+|||+.+++++..+..
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~ 28 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEE 28 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHH
Confidence 8999999999999999888876654
No 106
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=93.39 E-value=0.28 Score=62.56 Aligned_cols=46 Identities=26% Similarity=0.346 Sum_probs=33.3
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1198 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1198 L~~~Lk~-~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+++.+.. .+.+.|.+||.+++... =+++.+|.|+|||- +.++.+++
T Consensus 17 l~~~fG~~~~r~~Q~~ai~~il~g~--------dvlv~apTGsGKTl--~y~lpal~ 63 (607)
T PRK11057 17 LQETFGYQQFRPGQQEIIDAVLSGR--------DCLVVMPTGGGKSL--CYQIPALV 63 (607)
T ss_pred HHHHcCCCCCCHHHHHHHHHHHcCC--------CEEEEcCCCchHHH--HHHHHHHH
Confidence 5555443 68899999999988653 36889999999984 34455443
No 107
>PRK09183 transposase/IS protein; Provisional
Probab=93.34 E-value=0.095 Score=60.04 Aligned_cols=45 Identities=24% Similarity=0.339 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..|..|...+..+- ........+|.||||||||+...+|...+..
T Consensus 84 ~~~~~~i~~L~~~~-----~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~ 128 (259)
T PRK09183 84 GAPQKQLQSLRSLS-----FIERNENIVLLGPSGVGKTHLAIALGYEAVR 128 (259)
T ss_pred CCCHHHHHHHhcCC-----chhcCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 55666666654320 1122356889999999999999998665443
No 108
>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=93.34 E-value=0.16 Score=59.61 Aligned_cols=23 Identities=22% Similarity=0.434 Sum_probs=21.0
Q ss_pred CCeEEEEeCChHHHHHHHHHHHh
Q 000413 1312 RARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1312 k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..|+++++|+.+.++++..|+.+
T Consensus 29 ~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 29 ADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred CCeEEEEeehHHHHHHHHHHHHH
Confidence 46899999999999999999985
No 109
>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=93.33 E-value=0.099 Score=66.06 Aligned_cols=42 Identities=29% Similarity=0.438 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+.+.|.+.+..++... .|+.||-||+|+|||||+.+++..+
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 57788899998876543 4899999999999999999988866
No 110
>PRK09401 reverse gyrase; Reviewed
Probab=93.27 E-value=0.26 Score=67.22 Aligned_cols=72 Identities=19% Similarity=0.105 Sum_probs=51.5
Q ss_pred HhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchh
Q 000413 1201 ILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQS 1280 (1545)
Q Consensus 1201 ~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s 1280 (1545)
.+.....+-|..||..++... =.+|++|.|||||.....++. .+.
T Consensus 76 ~~G~~pt~iQ~~~i~~il~g~--------dv~i~ApTGsGKT~f~l~~~~-~l~-------------------------- 120 (1176)
T PRK09401 76 KTGSKPWSLQRTWAKRLLLGE--------SFAIIAPTGVGKTTFGLVMSL-YLA-------------------------- 120 (1176)
T ss_pred hcCCCCcHHHHHHHHHHHCCC--------cEEEEcCCCCCHHHHHHHHHH-HHH--------------------------
Confidence 333467889999999987653 368999999999964322211 111
Q ss_pred HHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1281 AAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1281 ~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
..+.++||.+||..=++++..++.+.|
T Consensus 121 -----------------------------~~g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 121 -----------------------------KKGKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred -----------------------------hcCCeEEEEeccHHHHHHHHHHHHHHh
Confidence 014689999999999999999998543
No 111
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=93.25 E-value=0.15 Score=60.30 Aligned_cols=49 Identities=29% Similarity=0.422 Sum_probs=37.8
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1198 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1198 L~~~Lk~-~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.++.+. .+++.|.+.+..|+... +-.+|-||||+|||+++.+|+..+.
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 4789999999999999988887664
No 112
>PRK13767 ATP-dependent helicase; Provisional
Probab=93.16 E-value=0.34 Score=64.31 Aligned_cols=80 Identities=23% Similarity=0.298 Sum_probs=54.7
Q ss_pred HHHHhh---cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCC
Q 000413 1198 LQQILK---TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINS 1273 (1545)
Q Consensus 1198 L~~~Lk---~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~ 1273 (1545)
++++++ ..+++-|.+||...+... =+||+.|.|||||-.. +.++..++.....
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 444443 258999999999886543 3899999999999763 3445555432100
Q ss_pred CCccchhHHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1274 RPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1274 rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.....+.++|+.+|+.+-..++..+|.
T Consensus 79 ---------------------------------~~~~~~~~~LyIsPtraLa~di~~~L~ 105 (876)
T PRK13767 79 ---------------------------------GELEDKVYCLYVSPLRALNNDIHRNLE 105 (876)
T ss_pred ---------------------------------cCCCCCeEEEEEcCHHHHHHHHHHHHH
Confidence 000235689999999998888877664
No 113
>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=93.16 E-value=0.058 Score=54.46 Aligned_cols=21 Identities=33% Similarity=0.714 Sum_probs=18.0
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+.++-||||+||||.+-.+..
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 468899999999999877764
No 114
>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=93.14 E-value=0.12 Score=60.33 Aligned_cols=46 Identities=30% Similarity=0.312 Sum_probs=33.6
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
-++...+.+..++... +.....|+.||||||||+++..+...++..
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 3566666666666432 223467999999999999999998887754
No 115
>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=93.11 E-value=0.17 Score=55.91 Aligned_cols=26 Identities=35% Similarity=0.572 Sum_probs=21.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+.++-||+|.|||||+.-|-..+..
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~ 27 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKL 27 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhh
Confidence 36788999999999999988776543
No 116
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.04 E-value=0.087 Score=60.30 Aligned_cols=27 Identities=44% Similarity=0.660 Sum_probs=23.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..-.++-||||||||+..++|-..++.
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~ 131 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELLK 131 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHH
Confidence 346789999999999999999998884
No 117
>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=92.96 E-value=0.084 Score=52.08 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=18.1
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+.+|.||||+||||+...|...+
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHH
Confidence 35799999999999876666543
No 118
>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=92.94 E-value=0.14 Score=57.09 Aligned_cols=49 Identities=22% Similarity=0.243 Sum_probs=33.7
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|.-=..|+.......+ .......|.||+|+||||.+.++...+...
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 3456555555555444422 122346899999999999999999988865
No 119
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.84 E-value=0.1 Score=64.15 Aligned_cols=24 Identities=38% Similarity=0.560 Sum_probs=19.8
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+.-.||+||||||||.++-++...
T Consensus 217 p~gVLL~GPPGTGKT~LAraIA~e 240 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKAVANE 240 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh
Confidence 346889999999999998877664
No 120
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.82 E-value=0.14 Score=63.30 Aligned_cols=41 Identities=27% Similarity=0.455 Sum_probs=31.0
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+...+.+..++... +-.+++||||||||+++..+...+.
T Consensus 179 i~e~~le~l~~~L~~~-------~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 179 IPETTIETILKRLTIK-------KNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred CCHHHHHHHHHHHhcC-------CCEEEECCCCCCHHHHHHHHHHHhc
Confidence 4566777777776543 4788899999999999887766553
No 121
>PTZ00110 helicase; Provisional
Probab=92.74 E-value=0.45 Score=60.01 Aligned_cols=74 Identities=16% Similarity=0.145 Sum_probs=50.5
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
...+-|.+||-.++...+ .++++|.|||||-+- +.++..++....
T Consensus 152 ~pt~iQ~~aip~~l~G~d--------vI~~ApTGSGKTlaylLP~l~~i~~~~~-------------------------- 197 (545)
T PTZ00110 152 EPTPIQVQGWPIALSGRD--------MIGIAETGSGKTLAFLLPAIVHINAQPL-------------------------- 197 (545)
T ss_pred CCCHHHHHHHHHHhcCCC--------EEEEeCCCChHHHHHHHHHHHHHHhccc--------------------------
Confidence 467999999999986543 578999999999753 233333332100
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhc
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1335 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1335 (1545)
......+.+||.|||.+-+.++...+.+.
T Consensus 198 -----------------------~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 198 -----------------------LRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred -----------------------ccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 00113568999999999888887777653
No 122
>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=92.73 E-value=0.25 Score=63.71 Aligned_cols=76 Identities=20% Similarity=0.220 Sum_probs=55.7
Q ss_pred CHHHHHHHHHHHccCCC--CccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1207 NESQLQAISVAIGLSSS--WKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~--~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
..-|..||..++.+... ......-.||+-|.|||||.|++.++..|+..
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~----------------------------- 290 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALEL----------------------------- 290 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhh-----------------------------
Confidence 34589999887654210 00123468999999999999999998877642
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
....||||.+|.+.=++.+...+.+.|
T Consensus 291 -------------------------~~~~~vl~lvdR~~L~~Q~~~~f~~~~ 317 (667)
T TIGR00348 291 -------------------------LKNPKVFFVVDRRELDYQLMKEFQSLQ 317 (667)
T ss_pred -------------------------cCCCeEEEEECcHHHHHHHHHHHHhhC
Confidence 124689999999998888888887554
No 123
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.72 E-value=0.41 Score=60.75 Aligned_cols=75 Identities=23% Similarity=0.240 Sum_probs=52.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv-gLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
..++-|.+||..++...+ .+|++|.|||||.+.+ .++..++.... . .
T Consensus 31 ~ptpiQ~~~ip~~l~G~D--------vi~~ApTGSGKTlafllpil~~l~~~~~---------~----------~----- 78 (572)
T PRK04537 31 RCTPIQALTLPVALPGGD--------VAGQAQTGTGKTLAFLVAVMNRLLSRPA---------L----------A----- 78 (572)
T ss_pred CCCHHHHHHHHHHhCCCC--------EEEEcCCCCcHHHHHHHHHHHHHHhccc---------c----------c-----
Confidence 578999999999986532 8999999999997643 34444443200 0 0
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.......++||++||.+-+.++..++.+
T Consensus 79 -----------------------~~~~~~~raLIl~PTreLa~Qi~~~~~~ 106 (572)
T PRK04537 79 -----------------------DRKPEDPRALILAPTRELAIQIHKDAVK 106 (572)
T ss_pred -----------------------ccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 0011246899999999999999888764
No 124
>PHA00729 NTP-binding motif containing protein
Probab=92.71 E-value=0.083 Score=59.90 Aligned_cols=24 Identities=25% Similarity=0.465 Sum_probs=21.5
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
-.+|.||||||||+...+|...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578999999999999999988765
No 125
>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=92.68 E-value=0.13 Score=58.76 Aligned_cols=22 Identities=32% Similarity=0.513 Sum_probs=18.5
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.-.||.||||||||+.+..+-.
T Consensus 22 ~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 22 YPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH
Confidence 3578999999999998877754
No 126
>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=92.65 E-value=0.11 Score=59.04 Aligned_cols=23 Identities=39% Similarity=0.674 Sum_probs=15.9
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+-.|.+||||||||+. ..+|..
T Consensus 50 l~h~lf~GPPG~GKTTL-A~IIA~ 72 (233)
T PF05496_consen 50 LDHMLFYGPPGLGKTTL-ARIIAN 72 (233)
T ss_dssp --EEEEESSTTSSHHHH-HHHHHH
T ss_pred cceEEEECCCccchhHH-HHHHHh
Confidence 35689999999999874 344443
No 127
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=92.63 E-value=0.18 Score=68.69 Aligned_cols=62 Identities=32% Similarity=0.394 Sum_probs=46.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccccc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSS 1307 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss 1307 (1545)
.|..||----|||||.||.++.-.|+-..... .++ .+
T Consensus 17 ~G~~LIEASAGTGKTyTIa~lyLrLlL~~g~~-----~~~-----~~--------------------------------- 53 (1181)
T PRK10876 17 QGERLIEASAGTGKTFTIAALYLRLLLGLGGS-----AAF-----PR--------------------------------- 53 (1181)
T ss_pred CCCEEEEeCCCCcHHHHHHHHHHHHHccCCcc-----ccc-----cC---------------------------------
Confidence 47999999999999999999988777542110 000 00
Q ss_pred cccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1308 ESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1308 ~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.-....|||.+-||||..|+-.||.
T Consensus 54 -~L~~~~ILvvTFT~aAt~Elr~RIr 78 (1181)
T PRK10876 54 -PLTVEEILVVTFTEAATEELRGRIR 78 (1181)
T ss_pred -CCChhhEEEEechHHHHHHHHHHHH
Confidence 0123589999999999999999986
No 128
>PRK08116 hypothetical protein; Validated
Probab=92.58 E-value=0.094 Score=60.38 Aligned_cols=26 Identities=35% Similarity=0.422 Sum_probs=23.4
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
-.+|+||||||||+...+|...++..
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~ 141 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEK 141 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 47999999999999999999988764
No 129
>PRK02362 ski2-like helicase; Provisional
Probab=92.55 E-value=0.4 Score=62.33 Aligned_cols=66 Identities=18% Similarity=0.181 Sum_probs=49.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH-HHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv-gLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.+++.|.+||...+... .=.||+.|.|+|||.... +++..+.
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 248999999999997542 2222221
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
++.|+|+++|+-+=++|...++.+
T Consensus 66 ---------------------------~~~kal~i~P~raLa~q~~~~~~~ 89 (737)
T PRK02362 66 ---------------------------RGGKALYIVPLRALASEKFEEFER 89 (737)
T ss_pred ---------------------------cCCcEEEEeChHHHHHHHHHHHHH
Confidence 146899999999999999999874
No 130
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=92.55 E-value=0.57 Score=58.59 Aligned_cols=41 Identities=32% Similarity=0.361 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHH-HHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT-IVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkT-IvgLVsaLL 1253 (1545)
.+++-|.+||..++... =.+++.|.|||||-. ++.++..++
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 56899999999998653 389999999999964 334444444
No 131
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=92.52 E-value=0.12 Score=67.56 Aligned_cols=47 Identities=23% Similarity=0.371 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.|.+.|..+|...-.......+.+|-||||||||.|+..++..|-.
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 56777776665421000111235569999999999999998877643
No 132
>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=92.52 E-value=0.44 Score=63.64 Aligned_cols=47 Identities=21% Similarity=0.149 Sum_probs=31.9
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1198 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1198 L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
+.+.+...+.+.|.+||...+.... ...+.=.|||||.|+|||-+.+
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 3444445688999999998875321 0111236999999999997643
No 133
>PRK06921 hypothetical protein; Provisional
Probab=92.48 E-value=0.093 Score=60.42 Aligned_cols=27 Identities=30% Similarity=0.524 Sum_probs=23.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.++.||||||||+++.+|...++..
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 134
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=92.43 E-value=0.35 Score=56.37 Aligned_cols=43 Identities=16% Similarity=0.074 Sum_probs=27.5
Q ss_pred HHHhcCCcEEEEcCCCCCccccccccccccCcccCCCCCCCCCcEEEEecCccc
Q 000413 1486 KSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQV 1539 (1545)
Q Consensus 1486 keIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~~~~~FDtVIIDEAAQA 1539 (1545)
++.+..||||+++=+---++..+ ..++. .....+||||||-.-
T Consensus 206 r~~~~~Adivi~ny~yll~~~~r--------~~~~~---~l~~~~lIiDEAHnL 248 (289)
T smart00488 206 RKAIEFANVVVLPYQYLLDPKIR--------QALSI---ELKDSIVIFDEAHNL 248 (289)
T ss_pred HHHhhcCCEEEECHHHHhcHHHH--------HHhcc---cccccEEEEeCccCh
Confidence 45689999999986655444321 11121 125899999999543
No 135
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=92.43 E-value=0.35 Score=56.37 Aligned_cols=43 Identities=16% Similarity=0.074 Sum_probs=27.5
Q ss_pred HHHhcCCcEEEEcCCCCCccccccccccccCcccCCCCCCCCCcEEEEecCccc
Q 000413 1486 KSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQV 1539 (1545)
Q Consensus 1486 keIL~eAdVVCSTLSGSGhdll~~c~e~~~~~kf~~~~~~~~FDtVIIDEAAQA 1539 (1545)
++.+..||||+++=+---++..+ ..++. .....+||||||-.-
T Consensus 206 r~~~~~Adivi~ny~yll~~~~r--------~~~~~---~l~~~~lIiDEAHnL 248 (289)
T smart00489 206 RKAIEFANVVVLPYQYLLDPKIR--------QALSI---ELKDSIVIFDEAHNL 248 (289)
T ss_pred HHHhhcCCEEEECHHHHhcHHHH--------HHhcc---cccccEEEEeCccCh
Confidence 45689999999986655444321 11121 125899999999543
No 136
>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=92.39 E-value=0.44 Score=60.33 Aligned_cols=46 Identities=30% Similarity=0.331 Sum_probs=33.1
Q ss_pred HHHHhhc-CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1198 LQQILKT-SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1198 L~~~Lk~-~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
|++.+.. +|++-|.+||.+++... =+++..|.|+|||-+ .++.+++
T Consensus 5 l~~~fg~~~fr~~Q~~~i~~il~g~--------dvlv~~PTG~GKTl~--y~lpal~ 51 (591)
T TIGR01389 5 LKRTFGYDDFRPGQEEIISHVLDGR--------DVLVVMPTGGGKSLC--YQVPALL 51 (591)
T ss_pred HHHhcCCCCCCHHHHHHHHHHHcCC--------CEEEEcCCCccHhHH--HHHHHHH
Confidence 3444433 68999999999998653 278999999999964 3444443
No 137
>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=92.36 E-value=0.097 Score=58.61 Aligned_cols=25 Identities=36% Similarity=0.488 Sum_probs=21.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.++.+|.||||+|||+++..+...+
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKRL 67 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHhc
Confidence 4699999999999999988776554
No 138
>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=92.35 E-value=0.28 Score=54.14 Aligned_cols=26 Identities=35% Similarity=0.583 Sum_probs=21.0
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...++||.||||||||.....++..-
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~ 43 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNG 43 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHh
Confidence 34699999999999999877666543
No 139
>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=92.35 E-value=0.11 Score=51.55 Aligned_cols=25 Identities=36% Similarity=0.591 Sum_probs=22.3
Q ss_pred EEecCCCCCchHHHHHHHHHHHhcc
Q 000413 1232 LIQGPPGTGKTRTIVAIVSALLATR 1256 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsaLL~~~ 1256 (1545)
.|.||||+|||++.-.|+..++...
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~~~ 26 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLKHI 26 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHh
Confidence 5899999999999999999888763
No 140
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.35 E-value=0.15 Score=63.93 Aligned_cols=25 Identities=36% Similarity=0.652 Sum_probs=21.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..+-|+.||||+|||+||..|...+
T Consensus 45 ~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 45 KRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 4599999999999999997776554
No 141
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.33 E-value=0.17 Score=62.82 Aligned_cols=25 Identities=32% Similarity=0.494 Sum_probs=21.6
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..|+.||||||||+++..+...+..
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcc
Confidence 4699999999999999888887654
No 142
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=92.32 E-value=0.29 Score=52.16 Aligned_cols=28 Identities=46% Similarity=0.775 Sum_probs=24.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..+++|-||||+|||+.+..+..++...
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 143
>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=92.25 E-value=0.087 Score=57.57 Aligned_cols=21 Identities=29% Similarity=0.643 Sum_probs=19.1
Q ss_pred EEecCCCCCchHHHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+|+||||+|||+.|..++...
T Consensus 2 vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 2 VVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred EEEcCCCCCHHHHHHHHHHhc
Confidence 799999999999999998874
No 144
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=92.20 E-value=0.33 Score=57.53 Aligned_cols=27 Identities=30% Similarity=0.306 Sum_probs=22.6
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...+.++-||||.|||||+..|...+.
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~ 139 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYK 139 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence 346888889999999999998887654
No 145
>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=92.17 E-value=0.44 Score=65.08 Aligned_cols=35 Identities=20% Similarity=0.022 Sum_probs=27.4
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
...-+-|..+|..++... =.+|++|+|||||.+.+
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 356788999999887653 25689999999997543
No 146
>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=92.06 E-value=0.22 Score=52.42 Aligned_cols=42 Identities=21% Similarity=0.297 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+.+.+++...+.. +.....+.++.||.|+|||+.+.+++..+
T Consensus 5 ~~~t~~l~~~l~~---~l~~~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 5 EKAMDKFGKAFAK---PLDFGTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred HHHHHHHHHHHHH---hCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 3344444444432 12344699999999999999999998875
No 147
>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=92.00 E-value=0.28 Score=57.51 Aligned_cols=42 Identities=21% Similarity=0.287 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+.|.+.+..++... +-.||-||+|+|||+++.+|+..+-
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 4679999999999999988887654
No 148
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=91.98 E-value=0.1 Score=62.93 Aligned_cols=23 Identities=43% Similarity=0.631 Sum_probs=19.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.-.|+.||||||||.++.++...
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHH
Confidence 35899999999999988777553
No 149
>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=91.97 E-value=0.25 Score=67.19 Aligned_cols=51 Identities=24% Similarity=0.353 Sum_probs=41.9
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccccc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESS 1310 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~ 1310 (1545)
.+|.+++|||||++++.-+..++... .
T Consensus 13 ~~~~a~agsgkt~~l~~~~~~~~~~~-----------------------------------------------------~ 39 (1141)
T TIGR02784 13 AWVSANAGSGKTHVLTQRVIRLLLNG-----------------------------------------------------V 39 (1141)
T ss_pred EEEEEECCCCHHHHHHHHHHHHHHcC-----------------------------------------------------C
Confidence 56999999999999988777666430 1
Q ss_pred CCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1311 VRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1311 ~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
...+||+.+.||.|..|+-.||.+
T Consensus 40 ~~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 40 PPSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCCeEEEEecCHHHHHHHHHHHHH
Confidence 246899999999999999999973
No 150
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.94 E-value=0.12 Score=61.36 Aligned_cols=27 Identities=41% Similarity=0.405 Sum_probs=24.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+|.||||||||+.+.+|...++..
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 468999999999999999999988864
No 151
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=91.89 E-value=0.33 Score=54.64 Aligned_cols=26 Identities=31% Similarity=0.381 Sum_probs=21.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+++|-||||||||++...++..++
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~ 49 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFL 49 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35999999999999998777766554
No 152
>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=91.85 E-value=0.12 Score=50.61 Aligned_cols=21 Identities=38% Similarity=0.556 Sum_probs=18.2
Q ss_pred EEecCCCCCchHHHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+|.|+|||||||++-.|...+
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 689999999999888887764
No 153
>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=91.84 E-value=0.1 Score=65.29 Aligned_cols=25 Identities=40% Similarity=0.616 Sum_probs=21.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.-.|+.||||||||.++.++...+-
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHHhhc
Confidence 4589999999999999888877663
No 154
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=91.75 E-value=0.42 Score=53.23 Aligned_cols=25 Identities=36% Similarity=0.347 Sum_probs=20.8
Q ss_pred CcceEEEecCCCCCchHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+++|.||||||||+....++..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~ 48 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYG 48 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHH
Confidence 3469999999999999988777653
No 155
>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=91.73 E-value=0.24 Score=52.44 Aligned_cols=24 Identities=33% Similarity=0.418 Sum_probs=20.2
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+|-||||+|||+++..+...+.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~ 25 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLK 25 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 578889999999999888877654
No 156
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.73 E-value=0.21 Score=59.73 Aligned_cols=26 Identities=27% Similarity=0.365 Sum_probs=22.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...|+.||||||||+++..+...+..
T Consensus 39 h~~L~~Gp~G~GKTtla~~la~~l~c 64 (363)
T PRK14961 39 HAWLLSGTRGVGKTTIARLLAKSLNC 64 (363)
T ss_pred eEEEEecCCCCCHHHHHHHHHHHhcC
Confidence 35699999999999999999888764
No 157
>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=91.70 E-value=0.46 Score=61.89 Aligned_cols=67 Identities=18% Similarity=0.225 Sum_probs=50.8
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIA 1284 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~ava 1284 (1545)
.+=+-|.+||.+.+... ...-.+|+-|+|+|||.|.++++..+
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 45578999999887531 11357899999999999877654321
Q ss_pred HHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhc
Q 000413 1285 RAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKE 1335 (1545)
Q Consensus 1285 r~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~ 1335 (1545)
++++||.+||...|++....+.+-
T Consensus 298 ---------------------------~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 298 ---------------------------KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred ---------------------------CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 356999999999999999988853
No 158
>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=91.60 E-value=0.18 Score=60.85 Aligned_cols=27 Identities=33% Similarity=0.409 Sum_probs=23.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...+|.||||||||++..++...+...
T Consensus 137 n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 357899999999999999998887764
No 159
>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=91.60 E-value=0.43 Score=52.70 Aligned_cols=24 Identities=25% Similarity=0.333 Sum_probs=20.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..++||.||||+|||.....++..
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~ 39 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQ 39 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 469999999999999977766554
No 160
>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=91.57 E-value=0.48 Score=54.94 Aligned_cols=26 Identities=35% Similarity=0.455 Sum_probs=20.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+.++-||||+|||+|+..|...+.
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~ 97 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLK 97 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHH
Confidence 34666669999999999998886653
No 161
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=91.55 E-value=0.15 Score=53.70 Aligned_cols=27 Identities=41% Similarity=0.530 Sum_probs=22.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+|+++|-||-|||||+++-+|..+|..
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 479999999999999998777666644
No 162
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=91.46 E-value=0.26 Score=61.31 Aligned_cols=45 Identities=31% Similarity=0.420 Sum_probs=39.2
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+++.|.+.+..++... .|+.|+-||-|+|||+|.-++++.+...
T Consensus 241 g~~~~~~~~~~~~~~~p------~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 241 GMSPFQLARLLRLLNRP------QGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CCCHHHHHHHHHHHhCC------CeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 67889999999987654 4899999999999999999999987665
No 163
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=91.45 E-value=0.43 Score=58.87 Aligned_cols=28 Identities=21% Similarity=0.309 Sum_probs=23.7
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+.+.++-||||+|||+|+..+...+..
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~ 121 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKK 121 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHH
Confidence 3568899999999999999999876654
No 164
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=91.40 E-value=0.12 Score=62.77 Aligned_cols=23 Identities=43% Similarity=0.615 Sum_probs=18.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.-.|+.||||||||+++.++...
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh
Confidence 45889999999999988776553
No 165
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=91.27 E-value=0.29 Score=60.06 Aligned_cols=27 Identities=33% Similarity=0.377 Sum_probs=23.5
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+|.||||||||++..++...+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~ 175 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEK 175 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 457999999999999999998887764
No 166
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.25 E-value=0.24 Score=59.76 Aligned_cols=25 Identities=40% Similarity=0.635 Sum_probs=22.6
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+|-||||||||.|+.-+...+-..
T Consensus 45 ~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 45 IIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred EEEECCCCCCHhHHHHHHHHHHHhh
Confidence 8888999999999999999888775
No 167
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=91.20 E-value=0.16 Score=59.74 Aligned_cols=29 Identities=31% Similarity=0.574 Sum_probs=25.5
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..|+.|+.||-|+|||||+.+||..+=..
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~ 152 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKH 152 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence 35899999999999999999999977544
No 168
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=91.17 E-value=0.89 Score=56.02 Aligned_cols=75 Identities=21% Similarity=0.265 Sum_probs=50.4
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH-HHHHHHHHhccCCCCcccccCcccccCCCCccchhHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI-VAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1283 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI-vgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~av 1283 (1545)
.+++-|.+||..++...+ ++|+.|.|||||-.- +.++..++..... .
T Consensus 109 ~~~~iQ~~ai~~~~~G~d--------vi~~apTGSGKTlay~lpil~~l~~~~~~--------~---------------- 156 (475)
T PRK01297 109 YCTPIQAQVLGYTLAGHD--------AIGRAQTGTGKTAAFLISIINQLLQTPPP--------K---------------- 156 (475)
T ss_pred CCCHHHHHHHHHHhCCCC--------EEEECCCCChHHHHHHHHHHHHHHhcCcc--------c----------------
Confidence 578999999999876532 678999999999542 2334444332000 0
Q ss_pred HHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHh
Q 000413 1284 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1284 ar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
.......++||.+|+.+-+-++...+..
T Consensus 157 -----------------------~~~~~~~~aLil~PtreLa~Q~~~~~~~ 184 (475)
T PRK01297 157 -----------------------ERYMGEPRALIIAPTRELVVQIAKDAAA 184 (475)
T ss_pred -----------------------ccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 0001246899999999988888877763
No 169
>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=91.16 E-value=0.43 Score=53.92 Aligned_cols=26 Identities=27% Similarity=0.379 Sum_probs=22.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+++|.||||+|||+++..+...+.
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~ 55 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLI 55 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 36999999999999999988876554
No 170
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.13 E-value=0.19 Score=60.82 Aligned_cols=29 Identities=24% Similarity=0.407 Sum_probs=25.1
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...++.++-||+|+|||||+..|...+..
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~ 163 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVM 163 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 44579999999999999999999987654
No 171
>PRK06851 hypothetical protein; Provisional
Probab=91.12 E-value=0.87 Score=55.20 Aligned_cols=26 Identities=31% Similarity=0.505 Sum_probs=22.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+|-||||||||+++..+...+..
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~a~~ 240 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKAAEE 240 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHHHHh
Confidence 48999999999999999888877654
No 172
>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=91.06 E-value=0.21 Score=56.09 Aligned_cols=36 Identities=36% Similarity=0.472 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+.-++|+.-|.... .=.||.||||||||.++..+-+
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 34456665554332 2479999999999988776654
No 173
>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=91.04 E-value=0.14 Score=63.49 Aligned_cols=22 Identities=45% Similarity=0.653 Sum_probs=18.8
Q ss_pred eEEEecCCCCCchHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
=.|+.||||||||+++.++...
T Consensus 90 giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3899999999999998888653
No 174
>PRK10689 transcription-repair coupling factor; Provisional
Probab=91.02 E-value=0.74 Score=62.86 Aligned_cols=45 Identities=22% Similarity=0.182 Sum_probs=31.7
Q ss_pred HHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1200 QILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1200 ~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
+.+...+.+.|.+||..++.... ...+.=.||+||.|+|||-+.+
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~--~~~~~d~Ll~a~TGsGKT~val 639 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMC--QPLAMDRLVCGDVGFGKTEVAM 639 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhh--cCCCCCEEEEcCCCcCHHHHHH
Confidence 33445788999999998876421 1111237999999999998654
No 175
>PRK08727 hypothetical protein; Validated
Probab=90.98 E-value=0.2 Score=56.38 Aligned_cols=27 Identities=33% Similarity=0.546 Sum_probs=23.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...+|.|||||||||...++...+...
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~ 68 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQA 68 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 468999999999999999998876653
No 176
>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=90.97 E-value=0.16 Score=60.27 Aligned_cols=26 Identities=31% Similarity=0.641 Sum_probs=23.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.++.||.||+|+|||||+.+++..+.
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~ 147 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYIN 147 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhC
Confidence 37999999999999999999887664
No 177
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=90.92 E-value=0.15 Score=58.17 Aligned_cols=26 Identities=42% Similarity=0.717 Sum_probs=23.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
-.|+.||||||||+++..+...|+..
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~ 51 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCE 51 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCC
Confidence 58999999999999999999998854
No 178
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.91 E-value=0.22 Score=46.29 Aligned_cols=26 Identities=38% Similarity=0.691 Sum_probs=23.0
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
++||.||.|+|||+.+=+|..+|...
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~L~~~ 50 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTVLYGN 50 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 89999999999999998888877653
No 179
>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=90.82 E-value=0.1 Score=54.76 Aligned_cols=21 Identities=38% Similarity=0.651 Sum_probs=14.9
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.||+|+||+|||+++.++-..
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 699999999999988776554
No 180
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.81 E-value=0.33 Score=57.63 Aligned_cols=45 Identities=20% Similarity=0.176 Sum_probs=32.2
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.++...+++..++... +-.+..|+.||||+|||+++..+...+..
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 4555566676666532 23358899999999999999888666554
No 181
>PRK05973 replicative DNA helicase; Provisional
Probab=90.81 E-value=0.49 Score=54.10 Aligned_cols=27 Identities=26% Similarity=0.395 Sum_probs=22.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...++||-|+||+|||...+.++....
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a 89 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAM 89 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 346999999999999998887766544
No 182
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=90.75 E-value=0.32 Score=61.06 Aligned_cols=28 Identities=29% Similarity=0.326 Sum_probs=24.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+..|++||||||||+++..+...+...
T Consensus 43 ~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~ 70 (507)
T PRK06645 43 AGGYLLTGIRGVGKTTSARIIAKAVNCS 70 (507)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 3578999999999999999998888754
No 183
>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=90.73 E-value=0.71 Score=55.20 Aligned_cols=29 Identities=21% Similarity=0.362 Sum_probs=23.3
Q ss_pred HHHHHHHHHccCCCCccCcceEEEecCCCCCchHH
Q 000413 1210 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1210 Q~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkT 1244 (1545)
|.+|+.+..... .+..+|.+|+|+|||..
T Consensus 2 Q~~~~~~~~~~~------~~~~~i~apTGsGKT~~ 30 (357)
T TIGR03158 2 QVATFEALQSKD------ADIIFNTAPTGAGKTLA 30 (357)
T ss_pred HHHHHHHHHcCC------CCEEEEECCCCCCHHHH
Confidence 888888876542 36899999999999964
No 184
>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=90.71 E-value=0.32 Score=54.83 Aligned_cols=41 Identities=20% Similarity=0.233 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+...+.|...|.... ....+..|+|+||+|||+++..+...
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 45689999999999999998877754
No 185
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=90.69 E-value=0.14 Score=64.56 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=19.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.=+|+|||||||||...-+|-+.
T Consensus 224 rGvLlHGPPGCGKT~lA~AiAge 246 (802)
T KOG0733|consen 224 RGVLLHGPPGCGKTSLANAIAGE 246 (802)
T ss_pred CceeeeCCCCccHHHHHHHHhhh
Confidence 35799999999999988777553
No 186
>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=90.66 E-value=0.41 Score=50.19 Aligned_cols=43 Identities=21% Similarity=0.192 Sum_probs=27.6
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..||..=+.+.+ ..++=+--.+||||||||.+.--|..+|...
T Consensus 38 ~~ai~~~l~~~~--p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~ 80 (127)
T PF06309_consen 38 VNAIKGHLANPN--PRKPLVLSFHGWTGTGKNFVSRLIAEHLYKS 80 (127)
T ss_pred HHHHHHHHcCCC--CCCCEEEEeecCCCCcHHHHHHHHHHHHHhc
Confidence 345555454432 2333333479999999999887777777654
No 187
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.60 E-value=0.24 Score=54.61 Aligned_cols=29 Identities=28% Similarity=0.513 Sum_probs=24.4
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...+++|.||||||||+....++...+..
T Consensus 22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~ 50 (225)
T PRK09361 22 RGTITQIYGPPGSGKTNICLQLAVEAAKN 50 (225)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 34699999999999999999888776643
No 188
>PRK06620 hypothetical protein; Validated
Probab=90.59 E-value=0.3 Score=54.54 Aligned_cols=20 Identities=35% Similarity=0.385 Sum_probs=17.1
Q ss_pred ceEEEecCCCCCchHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgL 1248 (1545)
...+|+||||+||||.+-++
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~ 64 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIW 64 (214)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 45899999999999988764
No 189
>PHA02624 large T antigen; Provisional
Probab=90.57 E-value=0.28 Score=62.46 Aligned_cols=26 Identities=27% Similarity=0.400 Sum_probs=23.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+....||.||||||||+.+.+|+..|
T Consensus 430 Kk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 430 KRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 34699999999999999999999876
No 190
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.55 E-value=0.31 Score=60.77 Aligned_cols=27 Identities=26% Similarity=0.373 Sum_probs=22.7
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+...+...
T Consensus 41 ha~Lf~GP~GtGKTTlAriLAk~Lnce 67 (484)
T PRK14956 41 HAYIFFGPRGVGKTTIARILAKRLNCE 67 (484)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcCcc
Confidence 357999999999999998888877653
No 191
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.54 E-value=0.21 Score=58.86 Aligned_cols=26 Identities=27% Similarity=0.313 Sum_probs=23.1
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
=.+|.||||||||+.+.+|...+...
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~ 183 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKK 183 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 47899999999999999999988753
No 192
>PRK05642 DNA replication initiation factor; Validated
Probab=90.52 E-value=0.43 Score=53.79 Aligned_cols=26 Identities=19% Similarity=0.305 Sum_probs=22.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+|+||+||||||...++...+..
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~ 71 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQ 71 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHh
Confidence 46789999999999999888776654
No 193
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=90.48 E-value=0.33 Score=63.07 Aligned_cols=69 Identities=36% Similarity=0.388 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAW 1287 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W 1287 (1545)
.-|..||......-. .+. .=.||+=-+|||||+|..+|+..|+...
T Consensus 168 yyQ~~AI~rv~Eaf~--~g~-~raLlvMATGTGKTrTAiaii~rL~r~~------------------------------- 213 (875)
T COG4096 168 YYQIIAIRRVIEAFS--KGQ-NRALLVMATGTGKTRTAIAIIDRLIKSG------------------------------- 213 (875)
T ss_pred HHHHHHHHHHHHHHh--cCC-ceEEEEEecCCCcceeHHHHHHHHHhcc-------------------------------
Confidence 468889877654431 222 3499999999999999999999998751
Q ss_pred HHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1288 QDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1288 ~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
..+|||.-|-.|+=||.-.....
T Consensus 214 -----------------------~~KRVLFLaDR~~Lv~QA~~af~ 236 (875)
T COG4096 214 -----------------------WVKRVLFLADRNALVDQAYGAFE 236 (875)
T ss_pred -----------------------hhheeeEEechHHHHHHHHHHHH
Confidence 25799999999999998875554
No 194
>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=90.46 E-value=0.37 Score=60.31 Aligned_cols=22 Identities=32% Similarity=0.587 Sum_probs=17.5
Q ss_pred EEecCCCCCchHHHHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
||+||.|+|||-+.+.++...+
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l 22 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVL 22 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHH
Confidence 6899999999998766655444
No 195
>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=90.43 E-value=0.35 Score=58.30 Aligned_cols=27 Identities=22% Similarity=0.406 Sum_probs=22.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..+.+|.||||||||+..-.|...+=.
T Consensus 78 r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 78 KQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 468999999999999988777766533
No 196
>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=90.43 E-value=0.52 Score=52.97 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=19.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..++||-||||||||....-++..
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~ 44 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWN 44 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999977665554
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=90.41 E-value=0.2 Score=54.18 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=19.8
Q ss_pred EEEecCCCCCchHHHHHHHHHHHh
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+|.||||+||||.+..++..+-.
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 379999999999999999987654
No 198
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.38 E-value=0.36 Score=60.55 Aligned_cols=25 Identities=40% Similarity=0.494 Sum_probs=22.2
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.-|+.||||||||+++..+...+..
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhc
Confidence 4599999999999999998888764
No 199
>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=90.38 E-value=0.31 Score=58.68 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=24.3
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.++.||-||+|+|||||+.+|+..+..
T Consensus 134 ~glilI~GpTGSGKTTtL~aLl~~i~~ 160 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLLAAIIRELAE 160 (358)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 489999999999999999999887764
No 200
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.30 E-value=0.39 Score=61.76 Aligned_cols=47 Identities=21% Similarity=0.351 Sum_probs=30.7
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.++.+.+.+...+...........+.+|.||||||||+|+..+...+
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 45666666666554321111223589999999999999988776543
No 201
>PRK14701 reverse gyrase; Provisional
Probab=90.28 E-value=0.83 Score=64.24 Aligned_cols=38 Identities=21% Similarity=0.127 Sum_probs=29.8
Q ss_pred HHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHH
Q 000413 1199 QQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1199 ~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkT 1244 (1545)
++.+...+.+-|.++|..++... =.++++|.|||||.+
T Consensus 73 ~~~~G~~pt~iQ~~~i~~il~G~--------d~li~APTGsGKTl~ 110 (1638)
T PRK14701 73 EKITGFEFWSIQKTWAKRILRGK--------SFSIVAPTGMGKSTF 110 (1638)
T ss_pred HHhhCCCCCHHHHHHHHHHHcCC--------CEEEEEcCCCCHHHH
Confidence 33344478899999999998754 368999999999983
No 202
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.24 E-value=0.2 Score=60.83 Aligned_cols=23 Identities=43% Similarity=0.647 Sum_probs=18.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+-.||.||||||||+++..+...
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 35788999999999988777553
No 203
>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=90.17 E-value=0.26 Score=52.15 Aligned_cols=23 Identities=35% Similarity=0.576 Sum_probs=19.5
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
++.+|-||||+||||++..|...
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999987777654
No 204
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=90.17 E-value=0.66 Score=59.25 Aligned_cols=23 Identities=17% Similarity=0.291 Sum_probs=21.1
Q ss_pred CCeEEEEeCChHHHHHHHHHHHh
Q 000413 1312 RARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1312 k~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
+++|.||++|++..|.++.+...
T Consensus 63 ~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 63 GKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCcEEEECCCHHHHHHHHHhhcc
Confidence 58999999999999999999874
No 205
>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=90.13 E-value=0.26 Score=56.35 Aligned_cols=26 Identities=19% Similarity=0.206 Sum_probs=21.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..++||.||||||||+....++...+
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a 61 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQA 61 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 46999999999999998877766544
No 206
>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=89.99 E-value=0.36 Score=51.91 Aligned_cols=28 Identities=36% Similarity=0.552 Sum_probs=24.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+..-|+.||||||||+++..+...++..
T Consensus 14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 14 AHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 4579999999999999999999888764
No 207
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=89.94 E-value=0.32 Score=63.40 Aligned_cols=23 Identities=35% Similarity=0.561 Sum_probs=18.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+-.||.||||||||+++..+...
T Consensus 53 ~slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 35699999999999988777654
No 208
>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=89.92 E-value=0.49 Score=56.22 Aligned_cols=23 Identities=39% Similarity=0.567 Sum_probs=20.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+.+|+|.||||||-+...++..+
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHh
Confidence 78999999999999888888776
No 209
>PRK13531 regulatory ATPase RavA; Provisional
Probab=89.89 E-value=0.29 Score=60.98 Aligned_cols=24 Identities=29% Similarity=0.462 Sum_probs=20.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+=.||.||||||||++..+|-.++
T Consensus 40 ~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 40 ESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred CCEEEECCCChhHHHHHHHHHHHh
Confidence 469999999999999888877654
No 210
>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=89.88 E-value=0.29 Score=53.67 Aligned_cols=28 Identities=29% Similarity=0.544 Sum_probs=23.7
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|.||||||||+....++..+..
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~ 45 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAIQLAVETAG 45 (218)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 3469999999999999999888876654
No 211
>PHA02244 ATPase-like protein
Probab=89.78 E-value=0.38 Score=58.30 Aligned_cols=22 Identities=27% Similarity=0.463 Sum_probs=18.8
Q ss_pred eEEEecCCCCCchHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
-.||.||||||||+.+.+|...
T Consensus 121 PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 121 PVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4788999999999998887665
No 212
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=89.76 E-value=0.24 Score=60.02 Aligned_cols=26 Identities=23% Similarity=0.128 Sum_probs=21.0
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+.+-..||+||||||||...-++...
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 34568999999999999987776654
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=89.74 E-value=0.31 Score=53.01 Aligned_cols=28 Identities=29% Similarity=0.510 Sum_probs=23.3
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|.||||||||+....++.....
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~ 38 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAVNAAR 38 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 3469999999999999998887776654
No 214
>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=89.62 E-value=0.25 Score=52.40 Aligned_cols=21 Identities=33% Similarity=0.631 Sum_probs=16.7
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+.+|-||||+||||....|..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 358899999999997666544
No 215
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.61 E-value=0.67 Score=58.74 Aligned_cols=42 Identities=26% Similarity=0.399 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.-..|-++|.. .+.++..|||-||||||+..+-=|..|+..
T Consensus 212 TIQkEQneIIR~---------ek~~ilVVQGaAGSGKTtiALHRvAyLlY~ 253 (747)
T COG3973 212 TIQKEQNEIIRF---------EKNKILVVQGAAGSGKTTIALHRVAYLLYG 253 (747)
T ss_pred HhhHhHHHHHhc---------cCCCeEEEecCCCCCchhHHHHHHHHHHhc
Confidence 566778888864 245799999999999999988888888765
No 216
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=89.58 E-value=0.29 Score=56.76 Aligned_cols=28 Identities=25% Similarity=0.503 Sum_probs=23.7
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+.+|-||+|+|||||+..|...+..
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~ 220 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVL 220 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3468889999999999999999887654
No 217
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.51 E-value=0.41 Score=57.95 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=23.1
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.|++||||||||++...+...++..
T Consensus 39 ha~lf~Gp~G~GKtt~A~~~a~~l~c~ 65 (397)
T PRK14955 39 HGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (397)
T ss_pred eeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 357899999999999999988888753
No 218
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.46 E-value=0.42 Score=60.46 Aligned_cols=26 Identities=27% Similarity=0.294 Sum_probs=22.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...|++||||||||+++..+...|..
T Consensus 39 ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 39 HAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 46799999999999999888887764
No 219
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=89.44 E-value=0.26 Score=58.25 Aligned_cols=23 Identities=43% Similarity=0.559 Sum_probs=18.0
Q ss_pred CcceEEEecCCCCCchHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
.+..+||+||||||||-..-++.
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~Va 187 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAVA 187 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHHH
Confidence 45689999999999997654443
No 220
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.39 E-value=0.45 Score=59.76 Aligned_cols=41 Identities=24% Similarity=0.258 Sum_probs=29.7
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+++..++... +-+...|+.||||||||+++..+...|...
T Consensus 25 ~~~L~~~~~~~----~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 25 VRALSNALDQQ----YLHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred HHHHHHHHHhC----CCCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 44566666442 223467999999999999998888888754
No 221
>PRK03918 chromosome segregation protein; Provisional
Probab=89.36 E-value=9.1 Score=50.73 Aligned_cols=27 Identities=33% Similarity=0.481 Sum_probs=23.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+|+++|.||-|||||+++-+|..+|..
T Consensus 23 ~g~~~i~G~nG~GKStil~ai~~~l~~ 49 (880)
T PRK03918 23 DGINLIIGQNGSGKSSILEAILVGLYW 49 (880)
T ss_pred CCcEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 379999999999999998888777764
No 222
>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=89.34 E-value=0.32 Score=53.31 Aligned_cols=28 Identities=21% Similarity=0.271 Sum_probs=23.3
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|.||||+|||++...++...+.
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~ 45 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEAQL 45 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHhhc
Confidence 4469999999999999999888776543
No 223
>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=89.27 E-value=0.3 Score=55.46 Aligned_cols=26 Identities=35% Similarity=0.538 Sum_probs=22.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+..||-||+|+|||+++.+++..+-
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~~i~ 152 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLEEIP 152 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHHHCH
T ss_pred ceEEEEECCCccccchHHHHHhhhcc
Confidence 36999999999999999988877543
No 224
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=89.22 E-value=0.31 Score=58.51 Aligned_cols=46 Identities=28% Similarity=0.306 Sum_probs=26.1
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHH
Q 000413 1198 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1198 L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
|.+++.+..=-+|.--+.+.+... .-+=-+.|||||||||+...-|
T Consensus 137 L~dyvGQ~hlv~q~gllrs~ieq~-----~ipSmIlWGppG~GKTtlArli 182 (554)
T KOG2028|consen 137 LDDYVGQSHLVGQDGLLRSLIEQN-----RIPSMILWGPPGTGKTTLARLI 182 (554)
T ss_pred HHHhcchhhhcCcchHHHHHHHcC-----CCCceEEecCCCCchHHHHHHH
Confidence 444444333334444455555432 2245677999999999854433
No 225
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.20 E-value=0.84 Score=55.67 Aligned_cols=27 Identities=30% Similarity=0.469 Sum_probs=23.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.+.++-||+|+|||||+..|...+..
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~ 200 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGI 200 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 568999999999999999988876543
No 226
>PHA02653 RNA helicase NPH-II; Provisional
Probab=89.19 E-value=1.1 Score=58.09 Aligned_cols=34 Identities=24% Similarity=0.401 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
+-|.+++...+.. ..+++|||.|||||+-+--++
T Consensus 167 ~iQ~qil~~i~~g--------kdvIv~A~TGSGKTtqvPq~l 200 (675)
T PHA02653 167 DVQLKIFEAWISR--------KPVVLTGGTGVGKTSQVPKLL 200 (675)
T ss_pred HHHHHHHHHHHhC--------CCEEEECCCCCCchhHHHHHH
Confidence 4577878777654 378999999999997654444
No 227
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=89.17 E-value=0.23 Score=57.55 Aligned_cols=22 Identities=45% Similarity=0.684 Sum_probs=18.2
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.=+|..||||||||.+..++-.
T Consensus 152 knVLFyGppGTGKTm~Akalan 173 (368)
T COG1223 152 KNVLFYGPPGTGKTMMAKALAN 173 (368)
T ss_pred ceeEEECCCCccHHHHHHHHhc
Confidence 4589999999999998877643
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=89.14 E-value=0.63 Score=57.42 Aligned_cols=26 Identities=23% Similarity=0.300 Sum_probs=22.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+.++-||||+|||||+..|...+.
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~ 125 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQ 125 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 57899999999999999999887654
No 229
>CHL00195 ycf46 Ycf46; Provisional
Probab=89.13 E-value=0.27 Score=61.44 Aligned_cols=23 Identities=39% Similarity=0.411 Sum_probs=19.1
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.-.|+.||||||||.+..++...
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHH
Confidence 45799999999999988777654
No 230
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=89.08 E-value=0.36 Score=54.71 Aligned_cols=29 Identities=34% Similarity=0.469 Sum_probs=24.8
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...++||.||||||||......+...+..
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ 50 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGARE 50 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence 34699999999999999998888877765
No 231
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.97 E-value=1.4 Score=54.22 Aligned_cols=26 Identities=27% Similarity=0.456 Sum_probs=22.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+.+|-||+|+|||||+..|...+.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~ 266 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFH 266 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 46889999999999999999877654
No 232
>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=88.80 E-value=0.34 Score=58.64 Aligned_cols=26 Identities=31% Similarity=0.387 Sum_probs=23.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+..||-||+|+|||||+.+++..+..
T Consensus 150 GlilI~G~TGSGKTT~l~al~~~i~~ 175 (372)
T TIGR02525 150 GLGLICGETGSGKSTLAASIYQHCGE 175 (372)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 68999999999999999999888765
No 233
>PRK00131 aroK shikimate kinase; Reviewed
Probab=88.59 E-value=0.42 Score=49.61 Aligned_cols=24 Identities=21% Similarity=0.199 Sum_probs=19.1
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...+|.||||||||++...|-..+
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l 28 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRL 28 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHh
Confidence 478899999999999776665543
No 234
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.57 E-value=0.53 Score=59.30 Aligned_cols=44 Identities=23% Similarity=0.292 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
++.-.+++..++... +-....|+.||||||||++...+...|..
T Consensus 21 q~~v~~~L~~~i~~~----~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 21 QEHVVRALTNALEQQ----RLHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred cHHHHHHHHHHHHcC----CCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344445566665542 22246799999999999988888877764
No 235
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=88.52 E-value=0.35 Score=60.12 Aligned_cols=27 Identities=33% Similarity=0.636 Sum_probs=22.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhcc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLATR 1256 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~~ 1256 (1545)
++-|-||||||||+.|..||..+-+..
T Consensus 71 IvavvGPpGtGKsTLirSlVrr~tk~t 97 (1077)
T COG5192 71 IVAVVGPPGTGKSTLIRSLVRRFTKQT 97 (1077)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHHhh
Confidence 455999999999999999998776653
No 236
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.48 E-value=0.42 Score=63.22 Aligned_cols=27 Identities=26% Similarity=0.305 Sum_probs=23.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+...|...
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhccCc
Confidence 466999999999999999988887653
No 237
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.45 E-value=0.55 Score=59.93 Aligned_cols=27 Identities=30% Similarity=0.468 Sum_probs=23.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+...|+..
T Consensus 36 ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 62 (584)
T PRK14952 36 HAYLFSGPRGCGKTSSARILARSLNCA 62 (584)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhccc
Confidence 467999999999999999999888753
No 238
>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=88.42 E-value=0.43 Score=52.87 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=24.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..+++|-||||||||+....++..+...
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~ 40 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKK 40 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 3599999999999999999988776654
No 239
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=88.39 E-value=0.58 Score=55.08 Aligned_cols=39 Identities=33% Similarity=0.492 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+....++..|+... +-+|+-||||||||..+-.+-..+
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 344445555554432 579999999999999877765544
No 240
>PRK08233 hypothetical protein; Provisional
Probab=88.21 E-value=0.34 Score=51.01 Aligned_cols=24 Identities=25% Similarity=0.324 Sum_probs=19.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+..|-||||+||||+...|...+
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l 27 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKL 27 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhC
Confidence 478899999999999887776654
No 241
>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=88.15 E-value=1.4 Score=49.58 Aligned_cols=46 Identities=26% Similarity=0.268 Sum_probs=28.1
Q ss_pred HHHHHHHHHccC-----CCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1210 QLQAISVAIGLS-----SSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1210 Q~eAI~sAL~~~-----~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
|++||...+... .......+=.|+-=.+|+|||-+.++++..+...
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 778887766542 0001223455666689999999999998876654
No 242
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=88.08 E-value=0.32 Score=59.12 Aligned_cols=17 Identities=47% Similarity=0.751 Sum_probs=13.5
Q ss_pred eEEEecCCCCCchHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIv 1246 (1545)
=.+.+||||||||+...
T Consensus 50 SmIl~GPPG~GKTTlA~ 66 (436)
T COG2256 50 SMILWGPPGTGKTTLAR 66 (436)
T ss_pred eeEEECCCCCCHHHHHH
Confidence 35679999999997543
No 243
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=88.02 E-value=0.67 Score=57.13 Aligned_cols=26 Identities=27% Similarity=0.331 Sum_probs=23.0
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
-.+|.||||||||+...++...+...
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~ 157 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQN 157 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 48999999999999999998887764
No 244
>PRK13766 Hef nuclease; Provisional
Probab=88.02 E-value=1.5 Score=57.19 Aligned_cols=37 Identities=24% Similarity=0.259 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+-|.+++..++.. =+||..|.|+|||.+.+.++..++
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 3477777777653 279999999999986655555444
No 245
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=87.97 E-value=0.31 Score=58.57 Aligned_cols=21 Identities=48% Similarity=0.643 Sum_probs=16.4
Q ss_pred cceEEEecCCCCCchHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
+.=+|..||||||||-...+.
T Consensus 185 PKGVLLYGPPGTGKTLLAkAV 205 (406)
T COG1222 185 PKGVLLYGPPGTGKTLLAKAV 205 (406)
T ss_pred CCceEeeCCCCCcHHHHHHHH
Confidence 345799999999999765554
No 246
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.96 E-value=0.69 Score=57.95 Aligned_cols=43 Identities=26% Similarity=0.259 Sum_probs=28.5
Q ss_pred HHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1209 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1209 SQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+.+..++... +-+.-.|++||||||||++...+...|...
T Consensus 20 ~vv~~L~~a~~~~----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~ 62 (491)
T PRK14964 20 VLVRILRNAFTLN----KIPQSILLVGASGVGKTTCARIISLCLNCS 62 (491)
T ss_pred HHHHHHHHHHHcC----CCCceEEEECCCCccHHHHHHHHHHHHcCc
Confidence 3344455555432 223468999999999999988777666543
No 247
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=87.93 E-value=0.66 Score=59.33 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=23.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.|++||||||||+++..+..+|+..
T Consensus 39 hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 39 HAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 467899999999999999998888754
No 248
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.78 E-value=0.69 Score=59.71 Aligned_cols=40 Identities=25% Similarity=0.280 Sum_probs=29.0
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+++..++... +-....|+.||||||||++...+...+..
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 34455555432 22357899999999999999888887764
No 249
>PF13173 AAA_14: AAA domain
Probab=87.77 E-value=0.49 Score=48.12 Aligned_cols=25 Identities=32% Similarity=0.668 Sum_probs=22.5
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
++.+|.||.|+|||+++..++..+.
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc
Confidence 5899999999999999988887766
No 250
>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=87.67 E-value=1.3 Score=54.85 Aligned_cols=26 Identities=31% Similarity=0.316 Sum_probs=23.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+.++-||||+|||+|+..+...+.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~ 124 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLK 124 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence 45899999999999999999988865
No 251
>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=87.66 E-value=0.52 Score=52.07 Aligned_cols=27 Identities=30% Similarity=0.313 Sum_probs=22.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..+++|-||||||||+....++...+.
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~ 46 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLR 46 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHh
Confidence 469999999999999998887765543
No 252
>PRK10867 signal recognition particle protein; Provisional
Probab=87.63 E-value=0.7 Score=57.06 Aligned_cols=28 Identities=25% Similarity=0.292 Sum_probs=23.8
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.+.++-||||+|||||+..+...+...
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~ 127 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK 127 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 4688999999999999999998876543
No 253
>PRK04328 hypothetical protein; Provisional
Probab=87.57 E-value=1.1 Score=51.05 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=19.9
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..++||-||||||||.....++..
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~ 46 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWN 46 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999987666554
No 254
>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=87.42 E-value=0.38 Score=54.48 Aligned_cols=22 Identities=50% Similarity=0.628 Sum_probs=18.4
Q ss_pred CcceEEEecCCCCCchHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
.+...||-||||||||+++..+
T Consensus 11 ~~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 11 IPNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CCcEEEEECCCCCCHHHHHHhc
Confidence 3468999999999999977655
No 255
>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=87.40 E-value=0.49 Score=53.79 Aligned_cols=32 Identities=38% Similarity=0.571 Sum_probs=23.8
Q ss_pred HHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1213 AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1213 AI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+|..|+... -...+.||+|||||.||..+-.+
T Consensus 24 ~l~~al~~~-------~~~~~~GpagtGKtetik~La~~ 55 (231)
T PF12774_consen 24 TLTQALSLN-------LGGALSGPAGTGKTETIKDLARA 55 (231)
T ss_dssp HHHHHHCTT-------TEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHhccC-------CCCCCcCCCCCCchhHHHHHHHH
Confidence 455666432 35678999999999999888553
No 256
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=87.33 E-value=0.56 Score=56.09 Aligned_cols=23 Identities=35% Similarity=0.511 Sum_probs=19.2
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
=.||.||||||||++..++-..|
T Consensus 31 ~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 31 GVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred cEEEEcCCCCCHHHHHHHHHHHC
Confidence 48999999999999887776554
No 257
>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=87.33 E-value=0.54 Score=43.44 Aligned_cols=22 Identities=27% Similarity=0.450 Sum_probs=18.0
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..|-||||+|||+....+...+
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999998887777666
No 258
>PRK05480 uridine/cytidine kinase; Provisional
Probab=87.30 E-value=0.51 Score=51.59 Aligned_cols=26 Identities=31% Similarity=0.342 Sum_probs=21.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...+..|.||+|+||||+...|...+
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 34689999999999998877666654
No 259
>CHL00176 ftsH cell division protein; Validated
Probab=87.23 E-value=0.41 Score=61.61 Aligned_cols=22 Identities=50% Similarity=0.667 Sum_probs=18.9
Q ss_pred eEEEecCCCCCchHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
-.|+.||||||||+++.++...
T Consensus 218 gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 218 GVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4899999999999998888553
No 260
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.12 E-value=0.74 Score=59.36 Aligned_cols=43 Identities=23% Similarity=0.278 Sum_probs=31.0
Q ss_pred HHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1209 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1209 SQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+.+..++... +-....|++||||||||++...+...|+..
T Consensus 23 ~vv~~L~~al~~g----RLpHA~LFtGP~GvGKTTLAriLAkaLnC~ 65 (700)
T PRK12323 23 HVVRALTHALEQQ----RLHHAYLFTGTRGVGKTTLSRILAKSLNCT 65 (700)
T ss_pred HHHHHHHHHHHhC----CCceEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 3344555555442 223477999999999999999999888763
No 261
>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=87.11 E-value=0.55 Score=50.40 Aligned_cols=24 Identities=33% Similarity=0.631 Sum_probs=20.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...+|.||.|+|||+++..++..+
T Consensus 21 ~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 21 QHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHHC
T ss_pred cEEEEEcCCcCCHHHHHHHHHHHh
Confidence 689999999999999887777755
No 262
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=87.02 E-value=0.34 Score=50.85 Aligned_cols=20 Identities=45% Similarity=0.667 Sum_probs=14.5
Q ss_pred EEecCCCCCchHHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsa 1251 (1545)
.|.|+|||||||++-.|-..
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 68899999999988766543
No 263
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=86.96 E-value=0.73 Score=59.01 Aligned_cols=45 Identities=22% Similarity=0.299 Sum_probs=33.3
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
++.-.+.+..++... +...-.|++||||||||++...+...|+..
T Consensus 29 q~~~v~~L~~~~~~g----ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 29 QEAMVRTLTNAFETG----RIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cHHHHHHHHHHHHcC----CCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 555556666666542 223468999999999999999999888764
No 264
>PRK05541 adenylylsulfate kinase; Provisional
Probab=86.94 E-value=0.62 Score=49.56 Aligned_cols=27 Identities=30% Similarity=0.348 Sum_probs=22.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...+.+|.||||+|||+....+...+-
T Consensus 6 ~~~~I~i~G~~GsGKst~a~~l~~~l~ 32 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIAKALYERLK 32 (176)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 446899999999999998877776664
No 265
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=86.85 E-value=0.76 Score=54.10 Aligned_cols=51 Identities=31% Similarity=0.422 Sum_probs=28.8
Q ss_pred HHHHhhcCCCHHHHHH-HHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1198 LQQILKTSFNESQLQA-ISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1198 L~~~Lk~~LNeSQ~eA-I~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+++.+.-=..|++- |++|-.+. ...+=+|+.||||+|||+.. .||..=+
T Consensus 25 l~efiGQ~~vk~~L~ifI~AAk~r~----e~lDHvLl~GPPGlGKTTLA-~IIA~Em 76 (332)
T COG2255 25 LDEFIGQEKVKEQLQIFIKAAKKRG----EALDHVLLFGPPGLGKTTLA-HIIANEL 76 (332)
T ss_pred HHHhcChHHHHHHHHHHHHHHHhcC----CCcCeEEeeCCCCCcHHHHH-HHHHHHh
Confidence 4444432222344444 55554432 34457999999999999743 4444333
No 266
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=86.80 E-value=0.48 Score=57.03 Aligned_cols=27 Identities=44% Similarity=0.554 Sum_probs=22.4
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..-.||-||||||||-..+||-.-|=.
T Consensus 65 GrgiLi~GppgTGKTAlA~gIa~eLG~ 91 (450)
T COG1224 65 GRGILIVGPPGTGKTALAMGIARELGE 91 (450)
T ss_pred ccEEEEECCCCCcHHHHHHHHHHHhCC
Confidence 357899999999999999998776543
No 267
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=86.75 E-value=0.92 Score=56.15 Aligned_cols=27 Identities=26% Similarity=0.325 Sum_probs=22.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.+|.||||||||+++.++...+...
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~ 168 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESN 168 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHh
Confidence 357899999999999999988877654
No 268
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=86.67 E-value=0.82 Score=59.59 Aligned_cols=44 Identities=30% Similarity=0.364 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+...+.+..++... +-....|+.||||||||+++..+..+|+..
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 33444556665432 223467999999999999999998888764
No 269
>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=86.64 E-value=1.2 Score=55.57 Aligned_cols=27 Identities=30% Similarity=0.374 Sum_probs=22.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..++||-||||||||+...-++...+.
T Consensus 263 gs~~li~G~~G~GKt~l~~~f~~~~~~ 289 (484)
T TIGR02655 263 DSIILATGATGTGKTLLVSKFLENACA 289 (484)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 469999999999999987777765543
No 270
>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=86.63 E-value=0.45 Score=49.81 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=14.8
Q ss_pred EEecCCCCCchHHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsa 1251 (1545)
+|.||||+|||++...|...
T Consensus 2 ~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 47799999999765555443
No 271
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=86.62 E-value=0.73 Score=54.98 Aligned_cols=24 Identities=29% Similarity=0.342 Sum_probs=20.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+-.||-||+|+||||++-+|+..+
T Consensus 161 ~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 161 KNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred CcEEEECCCCCCHHHHHHHHHhhC
Confidence 479999999999999998877644
No 272
>PRK14527 adenylate kinase; Provisional
Probab=86.62 E-value=0.61 Score=50.46 Aligned_cols=24 Identities=25% Similarity=0.559 Sum_probs=19.3
Q ss_pred CcceEEEecCCCCCchHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
...+.+|-||||+|||+....|..
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~ 28 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQ 28 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 346999999999999987766543
No 273
>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=86.61 E-value=0.72 Score=53.88 Aligned_cols=30 Identities=27% Similarity=0.358 Sum_probs=25.0
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
....+..|-||||+|||+++..+...+...
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~ 61 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGMELRRR 61 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 345788889999999999999998876553
No 274
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=86.57 E-value=0.8 Score=55.01 Aligned_cols=39 Identities=26% Similarity=0.311 Sum_probs=27.1
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+....+.+..|+.. ..-.||-||+|+||||++.+|+..+
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 2579999999999999988876543
No 275
>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=86.56 E-value=0.48 Score=51.03 Aligned_cols=22 Identities=32% Similarity=0.477 Sum_probs=19.7
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
|+++|-|..|+|||++|..++.
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 276
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.52 E-value=0.84 Score=58.14 Aligned_cols=43 Identities=30% Similarity=0.390 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.-.+.+..++... .-....|+.||||||||+++..+...|+.
T Consensus 22 ~~~~~~L~~~i~~~----~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 22 EHVVQTLRNAIAEG----RVAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred HHHHHHHHHHHHhC----CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 33334455555432 12235699999999999999999888864
No 277
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=86.48 E-value=0.84 Score=58.05 Aligned_cols=44 Identities=23% Similarity=0.336 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.-.+.+..++... +-....|+.||||||||+++..+..+++..
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 33344455555432 223478999999999999999999988754
No 278
>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=86.47 E-value=0.54 Score=49.96 Aligned_cols=23 Identities=26% Similarity=0.432 Sum_probs=19.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+.+|-||||+|||+++-.|...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999998876554
No 279
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=86.41 E-value=0.58 Score=57.50 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=22.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.++.++-||+|+|||||+..|...+.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~ 246 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYA 246 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35788889999999999999988765
No 280
>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=86.41 E-value=2.8 Score=55.14 Aligned_cols=76 Identities=18% Similarity=0.176 Sum_probs=53.8
Q ss_pred HHHHhhc----CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH-HHHHHHHhccCCCCcccccCcccccC
Q 000413 1198 LQQILKT----SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV-AIVSALLATRTSPKSHLKQNYSSCIN 1272 (1545)
Q Consensus 1198 L~~~Lk~----~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv-gLVsaLL~~~~~~~s~~~~~~ss~~~ 1272 (1545)
+.+.++. .+.+-|.+||..++...+ ++|+-|.|||||-.-. .++..++.
T Consensus 25 l~~~L~~~g~~~p~~~Q~~ai~~il~G~n--------vvv~apTGSGKTla~~LPiL~~l~~------------------ 78 (742)
T TIGR03817 25 VVAALEAAGIHRPWQHQARAAELAHAGRH--------VVVATGTASGKSLAYQLPVLSALAD------------------ 78 (742)
T ss_pred HHHHHHHcCCCcCCHHHHHHHHHHHCCCC--------EEEECCCCCcHHHHHHHHHHHHHhh------------------
Confidence 5555543 578999999999876543 8899999999995321 22222211
Q ss_pred CCCccchhHHHHHHHHHHHHHhhhccccccccccccccCCCeEEEEeCChHHHHHHHHHHHhcC
Q 000413 1273 SRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRISKEG 1336 (1545)
Q Consensus 1273 ~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~~~~k~RILVCAPSNAAVDEIV~RLlk~G 1336 (1545)
.++.++|+-+|+.+=..++..++.+.+
T Consensus 79 -------------------------------------~~~~~aL~l~PtraLa~q~~~~l~~l~ 105 (742)
T TIGR03817 79 -------------------------------------DPRATALYLAPTKALAADQLRAVRELT 105 (742)
T ss_pred -------------------------------------CCCcEEEEEcChHHHHHHHHHHHHHhc
Confidence 124689999999998899998887644
No 281
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=86.38 E-value=0.55 Score=58.06 Aligned_cols=25 Identities=40% Similarity=0.527 Sum_probs=22.3
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-.+|.||||||||+...++...+..
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~ 167 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRE 167 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4689999999999999999988875
No 282
>PHA02774 E1; Provisional
Probab=86.30 E-value=0.81 Score=58.21 Aligned_cols=24 Identities=33% Similarity=0.591 Sum_probs=21.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.-.+|.||||||||+...+|+..|
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~L 458 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKFL 458 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999999876
No 283
>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=86.19 E-value=0.62 Score=51.44 Aligned_cols=25 Identities=24% Similarity=0.311 Sum_probs=21.2
Q ss_pred CcceEEEecCCCCCchHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+++|.||||||||+....++..
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~ 42 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVT 42 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999999988877654
No 284
>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=86.09 E-value=0.53 Score=48.51 Aligned_cols=21 Identities=24% Similarity=0.455 Sum_probs=16.1
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+.+|-||||+||||+...|..
T Consensus 1 li~l~G~~GsGKST~a~~l~~ 21 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAE 21 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHh
Confidence 357889999999987655544
No 285
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=86.02 E-value=0.51 Score=58.41 Aligned_cols=23 Identities=43% Similarity=0.559 Sum_probs=19.4
Q ss_pred cceEEEecCCCCCchHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
....|+.||||||||.+..++-.
T Consensus 276 ~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 276 PKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred CCeeEEECCCCCCHHHHHHHHHh
Confidence 45899999999999998877654
No 286
>PRK06762 hypothetical protein; Provisional
Probab=85.98 E-value=0.65 Score=48.75 Aligned_cols=24 Identities=33% Similarity=0.533 Sum_probs=18.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+.+|-||||+||||....|...+
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999998776655543
No 287
>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=85.95 E-value=0.54 Score=54.49 Aligned_cols=21 Identities=48% Similarity=0.694 Sum_probs=18.0
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
=+|+.||||||||.+|...+.
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 288
>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=85.91 E-value=0.57 Score=61.49 Aligned_cols=24 Identities=42% Similarity=0.621 Sum_probs=21.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+..|+.||||||||+++.+|...+
T Consensus 348 ~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 348 PILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 578999999999999888887765
No 289
>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=85.91 E-value=1.5 Score=53.11 Aligned_cols=27 Identities=30% Similarity=0.556 Sum_probs=22.9
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..++||.||||+|||+.+..+...+..
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~ 108 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAK 108 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 369999999999999999888776554
No 290
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=85.90 E-value=0.59 Score=53.92 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=22.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.=+|++|+.|||||.+|.+++..+...
T Consensus 53 nnvLL~G~rGtGKSSlVkall~~y~~~ 79 (249)
T PF05673_consen 53 NNVLLWGARGTGKSSLVKALLNEYADQ 79 (249)
T ss_pred cceEEecCCCCCHHHHHHHHHHHHhhc
Confidence 358999999999999999998876553
No 291
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=85.78 E-value=0.46 Score=57.63 Aligned_cols=27 Identities=22% Similarity=0.299 Sum_probs=20.3
Q ss_pred CCCeEEEEeCChH--HHHHHHHHHHhcCC
Q 000413 1311 VRARVLICAQSNA--AVDELVSRISKEGL 1337 (1545)
Q Consensus 1311 ~k~RILVCAPSNA--AVDEIV~RLlk~Gl 1337 (1545)
..+.|.|-|-||- -|||-++|=++.-|
T Consensus 349 ~~k~VmVLAATN~PWdiDEAlrRRlEKRI 377 (491)
T KOG0738|consen 349 NSKVVMVLAATNFPWDIDEALRRRLEKRI 377 (491)
T ss_pred cceeEEEEeccCCCcchHHHHHHHHhhhe
Confidence 3678999999998 68998777654333
No 292
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=85.76 E-value=0.96 Score=58.71 Aligned_cols=44 Identities=23% Similarity=0.294 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.-.+++..++... +-..-.|+.||||||||+++..+...|...
T Consensus 22 e~vv~~L~~ai~~~----rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 22 EHVVKALQNALDEG----RLHHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred HHHHHHHHHHHHcC----CCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 33344555555432 123467999999999999999998887754
No 293
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.70 E-value=0.94 Score=57.69 Aligned_cols=45 Identities=27% Similarity=0.306 Sum_probs=31.3
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
++...+.+..++... +-....|+.||||||||+++..+..++...
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 334445555555432 223467999999999999999998888754
No 294
>PRK11823 DNA repair protein RadA; Provisional
Probab=85.67 E-value=1.5 Score=54.27 Aligned_cols=26 Identities=31% Similarity=0.593 Sum_probs=22.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..++||.||||+|||+....+...+.
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a 105 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLA 105 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35999999999999999988877655
No 295
>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=85.63 E-value=1.4 Score=60.52 Aligned_cols=29 Identities=31% Similarity=0.505 Sum_probs=22.3
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
++.|..++... .+++|+||||+||||-|-
T Consensus 72 ~~~Il~~l~~~-------~vvii~g~TGSGKTTqlP 100 (1283)
T TIGR01967 72 REDIAEAIAEN-------QVVIIAGETGSGKTTQLP 100 (1283)
T ss_pred HHHHHHHHHhC-------ceEEEeCCCCCCcHHHHH
Confidence 45677776542 599999999999999653
No 296
>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=85.51 E-value=0.64 Score=60.53 Aligned_cols=23 Identities=43% Similarity=0.647 Sum_probs=18.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.-.||.||||||||+.+.+|...
T Consensus 213 ~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHHH
Confidence 45899999999999887766553
No 297
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.49 E-value=1 Score=57.93 Aligned_cols=40 Identities=25% Similarity=0.309 Sum_probs=29.3
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+++..++... +-....|++||||||||+++..+...|+.
T Consensus 25 v~~L~~~l~~~----rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 25 VQALTNALTQQ----RLHHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred HHHHHHHHHcC----CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34555555442 22346799999999999999999888875
No 298
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=85.48 E-value=1.1 Score=53.71 Aligned_cols=28 Identities=32% Similarity=0.338 Sum_probs=24.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+-+.|+-|..||||||||.-|-..+..
T Consensus 138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~ 165 (340)
T COG0552 138 KPFVILFVGVNGVGKTTTIAKLAKYLKQ 165 (340)
T ss_pred CcEEEEEEecCCCchHhHHHHHHHHHHH
Confidence 4568999999999999999888877664
No 299
>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=85.44 E-value=0.99 Score=54.09 Aligned_cols=24 Identities=29% Similarity=0.484 Sum_probs=20.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+=.||.||||||||+++.++-..+
T Consensus 26 g~vli~G~~G~gKttl~r~~~~~~ 49 (337)
T TIGR02030 26 GGVMVMGDRGTGKSTAVRALAALL 49 (337)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHhh
Confidence 458899999999999888876654
No 300
>PRK04040 adenylate kinase; Provisional
Probab=85.39 E-value=0.68 Score=50.80 Aligned_cols=24 Identities=29% Similarity=0.598 Sum_probs=19.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+.+|.|+||+|||+..-.+...+
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 478999999999999877766654
No 301
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=85.39 E-value=1.1 Score=53.89 Aligned_cols=44 Identities=23% Similarity=0.292 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.-.+.+..++... +-+...||+||+|+|||+++..+...|+..
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 33445566665442 234589999999999999999999999874
No 302
>PRK10865 protein disaggregation chaperone; Provisional
Probab=85.31 E-value=1 Score=59.91 Aligned_cols=26 Identities=31% Similarity=0.457 Sum_probs=22.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+..|+.||||||||++...|...++.
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l~~ 624 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFMFD 624 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhhc
Confidence 57899999999999999888776653
No 303
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=85.11 E-value=1 Score=55.00 Aligned_cols=27 Identities=37% Similarity=0.615 Sum_probs=23.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.|++||||+|||++...+...++..
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 468899999999999999998888765
No 304
>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=84.96 E-value=0.69 Score=56.12 Aligned_cols=26 Identities=50% Similarity=0.661 Sum_probs=20.4
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..-.||-||||||||-..+||-..|=
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 45789999999999999998877653
No 305
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=84.89 E-value=1.1 Score=58.58 Aligned_cols=41 Identities=24% Similarity=0.267 Sum_probs=28.9
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+.+..++... +-....|+.||||||||+++..+...|...
T Consensus 25 v~~L~~aL~~g----RL~HAyLFtGPpGvGKTTlAriLAKaLnCe 65 (830)
T PRK07003 25 VRALTHALDGG----RLHHAYLFTGTRGVGKTTLSRIFAKALNCE 65 (830)
T ss_pred HHHHHHHHhcC----CCCeEEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 34455555432 223477999999999999999888887653
No 306
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.81 E-value=1.1 Score=57.52 Aligned_cols=27 Identities=33% Similarity=0.471 Sum_probs=23.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.|+.||||||||+++..+...|+..
T Consensus 39 ~a~Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 39 PAYLFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhcCC
Confidence 356999999999999999999988764
No 307
>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=84.67 E-value=0.71 Score=49.19 Aligned_cols=20 Identities=35% Similarity=0.692 Sum_probs=15.3
Q ss_pred EEEecCCCCCchHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+|-||||+|||+....|..
T Consensus 2 I~i~G~pGsGKst~a~~La~ 21 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAK 21 (194)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47889999999976655443
No 308
>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=84.63 E-value=0.74 Score=49.86 Aligned_cols=23 Identities=35% Similarity=0.499 Sum_probs=19.0
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+..|-||+|+||||++..|...+
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 35788999999999987776655
No 309
>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=84.55 E-value=2.6 Score=54.53 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=18.7
Q ss_pred CCeEEEEeCChHHHHHHHHHHH
Q 000413 1312 RARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1312 k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
++||||.+||.+=.++++..+.
T Consensus 46 ~~rvlIstpT~~Lq~Ql~~~l~ 67 (636)
T TIGR03117 46 DQKIAIAVPTLALMGQLWSELE 67 (636)
T ss_pred CceEEEECCcHHHHHHHHHHHH
Confidence 5789999999999999987544
No 310
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=84.54 E-value=1.9 Score=53.91 Aligned_cols=26 Identities=31% Similarity=0.388 Sum_probs=21.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..++||-||||||||.....++...+
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~ 298 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAAC 298 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 46999999999999998877776443
No 311
>PRK13764 ATPase; Provisional
Probab=84.43 E-value=0.75 Score=58.86 Aligned_cols=26 Identities=35% Similarity=0.452 Sum_probs=22.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+-.||-||||+||||++.+|+..+..
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i~~ 283 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFYAD 283 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 45799999999999999999887753
No 312
>PRK00889 adenylylsulfate kinase; Provisional
Probab=84.41 E-value=0.94 Score=48.12 Aligned_cols=26 Identities=27% Similarity=0.279 Sum_probs=21.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+..|.|+||+|||++...|...+-
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~ 29 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLR 29 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 35888899999999998877777653
No 313
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=84.39 E-value=0.57 Score=60.97 Aligned_cols=43 Identities=37% Similarity=0.410 Sum_probs=29.2
Q ss_pred HHHHhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHH
Q 000413 1198 LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1198 L~~~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
++++++.==|+.|.+..-+- -+.=+|+.||||||||-...++-
T Consensus 323 l~E~V~fLKNP~~Y~~lGAK---------iPkGvLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 323 LMEFVKFLKNPEQYQELGAK---------IPKGVLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred HHHHHHHhcCHHHHHHcCCc---------CcCceEEECCCCCcHHHHHHHHh
Confidence 44444333488888875332 23358999999999998777763
No 314
>PRK14531 adenylate kinase; Provisional
Probab=84.27 E-value=0.76 Score=49.58 Aligned_cols=21 Identities=33% Similarity=0.623 Sum_probs=16.1
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
-.+|-||||+|||+....|..
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~ 24 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCA 24 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 468899999999987554443
No 315
>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=84.23 E-value=0.77 Score=50.20 Aligned_cols=26 Identities=27% Similarity=0.537 Sum_probs=20.2
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+-+.+|-||||+|||+++..++..+
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 45688999999999999988777765
No 316
>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=84.19 E-value=0.87 Score=49.99 Aligned_cols=26 Identities=27% Similarity=0.259 Sum_probs=19.9
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
++..+..|.||+|+||||.+..|...
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence 34567889999999999876666553
No 317
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=84.13 E-value=0.81 Score=53.73 Aligned_cols=26 Identities=19% Similarity=0.288 Sum_probs=21.8
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...+++|.||||||||+....++...
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~ 126 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNV 126 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHh
Confidence 34699999999999999988876544
No 318
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=84.12 E-value=2.2 Score=52.31 Aligned_cols=28 Identities=32% Similarity=0.456 Sum_probs=23.6
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+.+|-||.|+|||+|+..|...+..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~ 232 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLK 232 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4579999999999999999998766543
No 319
>PRK09694 helicase Cas3; Provisional
Probab=84.10 E-value=2.4 Score=56.60 Aligned_cols=42 Identities=24% Similarity=0.315 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..|+-|..+.... ..+++.+|..|.|+|||-..+.....++.
T Consensus 286 ~p~p~Q~~~~~~~--------~~pgl~ileApTGsGKTEAAL~~A~~l~~ 327 (878)
T PRK09694 286 QPRQLQTLVDALP--------LQPGLTIIEAPTGSGKTEAALAYAWRLID 327 (878)
T ss_pred CChHHHHHHHhhc--------cCCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 4577777663221 23579999999999999987666555443
No 320
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=84.09 E-value=1.3 Score=56.26 Aligned_cols=27 Identities=33% Similarity=0.444 Sum_probs=23.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+..++...
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~c~ 65 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVNCL 65 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 468899999999999999888887754
No 321
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=84.08 E-value=0.55 Score=48.36 Aligned_cols=16 Identities=50% Similarity=0.740 Sum_probs=13.4
Q ss_pred ceEEEecCCCCCchHH
Q 000413 1229 ELSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkT 1244 (1545)
.-.||+|+|||||+.+
T Consensus 22 ~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 22 SPVLITGEPGTGKSLL 37 (138)
T ss_dssp S-EEEECCTTSSHHHH
T ss_pred CcEEEEcCCCCCHHHH
Confidence 3579999999999984
No 322
>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=84.04 E-value=0.86 Score=47.89 Aligned_cols=24 Identities=25% Similarity=0.441 Sum_probs=19.5
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.+|.|+||+|||+.+..|...+.
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~ 24 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLF 24 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHH
Confidence 468899999999988877777654
No 323
>PRK08118 topology modulation protein; Reviewed
Probab=84.04 E-value=0.83 Score=49.10 Aligned_cols=18 Identities=22% Similarity=0.464 Sum_probs=14.1
Q ss_pred EEEecCCCCCchHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgL 1248 (1545)
.+|-||||+||||....|
T Consensus 4 I~I~G~~GsGKSTlak~L 21 (167)
T PRK08118 4 IILIGSGGSGKSTLARQL 21 (167)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 578999999999754443
No 324
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=84.00 E-value=1.4 Score=57.01 Aligned_cols=40 Identities=25% Similarity=0.298 Sum_probs=29.1
Q ss_pred HHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1212 QAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1212 eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+++..++.... -....|+.||||||||+++..+...|+..
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 34555554321 22357999999999999999998888764
No 325
>PRK06547 hypothetical protein; Provisional
Probab=83.92 E-value=1.1 Score=48.69 Aligned_cols=26 Identities=31% Similarity=0.369 Sum_probs=20.7
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
....+.+|-||||+|||++.-.|...
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 34568999999999999987666554
No 326
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=83.87 E-value=0.96 Score=56.93 Aligned_cols=23 Identities=30% Similarity=0.661 Sum_probs=19.7
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+.||.||+|.||||||-.|-..
T Consensus 111 ~iLLltGPsGcGKSTtvkvLske 133 (634)
T KOG1970|consen 111 RILLLTGPSGCGKSTTVKVLSKE 133 (634)
T ss_pred eEEEEeCCCCCCchhHHHHHHHh
Confidence 49999999999999998766543
No 327
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=83.81 E-value=3.2 Score=56.62 Aligned_cols=40 Identities=25% Similarity=0.354 Sum_probs=31.6
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..|.+-|.+||.+++...+ +|+.-|.|+|||- +..|.+|+
T Consensus 459 ~sFRp~Q~eaI~aiL~GrD--------VLVimPTGSGKSL--cYQLPAL~ 498 (1195)
T PLN03137 459 HSFRPNQREIINATMSGYD--------VFVLMPTGGGKSL--TYQLPALI 498 (1195)
T ss_pred CCCCHHHHHHHHHHHcCCC--------EEEEcCCCccHHH--HHHHHHHH
Confidence 3789999999999987543 8899999999994 45555554
No 328
>PLN02200 adenylate kinase family protein
Probab=83.70 E-value=0.95 Score=51.37 Aligned_cols=23 Identities=30% Similarity=0.496 Sum_probs=18.2
Q ss_pred cceEEEecCCCCCchHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
..+.+|-||||+|||+....|..
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~ 65 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVE 65 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHH
Confidence 35789999999999987665544
No 329
>PRK13947 shikimate kinase; Provisional
Probab=83.67 E-value=0.83 Score=48.00 Aligned_cols=19 Identities=32% Similarity=0.333 Sum_probs=14.5
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
-+|.||||+|||++...|-
T Consensus 4 I~l~G~~GsGKst~a~~La 22 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVA 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 4678999999998654443
No 330
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=83.66 E-value=1.4 Score=54.68 Aligned_cols=27 Identities=33% Similarity=0.335 Sum_probs=23.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+...++..
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 468999999999999999999888764
No 331
>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=83.65 E-value=0.91 Score=52.91 Aligned_cols=25 Identities=20% Similarity=0.288 Sum_probs=20.9
Q ss_pred CcceEEEecCCCCCchHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+++|-||||||||+....+...
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~~ 118 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAVN 118 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3579999999999999988877544
No 332
>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=83.54 E-value=0.91 Score=49.45 Aligned_cols=26 Identities=31% Similarity=0.486 Sum_probs=21.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
=.||.|+||+|||.++..++..++..
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 48999999999999999999998874
No 333
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.52 E-value=1.4 Score=56.79 Aligned_cols=27 Identities=22% Similarity=0.261 Sum_probs=23.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.--|++||||||||+++..+...|+..
T Consensus 39 ha~Lf~Gp~GvGKttlA~~lAk~L~c~ 65 (620)
T PRK14954 39 HGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (620)
T ss_pred eeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 358899999999999999998888763
No 334
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=83.46 E-value=2.7 Score=56.47 Aligned_cols=41 Identities=29% Similarity=0.319 Sum_probs=29.5
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1205 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1205 ~LNeSQ~e---AI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+-+.|.+ +|..++... ...+|+.|+|||||- .-|+.+++.
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~-------~~~~iEA~TGtGKTl--aYLlpa~~~ 300 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDS-------EHALIEAGTGTGKSL--AYLLPAAYF 300 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcC-------CCEEEECCCCCchhH--HHHHHHHHH
Confidence 56788888 777777542 478899999999995 235555443
No 335
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=83.44 E-value=1.4 Score=53.05 Aligned_cols=26 Identities=42% Similarity=0.500 Sum_probs=20.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+=.||.||+|||||+++-++...+-.
T Consensus 39 ~~vli~G~~GtGKs~~ar~~~~~l~~ 64 (350)
T CHL00081 39 GGVMIMGDRGTGKSTTIRALVDLLPE 64 (350)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHhh
Confidence 45789999999999988877665543
No 336
>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=83.43 E-value=0.95 Score=49.23 Aligned_cols=24 Identities=33% Similarity=0.475 Sum_probs=18.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+.-|.||||+||||+...|...|-
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 356899999999998777766553
No 337
>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=83.40 E-value=1.3 Score=50.96 Aligned_cols=22 Identities=36% Similarity=0.542 Sum_probs=18.5
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+|-||+|||||++|..|+..+
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~ 37 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYL 37 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhh
Confidence 3478999999999999988654
No 338
>PTZ00202 tuzin; Provisional
Probab=83.36 E-value=1.4 Score=54.89 Aligned_cols=42 Identities=14% Similarity=0.157 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1208 ESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1208 eSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+.+..++..++...+ .....|++|-||+|+|||+++..++..
T Consensus 268 eaEla~Lr~VL~~~d--~~~privvLtG~~G~GKTTLlR~~~~~ 309 (550)
T PTZ00202 268 EAEESWVRQVLRRLD--TAHPRIVVFTGFRGCGKSSLCRSAVRK 309 (550)
T ss_pred HHHHHHHHHHHhccC--CCCceEEEEECCCCCCHHHHHHHHHhc
Confidence 344555555554322 223459999999999999998777754
No 339
>PRK03839 putative kinase; Provisional
Probab=83.33 E-value=0.96 Score=48.27 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=14.9
Q ss_pred EEEecCCCCCchHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+|-||||+||||....|..
T Consensus 3 I~l~G~pGsGKsT~~~~La~ 22 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAE 22 (180)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 56779999999986544433
No 340
>PF13479 AAA_24: AAA domain
Probab=83.27 E-value=0.63 Score=51.66 Aligned_cols=19 Identities=47% Similarity=0.812 Sum_probs=16.3
Q ss_pred eEEEecCCCCCchHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgL 1248 (1545)
-.||.||||+|||+++..+
T Consensus 5 ~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL 23 (213)
T ss_pred EEEEECCCCCCHHHHHHhC
Confidence 5799999999999977655
No 341
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=83.27 E-value=0.81 Score=50.44 Aligned_cols=20 Identities=40% Similarity=0.700 Sum_probs=15.3
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.-+|.|.||||||++ +..+.
T Consensus 2 ~I~ITGTPGvGKTT~-~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTV-CKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHH-HHHHH
Confidence 457999999999964 45554
No 342
>PRK06696 uridine kinase; Validated
Probab=83.13 E-value=1.8 Score=48.23 Aligned_cols=26 Identities=19% Similarity=0.162 Sum_probs=22.0
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
..-+..|-||||+||||+.-.|...|
T Consensus 21 ~~~iI~I~G~sgsGKSTlA~~L~~~l 46 (223)
T PRK06696 21 RPLRVAIDGITASGKTTFADELAEEI 46 (223)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHH
Confidence 45699999999999999887777665
No 343
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=83.12 E-value=1.6 Score=52.26 Aligned_cols=29 Identities=31% Similarity=0.369 Sum_probs=24.4
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..-+.-|.||||+||||++-.++..+-..
T Consensus 55 ~~~~igi~G~~GaGKSTl~~~l~~~l~~~ 83 (332)
T PRK09435 55 NALRIGITGVPGVGKSTFIEALGMHLIEQ 83 (332)
T ss_pred CcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence 34588899999999999999998887643
No 344
>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=83.12 E-value=1.2 Score=57.29 Aligned_cols=25 Identities=32% Similarity=0.442 Sum_probs=21.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...++.||||||||+.+.++...+-
T Consensus 38 ~~~ll~G~pG~GKT~la~~la~~l~ 62 (608)
T TIGR00764 38 RNVLLIGEPGVGKSMLAKAMAELLP 62 (608)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHcC
Confidence 4788999999999999888876553
No 345
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=83.11 E-value=1.1 Score=47.02 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=23.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
++.+|.||.|+|||+.+..|+..|...
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~ 27 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRR 27 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHc
Confidence 367899999999999999999998864
No 346
>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=83.09 E-value=1 Score=57.82 Aligned_cols=23 Identities=30% Similarity=0.583 Sum_probs=18.7
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+|.||||||||+++..+...
T Consensus 176 ~~vlL~Gp~GtGKTTLAr~i~~~ 198 (615)
T TIGR02903 176 QHIILYGPPGVGKTTAARLALEE 198 (615)
T ss_pred CeEEEECCCCCCHHHHHHHHHHh
Confidence 46999999999999987666543
No 347
>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=83.08 E-value=1 Score=48.17 Aligned_cols=24 Identities=46% Similarity=0.551 Sum_probs=20.8
Q ss_pred EEEecCCCCCchHHHHHHHHHHHh
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..|.||+|+|||+++..++..+-.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~ 25 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKA 25 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh
Confidence 457799999999999999998754
No 348
>PRK13768 GTPase; Provisional
Probab=83.00 E-value=1 Score=51.52 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=22.4
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.+|.||+|+|||+++.++..++..
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~ 28 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEE 28 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHh
Confidence 7889999999999999999888765
No 349
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=83.00 E-value=1.5 Score=55.54 Aligned_cols=27 Identities=30% Similarity=0.415 Sum_probs=23.7
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|+.||||||||+++..+..+++..
T Consensus 37 hayLf~Gp~G~GKTt~Ar~LAk~L~c~ 63 (535)
T PRK08451 37 HAYLFSGLRGSGKTSSARIFARALVCE 63 (535)
T ss_pred eeEEEECCCCCcHHHHHHHHHHHhcCC
Confidence 466999999999999999999988754
No 350
>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=82.91 E-value=3.4 Score=54.98 Aligned_cols=33 Identities=36% Similarity=0.504 Sum_probs=24.3
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCcceEEEecCCCCCchHH
Q 000413 1205 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1205 ~LNeSQ~e---AI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkT 1244 (1545)
.+.+.|.+ +|..++.. ....+|+.|+|||||-.
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~-------~~~~~~eA~TG~GKT~a 280 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTH-------SEKSLIEAPTGTGKTLG 280 (850)
T ss_pred ccCHHHHHHHHHHHHHhcc-------CCcEEEECCCCCchhHH
Confidence 56789997 45555532 24788999999999953
No 351
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=82.86 E-value=0.9 Score=55.78 Aligned_cols=22 Identities=32% Similarity=0.493 Sum_probs=18.2
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+-.||.||||||||++...|-.
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHH
Confidence 4589999999999998777654
No 352
>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=82.78 E-value=1.2 Score=41.03 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=20.1
Q ss_pred EEEecCCCCCchHHHHHHHHHHHh
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+|.|.+|+|||++...+...+-.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~ 25 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAK 25 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 578899999999999888877654
No 353
>PRK07667 uridine kinase; Provisional
Probab=82.77 E-value=1.7 Score=47.46 Aligned_cols=25 Identities=20% Similarity=0.227 Sum_probs=20.3
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.-+..|-||||+||||+.-.|...+
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l 41 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENM 41 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHH
Confidence 3588999999999999876666655
No 354
>PRK14532 adenylate kinase; Provisional
Probab=82.72 E-value=0.86 Score=48.88 Aligned_cols=19 Identities=32% Similarity=0.622 Sum_probs=14.7
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.+|-||||+||||....|.
T Consensus 3 i~~~G~pGsGKsT~a~~la 21 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLV 21 (188)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4678999999998654443
No 355
>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=82.69 E-value=0.76 Score=46.33 Aligned_cols=23 Identities=35% Similarity=0.619 Sum_probs=19.0
Q ss_pred cceEEEecCCCCCchHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
..++.|.||+|+|||+.+..|.+
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 46999999999999998765544
No 356
>PRK07261 topology modulation protein; Provisional
Probab=82.51 E-value=1 Score=48.49 Aligned_cols=19 Identities=26% Similarity=0.344 Sum_probs=15.9
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.+|.||||+||||....|.
T Consensus 3 i~i~G~~GsGKSTla~~l~ 21 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLS 21 (171)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 5789999999999876654
No 357
>PRK14528 adenylate kinase; Provisional
Probab=82.47 E-value=1 Score=48.93 Aligned_cols=20 Identities=30% Similarity=0.584 Sum_probs=15.9
Q ss_pred eEEEecCCCCCchHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLV 1249 (1545)
..+|-||||+|||++...|.
T Consensus 3 ~i~i~G~pGsGKtt~a~~la 22 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILC 22 (186)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 46889999999998765553
No 358
>PRK01184 hypothetical protein; Provisional
Probab=82.45 E-value=0.97 Score=48.32 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=13.5
Q ss_pred eEEEecCCCCCchHH
Q 000413 1230 LSLIQGPPGTGKTRT 1244 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkT 1244 (1545)
+.+|.||||+||||.
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 678899999999994
No 359
>PF12846 AAA_10: AAA-like domain
Probab=82.43 E-value=1.1 Score=50.19 Aligned_cols=26 Identities=31% Similarity=0.544 Sum_probs=23.2
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
=++|-|++|+|||+++..++..++..
T Consensus 3 h~~i~G~tGsGKT~~~~~l~~~~~~~ 28 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLLEQLIRR 28 (304)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 47999999999999999999888765
No 360
>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=82.41 E-value=1 Score=56.17 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=20.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..++||.||||||||+....++..
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~ 44 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYN 44 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHH
Confidence 469999999999999988877664
No 361
>PRK02496 adk adenylate kinase; Provisional
Probab=82.37 E-value=1.1 Score=48.10 Aligned_cols=20 Identities=35% Similarity=0.723 Sum_probs=15.6
Q ss_pred EEEecCCCCCchHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+|-||||+|||++...|..
T Consensus 4 i~i~G~pGsGKst~a~~la~ 23 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAE 23 (184)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 67889999999986655543
No 362
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=82.36 E-value=1.1 Score=55.19 Aligned_cols=25 Identities=28% Similarity=0.651 Sum_probs=21.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+|.||+|+|||||+..|...+.
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~~~~ 248 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAAKYF 248 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH
Confidence 5788999999999999999987653
No 363
>CHL00095 clpC Clp protease ATP binding subunit
Probab=82.30 E-value=1.6 Score=57.76 Aligned_cols=43 Identities=21% Similarity=0.462 Sum_probs=30.9
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+.+.+.+...|.+.. + .. .|+.||||||||.++-++...+..
T Consensus 184 r~~ei~~~~~~L~r~~---~-~n-~lL~G~pGvGKTal~~~la~~i~~ 226 (821)
T CHL00095 184 REKEIERVIQILGRRT---K-NN-PILIGEPGVGKTAIAEGLAQRIVN 226 (821)
T ss_pred cHHHHHHHHHHHcccc---c-CC-eEEECCCCCCHHHHHHHHHHHHHh
Confidence 4566666777776532 2 22 379999999999999998887654
No 364
>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=82.26 E-value=1.2 Score=47.53 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=19.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+.++.||||+|||+....|...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 48899999999999987777654
No 365
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=82.15 E-value=2 Score=52.07 Aligned_cols=42 Identities=31% Similarity=0.279 Sum_probs=31.5
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhcc
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATR 1256 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~ 1256 (1545)
.+.+..++.+. +-+.--|++||+|+||+++...+...|+...
T Consensus 28 ~~~L~~~~~~~----rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 28 EAALLDAYRSG----RLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred HHHHHHHHHcC----CCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 34455565542 2234689999999999999999999999753
No 366
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=82.14 E-value=1 Score=53.12 Aligned_cols=26 Identities=46% Similarity=0.675 Sum_probs=21.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.-.||-||||||||-..++|-.-|=.
T Consensus 65 ravLlaGppgtGKTAlAlaisqELG~ 90 (456)
T KOG1942|consen 65 RAVLLAGPPGTGKTALALAISQELGP 90 (456)
T ss_pred cEEEEecCCCCchhHHHHHHHHHhCC
Confidence 47899999999999998888765543
No 367
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=82.14 E-value=3.7 Score=53.83 Aligned_cols=47 Identities=23% Similarity=0.364 Sum_probs=37.5
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..||..|..|+....+.. ....-.|++|.+|+|||-.-..+|...|.
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~----~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~ 243 (730)
T COG1198 197 LALNQEQQAAVEAILSSL----GGFAPFLLDGVTGSGKTEVYLEAIAKVLA 243 (730)
T ss_pred cccCHHHHHHHHHHHHhc----ccccceeEeCCCCCcHHHHHHHHHHHHHH
Confidence 379999999998876552 23458999999999999888777776665
No 368
>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=81.97 E-value=1.2 Score=45.14 Aligned_cols=21 Identities=29% Similarity=0.548 Sum_probs=16.5
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..|-||||+|||++...|...
T Consensus 2 I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478899999999876665543
No 369
>PRK13909 putative recombination protein RecB; Provisional
Probab=81.95 E-value=2.1 Score=57.29 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=20.1
Q ss_pred CeEEEEeCChHHHHHHHHHHHh
Q 000413 1313 ARVLICAQSNAAVDELVSRISK 1334 (1545)
Q Consensus 1313 ~RILVCAPSNAAVDEIV~RLlk 1334 (1545)
..||+.+-||.|..|+-.|+.+
T Consensus 30 ~~IlavTFT~kAa~Emk~Ri~~ 51 (910)
T PRK13909 30 SEILALTFTKKAANEMKERIID 51 (910)
T ss_pred ceEEEEeehHHHHHHHHHHHHH
Confidence 5899999999999999999884
No 370
>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=81.95 E-value=2.1 Score=45.91 Aligned_cols=29 Identities=34% Similarity=0.556 Sum_probs=24.4
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhcc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLATR 1256 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~~ 1256 (1545)
+..-|++||+|+||++++..++..++...
T Consensus 19 ~ha~L~~G~~g~gk~~~a~~~a~~ll~~~ 47 (162)
T PF13177_consen 19 PHALLFHGPSGSGKKTLALAFARALLCSN 47 (162)
T ss_dssp -SEEEEECSTTSSHHHHHHHHHHHHC-TT
T ss_pred ceeEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 34779999999999999999999998763
No 371
>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=81.92 E-value=0.91 Score=59.19 Aligned_cols=21 Identities=48% Similarity=0.754 Sum_probs=17.6
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.|+.||||||||.+..++-..
T Consensus 490 iLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 490 VLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 688999999999988777553
No 372
>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=81.92 E-value=0.61 Score=56.78 Aligned_cols=27 Identities=37% Similarity=0.610 Sum_probs=23.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.--||+|-||||||+..+.++..|...
T Consensus 11 ~TLLIKG~PGTGKTtfaLelL~~l~~~ 37 (484)
T PF07088_consen 11 QTLLIKGEPGTGKTTFALELLNSLKDH 37 (484)
T ss_pred cEEEEecCCCCCceeeehhhHHHHhcc
Confidence 357899999999999999999988765
No 373
>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=81.81 E-value=1.3 Score=52.91 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=23.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|-||||||||+....++.....
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~ 81 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIAEAQK 81 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3469999999999999998887776554
No 374
>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=81.57 E-value=1.2 Score=50.07 Aligned_cols=25 Identities=28% Similarity=0.505 Sum_probs=21.0
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+++|-||||||||+..+.+..++-.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~ 27 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMAL 27 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhc
Confidence 7899999999999998888665543
No 375
>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=81.56 E-value=2.8 Score=52.12 Aligned_cols=27 Identities=33% Similarity=0.576 Sum_probs=23.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..++||-|+||+|||+....+...+..
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~ 120 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAK 120 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 469999999999999999888776654
No 376
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=81.51 E-value=1.1 Score=59.85 Aligned_cols=31 Identities=39% Similarity=0.559 Sum_probs=27.5
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHhccC
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLATRT 1257 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~ 1257 (1545)
..|++||.||.|+|||+.+=+|..+|.....
T Consensus 24 ~~gi~lI~G~nGsGKSSIldAI~~ALyG~~~ 54 (908)
T COG0419 24 DSGIFLIVGPNGAGKSSILDAITFALYGKTP 54 (908)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHcCCCC
Confidence 3589999999999999999999999987644
No 377
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=81.43 E-value=2.5 Score=54.36 Aligned_cols=26 Identities=31% Similarity=0.252 Sum_probs=22.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..+|.||+|||||+.+.+|...+...
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~ 341 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRL 341 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 47999999999999999999887653
No 378
>PRK09087 hypothetical protein; Validated
Probab=81.41 E-value=1.5 Score=49.46 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=19.0
Q ss_pred cceEEEecCCCCCchHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+...|.||+|+||||..-++..
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~ 66 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWRE 66 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 36789999999999998876553
No 379
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=81.36 E-value=2.6 Score=54.57 Aligned_cols=44 Identities=34% Similarity=0.451 Sum_probs=38.4
Q ss_pred cCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1204 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1204 ~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..|++.|.+|+..++.. ++..+-||||||||+++.+++..+...
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 47899999999988754 589999999999999999999877654
No 380
>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=81.21 E-value=1.7 Score=54.83 Aligned_cols=22 Identities=36% Similarity=0.693 Sum_probs=17.7
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.-.||.||||||||+..-.+..
T Consensus 87 ~~vLi~Ge~GtGKt~lAr~i~~ 108 (531)
T TIGR02902 87 QHVIIYGPPGVGKTAAARLVLE 108 (531)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3569999999999997766654
No 381
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=81.20 E-value=2.1 Score=53.72 Aligned_cols=28 Identities=25% Similarity=0.408 Sum_probs=24.1
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.++.++-||+|.||||||..|...+...
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~ 283 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMR 283 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHh
Confidence 4699999999999999999998877543
No 382
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.99 E-value=1.9 Score=55.54 Aligned_cols=27 Identities=30% Similarity=0.333 Sum_probs=23.4
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.-.|++||||||||+++..+...++..
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~C~ 65 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALNCE 65 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhcccc
Confidence 568899999999999999888888753
No 383
>PRK00300 gmk guanylate kinase; Provisional
Probab=80.99 E-value=1.3 Score=48.05 Aligned_cols=25 Identities=28% Similarity=0.554 Sum_probs=19.4
Q ss_pred CcceEEEecCCCCCchHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+..|-||+|+|||+++..|...
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhh
Confidence 3468999999999999866555553
No 384
>PRK10865 protein disaggregation chaperone; Provisional
Probab=80.96 E-value=1.2 Score=59.28 Aligned_cols=27 Identities=22% Similarity=0.484 Sum_probs=22.8
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+..++.||||||||+++-++...+..
T Consensus 199 ~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 199 KNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 356788899999999999999887754
No 385
>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=80.92 E-value=1.2 Score=46.45 Aligned_cols=18 Identities=39% Similarity=0.754 Sum_probs=14.3
Q ss_pred EecCCCCCchHHHHHHHH
Q 000413 1233 IQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1233 IQGPPGTGKTkTIvgLVs 1250 (1545)
|-||||+|||+....|..
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 569999999987766544
No 386
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=80.85 E-value=1.9 Score=55.10 Aligned_cols=27 Identities=22% Similarity=0.345 Sum_probs=21.2
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
...+.++.||||+|||+..-.|..++=
T Consensus 102 ~~~IL~LvGPpG~GKSsLa~~la~~le 128 (644)
T PRK15455 102 KKQILYLLGPVGGGKSSLAERLKSLME 128 (644)
T ss_pred CCceEEEecCCCCCchHHHHHHHHHHH
Confidence 346999999999999987776665443
No 387
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=80.83 E-value=2.1 Score=53.71 Aligned_cols=26 Identities=31% Similarity=0.460 Sum_probs=20.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...|+.||||||||++...+...+..
T Consensus 39 hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 39 HAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 46789999999998877766666653
No 388
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=80.80 E-value=1.2 Score=55.87 Aligned_cols=27 Identities=44% Similarity=0.780 Sum_probs=0.0
Q ss_pred EEecCCCCCchHHHHHHHHHHHhccCCC
Q 000413 1232 LIQGPPGTGKTRTIVAIVSALLATRTSP 1259 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVsaLL~~~~~~ 1259 (1545)
|.-|||||||| .|.-=|+.+|..+...
T Consensus 260 LLyGPPGTGKT-LiARqIGkMLNArePK 286 (744)
T KOG0741|consen 260 LLYGPPGTGKT-LIARQIGKMLNAREPK 286 (744)
T ss_pred EEECCCCCChh-HHHHHHHHHhcCCCCc
No 389
>PRK14530 adenylate kinase; Provisional
Probab=80.69 E-value=1.4 Score=48.65 Aligned_cols=20 Identities=30% Similarity=0.521 Sum_probs=15.8
Q ss_pred eEEEecCCCCCchHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLV 1249 (1545)
..+|-||||+||||....|.
T Consensus 5 ~I~i~G~pGsGKsT~~~~La 24 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLA 24 (215)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 56788999999998665553
No 390
>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=80.61 E-value=1.4 Score=43.13 Aligned_cols=21 Identities=29% Similarity=0.482 Sum_probs=17.3
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+|-|++|+|||+.|..++..
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 368899999999988777663
No 391
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=80.56 E-value=1.6 Score=56.83 Aligned_cols=26 Identities=38% Similarity=0.636 Sum_probs=20.8
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+...+.|+|||||+|||+.+.+.-+.
T Consensus 429 ~~~~~vLLhG~~g~GK~t~V~~vas~ 454 (953)
T KOG0736|consen 429 TLNPSVLLHGPPGSGKTTVVRAVASE 454 (953)
T ss_pred ccceEEEEeCCCCCChHHHHHHHHHH
Confidence 44579999999999999877665553
No 392
>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=80.46 E-value=2 Score=57.14 Aligned_cols=27 Identities=33% Similarity=0.437 Sum_probs=22.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.+..|+.||||||||++..+|-..+..
T Consensus 595 ~~~~Lf~Gp~GvGKt~lA~~La~~l~~ 621 (852)
T TIGR03346 595 IGSFLFLGPTGVGKTELAKALAEFLFD 621 (852)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 357899999999999999888877654
No 393
>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=80.33 E-value=3.5 Score=54.33 Aligned_cols=57 Identities=25% Similarity=0.443 Sum_probs=44.8
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhccccccccc
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKK 1305 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ 1305 (1545)
...++.+|..|=|||||+-+...+...+.
T Consensus 47 ~~~~V~vVRSpMGTGKTtaLi~wLk~~l~--------------------------------------------------- 75 (824)
T PF02399_consen 47 QKRGVLVVRSPMGTGKTTALIRWLKDALK--------------------------------------------------- 75 (824)
T ss_pred CCCCeEEEECCCCCCcHHHHHHHHHHhcc---------------------------------------------------
Confidence 34579999999999999966554443322
Q ss_pred cccccCCCeEEEEeCChHHHHHHHHHHHhcCC
Q 000413 1306 SSESSVRARVLICAQSNAAVDELVSRISKEGL 1337 (1545)
Q Consensus 1306 ss~~~~k~RILVCAPSNAAVDEIV~RLlk~Gl 1337 (1545)
.+..+|||.+.-++=+.++..|+...|+
T Consensus 76 ----~~~~~VLvVShRrSL~~sL~~rf~~~~l 103 (824)
T PF02399_consen 76 ----NPDKSVLVVSHRRSLTKSLAERFKKAGL 103 (824)
T ss_pred ----CCCCeEEEEEhHHHHHHHHHHHHhhcCC
Confidence 1357899999999999999999987765
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=80.31 E-value=1.3 Score=49.71 Aligned_cols=22 Identities=27% Similarity=0.296 Sum_probs=17.8
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.-|-||+|+||||++..|...+
T Consensus 2 igI~G~sGSGKTTla~~L~~~l 23 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALL 23 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHH
Confidence 4577999999999987777654
No 395
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=79.94 E-value=2 Score=55.51 Aligned_cols=24 Identities=33% Similarity=0.534 Sum_probs=20.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+.||.||||||||+++..+...+
T Consensus 51 ~~~l~~G~~G~GKttla~~l~~~l 74 (637)
T PRK13765 51 RHVMMIGSPGTGKSMLAKAMAELL 74 (637)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHc
Confidence 489999999999999998877654
No 396
>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=79.91 E-value=2.3 Score=56.66 Aligned_cols=28 Identities=36% Similarity=0.566 Sum_probs=23.3
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..+..|+.||||||||.+..+|-..|+.
T Consensus 595 p~~~~lf~Gp~GvGKT~lA~~La~~l~~ 622 (852)
T TIGR03345 595 PLGVFLLVGPSGVGKTETALALAELLYG 622 (852)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence 3456899999999999999988777654
No 397
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=79.89 E-value=1.3 Score=57.96 Aligned_cols=25 Identities=28% Similarity=0.476 Sum_probs=21.2
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.|+.||||||||+++-++...+...
T Consensus 206 ~lL~G~pG~GKT~l~~~la~~~~~~ 230 (731)
T TIGR02639 206 PLLVGEPGVGKTAIAEGLALRIAEG 230 (731)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhC
Confidence 4788999999999999998877654
No 398
>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=79.84 E-value=2.6 Score=44.65 Aligned_cols=23 Identities=43% Similarity=0.613 Sum_probs=18.6
Q ss_pred EEEecCCCCCchHHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+-||+|+|||+++..+...+.
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~ 24 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALR 24 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHH
Confidence 35669999999999988877653
No 399
>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=79.78 E-value=1.4 Score=46.79 Aligned_cols=23 Identities=26% Similarity=0.479 Sum_probs=19.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
++++|-|++|+|||+++..++..
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~~ 23 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILTE 23 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHhc
Confidence 47899999999999998877653
No 400
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=79.69 E-value=2.5 Score=49.87 Aligned_cols=44 Identities=16% Similarity=0.153 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1206 FNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1206 LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-|+..++..+.-+...+ .-+.=|-|+||.|||+++..++..|..
T Consensus 87 ~n~~~a~~~r~~~~~~~-----~~~v~l~G~pGsGKTTLl~~l~~~l~~ 130 (290)
T PRK10463 87 KNNRLAERNRARFAARK-----QLVLNLVSSPGSGKTTLLTETLMRLKD 130 (290)
T ss_pred HhHHHHHHHHHHHHhcC-----CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 47777777776664432 346667899999999999999987744
No 401
>PRK05439 pantothenate kinase; Provisional
Probab=79.67 E-value=2.7 Score=50.02 Aligned_cols=28 Identities=29% Similarity=0.246 Sum_probs=21.0
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+..-+..|-||||+||||+...|.. ++.
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~-~l~ 111 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQA-LLS 111 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHH-HHH
Confidence 3445788999999999998866555 443
No 402
>CHL00206 ycf2 Ycf2; Provisional
Probab=79.66 E-value=1.2 Score=62.82 Aligned_cols=21 Identities=24% Similarity=0.379 Sum_probs=17.9
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
=.|+.||||||||.++.++.+
T Consensus 1632 GILLiGPPGTGKTlLAKALA~ 1652 (2281)
T CHL00206 1632 GILVIGSIGTGRSYLVKYLAT 1652 (2281)
T ss_pred ceEEECCCCCCHHHHHHHHHH
Confidence 467889999999999888854
No 403
>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=79.60 E-value=1.5 Score=49.63 Aligned_cols=22 Identities=27% Similarity=0.520 Sum_probs=18.4
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+|-|+||+|||+....|...+
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l 23 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKL 23 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHH
Confidence 5788999999999888777655
No 404
>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=79.59 E-value=1.5 Score=44.96 Aligned_cols=20 Identities=25% Similarity=0.290 Sum_probs=15.3
Q ss_pred EEEecCCCCCchHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+|.||||+|||+....|-.
T Consensus 2 i~l~G~~GsGKstla~~la~ 21 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAK 21 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 36789999999987655543
No 405
>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=79.49 E-value=1.3 Score=54.60 Aligned_cols=23 Identities=30% Similarity=0.460 Sum_probs=19.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
+-.||.||||||||.+...|-..
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~ 139 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARI 139 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHh
Confidence 46899999999999988777543
No 406
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=79.48 E-value=1.5 Score=50.57 Aligned_cols=22 Identities=45% Similarity=0.703 Sum_probs=18.3
Q ss_pred EEEecCCCCCchHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+||-||||+||||.+.-|-..+
T Consensus 140 tLiigpP~~GKTTlLRdiaR~~ 161 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIARLL 161 (308)
T ss_pred eEEecCCCCChHHHHHHHHHHh
Confidence 8999999999999887765433
No 407
>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=79.40 E-value=1.8 Score=51.89 Aligned_cols=28 Identities=21% Similarity=0.313 Sum_probs=22.8
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|-||||||||+..+.++.....
T Consensus 54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~ 81 (325)
T cd00983 54 KGRIIEIYGPESSGKTTLALHAIAEAQK 81 (325)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3469999999999999988887765543
No 408
>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=79.24 E-value=1.6 Score=47.41 Aligned_cols=24 Identities=33% Similarity=0.476 Sum_probs=18.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+..|-|+||+|||++.-.|...+-
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~ 24 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLR 24 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHH
Confidence 357899999999998876666553
No 409
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=79.23 E-value=1.3 Score=50.79 Aligned_cols=24 Identities=25% Similarity=0.393 Sum_probs=19.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+.++-|||||||||....|...+
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHC
Confidence 377889999999999877765543
No 410
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=79.14 E-value=2.7 Score=49.15 Aligned_cols=43 Identities=21% Similarity=0.208 Sum_probs=30.9
Q ss_pred HHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1209 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1209 SQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...+.+..++... +-+..-|+.||+|+|||+++..+...++..
T Consensus 11 ~~~~~l~~~~~~~----~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 11 NIKNRIKNSIIKN----RFSHAHIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred HHHHHHHHHHHcC----CCCceEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 3344455555432 223578999999999999999999988764
No 411
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=79.10 E-value=2.4 Score=56.41 Aligned_cols=27 Identities=30% Similarity=0.460 Sum_probs=23.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
...|++||||||||+++..|...|+..
T Consensus 38 Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~ 64 (824)
T PRK07764 38 HAYLFSGPRGCGKTSSARILARSLNCV 64 (824)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCcc
Confidence 467999999999999999998888753
No 412
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=78.98 E-value=1.5 Score=47.66 Aligned_cols=22 Identities=32% Similarity=0.528 Sum_probs=17.6
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+=-||.|-||||||+|.-.|-.
T Consensus 8 PNILvtGTPG~GKstl~~~lae 29 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTLAERLAE 29 (176)
T ss_pred CCEEEeCCCCCCchhHHHHHHH
Confidence 3469999999999998766643
No 413
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=78.90 E-value=1.4 Score=47.56 Aligned_cols=22 Identities=32% Similarity=0.634 Sum_probs=17.8
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+..|-||+|+||||++-.|..
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 3788999999999998766633
No 414
>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=78.80 E-value=2.9 Score=49.37 Aligned_cols=28 Identities=36% Similarity=0.379 Sum_probs=21.4
Q ss_pred cCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1226 KDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1226 ~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.+-+.-|-||+|+||||++ .++..++.
T Consensus 60 ~~p~IIGIaG~~GSGKSTla-r~L~~ll~ 87 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTA-RILQALLS 87 (290)
T ss_pred CCCEEEEEECCCCCCHHHHH-HHHHHHHh
Confidence 45568889999999999987 44555555
No 415
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=78.78 E-value=1.2 Score=55.84 Aligned_cols=22 Identities=45% Similarity=0.667 Sum_probs=17.4
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.=+|+.||||||||-...++-+
T Consensus 338 KGVLLvGPPGTGKTlLARAvAG 359 (752)
T KOG0734|consen 338 KGVLLVGPPGTGKTLLARAVAG 359 (752)
T ss_pred CceEEeCCCCCchhHHHHHhhc
Confidence 4578889999999987766643
No 416
>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=78.77 E-value=0.61 Score=51.33 Aligned_cols=21 Identities=29% Similarity=0.343 Sum_probs=13.1
Q ss_pred CeEEEEeCChHHHHHHHHHHH
Q 000413 1313 ARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1313 ~RILVCAPSNAAVDEIV~RLl 1333 (1545)
.+|+||||+-.++..+...+.
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 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=78.72 E-value=1.6 Score=46.22 Aligned_cols=22 Identities=36% Similarity=0.682 Sum_probs=17.7
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+.+|-||+|+|||+.+..|..
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 3788999999999997655554
No 418
>PRK00279 adk adenylate kinase; Reviewed
Probab=78.49 E-value=1.7 Score=48.09 Aligned_cols=18 Identities=39% Similarity=0.715 Sum_probs=14.3
Q ss_pred EEEecCCCCCchHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgL 1248 (1545)
.+|-||||+|||++...|
T Consensus 3 I~v~G~pGsGKsT~a~~l 20 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFI 20 (215)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 578999999999765444
No 419
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=78.44 E-value=2.6 Score=55.52 Aligned_cols=25 Identities=40% Similarity=0.582 Sum_probs=19.8
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+..|+.||||||||.+...+-..+
T Consensus 488 ~~~~Lf~GP~GvGKT~lAk~LA~~l 512 (758)
T PRK11034 488 VGSFLFAGPTGVGKTEVTVQLSKAL 512 (758)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHh
Confidence 3568999999999999887664443
No 420
>PRK12608 transcription termination factor Rho; Provisional
Probab=78.39 E-value=1.6 Score=53.15 Aligned_cols=26 Identities=38% Similarity=0.529 Sum_probs=21.8
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
=.||-||||||||+.+..|+..+...
T Consensus 135 R~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 135 RGLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 46999999999999988888877654
No 421
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=78.34 E-value=2 Score=46.09 Aligned_cols=26 Identities=23% Similarity=0.293 Sum_probs=22.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+..|-|+||+|||++...|...+.
T Consensus 18 ~~~i~i~G~~GsGKstla~~l~~~l~ 43 (184)
T TIGR00455 18 GVVIWLTGLSGSGKSTIANALEKKLE 43 (184)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46999999999999998888877664
No 422
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=78.25 E-value=0.94 Score=54.01 Aligned_cols=26 Identities=46% Similarity=0.672 Sum_probs=21.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+=.|--||||||||.||.+.-..|..
T Consensus 63 Ph~L~YgPPGtGktsti~a~a~~ly~ 88 (360)
T KOG0990|consen 63 PHLLFYGPPGTGKTSTILANARDFYS 88 (360)
T ss_pred CcccccCCCCCCCCCchhhhhhhhcC
Confidence 45788899999999999998766544
No 423
>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=78.23 E-value=1.9 Score=46.31 Aligned_cols=24 Identities=29% Similarity=0.392 Sum_probs=19.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+..|.||||+||||.+-.|..++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l 27 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLL 27 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 478999999999998776665554
No 424
>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=78.22 E-value=1.7 Score=57.92 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=22.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...++.||||||||+++-++...+..
T Consensus 195 ~n~lL~G~pGvGKT~l~~~la~~i~~ 220 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVEGLAQRIVN 220 (852)
T ss_pred CceEEEcCCCCCHHHHHHHHHHHHhc
Confidence 46678899999999999998887754
No 425
>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=78.20 E-value=2.1 Score=50.40 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=19.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
...+|-||+|+|||+++.+|+..
T Consensus 145 ~~ili~G~tGsGKTTll~al~~~ 167 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVDE 167 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHcc
Confidence 58999999999999998777653
No 426
>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=77.98 E-value=1.7 Score=53.85 Aligned_cols=23 Identities=30% Similarity=0.471 Sum_probs=18.6
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.-.|+.||||||||++...|-..
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~~ 70 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAKL 70 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999987766554
No 427
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=77.97 E-value=1.9 Score=47.33 Aligned_cols=27 Identities=37% Similarity=0.409 Sum_probs=23.3
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
.++.-|-||+|+|||+.|..|+..|-.
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~ 32 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCA 32 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhh
Confidence 358888999999999999999987654
No 428
>PRK13975 thymidylate kinase; Provisional
Probab=77.90 E-value=1.9 Score=46.31 Aligned_cols=23 Identities=26% Similarity=0.453 Sum_probs=18.3
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
|-.|.||||+||||..-.|-..+
T Consensus 4 ~I~ieG~~GsGKtT~~~~L~~~l 26 (196)
T PRK13975 4 FIVFEGIDGSGKTTQAKLLAEKL 26 (196)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 78899999999998766555444
No 429
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=77.67 E-value=1.5 Score=48.08 Aligned_cols=15 Identities=47% Similarity=0.720 Sum_probs=12.1
Q ss_pred EEEecCCCCCchHHH
Q 000413 1231 SLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTI 1245 (1545)
--|-||||+||||+.
T Consensus 3 ItIsG~pGsG~TTva 17 (179)
T COG1102 3 ITISGLPGSGKTTVA 17 (179)
T ss_pred EEeccCCCCChhHHH
Confidence 357899999999743
No 430
>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=77.63 E-value=1.6 Score=48.03 Aligned_cols=19 Identities=37% Similarity=0.707 Sum_probs=14.6
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.+|-||||+|||+....|.
T Consensus 2 I~i~G~pGsGKsT~a~~La 20 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIA 20 (210)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4688999999998655443
No 431
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=77.61 E-value=1.5 Score=50.92 Aligned_cols=22 Identities=45% Similarity=0.611 Sum_probs=17.1
Q ss_pred cceEEEecCCCCCchHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
+.=+|.-||||||||-...+..
T Consensus 189 prgvllygppg~gktml~kava 210 (408)
T KOG0727|consen 189 PRGVLLYGPPGTGKTMLAKAVA 210 (408)
T ss_pred CcceEEeCCCCCcHHHHHHHHh
Confidence 3457899999999998765543
No 432
>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]
Probab=77.54 E-value=1.4 Score=59.83 Aligned_cols=25 Identities=44% Similarity=0.549 Sum_probs=20.7
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.|+|||-||.||||||+|=.+=.+.
T Consensus 27 sPlTLIvG~NG~GKTTiIEcLKyat 51 (1294)
T KOG0962|consen 27 SPLTLIVGANGTGKTTIIECLKYAT 51 (1294)
T ss_pred CCeeeEecCCCCCchhHHHHHHHHh
Confidence 3799999999999999887665543
No 433
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=77.51 E-value=1.8 Score=47.57 Aligned_cols=25 Identities=36% Similarity=0.603 Sum_probs=21.1
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
..|.||||.|||+.+.-|...|-..
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~ 32 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREK 32 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhc
Confidence 5789999999999998888777553
No 434
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=77.42 E-value=1.6 Score=52.13 Aligned_cols=28 Identities=32% Similarity=0.529 Sum_probs=24.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhcc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLATR 1256 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~~ 1256 (1545)
.--|++||+|+|||++...+..+|+...
T Consensus 23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~ 50 (328)
T PRK05707 23 HAYLLHGPAGIGKRALAERLAAALLCEA 50 (328)
T ss_pred eeeeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 4688999999999999999999998753
No 435
>PRK13695 putative NTPase; Provisional
Probab=77.39 E-value=2 Score=45.82 Aligned_cols=23 Identities=43% Similarity=0.674 Sum_probs=18.9
Q ss_pred EEEecCCCCCchHHHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+|.|+||+|||+++..+...+.
T Consensus 3 i~ltG~~G~GKTTll~~i~~~l~ 25 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAELLK 25 (174)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 57889999999999887766544
No 436
>CHL00095 clpC Clp protease ATP binding subunit
Probab=77.25 E-value=2.8 Score=55.67 Aligned_cols=26 Identities=35% Similarity=0.515 Sum_probs=21.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+..|+.||||||||++...|...++.
T Consensus 540 ~~~lf~Gp~GvGKt~lA~~LA~~l~~ 565 (821)
T CHL00095 540 ASFLFSGPTGVGKTELTKALASYFFG 565 (821)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhcC
Confidence 45689999999999998888777653
No 437
>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=77.17 E-value=1.9 Score=47.33 Aligned_cols=25 Identities=40% Similarity=0.592 Sum_probs=21.2
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+++++|.||-|+|||..+-+|-.+|
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 4699999999999999888876544
No 438
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=77.14 E-value=7.1 Score=52.04 Aligned_cols=32 Identities=22% Similarity=0.184 Sum_probs=26.1
Q ss_pred CCCHHHHH---HHHHHHccCCCCccCcceEEEecCCCCCchH
Q 000413 1205 SFNESQLQ---AISVAIGLSSSWKKDCELSLIQGPPGTGKTR 1243 (1545)
Q Consensus 1205 ~LNeSQ~e---AI~sAL~~~~~~~~~~~ftLIQGPPGTGKTk 1243 (1545)
.+.+.|.+ +|..++... ...+||.|+|||||-
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 788887542 578999999999996
No 439
>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=77.09 E-value=2 Score=49.00 Aligned_cols=23 Identities=43% Similarity=0.707 Sum_probs=18.5
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
++.+|.||+|||||.+.+++-..
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~ 24 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQK 24 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHH
T ss_pred cEEEEECCCCCChhHHHHHHHHH
Confidence 47899999999999988777554
No 440
>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=77.06 E-value=2 Score=47.62 Aligned_cols=23 Identities=43% Similarity=0.566 Sum_probs=19.0
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
...|-||+|+|||+++..++..+
T Consensus 3 ~i~i~G~~GsGKTTll~~l~~~l 25 (199)
T TIGR00101 3 KIGVAGPVGSGKTALIEALTRAL 25 (199)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 45677999999999998887654
No 441
>PRK14738 gmk guanylate kinase; Provisional
Probab=77.03 E-value=2 Score=47.56 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=18.3
Q ss_pred CcceEEEecCCCCCchHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
...+.+|-||||+|||+++-.|.
T Consensus 12 ~~~~ivi~GpsG~GK~tl~~~L~ 34 (206)
T PRK14738 12 KPLLVVISGPSGVGKDAVLARMR 34 (206)
T ss_pred CCeEEEEECcCCCCHHHHHHHHH
Confidence 34588899999999999775554
No 442
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=77.00 E-value=2.3 Score=53.49 Aligned_cols=35 Identities=29% Similarity=0.394 Sum_probs=24.7
Q ss_pred HHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHH
Q 000413 1209 SQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1209 SQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.-.+|+..++.. ....+|.||||||||+++..|-.
T Consensus 199 ~~~~al~~aa~~-------g~~vlliG~pGsGKTtlar~l~~ 233 (499)
T TIGR00368 199 HAKRALEIAAAG-------GHNLLLFGPPGSGKTMLASRLQG 233 (499)
T ss_pred HHHhhhhhhccC-------CCEEEEEecCCCCHHHHHHHHhc
Confidence 345566555432 24899999999999998876644
No 443
>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=76.91 E-value=1.6 Score=49.81 Aligned_cols=21 Identities=33% Similarity=0.493 Sum_probs=16.4
Q ss_pred EecCCCCCchHHHHHHHHHHH
Q 000413 1233 IQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1233 IQGPPGTGKTkTIvgLVsaLL 1253 (1545)
|-||||+||||.+.++-..+-
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~ 21 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLE 21 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHHH
Confidence 469999999998888776553
No 444
>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=76.85 E-value=2 Score=53.16 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=17.4
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.++-||||||||++..++-..
T Consensus 212 li~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 212 LIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred EEEECCCCCCHHHHHHHHhHH
Confidence 455699999999999987665
No 445
>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=76.85 E-value=1.9 Score=43.16 Aligned_cols=22 Identities=32% Similarity=0.525 Sum_probs=18.2
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
....+-||||.|||+++..+.+
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~ 25 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVG 25 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 4678899999999998877654
No 446
>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=76.82 E-value=2.3 Score=46.16 Aligned_cols=25 Identities=36% Similarity=0.553 Sum_probs=20.2
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
+..|+-||+|+|||.+...|-..+.
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 4678999999999998777666554
No 447
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=76.63 E-value=4 Score=56.16 Aligned_cols=54 Identities=28% Similarity=0.330 Sum_probs=44.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhccCCCCcccccCcccccCCCCccchhHHHHHHHHHHHHHhhhcccccccccccc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSE 1308 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~~~~~~s~~~~~~ss~~~~rp~~s~s~avar~W~daala~ql~~~~~~~~~ss~ 1308 (1545)
+..||----|||||+||...+-.+|-... +
T Consensus 17 ~~~lveASAGSGKT~vL~~r~lrlLl~~~--------~------------------------------------------ 46 (1139)
T COG1074 17 QSVLVEASAGTGKTFVLAERVLRLLLEGG--------P------------------------------------------ 46 (1139)
T ss_pred CcEEEEEcCCCCchhHHHHHHHHHHhhcC--------C------------------------------------------
Confidence 57899999999999999998888776410 0
Q ss_pred ccCCCeEEEEeCChHHHHHHHHHHH
Q 000413 1309 SSVRARVLICAQSNAAVDELVSRIS 1333 (1545)
Q Consensus 1309 ~~~k~RILVCAPSNAAVDEIV~RLl 1333 (1545)
....+|||.+.||+|--|+=.||.
T Consensus 47 -~~v~~ILvvTFT~aAa~Emk~RI~ 70 (1139)
T COG1074 47 -LDVDEILVVTFTKAAAAEMKERIR 70 (1139)
T ss_pred -CChhHeeeeeccHHHHHHHHHHHH
Confidence 123579999999999999999987
No 448
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=76.55 E-value=2 Score=47.69 Aligned_cols=23 Identities=35% Similarity=0.479 Sum_probs=18.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+.+|-|+||+|||+....+...
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHHh
Confidence 48899999999999877666554
No 449
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=76.53 E-value=2.2 Score=46.29 Aligned_cols=22 Identities=27% Similarity=0.385 Sum_probs=18.1
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+..|.||+|+|||++...|..
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~ 25 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAA 25 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4889999999999987765554
No 450
>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=76.48 E-value=3.8 Score=49.20 Aligned_cols=40 Identities=23% Similarity=0.362 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.+++.+.+.+..++... +-.+|-||+|+|||+++.+++..
T Consensus 162 ~~~~~~~~~L~~~v~~~-------~~ili~G~tGsGKTTll~al~~~ 201 (340)
T TIGR03819 162 TFPPGVARLLRAIVAAR-------LAFLISGGTGSGKTTLLSALLAL 201 (340)
T ss_pred CCCHHHHHHHHHHHhCC-------CeEEEECCCCCCHHHHHHHHHcc
Confidence 46777777777776432 58999999999999998776653
No 451
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=76.42 E-value=4.7 Score=55.75 Aligned_cols=29 Identities=31% Similarity=0.428 Sum_probs=21.6
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHH
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIV 1246 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIv 1246 (1545)
++.|..++... .+++|.|++|||||+-|=
T Consensus 79 r~~Il~ai~~~-------~VviI~GeTGSGKTTqlP 107 (1294)
T PRK11131 79 KQDILEAIRDH-------QVVIVAGETGSGKTTQLP 107 (1294)
T ss_pred HHHHHHHHHhC-------CeEEEECCCCCCHHHHHH
Confidence 45566666432 599999999999999543
No 452
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=76.42 E-value=3.7 Score=51.37 Aligned_cols=26 Identities=31% Similarity=0.293 Sum_probs=22.0
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+-+.+|-|+||||||+++..|-..+
T Consensus 254 ~p~vil~~G~~G~GKSt~a~~LA~~l 279 (475)
T PRK12337 254 RPLHVLIGGVSGVGKSVLASALAYRL 279 (475)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 35799999999999999998877654
No 453
>PRK09354 recA recombinase A; Provisional
Probab=76.40 E-value=2.4 Score=51.30 Aligned_cols=28 Identities=21% Similarity=0.313 Sum_probs=22.7
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
...+++|-||||||||+..+.++.....
T Consensus 59 ~G~IteI~G~~GsGKTtLal~~~~~~~~ 86 (349)
T PRK09354 59 RGRIVEIYGPESSGKTTLALHAIAEAQK 86 (349)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 3469999999999999988877765543
No 454
>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=76.23 E-value=5.6 Score=52.99 Aligned_cols=38 Identities=24% Similarity=0.102 Sum_probs=28.9
Q ss_pred HhhcCCCHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHH
Q 000413 1201 ILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTI 1245 (1545)
Q Consensus 1201 ~Lk~~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTI 1245 (1545)
.....-.+-|.++|..++... ...++|-|.|||||-++
T Consensus 11 ~~G~~PtpiQ~~~i~~il~G~-------~~v~~~apTGSGKTaa~ 48 (844)
T TIGR02621 11 LHGYSPFPWQLSLAERFVAGQ-------PPESCSTPTGLGKTSII 48 (844)
T ss_pred HhCCCCCHHHHHHHHHHHcCC-------CcceEecCCCCcccHHH
Confidence 333456789999999987542 25888999999999765
No 455
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=75.99 E-value=2.4 Score=46.66 Aligned_cols=25 Identities=28% Similarity=0.433 Sum_probs=20.9
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.....+-||+|+|||++|..++..+
T Consensus 22 ~~~i~~~G~~gsGKTTli~~l~~~~ 46 (207)
T TIGR00073 22 LVVLNFMSSPGSGKTTLIEKLIDNL 46 (207)
T ss_pred cEEEEEECCCCCCHHHHHHHHHHHH
Confidence 3466688999999999999988765
No 456
>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=75.98 E-value=1.9 Score=51.12 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=18.9
Q ss_pred CcceEEEecCCCCCchHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
...+++|-||||||||+...-+.
T Consensus 95 ~G~iteI~G~~GsGKTql~lqla 117 (313)
T TIGR02238 95 SMSITEVFGEFRCGKTQLSHTLC 117 (313)
T ss_pred CCeEEEEECCCCCCcCHHHHHHH
Confidence 34699999999999999775544
No 457
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=75.95 E-value=3.3 Score=54.22 Aligned_cols=24 Identities=38% Similarity=0.534 Sum_probs=19.8
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+..|+.||||||||.+...|-..+
T Consensus 485 ~~~lf~Gp~GvGKT~lA~~la~~l 508 (731)
T TIGR02639 485 GSFLFTGPTGVGKTELAKQLAEAL 508 (731)
T ss_pred eeEEEECCCCccHHHHHHHHHHHh
Confidence 457999999999999887776554
No 458
>PRK13949 shikimate kinase; Provisional
Probab=75.95 E-value=2 Score=46.38 Aligned_cols=18 Identities=33% Similarity=0.364 Sum_probs=14.0
Q ss_pred EEEecCCCCCchHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgL 1248 (1545)
.+|-||||+|||++...|
T Consensus 4 I~liG~~GsGKstl~~~L 21 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKAL 21 (169)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 466799999999866544
No 459
>PRK06761 hypothetical protein; Provisional
Probab=75.95 E-value=2.1 Score=50.38 Aligned_cols=25 Identities=36% Similarity=0.545 Sum_probs=21.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
.+.+|-||||+||||++..+...+.
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~ 28 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILS 28 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcC
Confidence 4889999999999998887776653
No 460
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.82 E-value=2.6 Score=53.60 Aligned_cols=28 Identities=32% Similarity=0.507 Sum_probs=23.5
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
..++..|.||+|+|||+|+..|...+..
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4578888899999999999998876654
No 461
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=75.80 E-value=1.8 Score=55.82 Aligned_cols=21 Identities=52% Similarity=0.763 Sum_probs=18.2
Q ss_pred EEEecCCCCCchHHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsa 1251 (1545)
.||.||||||||+++.++...
T Consensus 188 ill~G~~G~GKt~~~~~~a~~ 208 (644)
T PRK10733 188 VLMVGPPGTGKTLLAKAIAGE 208 (644)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 899999999999988877553
No 462
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=75.57 E-value=2 Score=51.73 Aligned_cols=22 Identities=18% Similarity=0.135 Sum_probs=18.5
Q ss_pred CcceEEEecCCCCCchHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
...+++|-||||||||+...-+
T Consensus 125 ~G~ItEI~G~~GsGKTql~lql 146 (344)
T PLN03187 125 TRCITEAFGEFRSGKTQLAHTL 146 (344)
T ss_pred CCeEEEEecCCCCChhHHHHHH
Confidence 4579999999999999976554
No 463
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=75.52 E-value=3.8 Score=48.70 Aligned_cols=28 Identities=29% Similarity=0.453 Sum_probs=24.9
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+..-|+.||||+|||+++..+...++..
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 4578999999999999999999988865
No 464
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=75.33 E-value=2.1 Score=56.39 Aligned_cols=25 Identities=24% Similarity=0.401 Sum_probs=21.2
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.|+.||||||||.++-++...+...
T Consensus 210 ~LLvGppGvGKT~lae~la~~i~~~ 234 (758)
T PRK11034 210 PLLVGESGVGKTAIAEGLAWRIVQG 234 (758)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhc
Confidence 4789999999999999988776654
No 465
>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=75.32 E-value=2.5 Score=47.84 Aligned_cols=24 Identities=38% Similarity=0.591 Sum_probs=21.0
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
++++|.||.|+|||+++-+|...+
T Consensus 23 ~~~~i~G~NGsGKStll~ai~~~l 46 (247)
T cd03275 23 RFTCIIGPNGSGKSNLMDAISFVL 46 (247)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 599999999999999887777665
No 466
>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=75.21 E-value=2.2 Score=45.88 Aligned_cols=21 Identities=33% Similarity=0.645 Sum_probs=18.5
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
=.||.||+|.|||++...++.
T Consensus 16 gvLi~G~sG~GKStlal~L~~ 36 (149)
T cd01918 16 GVLITGPSGIGKSELALELIK 36 (149)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 579999999999999887776
No 467
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=75.17 E-value=3.6 Score=49.08 Aligned_cols=27 Identities=33% Similarity=0.338 Sum_probs=24.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.--|++||||+|||+++..+..+++..
T Consensus 22 hA~Lf~G~~G~GK~~la~~~a~~llC~ 48 (325)
T PRK08699 22 NAWLFAGKKGIGKTAFARFAAQALLCE 48 (325)
T ss_pred eEEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 468899999999999999999999864
No 468
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=75.09 E-value=2.4 Score=50.38 Aligned_cols=25 Identities=28% Similarity=0.418 Sum_probs=20.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+-+.||+||+|+|||++...|...|
T Consensus 92 p~iIlI~G~sgsGKStlA~~La~~l 116 (301)
T PRK04220 92 PIIILIGGASGVGTSTIAFELASRL 116 (301)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 3488999999999999776666544
No 469
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=75.07 E-value=1.7 Score=56.52 Aligned_cols=19 Identities=53% Similarity=0.809 Sum_probs=15.4
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.|..||||||||=...++-
T Consensus 708 ILLYGPPGTGKTLlAKAVA 726 (953)
T KOG0736|consen 708 ILLYGPPGTGKTLLAKAVA 726 (953)
T ss_pred eEEECCCCCchHHHHHHHH
Confidence 5889999999997766653
No 470
>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=75.01 E-value=2 Score=57.31 Aligned_cols=25 Identities=24% Similarity=0.474 Sum_probs=21.0
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.++.||||||||+++-++...+...
T Consensus 211 ~lLvG~pGvGKTal~~~La~~i~~~ 235 (852)
T TIGR03345 211 PILTGEAGVGKTAVVEGLALRIAAG 235 (852)
T ss_pred eeEECCCCCCHHHHHHHHHHHHhhC
Confidence 4788999999999998888877543
No 471
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=75.01 E-value=2 Score=48.24 Aligned_cols=25 Identities=40% Similarity=0.571 Sum_probs=21.0
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.=|-||||+|||+.|..++..|-..
T Consensus 16 i~v~Gp~GSGKTaLie~~~~~L~~~ 40 (202)
T COG0378 16 IGVGGPPGSGKTALIEKTLRALKDE 40 (202)
T ss_pred EEecCCCCcCHHHHHHHHHHHHHhh
Confidence 3456999999999999999988665
No 472
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=74.93 E-value=5.9 Score=48.46 Aligned_cols=26 Identities=23% Similarity=0.376 Sum_probs=22.0
Q ss_pred cceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..+++|-|+||+|||...+.++..+.
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a 220 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAA 220 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHH
Confidence 46999999999999999888876543
No 473
>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=74.83 E-value=2.7 Score=45.28 Aligned_cols=25 Identities=32% Similarity=0.420 Sum_probs=21.9
Q ss_pred eEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
+.-|-|++|+|||+++..|+..+-.
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~ 27 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSA 27 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH
Confidence 6778999999999999999987654
No 474
>PRK10646 ADP-binding protein; Provisional
Probab=74.72 E-value=4.7 Score=43.69 Aligned_cols=43 Identities=19% Similarity=0.229 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
|+.+.+++...++. +.+...+.+..|+=|+|||+.+.+++.+|
T Consensus 10 s~~~t~~l~~~la~---~l~~g~vi~L~GdLGaGKTtf~rgl~~~L 52 (153)
T PRK10646 10 DEQATLDLGARVAK---ACDGATVIYLYGDLGAGKTTFSRGFLQAL 52 (153)
T ss_pred CHHHHHHHHHHHHH---hCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence 44555555554443 23344699999999999999999999987
No 475
>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=74.71 E-value=2.3 Score=42.94 Aligned_cols=20 Identities=25% Similarity=0.519 Sum_probs=16.3
Q ss_pred EEEecCCCCCchHHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+|-||||+|||+.+-.++.
T Consensus 2 i~i~G~~~~GKTsli~~l~~ 21 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVK 21 (160)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 36889999999997766654
No 476
>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=74.64 E-value=3.3 Score=44.90 Aligned_cols=19 Identities=42% Similarity=0.405 Sum_probs=14.8
Q ss_pred ceEEEecCCCCCchHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVA 1247 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvg 1247 (1545)
.-+||+|++||||+.....
T Consensus 23 ~pVlI~GE~GtGK~~lA~~ 41 (168)
T PF00158_consen 23 LPVLITGETGTGKELLARA 41 (168)
T ss_dssp S-EEEECSTTSSHHHHHHH
T ss_pred CCEEEEcCCCCcHHHHHHH
Confidence 4689999999999985433
No 477
>PRK14737 gmk guanylate kinase; Provisional
Probab=74.64 E-value=2.6 Score=46.27 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=19.6
Q ss_pred cceEEEecCCCCCchHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..+..|-||+|+|||+.+-.|+..
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhc
Confidence 358899999999999987776653
No 478
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=74.57 E-value=7.4 Score=55.01 Aligned_cols=41 Identities=20% Similarity=0.284 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHccCCCCccCcceEEEecCCC-CCchHHHHHHHHH
Q 000413 1205 SFNESQLQAISVAIGLSSSWKKDCELSLIQGPPG-TGKTRTIVAIVSA 1251 (1545)
Q Consensus 1205 ~LNeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPG-TGKTkTIvgLVsa 1251 (1545)
.+|..|..|+...+... ..|+.|+|+-| ||||+++..++..
T Consensus 281 ~~~~~q~~Av~~il~dr------~~v~iv~~~GgAtGKtt~l~~l~~~ 322 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDR------PSLAIVSGQGGAAGQRERVAELVMM 322 (1623)
T ss_pred ccchhHHHHHHHHhcCC------CceEEEEecccccccHHHHHHHHHH
Confidence 46789999999988543 36999999888 8999998866553
No 479
>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=74.55 E-value=2.7 Score=46.92 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=20.9
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
++++|-||.|+|||+++-+|...+
T Consensus 24 ~~~~i~GpNGsGKStll~ai~~~l 47 (243)
T cd03272 24 KHNVVVGRNGSGKSNFFAAIRFVL 47 (243)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHH
Confidence 599999999999999988887544
No 480
>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=74.45 E-value=2.4 Score=43.49 Aligned_cols=19 Identities=26% Similarity=0.555 Sum_probs=16.1
Q ss_pred EEecCCCCCchHHHHHHHH
Q 000413 1232 LIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1232 LIQGPPGTGKTkTIvgLVs 1250 (1545)
+|-|+||+|||+++..++.
T Consensus 4 ~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 4 VVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEECCCCCCHHHHHHHHHh
Confidence 5669999999999888765
No 481
>PTZ00035 Rad51 protein; Provisional
Probab=74.34 E-value=2.4 Score=50.86 Aligned_cols=24 Identities=21% Similarity=0.217 Sum_probs=19.7
Q ss_pred CcceEEEecCCCCCchHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
...++.|.||||||||+....+..
T Consensus 117 ~G~iteI~G~~GsGKT~l~~~l~~ 140 (337)
T PTZ00035 117 TGSITELFGEFRTGKTQLCHTLCV 140 (337)
T ss_pred CCeEEEEECCCCCchhHHHHHHHH
Confidence 457999999999999998765543
No 482
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=74.13 E-value=2 Score=49.61 Aligned_cols=24 Identities=29% Similarity=0.674 Sum_probs=18.3
Q ss_pred EEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1231 SLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
.+|-||||+||||-..|+- .+++.
T Consensus 5 qvVIGPPgSGKsTYc~g~~-~fls~ 28 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMS-QFLSA 28 (290)
T ss_pred eEEEcCCCCCccchhhhHH-HHHHH
Confidence 4688999999998877764 45554
No 483
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=74.11 E-value=2.6 Score=55.82 Aligned_cols=25 Identities=36% Similarity=0.526 Sum_probs=19.8
Q ss_pred CcceEEEecCCCCCchHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSA 1251 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsa 1251 (1545)
..++.++.||||||||++...+...
T Consensus 348 ~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 348 KGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 3468999999999999877666554
No 484
>PTZ00301 uridine kinase; Provisional
Probab=73.69 E-value=3 Score=46.83 Aligned_cols=26 Identities=38% Similarity=0.534 Sum_probs=22.3
Q ss_pred ceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
-+..|-||||+||||....|+..+..
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l~~ 29 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSELMA 29 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHHHh
Confidence 47889999999999998888877764
No 485
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=73.59 E-value=1.9 Score=52.76 Aligned_cols=19 Identities=47% Similarity=0.718 Sum_probs=15.7
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.|..||||||||-....|-
T Consensus 387 ilfyGPPGTGKTm~ArelA 405 (630)
T KOG0742|consen 387 ILFYGPPGTGKTMFARELA 405 (630)
T ss_pred eeeeCCCCCCchHHHHHHH
Confidence 6789999999998776654
No 486
>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=73.53 E-value=5 Score=49.35 Aligned_cols=38 Identities=26% Similarity=0.341 Sum_probs=28.5
Q ss_pred HHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHH
Q 000413 1211 LQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1211 ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+.|++.-|... .+..--+|.|||+|||+.....|+..|
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 45556666543 234578999999999999999999855
No 487
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=73.53 E-value=3.1 Score=46.58 Aligned_cols=27 Identities=30% Similarity=0.441 Sum_probs=21.4
Q ss_pred CcceEEEecCCCCCchHHHHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVSALL 1253 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVsaLL 1253 (1545)
..-+..|-||+|+||||++-.|...+-
T Consensus 32 ~~~iigi~G~~GsGKTTl~~~L~~~l~ 58 (229)
T PRK09270 32 RRTIVGIAGPPGAGKSTLAEFLEALLQ 58 (229)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence 346888999999999998877766543
No 488
>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=73.37 E-value=2.8 Score=42.93 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=18.8
Q ss_pred cceEEEecCCCCCchHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLV 1249 (1545)
..++.|-||.|+|||+++..+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 3689999999999999887754
No 489
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=73.37 E-value=2.8 Score=48.97 Aligned_cols=21 Identities=48% Similarity=0.578 Sum_probs=16.3
Q ss_pred cceEEEecCCCCCchHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAI 1248 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgL 1248 (1545)
+.=+|.-||||||||-...+.
T Consensus 205 PKGvLmYGPPGTGKTlmARAc 225 (424)
T KOG0652|consen 205 PKGVLMYGPPGTGKTLMARAC 225 (424)
T ss_pred CCceEeeCCCCCcHHHHHHHH
Confidence 445899999999999765543
No 490
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=73.21 E-value=2.2 Score=55.22 Aligned_cols=21 Identities=52% Similarity=0.675 Sum_probs=17.0
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
=.|..||||||||...-++.+
T Consensus 703 giLLyGppGcGKT~la~a~a~ 723 (952)
T KOG0735|consen 703 GILLYGPPGCGKTLLASAIAS 723 (952)
T ss_pred ceEEECCCCCcHHHHHHHHHh
Confidence 468899999999997766654
No 491
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=73.20 E-value=5.6 Score=43.09 Aligned_cols=45 Identities=24% Similarity=0.331 Sum_probs=33.9
Q ss_pred CHHHHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHh
Q 000413 1207 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLA 1254 (1545)
Q Consensus 1207 NeSQ~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~ 1254 (1545)
|+.+..++...+... .....+.+++|+=|.|||+...||+.+|-.
T Consensus 7 ~~~~t~~lg~~l~~~---l~~g~Vv~L~GdLGAGKTtf~rgi~~~Lg~ 51 (149)
T COG0802 7 DEEATLALGERLAEA---LKAGDVVLLSGDLGAGKTTLVRGIAKGLGV 51 (149)
T ss_pred CHHHHHHHHHHHHhh---CCCCCEEEEEcCCcCChHHHHHHHHHHcCC
Confidence 455555555555442 345679999999999999999999998864
No 492
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=73.12 E-value=1.9 Score=52.27 Aligned_cols=24 Identities=46% Similarity=0.564 Sum_probs=19.1
Q ss_pred CcceEEEecCCCCCchHHHHHHHH
Q 000413 1227 DCELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1227 ~~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
.+.-.|..||||||||....++-.
T Consensus 126 p~kGiLL~GPpG~GKTmlAKA~Ak 149 (386)
T KOG0737|consen 126 PPKGILLYGPPGTGKTMLAKAIAK 149 (386)
T ss_pred CCccceecCCCCchHHHHHHHHHH
Confidence 345689999999999998777644
No 493
>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=73.08 E-value=2.6 Score=46.20 Aligned_cols=23 Identities=30% Similarity=0.524 Sum_probs=19.1
Q ss_pred cceEEEecCCCCCchHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
..++.|-||.|+||||++..|.+
T Consensus 30 G~~~~l~G~nGsGKSTLl~~i~G 52 (218)
T cd03255 30 GEFVAIVGPSGSGKSTLLNILGG 52 (218)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhC
Confidence 46999999999999987766654
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=73.03 E-value=2.4 Score=44.01 Aligned_cols=22 Identities=32% Similarity=0.365 Sum_probs=18.2
Q ss_pred ceEEEecCCCCCchHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
--.+|-||||+|||+.+..+.+
T Consensus 15 ~~v~i~G~~g~GKStLl~~l~~ 36 (173)
T cd04155 15 PRILILGLDNAGKTTILKQLAS 36 (173)
T ss_pred cEEEEEccCCCCHHHHHHHHhc
Confidence 3488999999999998877655
No 495
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=72.91 E-value=3.1 Score=47.06 Aligned_cols=25 Identities=32% Similarity=0.460 Sum_probs=21.5
Q ss_pred cceEEEecCCCCCchHHHHHHHHHH
Q 000413 1228 CELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1228 ~~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+++.|-||-|+|||+++-+|...|
T Consensus 25 ~~~~~IvG~NGsGKStll~Ai~~ll 49 (251)
T cd03273 25 PQFNAITGLNGSGKSNILDAICFVL 49 (251)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 4799999999999999888877665
No 496
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=72.86 E-value=3.2 Score=43.89 Aligned_cols=23 Identities=30% Similarity=0.485 Sum_probs=19.1
Q ss_pred eEEEecCCCCCchHHHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
+..|-||+|+||||.+-.|...+
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l 24 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERL 24 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 56788999999999887776665
No 497
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=72.83 E-value=2.9 Score=43.63 Aligned_cols=21 Identities=38% Similarity=0.725 Sum_probs=16.2
Q ss_pred eEEEecCCCCCchHHHHHHHH
Q 000413 1230 LSLIQGPPGTGKTRTIVAIVS 1250 (1545)
Q Consensus 1230 ftLIQGPPGTGKTkTIvgLVs 1250 (1545)
+..|-|+||+|||++.-.+..
T Consensus 2 iI~i~G~~GSGKstia~~la~ 22 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAE 22 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 568999999999976555543
No 498
>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=72.81 E-value=2.7 Score=41.47 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=16.0
Q ss_pred EEEecCCCCCchHHHHHHH
Q 000413 1231 SLIQGPPGTGKTRTIVAIV 1249 (1545)
Q Consensus 1231 tLIQGPPGTGKTkTIvgLV 1249 (1545)
.+|-|+||+|||+.|-+|+
T Consensus 2 V~iiG~~~~GKSTlin~l~ 20 (116)
T PF01926_consen 2 VAIIGRPNVGKSTLINALT 20 (116)
T ss_dssp EEEEESTTSSHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4678999999999887776
No 499
>PRK00698 tmk thymidylate kinase; Validated
Probab=72.72 E-value=3.4 Score=44.51 Aligned_cols=24 Identities=29% Similarity=0.407 Sum_probs=20.1
Q ss_pred ceEEEecCCCCCchHHHHHHHHHH
Q 000413 1229 ELSLIQGPPGTGKTRTIVAIVSAL 1252 (1545)
Q Consensus 1229 ~ftLIQGPPGTGKTkTIvgLVsaL 1252 (1545)
.+..|.||+|+||||.+-.|-..+
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~l 27 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKELL 27 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 488999999999999887776655
No 500
>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=6.6 Score=46.01 Aligned_cols=43 Identities=23% Similarity=0.354 Sum_probs=28.3
Q ss_pred HHHHHHHHHccCCCCccCcceEEEecCCCCCchHHHHHHHHHHHhc
Q 000413 1210 QLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLAT 1255 (1545)
Q Consensus 1210 Q~eAI~sAL~~~~~~~~~~~ftLIQGPPGTGKTkTIvgLVsaLL~~ 1255 (1545)
+.+++...+-.. .....+.=|.||||.||++.|-.++..+...
T Consensus 14 ~~~~ll~~l~~~---~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~ 56 (266)
T PF03308_consen 14 EARELLKRLYPH---TGRAHVIGITGPPGAGKSTLIDALIRELRER 56 (266)
T ss_dssp HHHHHHHHHGGG---TT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhh---cCCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence 444554444321 1223466689999999999999999988764
Done!