Query 000053
Match_columns 2576
No_of_seqs 822 out of 4596
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 15:32:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000053.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000053hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 1.3E-66 2.9E-71 633.5 38.1 296 550-852 541-841 (935)
2 KOG1803 DNA helicase [Replicat 100.0 5E-64 1.1E-68 618.1 29.8 291 550-851 331-632 (649)
3 TIGR00376 DNA helicase, putati 100.0 3E-59 6.4E-64 622.9 49.8 287 549-852 336-635 (637)
4 KOG1801 tRNA-splicing endonucl 100.0 2.3E-62 5.1E-67 665.1 18.8 742 19-858 3-820 (827)
5 KOG1805 DNA replication helica 100.0 2.1E-51 4.5E-56 523.1 20.9 280 555-849 774-1077(1100)
6 KOG1807 Helicases [Replication 100.0 5.7E-47 1.2E-51 468.7 29.6 285 550-848 691-977 (1025)
7 PRK10919 ATP-dependent DNA hel 100.0 7.6E-45 1.7E-49 491.3 39.5 324 1069-1514 2-331 (672)
8 TIGR01073 pcrA ATP-dependent D 100.0 2.6E-44 5.6E-49 494.4 40.7 347 1069-1537 4-356 (726)
9 PRK11773 uvrD DNA-dependent he 100.0 2.5E-44 5.5E-49 492.4 40.0 344 1069-1536 9-358 (721)
10 TIGR01075 uvrD DNA helicase II 100.0 6.5E-44 1.4E-48 489.1 38.5 326 1069-1517 4-335 (715)
11 PRK11054 helD DNA helicase IV; 100.0 7.1E-42 1.5E-46 457.4 41.0 459 1068-1648 195-675 (684)
12 TIGR01074 rep ATP-dependent DN 100.0 1.4E-40 3.1E-45 455.5 41.9 325 1069-1515 1-331 (664)
13 TIGR02785 addA_Gpos recombinat 100.0 5.9E-38 1.3E-42 447.3 36.9 133 1326-1472 339-483 (1232)
14 COG0210 UvrD Superfamily I DNA 100.0 7E-38 1.5E-42 428.7 35.9 362 1069-1545 2-369 (655)
15 COG1112 Superfamily I DNA and 100.0 2.2E-36 4.8E-41 423.3 35.1 291 550-852 461-754 (767)
16 TIGR00609 recB exodeoxyribonuc 100.0 3.6E-36 7.8E-41 424.8 32.2 130 1326-1474 249-385 (1087)
17 COG1074 RecB ATP-dependent exo 100.0 3.2E-35 6.9E-40 415.3 30.7 130 1327-1473 333-470 (1139)
18 PRK13909 putative recombinatio 100.0 2E-34 4.4E-39 402.2 31.3 192 1327-1542 276-488 (910)
19 TIGR02784 addA_alphas double-s 100.0 1.5E-33 3.3E-38 403.5 39.6 136 1326-1472 343-497 (1141)
20 PRK10876 recB exonuclease V su 100.0 6.1E-34 1.3E-38 402.0 31.6 129 1326-1473 330-465 (1181)
21 PF13087 AAA_12: AAA domain; P 100.0 2.2E-32 4.8E-37 320.4 1.3 196 630-825 1-199 (200)
22 KOG1804 RNA helicase [RNA proc 100.0 5E-30 1.1E-34 335.0 12.1 284 556-852 418-724 (775)
23 KOG1806 DEAD box containing he 99.9 4.5E-28 9.8E-33 308.6 9.0 267 555-830 965-1248(1320)
24 COG3973 Superfamily I DNA and 99.9 1.3E-25 2.9E-30 276.9 26.0 224 1345-1636 505-746 (747)
25 PF00580 UvrD-helicase: UvrD/R 99.9 1.4E-24 3E-29 271.9 21.2 282 1070-1421 1-306 (315)
26 PF13086 AAA_11: AAA domain; P 99.9 1.2E-24 2.6E-29 260.4 17.1 72 550-622 163-235 (236)
27 TIGR02773 addB_Gpos ATP-depend 99.9 5.9E-20 1.3E-24 264.6 32.9 308 1085-1516 5-327 (1158)
28 KOG3616 Selective LIM binding 99.8 4.7E-19 1E-23 217.4 23.3 279 1700-1994 570-984 (1636)
29 TIGR01447 recD exodeoxyribonuc 99.8 2.9E-19 6.2E-24 237.0 20.2 55 770-829 521-575 (586)
30 TIGR02760 TraI_TIGR conjugativ 99.8 4.9E-17 1.1E-21 238.8 45.1 71 578-658 529-601 (1960)
31 TIGR00376 DNA helicase, putati 99.8 8.1E-18 1.8E-22 226.3 29.0 219 1365-1638 359-611 (637)
32 PRK10875 recD exonuclease V su 99.8 1.2E-18 2.5E-23 231.2 19.0 51 227-277 167-221 (615)
33 TIGR01448 recD_rel helicase, p 99.8 6.8E-18 1.5E-22 230.1 19.6 210 578-830 416-703 (720)
34 COG3972 Superfamily I DNA and 99.8 9.3E-18 2E-22 203.4 18.2 235 1365-1645 293-585 (660)
35 PRK11054 helD DNA helicase IV; 99.7 4.6E-17 9.9E-22 219.6 24.3 211 577-825 429-663 (684)
36 KOG1538 Uncharacterized conser 99.7 9.9E-17 2.1E-21 196.8 20.8 247 1669-1947 582-840 (1081)
37 KOG1803 DNA helicase [Replicat 99.7 2.8E-17 6E-22 205.7 16.1 238 1365-1654 356-630 (649)
38 TIGR02768 TraA_Ti Ti-type conj 99.7 5.4E-16 1.2E-20 212.4 20.9 205 578-830 439-715 (744)
39 KOG3616 Selective LIM binding 99.6 1.1E-14 2.4E-19 179.7 19.0 281 1695-1979 714-1105(1636)
40 COG3973 Superfamily I DNA and 99.6 1.3E-14 2.7E-19 180.9 19.3 207 577-824 527-745 (747)
41 TIGR01447 recD exodeoxyribonuc 99.6 3.3E-14 7.1E-19 189.2 24.1 104 1366-1470 258-368 (586)
42 PF13361 UvrD_C: UvrD-like hel 99.6 2.5E-15 5.5E-20 190.9 12.1 92 1449-1545 1-97 (351)
43 PRK10875 recD exonuclease V su 99.6 6.9E-14 1.5E-18 186.2 25.9 103 1366-1470 264-379 (615)
44 PRK13826 Dtr system oriT relax 99.6 2.2E-14 4.8E-19 197.7 20.8 68 579-657 469-538 (1102)
45 PRK13889 conjugal transfer rel 99.6 2.4E-14 5.2E-19 197.0 19.3 203 578-828 433-706 (988)
46 TIGR01448 recD_rel helicase, p 99.6 6.9E-14 1.5E-18 191.2 22.6 82 1367-1470 416-499 (720)
47 PRK11773 uvrD DNA-dependent he 99.5 1.7E-13 3.8E-18 189.3 24.4 64 213-279 11-78 (721)
48 KOG3617 WD40 and TPR repeat-co 99.5 6.6E-13 1.4E-17 167.1 18.3 238 1694-1949 919-1183(1416)
49 TIGR00609 recB exodeoxyribonuc 99.5 6.8E-12 1.5E-16 179.4 29.5 174 577-760 295-491 (1087)
50 KOG1802 RNA helicase nonsense 99.4 1E-12 2.2E-17 164.1 16.9 229 1365-1649 566-826 (935)
51 TIGR02768 TraA_Ti Ti-type conj 99.4 4.7E-12 1E-16 174.0 23.9 72 1366-1460 438-509 (744)
52 TIGR02785 addA_Gpos recombinat 99.4 2.3E-11 5E-16 175.9 29.9 55 227-281 14-71 (1232)
53 PF13604 AAA_30: AAA domain; P 99.4 4.3E-13 9.3E-18 156.8 10.0 58 215-274 8-65 (196)
54 PRK13826 Dtr system oriT relax 99.4 7E-11 1.5E-15 163.7 31.9 80 1367-1469 468-548 (1102)
55 PRK13909 putative recombinatio 99.4 1.3E-11 2.8E-16 174.3 24.9 156 577-760 327-493 (910)
56 KOG1805 DNA replication helica 99.4 7.1E-13 1.5E-17 172.7 10.9 223 1365-1638 794-1056(1100)
57 KOG2108 3'-5' DNA helicase [Re 99.4 1.3E-13 2.8E-18 179.5 3.9 108 1344-1471 206-315 (853)
58 COG1074 RecB ATP-dependent exo 99.4 5.6E-12 1.2E-16 180.4 19.8 175 577-760 377-576 (1139)
59 PRK13889 conjugal transfer rel 99.4 3.1E-11 6.7E-16 166.8 23.9 80 1366-1468 432-512 (988)
60 PRK10876 recB exonuclease V su 99.4 1.1E-10 2.3E-15 167.4 30.2 173 577-759 376-572 (1181)
61 KOG2041 WD40 repeat protein [G 99.3 7.3E-11 1.6E-15 147.1 23.4 271 1664-1974 684-967 (1189)
62 TIGR02784 addA_alphas double-s 99.3 3.6E-10 7.8E-15 164.0 31.0 58 223-281 7-67 (1141)
63 TIGR01073 pcrA ATP-dependent D 99.2 1.4E-10 3.1E-15 161.2 21.5 156 577-760 208-366 (726)
64 TIGR01075 uvrD DNA helicase II 99.2 2.4E-10 5.2E-15 158.6 22.7 155 577-760 207-364 (715)
65 PRK14712 conjugal transfer nic 99.2 1.8E-10 3.9E-15 163.4 20.7 76 578-663 930-1008(1623)
66 PF09848 DUF2075: Uncharacteri 99.2 2.9E-10 6.2E-15 145.3 20.3 90 1364-1470 80-180 (352)
67 PRK10919 ATP-dependent DNA hel 99.2 3.2E-10 6.8E-15 155.4 21.2 155 577-760 206-364 (672)
68 PRK13709 conjugal transfer nic 99.2 9.3E-11 2E-15 168.7 16.4 70 579-658 1063-1135(1747)
69 TIGR01074 rep ATP-dependent DN 99.1 2.5E-09 5.3E-14 148.2 23.7 155 577-760 205-363 (664)
70 TIGR02774 rexB_recomb ATP-depe 99.0 3.5E-08 7.5E-13 140.7 30.7 244 1244-1536 86-335 (1076)
71 TIGR02760 TraI_TIGR conjugativ 99.0 7.3E-10 1.6E-14 164.4 12.7 74 578-661 1112-1190(1960)
72 KOG1538 Uncharacterized conser 99.0 1.1E-08 2.3E-13 127.5 18.9 161 1670-1836 621-798 (1081)
73 PF13245 AAA_19: Part of AAA d 99.0 7.3E-10 1.6E-14 109.1 7.1 50 226-275 9-62 (76)
74 KOG3617 WD40 and TPR repeat-co 99.0 2.4E-08 5.2E-13 127.1 21.1 276 1694-1977 865-1176(1416)
75 PF01443 Viral_helicase1: Vira 98.9 5.7E-10 1.2E-14 134.5 5.8 81 1366-1468 61-141 (234)
76 PF01443 Viral_helicase1: Vira 98.9 5.1E-09 1.1E-13 126.3 9.9 171 578-822 62-233 (234)
77 PF13604 AAA_30: AAA domain; P 98.8 2E-08 4.3E-13 117.8 13.1 80 1366-1469 92-174 (196)
78 PF00580 UvrD-helicase: UvrD/R 98.8 5.7E-08 1.2E-12 122.1 17.0 56 226-281 12-71 (315)
79 PRK13709 conjugal transfer nic 98.8 1.2E-07 2.7E-12 137.3 21.5 82 1367-1469 1062-1143(1747)
80 COG0210 UvrD Superfamily I DNA 98.8 2.5E-07 5.4E-12 128.3 22.1 156 577-760 212-371 (655)
81 PF09848 DUF2075: Uncharacteri 98.7 1.6E-08 3.5E-13 129.3 8.7 87 576-671 81-184 (352)
82 COG0507 RecD ATP-dependent exo 98.7 1.3E-08 2.9E-13 141.5 8.5 55 770-830 622-676 (696)
83 PF13538 UvrD_C_2: UvrD-like h 98.7 7.7E-09 1.7E-13 108.6 3.8 50 1548-1633 55-104 (104)
84 PRK14712 conjugal transfer nic 98.7 2.7E-07 5.8E-12 132.1 19.9 83 1367-1470 930-1012(1623)
85 PF13087 AAA_12: AAA domain; P 98.7 4.6E-08 9.9E-13 115.1 9.3 159 1446-1636 15-199 (200)
86 PF13086 AAA_11: AAA domain; P 98.5 5.6E-07 1.2E-11 108.0 12.6 71 1069-1161 1-75 (236)
87 KOG2041 WD40 repeat protein [G 98.5 4.6E-06 1E-10 105.5 19.7 186 1693-1894 740-945 (1189)
88 KOG1920 IkappaB kinase complex 98.4 1.5E-06 3.3E-11 117.0 14.3 160 1697-1870 918-1085(1265)
89 KOG2108 3'-5' DNA helicase [Re 98.4 9.2E-08 2E-12 126.0 1.7 71 1548-1637 674-744 (853)
90 KOG1807 Helicases [Replication 98.3 7.7E-06 1.7E-10 105.6 17.1 226 1367-1649 720-966 (1025)
91 PF05970 PIF1: PIF1-like helic 98.3 7.5E-07 1.6E-11 114.4 7.9 47 225-271 20-66 (364)
92 COG3857 AddB ATP-dependent nuc 98.3 0.00049 1.1E-08 93.5 33.8 213 1280-1535 117-337 (1108)
93 PF13245 AAA_19: Part of AAA d 98.3 2.3E-06 5.1E-11 84.5 7.7 53 1081-1159 9-62 (76)
94 PF14938 SNAP: Soluble NSF att 98.2 3.1E-05 6.7E-10 96.5 18.7 83 1740-1835 32-118 (282)
95 PF14938 SNAP: Soluble NSF att 98.2 4.9E-05 1.1E-09 94.7 18.5 168 1694-1884 42-221 (282)
96 PF02562 PhoH: PhoH-like prote 98.0 7.7E-06 1.7E-10 95.6 7.2 39 1369-1408 121-159 (205)
97 KOG1920 IkappaB kinase complex 98.0 0.00015 3.4E-09 98.4 20.1 171 1738-1934 888-1062(1265)
98 KOG1586 Protein required for f 98.0 5.6E-05 1.2E-09 86.7 12.6 117 1700-1824 47-180 (288)
99 COG1112 Superfamily I DNA and 97.9 2.2E-05 4.8E-10 111.4 10.9 219 1367-1637 488-729 (767)
100 KOG1586 Protein required for f 97.9 0.00019 4E-09 82.6 14.9 17 1700-1716 27-43 (288)
101 PLN03081 pentatricopeptide (PP 97.8 0.0028 6E-08 89.3 26.4 76 1761-1836 330-416 (697)
102 PRK10536 hypothetical protein; 97.7 0.00016 3.4E-09 86.8 11.2 38 579-616 177-215 (262)
103 KOG1585 Protein required for f 97.7 0.00027 5.8E-09 81.8 12.0 160 1753-1940 28-192 (308)
104 TIGR02917 PEP_TPR_lipo putativ 97.6 0.0098 2.1E-07 85.3 29.7 71 1766-1836 577-660 (899)
105 PRK10536 hypothetical protein; 97.6 0.00031 6.6E-09 84.5 10.5 40 1368-1408 177-216 (262)
106 KOG1806 DEAD box containing he 97.5 0.0013 2.8E-08 88.1 16.6 221 1365-1637 989-1244(1320)
107 TIGR02917 PEP_TPR_lipo putativ 97.5 0.019 4.2E-07 82.3 30.2 93 1746-1838 468-594 (899)
108 PLN03077 Protein ECB2; Provisi 97.5 0.0081 1.7E-07 86.7 26.2 258 1699-1986 335-651 (857)
109 KOG4626 O-linked N-acetylgluco 97.4 0.012 2.6E-07 75.6 22.6 245 1697-1959 194-508 (966)
110 TIGR00990 3a0801s09 mitochondr 97.4 0.017 3.6E-07 80.3 27.0 71 1695-1766 135-217 (615)
111 PLN03218 maturation of RBCL 1; 97.4 0.013 2.8E-07 84.6 26.0 110 1761-1883 512-638 (1060)
112 PRK11447 cellulose synthase su 97.4 0.02 4.3E-07 85.1 29.0 23 1693-1715 391-413 (1157)
113 PRK11788 tetratricopeptide rep 97.4 0.02 4.2E-07 74.7 25.5 23 1693-1715 41-63 (389)
114 KOG4626 O-linked N-acetylgluco 97.4 0.003 6.4E-08 80.8 16.6 225 1693-1937 122-414 (966)
115 cd00046 DEXDc DEAD-like helica 97.3 0.00039 8.4E-09 75.6 7.4 51 229-279 2-54 (144)
116 PLN03081 pentatricopeptide (PP 97.3 0.0096 2.1E-07 83.9 23.0 177 1760-1956 364-559 (697)
117 KOG1804 RNA helicase [RNA proc 97.3 8.3E-05 1.8E-09 100.3 1.1 280 558-851 243-546 (775)
118 PLN03077 Protein ECB2; Provisi 97.3 0.024 5.2E-07 81.9 26.0 76 1762-1837 294-380 (857)
119 COG0507 RecD ATP-dependent exo 97.2 0.00037 8E-09 97.6 7.1 50 1547-1634 620-669 (696)
120 PLN03218 maturation of RBCL 1; 97.2 0.02 4.3E-07 82.7 24.3 176 1759-1953 582-782 (1060)
121 PF13538 UvrD_C_2: UvrD-like h 97.2 5.3E-05 1.1E-09 79.6 -1.7 50 769-822 55-104 (104)
122 TIGR02773 addB_Gpos ATP-depend 97.2 0.017 3.6E-07 85.5 23.3 85 1547-1636 580-665 (1158)
123 PRK11447 cellulose synthase su 97.1 0.034 7.3E-07 82.7 26.2 23 1693-1715 357-379 (1157)
124 KOG1840 Kinesin light chain [C 97.1 0.023 5.1E-07 75.2 20.8 161 1694-1884 206-392 (508)
125 TIGR00990 3a0801s09 mitochondr 97.1 0.041 8.9E-07 76.5 24.2 107 1764-1884 373-492 (615)
126 PRK11788 tetratricopeptide rep 97.0 0.073 1.6E-06 69.4 25.1 23 1693-1715 75-97 (389)
127 PF04053 Coatomer_WDAD: Coatom 97.0 0.021 4.5E-07 75.1 19.1 135 1746-1925 298-442 (443)
128 PRK15174 Vi polysaccharide exp 97.0 0.12 2.7E-06 72.1 27.9 75 1763-1838 151-239 (656)
129 COG3972 Superfamily I DNA and 97.0 0.0028 6E-08 79.8 10.0 236 578-825 295-576 (660)
130 KOG1585 Protein required for f 97.0 0.026 5.5E-07 66.1 16.8 17 1700-1716 31-47 (308)
131 KOG2076 RNA polymerase III tra 96.9 0.037 8.1E-07 74.8 20.1 127 1669-1835 204-340 (895)
132 PF13429 TPR_15: Tetratricopep 96.9 0.0041 9E-08 77.4 11.1 172 1695-1883 52-238 (280)
133 smart00487 DEXDc DEAD-like hel 96.9 0.0024 5.2E-08 73.9 8.4 62 215-279 15-78 (201)
134 PF04053 Coatomer_WDAD: Coatom 96.8 0.023 4.9E-07 74.8 17.3 140 1693-1837 301-441 (443)
135 PRK10747 putative protoheme IX 96.8 0.099 2.1E-06 68.7 23.3 118 1690-1810 87-212 (398)
136 KOG2028 ATPase related to the 96.7 0.003 6.5E-08 76.8 7.4 65 213-278 149-213 (554)
137 PRK10049 pgaA outer membrane p 96.7 0.45 9.8E-06 67.9 29.9 99 1970-2076 410-514 (765)
138 cd00009 AAA The AAA+ (ATPases 96.6 0.0049 1.1E-07 67.7 7.6 47 227-273 19-65 (151)
139 cd01124 KaiC KaiC is a circadi 96.5 0.0042 9.1E-08 72.4 6.5 47 229-276 1-47 (187)
140 COG2956 Predicted N-acetylgluc 96.4 0.27 5.8E-06 60.2 20.7 202 1732-1952 44-277 (389)
141 PF04851 ResIII: Type III rest 96.4 0.0063 1.4E-07 70.2 7.2 47 227-276 25-71 (184)
142 KOG0276 Vesicle coat complex C 96.3 0.019 4.2E-07 73.8 11.3 134 1694-1839 621-762 (794)
143 PF13429 TPR_15: Tetratricopep 96.3 0.023 4.9E-07 70.9 12.2 149 1694-1883 15-170 (280)
144 TIGR03623 probable DNA repair 96.3 0.67 1.5E-05 67.2 28.1 66 1326-1393 122-187 (874)
145 KOG0985 Vesicle coat protein c 96.3 0.14 3.1E-06 69.1 18.9 104 1787-1909 1196-1303(1666)
146 PRK12377 putative replication 96.3 0.0052 1.1E-07 74.8 5.8 42 227-269 101-142 (248)
147 PRK15174 Vi polysaccharide exp 96.3 0.43 9.4E-06 66.8 25.3 191 1766-1986 187-407 (656)
148 KOG0985 Vesicle coat protein c 96.2 0.38 8.3E-06 65.3 22.3 93 1743-1835 1061-1157(1666)
149 PF13401 AAA_22: AAA domain; P 96.2 0.037 8E-07 60.5 11.5 36 1369-1404 89-125 (131)
150 KOG2114 Vacuolar assembly/sort 96.2 0.18 3.8E-06 67.9 19.0 171 1765-1950 343-528 (933)
151 KOG2003 TPR repeat-containing 96.1 0.14 3E-06 63.7 16.4 167 1694-1883 497-684 (840)
152 PF01695 IstB_IS21: IstB-like 96.0 0.0055 1.2E-07 71.1 4.3 37 227-263 47-83 (178)
153 COG2256 MGS1 ATPase related to 96.0 0.015 3.2E-07 72.9 7.9 63 212-278 34-96 (436)
154 PF00270 DEAD: DEAD/DEAH box h 96.0 0.016 3.6E-07 66.0 7.8 51 229-279 16-68 (169)
155 PRK06526 transposase; Provisio 95.9 0.0041 8.9E-08 76.1 2.6 37 227-263 98-134 (254)
156 TIGR01970 DEAH_box_HrpB ATP-de 95.9 0.014 3.1E-07 81.9 8.2 65 215-279 5-69 (819)
157 PRK07952 DNA replication prote 95.9 0.008 1.7E-07 73.0 5.0 35 228-262 100-134 (244)
158 KOG2003 TPR repeat-containing 95.9 0.61 1.3E-05 58.3 20.6 219 1748-1984 477-730 (840)
159 smart00382 AAA ATPases associa 95.9 0.0059 1.3E-07 66.3 3.5 42 227-268 2-43 (148)
160 PRK06893 DNA replication initi 95.8 0.0096 2.1E-07 72.1 5.3 38 227-264 39-76 (229)
161 PRK08181 transposase; Validate 95.8 0.008 1.7E-07 74.1 4.4 35 228-262 107-141 (269)
162 COG5290 IkappaB kinase complex 95.7 0.25 5.5E-06 65.3 17.2 126 1696-1835 900-1032(1243)
163 TIGR03878 thermo_KaiC_2 KaiC d 95.7 0.011 2.5E-07 72.8 5.4 48 227-275 36-83 (259)
164 PRK10747 putative protoheme IX 95.7 0.85 1.8E-05 60.1 23.0 25 1691-1715 122-146 (398)
165 PF07652 Flavi_DEAD: Flaviviru 95.7 0.017 3.6E-07 63.7 5.8 50 227-276 4-54 (148)
166 smart00487 DEXDc DEAD-like hel 95.7 0.029 6.3E-07 64.9 8.3 68 1067-1162 6-77 (201)
167 PF00004 AAA: ATPase family as 95.7 0.018 4E-07 62.6 6.3 48 231-281 2-52 (132)
168 KOG0276 Vesicle coat complex C 95.6 0.13 2.8E-06 66.6 14.1 89 1747-1835 618-716 (794)
169 KOG0989 Replication factor C, 95.6 0.016 3.4E-07 70.3 5.8 38 226-263 56-97 (346)
170 PRK11664 ATP-dependent RNA hel 95.6 0.018 3.8E-07 81.2 7.0 66 214-279 7-72 (812)
171 PRK04296 thymidine kinase; Pro 95.5 0.015 3.2E-07 68.4 5.2 37 227-263 2-38 (190)
172 PF06745 KaiC: KaiC; InterPro 95.5 0.017 3.7E-07 69.7 5.9 50 226-276 18-68 (226)
173 PRK05973 replicative DNA helic 95.5 0.021 4.6E-07 68.9 6.5 51 227-278 64-114 (237)
174 KOG0991 Replication factor C, 95.5 0.023 4.9E-07 65.9 6.3 75 227-307 48-125 (333)
175 KOG1801 tRNA-splicing endonucl 95.5 0.062 1.3E-06 76.1 11.8 225 1364-1638 533-789 (827)
176 PRK08116 hypothetical protein; 95.4 0.025 5.4E-07 70.0 6.9 36 227-262 114-149 (268)
177 PRK06835 DNA replication prote 95.4 0.015 3.2E-07 73.8 5.0 37 227-263 183-219 (329)
178 KOG1126 DNA-binding cell divis 95.4 0.099 2.2E-06 69.0 12.3 174 1645-1844 396-590 (638)
179 PF13401 AAA_22: AAA domain; P 95.4 0.016 3.4E-07 63.4 4.6 53 227-279 4-62 (131)
180 TIGR03877 thermo_KaiC_1 KaiC d 95.4 0.023 5E-07 69.2 6.3 51 226-277 20-70 (237)
181 PRK06851 hypothetical protein; 95.4 0.016 3.6E-07 73.8 5.1 57 214-272 19-77 (367)
182 PRK08084 DNA replication initi 95.3 0.033 7.1E-07 67.8 7.3 39 227-265 45-83 (235)
183 PRK09782 bacteriophage N4 rece 95.3 1.4 3E-05 64.0 24.3 15 1700-1714 489-503 (987)
184 PRK08727 hypothetical protein; 95.3 0.03 6.6E-07 68.0 6.8 37 227-263 41-77 (233)
185 COG5290 IkappaB kinase complex 95.3 2.3 5E-05 56.9 23.4 96 1740-1835 874-972 (1243)
186 PRK14974 cell division protein 95.2 0.033 7.2E-07 70.7 7.3 45 227-271 140-187 (336)
187 KOG2247 WD40 repeat-containing 95.2 0.00096 2.1E-08 83.5 -6.2 182 1743-1949 185-368 (615)
188 PF00448 SRP54: SRP54-type pro 95.2 0.032 6.9E-07 65.9 6.5 45 227-271 1-48 (196)
189 KOG1840 Kinesin light chain [C 95.2 0.5 1.1E-05 63.1 18.0 23 1693-1715 247-269 (508)
190 cd01120 RecA-like_NTPases RecA 95.1 0.028 6.1E-07 63.3 5.7 41 229-269 1-41 (165)
191 PRK09183 transposase/IS protei 95.1 0.024 5.1E-07 69.9 5.4 36 227-262 102-137 (259)
192 PRK09361 radB DNA repair and r 95.1 0.025 5.4E-07 68.3 5.5 51 214-264 9-60 (225)
193 PF13361 UvrD_C: UvrD-like hel 95.1 0.0031 6.8E-08 80.4 -2.4 59 767-825 285-350 (351)
194 PF00270 DEAD: DEAD/DEAH box h 95.1 0.059 1.3E-06 61.5 8.3 65 1071-1163 1-68 (169)
195 PF13481 AAA_25: AAA domain; P 95.1 0.04 8.7E-07 64.6 7.0 52 227-279 32-93 (193)
196 KOG1155 Anaphase-promoting com 95.1 0.34 7.4E-06 61.6 14.9 140 1670-1836 362-532 (559)
197 PRK06921 hypothetical protein; 95.1 0.021 4.6E-07 70.5 4.7 37 227-263 117-154 (266)
198 PRK08533 flagellar accessory p 95.0 0.037 8.1E-07 67.0 6.6 49 226-275 23-71 (230)
199 KOG2247 WD40 repeat-containing 95.0 0.0016 3.6E-08 81.5 -5.0 145 1788-1938 175-331 (615)
200 cd03115 SRP The signal recogni 95.0 0.029 6.2E-07 64.8 5.3 34 229-262 2-35 (173)
201 PF05496 RuvB_N: Holliday junc 95.0 0.022 4.8E-07 67.3 4.2 32 224-256 47-78 (233)
202 COG1484 DnaC DNA replication p 94.9 0.027 5.9E-07 69.1 5.0 39 226-264 104-142 (254)
203 TIGR00540 hemY_coli hemY prote 94.9 1.7 3.7E-05 57.4 22.1 119 1690-1810 87-212 (409)
204 TIGR02521 type_IV_pilW type IV 94.8 0.93 2E-05 53.4 17.8 139 1695-1836 39-194 (234)
205 PF04840 Vps16_C: Vps16, C-ter 94.8 4.2 9.1E-05 51.8 24.0 80 1868-1948 186-286 (319)
206 PF12569 NARP1: NMDA receptor- 94.8 0.98 2.1E-05 60.9 19.2 27 1689-1715 6-32 (517)
207 PF07728 AAA_5: AAA domain (dy 94.7 0.033 7E-07 61.8 4.7 29 230-261 2-30 (139)
208 PRK05642 DNA replication initi 94.7 0.036 7.8E-07 67.3 5.4 38 227-264 45-82 (234)
209 PRK08939 primosomal protein Dn 94.7 0.03 6.5E-07 70.5 4.9 37 227-263 156-192 (306)
210 TIGR02237 recomb_radB DNA repa 94.7 0.038 8.2E-07 65.9 5.5 39 227-265 12-50 (209)
211 TIGR03880 KaiC_arch_3 KaiC dom 94.6 0.057 1.2E-06 65.1 6.6 50 226-276 15-64 (224)
212 cd01394 radB RadB. The archaea 94.5 0.043 9.2E-07 65.9 5.4 47 217-263 8-55 (218)
213 TIGR03420 DnaA_homol_Hda DnaA 94.5 0.072 1.5E-06 64.2 7.1 43 225-267 36-78 (226)
214 cd01122 GP4d_helicase GP4d_hel 94.4 0.064 1.4E-06 66.6 6.8 51 227-278 30-81 (271)
215 PLN03025 replication factor C 94.4 0.049 1.1E-06 69.3 5.9 26 230-255 37-62 (319)
216 cd00984 DnaB_C DnaB helicase C 94.4 0.076 1.6E-06 64.7 7.2 49 227-276 13-62 (242)
217 PF04851 ResIII: Type III rest 94.4 0.088 1.9E-06 60.7 7.4 62 1068-1162 2-73 (184)
218 TIGR00064 ftsY signal recognit 94.4 0.046 9.9E-07 67.8 5.3 37 227-263 72-108 (272)
219 PRK04328 hypothetical protein; 94.4 0.065 1.4E-06 65.8 6.6 58 217-275 12-70 (249)
220 PRK06067 flagellar accessory p 94.3 0.071 1.5E-06 64.8 6.8 49 226-275 24-72 (234)
221 COG0467 RAD55 RecA-superfamily 94.3 0.048 1E-06 67.4 5.3 43 226-268 22-64 (260)
222 PRK08903 DnaA regulatory inact 94.3 0.076 1.6E-06 64.2 6.9 40 226-265 41-80 (227)
223 smart00299 CLH Clathrin heavy 94.3 1.5 3.2E-05 48.9 16.6 119 1813-1946 9-131 (140)
224 KOG2076 RNA polymerase III tra 94.3 1.3 2.9E-05 60.6 18.6 88 1693-1810 145-232 (895)
225 cd00046 DEXDc DEAD-like helica 94.3 0.085 1.9E-06 57.2 6.6 52 1083-1162 2-53 (144)
226 PF12569 NARP1: NMDA receptor- 94.3 2.1 4.6E-05 57.8 20.7 21 1692-1712 43-63 (517)
227 PRK00771 signal recognition pa 94.2 0.049 1.1E-06 71.5 5.3 37 227-263 95-131 (437)
228 PRK10867 signal recognition pa 94.2 0.048 1E-06 71.4 5.1 37 227-263 100-137 (433)
229 PRK10049 pgaA outer membrane p 94.2 2 4.4E-05 61.4 21.7 25 2342-2366 721-747 (765)
230 PRK13342 recombination factor 94.2 0.091 2E-06 69.4 7.7 53 217-273 27-79 (413)
231 KOG0744 AAA+-type ATPase [Post 94.1 0.034 7.4E-07 67.5 3.1 58 194-251 130-201 (423)
232 TIGR02881 spore_V_K stage V sp 94.1 0.037 8E-07 68.4 3.6 28 228-255 43-70 (261)
233 TIGR01425 SRP54_euk signal rec 94.0 0.077 1.7E-06 69.1 6.4 45 227-271 100-147 (429)
234 PHA00729 NTP-binding motif con 93.9 0.06 1.3E-06 64.3 4.8 24 229-252 19-42 (226)
235 COG0552 FtsY Signal recognitio 93.9 0.094 2E-06 65.1 6.6 45 227-271 139-186 (340)
236 TIGR02012 tigrfam_recA protein 93.9 0.088 1.9E-06 66.4 6.4 52 214-265 40-93 (321)
237 PRK13768 GTPase; Provisional 93.9 0.061 1.3E-06 66.1 5.0 35 228-262 3-37 (253)
238 PRK14963 DNA polymerase III su 93.9 0.22 4.7E-06 67.0 10.4 34 221-254 30-63 (504)
239 TIGR02655 circ_KaiC circadian 93.8 0.067 1.4E-06 71.9 5.5 62 214-276 249-311 (484)
240 PRK10416 signal recognition pa 93.8 0.072 1.6E-06 67.5 5.4 37 227-263 114-150 (318)
241 TIGR02640 gas_vesic_GvpN gas v 93.8 0.079 1.7E-06 65.6 5.6 44 216-262 10-53 (262)
242 TIGR03881 KaiC_arch_4 KaiC dom 93.8 0.12 2.5E-06 62.7 7.0 48 226-274 19-66 (229)
243 TIGR02880 cbbX_cfxQ probable R 93.7 0.049 1.1E-06 68.1 3.8 28 229-256 60-87 (284)
244 PF00308 Bac_DnaA: Bacterial d 93.7 0.13 2.8E-06 61.9 7.3 50 214-263 20-72 (219)
245 PRK09782 bacteriophage N4 rece 93.7 3 6.6E-05 60.6 21.8 172 1693-1883 515-701 (987)
246 PF05970 PIF1: PIF1-like helic 93.7 0.089 1.9E-06 68.2 6.1 34 1069-1102 1-43 (364)
247 PRK06851 hypothetical protein; 93.7 0.1 2.2E-06 66.8 6.5 59 211-271 200-260 (367)
248 TIGR00750 lao LAO/AO transport 93.6 0.097 2.1E-06 66.1 6.3 47 216-262 23-69 (300)
249 PF13191 AAA_16: AAA ATPase do 93.6 0.098 2.1E-06 60.6 5.8 36 225-260 22-57 (185)
250 KOG2280 Vacuolar assembly/sort 93.6 4.7 0.0001 54.6 21.1 85 1866-1950 691-796 (829)
251 KOG2114 Vacuolar assembly/sort 93.5 2.2 4.7E-05 58.2 18.2 117 1697-1835 344-474 (933)
252 PRK13341 recombination factor 93.5 0.11 2.5E-06 72.2 7.1 52 216-271 42-93 (725)
253 cd00983 recA RecA is a bacter 93.5 0.11 2.4E-06 65.5 6.3 52 215-266 41-94 (325)
254 TIGR00959 ffh signal recogniti 93.5 0.081 1.8E-06 69.3 5.3 37 227-263 99-136 (428)
255 PHA02544 44 clamp loader, smal 93.5 0.21 4.5E-06 63.5 9.0 57 217-276 33-89 (316)
256 PF02562 PhoH: PhoH-like prote 93.5 0.096 2.1E-06 61.9 5.4 37 580-616 121-158 (205)
257 cd01983 Fer4_NifH The Fer4_Nif 93.5 0.11 2.3E-06 53.1 5.2 34 229-262 1-34 (99)
258 TIGR00643 recG ATP-dependent D 93.5 0.22 4.8E-06 69.2 9.9 53 229-281 258-310 (630)
259 TIGR00643 recG ATP-dependent D 93.4 0.16 3.4E-06 70.7 8.1 68 1065-1162 231-307 (630)
260 TIGR00595 priA primosomal prot 93.3 0.1 2.3E-06 70.2 6.1 48 231-278 1-48 (505)
261 PRK09435 membrane ATPase/prote 93.3 0.15 3.3E-06 64.7 7.1 49 215-263 44-92 (332)
262 PF13207 AAA_17: AAA domain; P 93.3 0.1 2.2E-06 56.3 4.9 28 229-259 1-28 (121)
263 TIGR01587 cas3_core CRISPR-ass 93.3 0.14 3E-06 66.3 7.1 50 230-279 2-53 (358)
264 PF03308 ArgK: ArgK protein; 93.3 0.15 3.2E-06 61.6 6.5 49 214-262 16-64 (266)
265 KOG1126 DNA-binding cell divis 93.2 0.77 1.7E-05 61.1 13.4 77 1697-1774 363-452 (638)
266 PRK14962 DNA polymerase III su 93.2 0.091 2E-06 70.0 5.2 33 221-253 30-62 (472)
267 PHA02624 large T antigen; Prov 93.2 0.12 2.5E-06 69.0 5.9 46 217-264 421-466 (647)
268 PRK00411 cdc6 cell division co 93.2 0.17 3.7E-06 66.4 7.7 29 227-255 55-83 (394)
269 PRK10917 ATP-dependent DNA hel 93.1 0.19 4.2E-06 70.3 8.5 68 1066-1163 258-334 (681)
270 PF04840 Vps16_C: Vps16, C-ter 93.1 10 0.00022 48.4 23.0 55 1884-1939 249-303 (319)
271 PRK10917 ATP-dependent DNA hel 93.1 0.16 3.5E-06 71.1 7.7 53 229-281 284-336 (681)
272 CHL00181 cbbX CbbX; Provisiona 93.1 0.08 1.7E-06 66.3 4.3 35 230-264 62-100 (287)
273 PRK10590 ATP-dependent RNA hel 93.1 0.32 6.9E-06 65.2 10.2 90 1045-1162 6-98 (456)
274 cd00268 DEADc DEAD-box helicas 93.1 0.19 4.2E-06 59.4 7.3 60 215-278 28-92 (203)
275 PRK11823 DNA repair protein Ra 93.1 0.13 2.9E-06 68.2 6.5 61 214-275 66-127 (446)
276 PRK11889 flhF flagellar biosyn 93.1 0.15 3.2E-06 65.2 6.5 46 227-272 241-289 (436)
277 PF00910 RNA_helicase: RNA hel 93.0 0.08 1.7E-06 56.3 3.5 23 231-253 2-24 (107)
278 PRK12422 chromosomal replicati 93.0 0.091 2E-06 69.6 4.7 37 228-264 142-178 (445)
279 KOG1155 Anaphase-promoting com 93.0 1.3 2.9E-05 56.5 14.3 134 1693-1835 336-490 (559)
280 TIGR02521 type_IV_pilW type IV 93.0 3.5 7.5E-05 48.5 17.8 174 1746-1945 34-224 (234)
281 cd01121 Sms Sms (bacterial rad 92.9 0.16 3.5E-06 65.7 6.7 60 215-275 69-129 (372)
282 cd01131 PilT Pilus retraction 92.9 0.12 2.6E-06 61.2 5.2 35 228-262 2-37 (198)
283 PRK12724 flagellar biosynthesi 92.9 0.12 2.6E-06 66.8 5.3 37 227-263 223-260 (432)
284 PRK05580 primosome assembly pr 92.8 0.27 5.9E-06 68.7 9.2 64 214-278 150-213 (679)
285 PF07726 AAA_3: ATPase family 92.8 0.046 9.9E-07 59.3 1.3 23 230-252 2-24 (131)
286 PRK14722 flhF flagellar biosyn 92.8 0.14 3E-06 65.8 5.9 37 227-263 137-175 (374)
287 TIGR03302 OM_YfiO outer membra 92.8 4.4 9.6E-05 49.0 18.7 64 1671-1768 32-95 (235)
288 TIGR02928 orc1/cdc6 family rep 92.8 0.22 4.8E-06 64.6 7.8 29 225-253 38-66 (365)
289 COG2805 PilT Tfp pilus assembl 92.7 0.18 3.8E-06 61.5 6.1 67 190-261 93-160 (353)
290 PF13173 AAA_14: AAA domain 92.7 0.23 5E-06 54.5 6.6 52 227-279 2-54 (128)
291 TIGR03499 FlhF flagellar biosy 92.7 0.13 2.8E-06 64.3 5.2 38 227-264 194-233 (282)
292 TIGR00678 holB DNA polymerase 92.6 0.28 6.1E-06 57.5 7.6 39 216-254 3-41 (188)
293 PRK12323 DNA polymerase III su 92.6 0.32 6.9E-06 65.8 8.8 42 212-253 20-64 (700)
294 KOG0651 26S proteasome regulat 92.6 0.084 1.8E-06 64.1 3.2 33 227-262 166-198 (388)
295 PHA02558 uvsW UvsW helicase; P 92.6 0.2 4.3E-06 67.9 7.1 60 215-278 121-181 (501)
296 PRK07667 uridine kinase; Provi 92.6 0.22 4.9E-06 58.7 6.8 50 216-265 6-55 (193)
297 cd01125 repA Hexameric Replica 92.5 0.21 4.7E-06 60.9 6.8 52 228-280 2-65 (239)
298 PRK11192 ATP-dependent RNA hel 92.5 0.4 8.6E-06 63.9 9.8 88 1046-1163 7-97 (434)
299 PF03266 NTPase_1: NTPase; In 92.5 0.11 2.3E-06 59.9 3.8 28 231-258 3-30 (168)
300 PRK09354 recA recombinase A; P 92.4 0.2 4.3E-06 63.8 6.3 53 214-266 45-99 (349)
301 PRK14964 DNA polymerase III su 92.4 0.42 9.2E-06 63.7 9.6 42 212-253 17-61 (491)
302 KOG0550 Molecular chaperone (D 92.4 0.84 1.8E-05 57.6 11.3 32 1669-1715 246-277 (486)
303 KOG2034 Vacuolar sorting prote 92.4 2.4 5.1E-05 58.4 16.2 178 1763-1950 365-556 (911)
304 TIGR00362 DnaA chromosomal rep 92.4 0.21 4.6E-06 65.8 6.9 37 227-263 136-174 (405)
305 KOG0743 AAA+-type ATPase [Post 92.3 0.072 1.6E-06 68.2 2.3 48 227-277 235-282 (457)
306 PRK12370 invasion protein regu 92.3 13 0.00028 51.4 24.2 107 1765-1885 347-467 (553)
307 PRK13531 regulatory ATPase Rav 92.3 0.13 2.8E-06 67.5 4.7 50 203-252 13-64 (498)
308 PRK00149 dnaA chromosomal repl 92.3 0.17 3.7E-06 67.6 6.0 37 228-264 149-187 (450)
309 KOG1533 Predicted GTPase [Gene 92.2 0.12 2.5E-06 60.6 3.6 39 230-268 5-45 (290)
310 PTZ00112 origin recognition co 92.2 0.16 3.6E-06 69.4 5.5 27 226-252 780-806 (1164)
311 PRK12726 flagellar biosynthesi 92.2 0.17 3.7E-06 64.5 5.4 37 227-263 206-242 (407)
312 PRK14955 DNA polymerase III su 92.2 0.4 8.6E-06 63.0 9.0 37 217-253 28-64 (397)
313 PF02492 cobW: CobW/HypB/UreG, 92.2 0.16 3.4E-06 59.2 4.8 35 228-263 1-35 (178)
314 smart00489 DEXDc3 DEAD-like he 92.1 0.31 6.8E-06 61.2 7.6 64 213-276 13-82 (289)
315 smart00488 DEXDc2 DEAD-like he 92.1 0.31 6.8E-06 61.2 7.6 64 213-276 13-82 (289)
316 PHA02774 E1; Provisional 92.1 0.23 5E-06 66.1 6.6 44 216-261 423-466 (613)
317 PRK12402 replication factor C 92.1 0.15 3.3E-06 65.3 5.0 43 212-254 19-63 (337)
318 TIGR02655 circ_KaiC circadian 92.1 0.15 3.3E-06 68.5 5.2 39 226-264 20-59 (484)
319 PRK01172 ski2-like helicase; P 92.1 0.4 8.7E-06 67.5 9.5 66 1067-1162 20-88 (674)
320 PRK14088 dnaA chromosomal repl 92.1 0.22 4.8E-06 66.1 6.6 36 229-264 132-169 (440)
321 PRK14957 DNA polymerase III su 92.0 0.5 1.1E-05 63.9 9.8 42 212-253 20-64 (546)
322 PRK06645 DNA polymerase III su 92.0 0.53 1.1E-05 63.2 9.9 42 212-253 25-69 (507)
323 PF05673 DUF815: Protein of un 92.0 0.16 3.5E-06 61.0 4.7 40 227-266 52-91 (249)
324 PRK09302 circadian clock prote 92.0 0.22 4.8E-06 67.6 6.6 61 214-275 259-320 (509)
325 TIGR01967 DEAH_box_HrpA ATP-de 92.0 0.21 4.6E-06 72.6 6.6 63 217-279 72-135 (1283)
326 cd03114 ArgK-like The function 92.0 0.2 4.4E-06 56.5 5.2 35 230-264 2-36 (148)
327 PF13671 AAA_33: AAA domain; P 91.9 0.1 2.3E-06 57.9 2.8 22 229-250 1-22 (143)
328 TIGR00150 HI0065_YjeE ATPase, 91.9 0.21 4.5E-06 55.2 5.0 46 216-264 11-56 (133)
329 cd00268 DEADc DEAD-box helicas 91.9 0.71 1.5E-05 54.6 10.0 70 1069-1163 21-93 (203)
330 TIGR00580 mfd transcription-re 91.9 0.37 8E-06 69.0 8.8 67 1066-1162 448-523 (926)
331 PF03215 Rad17: Rad17 cell cyc 91.9 0.15 3.3E-06 68.4 4.7 29 223-251 41-69 (519)
332 TIGR03015 pepcterm_ATPase puta 91.9 0.18 3.8E-06 62.5 5.0 26 227-252 43-68 (269)
333 COG1618 Predicted nucleotide k 91.9 0.16 3.5E-06 56.8 4.0 28 231-258 9-36 (179)
334 PRK10689 transcription-repair 91.8 0.37 8E-06 70.5 8.7 68 1065-1162 596-672 (1147)
335 PRK06620 hypothetical protein; 91.8 0.11 2.5E-06 62.1 3.1 20 228-247 45-64 (214)
336 cd01393 recA_like RecA is a b 91.7 0.22 4.8E-06 60.0 5.5 51 216-266 7-64 (226)
337 PRK00080 ruvB Holliday junctio 91.7 0.17 3.8E-06 64.7 4.9 27 225-251 49-75 (328)
338 PRK05896 DNA polymerase III su 91.7 0.43 9.2E-06 64.7 8.5 43 212-254 20-65 (605)
339 COG1703 ArgK Putative periplas 91.7 0.33 7.3E-06 59.4 6.8 49 214-262 38-86 (323)
340 COG1222 RPT1 ATP-dependent 26S 91.7 0.26 5.6E-06 61.4 5.8 21 227-247 185-205 (406)
341 PRK00440 rfc replication facto 91.7 0.33 7.1E-06 61.7 7.2 26 230-255 41-66 (319)
342 cd00544 CobU Adenosylcobinamid 91.7 0.26 5.6E-06 56.9 5.6 48 229-279 1-48 (169)
343 PLN00020 ribulose bisphosphate 91.6 0.13 2.8E-06 65.0 3.3 34 227-263 148-181 (413)
344 TIGR00416 sms DNA repair prote 91.6 0.26 5.7E-06 65.5 6.5 61 214-275 80-141 (454)
345 TIGR00635 ruvB Holliday juncti 91.6 0.2 4.3E-06 63.4 5.2 25 227-251 30-54 (305)
346 PF05729 NACHT: NACHT domain 91.5 0.17 3.8E-06 57.2 4.1 27 229-255 2-28 (166)
347 PRK12723 flagellar biosynthesi 91.5 0.21 4.6E-06 64.7 5.3 37 227-263 174-214 (388)
348 PRK06696 uridine kinase; Valid 91.5 0.34 7.3E-06 58.6 6.7 48 215-262 9-57 (223)
349 COG2956 Predicted N-acetylgluc 91.4 29 0.00063 43.4 22.3 26 1746-1771 110-135 (389)
350 cd02019 NK Nucleoside/nucleoti 91.4 0.27 5.9E-06 47.9 4.8 32 230-263 2-33 (69)
351 TIGR00604 rad3 DNA repair heli 91.4 0.36 7.7E-06 68.2 7.8 93 213-309 15-110 (705)
352 PRK05703 flhF flagellar biosyn 91.4 0.22 4.8E-06 65.6 5.4 37 227-263 221-259 (424)
353 COG1110 Reverse gyrase [DNA re 91.4 0.35 7.6E-06 66.7 7.2 51 231-281 101-151 (1187)
354 PTZ00424 helicase 45; Provisio 91.4 0.41 8.9E-06 63.0 7.9 83 1046-1162 34-119 (401)
355 PRK11776 ATP-dependent RNA hel 91.4 0.46 1E-05 63.8 8.5 85 1045-1163 9-96 (460)
356 PRK11634 ATP-dependent RNA hel 91.3 0.65 1.4E-05 64.4 10.0 85 1045-1163 11-98 (629)
357 KOG2002 TPR-containing nuclear 91.3 12 0.00026 52.2 21.1 22 1692-1713 275-296 (1018)
358 cd01129 PulE-GspE PulE/GspE Th 91.2 0.3 6.4E-06 60.6 6.0 35 227-261 80-114 (264)
359 TIGR00176 mobB molybdopterin-g 91.2 0.28 6.1E-06 55.8 5.3 37 230-266 2-38 (155)
360 PF13238 AAA_18: AAA domain; P 91.1 0.16 3.5E-06 55.0 3.1 21 231-251 2-22 (129)
361 PF03205 MobB: Molybdopterin g 91.1 0.26 5.6E-06 55.1 4.8 39 228-266 1-39 (140)
362 PRK04195 replication factor C 91.0 0.4 8.7E-06 64.6 7.5 35 227-264 39-73 (482)
363 PRK14960 DNA polymerase III su 91.0 0.65 1.4E-05 63.1 9.1 34 220-253 30-63 (702)
364 PRK14956 DNA polymerase III su 91.0 0.19 4.1E-06 66.2 4.1 54 199-252 6-65 (484)
365 PRK07003 DNA polymerase III su 90.9 0.81 1.8E-05 62.9 9.9 42 212-253 20-64 (830)
366 TIGR01650 PD_CobS cobaltochela 90.9 0.23 4.9E-06 62.6 4.5 37 216-252 53-89 (327)
367 PRK14969 DNA polymerase III su 90.8 0.77 1.7E-05 62.4 9.8 52 202-253 7-64 (527)
368 PHA02653 RNA helicase NPH-II; 90.8 0.46 9.9E-06 65.8 7.7 85 191-279 146-246 (675)
369 PF04665 Pox_A32: Poxvirus A32 90.8 0.24 5.3E-06 59.9 4.4 34 230-263 16-49 (241)
370 PF06309 Torsin: Torsin; Inte 90.8 0.4 8.6E-06 52.2 5.5 30 227-256 53-82 (127)
371 PRK14958 DNA polymerase III su 90.7 0.78 1.7E-05 62.0 9.7 44 211-254 19-65 (509)
372 TIGR01242 26Sp45 26S proteasom 90.7 0.15 3.2E-06 66.3 2.7 25 227-251 156-180 (364)
373 PRK11331 5-methylcytosine-spec 90.7 0.23 5E-06 64.8 4.4 39 214-252 181-219 (459)
374 TIGR00540 hemY_coli hemY prote 90.6 31 0.00068 45.7 24.4 77 1691-1768 122-212 (409)
375 PRK14952 DNA polymerase III su 90.5 0.87 1.9E-05 62.2 9.8 42 212-253 17-61 (584)
376 PF09976 TPR_21: Tetratricopep 90.5 2.2 4.8E-05 47.8 11.7 93 1691-1811 52-144 (145)
377 PF13555 AAA_29: P-loop contai 90.5 0.27 5.9E-06 46.9 3.5 28 228-255 24-51 (62)
378 TIGR00580 mfd transcription-re 90.4 0.47 1E-05 68.0 7.5 66 214-279 457-524 (926)
379 COG1223 Predicted ATPase (AAA+ 90.4 0.23 5E-06 58.9 3.6 36 212-247 131-171 (368)
380 PRK14954 DNA polymerase III su 90.3 0.85 1.8E-05 62.7 9.5 35 219-253 30-64 (620)
381 PRK14951 DNA polymerase III su 90.3 0.69 1.5E-05 63.4 8.6 37 218-254 29-65 (618)
382 PRK02362 ski2-like helicase; P 90.2 0.77 1.7E-05 65.3 9.4 80 1046-1162 7-90 (737)
383 PRK13764 ATPase; Provisional 90.2 0.28 6.1E-06 66.6 4.7 34 227-260 257-290 (602)
384 PRK07994 DNA polymerase III su 90.1 0.93 2E-05 62.3 9.6 38 217-254 28-65 (647)
385 KOG2002 TPR-containing nuclear 90.1 94 0.002 44.2 27.6 220 1769-2015 177-440 (1018)
386 PRK14965 DNA polymerase III su 90.1 0.87 1.9E-05 62.6 9.5 43 211-253 19-64 (576)
387 TIGR03689 pup_AAA proteasome A 90.1 0.18 4E-06 67.2 2.9 25 227-251 216-240 (512)
388 PRK14961 DNA polymerase III su 90.1 0.33 7.3E-06 63.0 5.2 41 212-252 20-63 (363)
389 PRK04837 ATP-dependent RNA hel 90.1 0.75 1.6E-05 61.1 8.6 91 1045-1162 13-106 (423)
390 cd02034 CooC The accessory pro 90.1 0.38 8.3E-06 52.0 4.8 36 230-265 2-37 (116)
391 smart00763 AAA_PrkA PrkA AAA d 90.0 0.24 5.2E-06 63.0 3.7 27 226-252 77-103 (361)
392 PTZ00424 helicase 45; Provisio 90.0 0.71 1.5E-05 60.7 8.3 61 214-278 56-119 (401)
393 PRK14087 dnaA chromosomal repl 90.0 0.48 1E-05 63.1 6.7 36 228-263 142-179 (450)
394 smart00489 DEXDc3 DEAD-like he 90.0 0.88 1.9E-05 57.2 8.7 41 1063-1103 2-49 (289)
395 smart00488 DEXDc2 DEAD-like he 90.0 0.88 1.9E-05 57.2 8.7 41 1063-1103 2-49 (289)
396 PRK11448 hsdR type I restricti 89.9 0.47 1E-05 69.3 6.9 51 227-277 433-485 (1123)
397 TIGR01420 pilT_fam pilus retra 89.8 0.32 7E-06 62.6 4.7 45 215-261 112-157 (343)
398 PRK14086 dnaA chromosomal repl 89.8 0.61 1.3E-05 63.2 7.4 37 228-264 315-353 (617)
399 PRK03992 proteasome-activating 89.7 0.22 4.7E-06 65.3 3.1 34 227-263 165-198 (389)
400 PF03029 ATP_bind_1: Conserved 89.7 0.25 5.4E-06 60.2 3.4 30 232-261 1-30 (238)
401 cd01124 KaiC KaiC is a circadi 89.7 0.44 9.5E-06 55.5 5.3 19 1084-1102 2-20 (187)
402 PF00931 NB-ARC: NB-ARC domain 89.7 0.49 1.1E-05 59.1 6.2 63 217-279 9-74 (287)
403 TIGR02525 plasmid_TraJ plasmid 89.6 0.4 8.6E-06 62.0 5.3 44 215-261 140-185 (372)
404 PRK08691 DNA polymerase III su 89.6 1.2 2.7E-05 61.0 10.1 43 212-254 20-65 (709)
405 PF00437 T2SE: Type II/IV secr 89.6 0.31 6.7E-06 60.6 4.3 38 226-263 126-163 (270)
406 PRK10436 hypothetical protein; 89.6 0.45 9.7E-06 63.2 5.9 45 214-260 207-251 (462)
407 PRK04301 radA DNA repair and r 89.6 0.49 1.1E-05 60.3 6.1 40 226-265 101-146 (317)
408 PF05127 Helicase_RecD: Helica 89.5 0.098 2.1E-06 60.4 -0.2 47 231-277 1-48 (177)
409 COG3063 PilF Tfp pilus assembl 89.5 17 0.00037 43.5 17.7 105 1765-1883 78-197 (250)
410 PRK15179 Vi polysaccharide bio 89.5 6.1 0.00013 55.4 16.8 100 1740-1844 46-153 (694)
411 TIGR01054 rgy reverse gyrase. 89.5 0.6 1.3E-05 68.7 7.5 54 227-280 93-146 (1171)
412 TIGR02533 type_II_gspE general 89.5 0.39 8.5E-06 64.4 5.3 44 215-260 232-275 (486)
413 COG1936 Predicted nucleotide k 89.5 0.22 4.8E-06 56.5 2.4 19 229-247 2-20 (180)
414 PRK09519 recA DNA recombinatio 89.4 0.48 1E-05 65.9 6.1 56 214-269 45-102 (790)
415 COG1102 Cmk Cytidylate kinase 89.4 0.28 6E-06 54.9 3.1 22 230-251 3-24 (179)
416 PRK14948 DNA polymerase III su 89.4 0.84 1.8E-05 63.0 8.4 42 212-253 20-64 (620)
417 cd02117 NifH_like This family 89.2 0.42 9.2E-06 57.2 4.9 32 229-261 3-34 (212)
418 PRK09302 circadian clock prote 89.2 0.4 8.6E-06 65.2 5.2 60 216-276 19-80 (509)
419 PRK05800 cobU adenosylcobinami 89.2 0.48 1E-05 54.8 5.0 50 229-281 3-52 (170)
420 PRK12370 invasion protein regu 89.1 9.2 0.0002 52.8 18.2 75 1764-1838 380-468 (553)
421 PRK11192 ATP-dependent RNA hel 89.1 0.99 2.2E-05 60.1 8.7 51 229-279 40-97 (434)
422 PHA02244 ATPase-like protein 89.1 0.27 5.9E-06 62.6 3.2 31 229-262 121-151 (383)
423 TIGR03600 phage_DnaB phage rep 89.1 0.76 1.6E-05 61.0 7.6 64 214-278 181-245 (421)
424 PRK15359 type III secretion sy 89.1 2.5 5.3E-05 47.5 10.5 97 1669-1810 21-117 (144)
425 COG5192 BMS1 GTP-binding prote 89.0 0.43 9.4E-06 61.0 4.7 25 229-253 71-95 (1077)
426 PRK14950 DNA polymerase III su 89.0 1.1 2.3E-05 61.9 9.1 43 211-253 19-64 (585)
427 PRK04537 ATP-dependent RNA hel 88.9 1.5 3.2E-05 60.4 10.4 91 1045-1162 14-107 (572)
428 PRK05580 primosome assembly pr 88.9 0.86 1.9E-05 63.9 8.2 68 1065-1162 140-213 (679)
429 PRK05541 adenylylsulfate kinas 88.9 0.54 1.2E-05 54.5 5.3 35 227-261 7-41 (176)
430 PRK07133 DNA polymerase III su 88.9 1.3 2.8E-05 61.5 9.5 43 212-254 22-67 (725)
431 PRK08451 DNA polymerase III su 88.9 1.4 3E-05 59.5 9.7 42 212-253 18-62 (535)
432 TIGR03117 cas_csf4 CRISPR-asso 88.8 1.5 3.3E-05 60.2 10.1 65 215-279 4-70 (636)
433 PRK06762 hypothetical protein; 88.8 0.46 1E-05 54.4 4.6 33 227-262 2-34 (166)
434 PRK11131 ATP-dependent RNA hel 88.7 0.68 1.5E-05 67.5 7.0 68 214-281 76-144 (1294)
435 COG0714 MoxR-like ATPases [Gen 88.7 0.46 1E-05 60.9 5.0 60 213-273 29-88 (329)
436 TIGR02524 dot_icm_DotB Dot/Icm 88.7 0.5 1.1E-05 61.0 5.2 34 227-260 134-170 (358)
437 PRK09111 DNA polymerase III su 88.6 1.1 2.4E-05 61.4 8.8 32 223-254 42-73 (598)
438 COG3854 SpoIIIAA ncharacterize 88.6 0.76 1.6E-05 54.0 6.0 47 216-264 128-179 (308)
439 PRK12608 transcription termina 88.6 0.58 1.3E-05 59.9 5.6 50 227-276 133-186 (380)
440 PRK00889 adenylylsulfate kinas 88.6 0.58 1.3E-05 54.2 5.3 35 227-261 4-38 (175)
441 cd01123 Rad51_DMC1_radA Rad51_ 88.6 0.5 1.1E-05 57.4 4.9 51 226-279 18-74 (235)
442 PF12846 AAA_10: AAA-like doma 88.6 0.51 1.1E-05 59.1 5.2 42 228-269 2-43 (304)
443 PTZ00361 26 proteosome regulat 88.6 0.29 6.3E-06 64.5 3.0 25 227-251 217-241 (438)
444 KOG0553 TPR repeat-containing 88.6 1.2 2.6E-05 54.7 7.9 111 1672-1836 81-194 (304)
445 cd00550 ArsA_ATPase Oxyanion-t 88.5 0.48 1E-05 58.4 4.8 35 229-263 2-36 (254)
446 PRK08058 DNA polymerase III su 88.5 1.2 2.5E-05 57.2 8.4 39 216-254 17-55 (329)
447 TIGR01241 FtsH_fam ATP-depende 88.5 0.32 6.9E-06 65.9 3.4 34 229-265 90-123 (495)
448 cd02028 UMPK_like Uridine mono 88.5 0.56 1.2E-05 54.7 5.0 33 230-262 2-34 (179)
449 PF13177 DNA_pol3_delta2: DNA 88.5 1.3 2.9E-05 50.7 8.0 39 216-254 8-46 (162)
450 PTZ00454 26S protease regulato 88.4 0.28 6.1E-06 64.1 2.8 24 227-250 179-202 (398)
451 PHA02558 uvsW UvsW helicase; P 88.4 1.2 2.5E-05 60.6 8.7 67 1067-1162 112-181 (501)
452 PRK10689 transcription-repair 88.4 0.79 1.7E-05 67.2 7.5 52 228-279 622-673 (1147)
453 TIGR02236 recomb_radA DNA repa 88.4 0.47 1E-05 60.3 4.7 40 226-265 94-139 (310)
454 TIGR02782 TrbB_P P-type conjug 88.3 0.62 1.3E-05 58.8 5.6 36 227-262 132-169 (299)
455 PRK14970 DNA polymerase III su 88.3 1.1 2.4E-05 58.4 8.1 42 212-253 21-65 (367)
456 TIGR01359 UMP_CMP_kin_fam UMP- 88.3 0.35 7.5E-06 56.3 3.2 23 229-251 1-23 (183)
457 PRK11776 ATP-dependent RNA hel 88.2 1.3 2.8E-05 59.5 9.0 53 227-279 41-96 (460)
458 PRK14949 DNA polymerase III su 88.1 0.5 1.1E-05 66.0 4.9 52 202-253 7-64 (944)
459 cd02027 APSK Adenosine 5'-phos 88.1 0.61 1.3E-05 52.7 4.9 33 229-261 1-33 (149)
460 TIGR03158 cas3_cyano CRISPR-as 88.1 1.4 3E-05 57.2 8.8 60 216-280 5-64 (357)
461 PRK11189 lipoprotein NlpI; Pro 88.1 14 0.0003 46.8 17.5 89 1744-1840 65-161 (296)
462 TIGR00348 hsdR type I site-spe 88.1 0.69 1.5E-05 64.7 6.4 52 227-278 263-316 (667)
463 PF13521 AAA_28: AAA domain; P 88.1 0.37 8.1E-06 55.1 3.2 20 231-250 3-22 (163)
464 PRK13833 conjugal transfer pro 88.0 0.65 1.4E-05 58.9 5.6 33 228-260 145-179 (323)
465 TIGR03574 selen_PSTK L-seryl-t 88.0 0.56 1.2E-05 57.6 4.9 34 230-263 2-35 (249)
466 COG3071 HemY Uncharacterized e 88.0 41 0.00089 43.2 20.7 87 1860-1946 264-383 (400)
467 PRK09087 hypothetical protein; 88.0 0.61 1.3E-05 56.5 5.1 23 227-249 44-66 (226)
468 cd02035 ArsA ArsA ATPase funct 87.9 0.59 1.3E-05 56.3 4.9 35 229-263 1-35 (217)
469 TIGR01360 aden_kin_iso1 adenyl 87.9 0.42 9.1E-06 55.7 3.6 24 228-251 4-27 (188)
470 PLN00206 DEAD-box ATP-dependen 87.9 0.98 2.1E-05 61.5 7.6 90 1046-1162 127-219 (518)
471 PRK07940 DNA polymerase III su 87.8 1.7 3.7E-05 56.9 9.3 28 227-254 36-63 (394)
472 PRK05563 DNA polymerase III su 87.8 1.6 3.4E-05 59.9 9.4 42 212-253 20-64 (559)
473 PRK05707 DNA polymerase III su 87.8 2 4.4E-05 54.9 9.8 84 216-308 11-119 (328)
474 PRK04841 transcriptional regul 87.8 74 0.0016 46.7 27.3 143 1693-1836 458-637 (903)
475 COG1875 NYN ribonuclease and A 87.7 0.37 8E-06 60.1 3.0 37 1369-1406 353-389 (436)
476 COG1643 HrpA HrpA-like helicas 87.7 1.1 2.4E-05 62.9 7.9 70 212-281 50-120 (845)
477 PRK10751 molybdopterin-guanine 87.6 0.71 1.5E-05 53.4 5.0 40 227-266 6-45 (173)
478 PRK06647 DNA polymerase III su 87.6 1.5 3.3E-05 59.8 9.1 44 211-254 19-65 (563)
479 PRK07764 DNA polymerase III su 87.5 1.6 3.4E-05 62.0 9.4 35 219-253 29-63 (824)
480 TIGR01618 phage_P_loop phage n 87.5 0.35 7.6E-06 58.0 2.7 21 227-247 12-32 (220)
481 COG1224 TIP49 DNA helicase TIP 87.5 0.66 1.4E-05 57.7 4.9 39 213-251 50-89 (450)
482 PF05707 Zot: Zonular occluden 87.5 0.46 1E-05 56.1 3.6 32 229-260 2-34 (193)
483 COG4088 Predicted nucleotide k 87.5 0.5 1.1E-05 54.7 3.6 35 228-262 2-36 (261)
484 TIGR00665 DnaB replicative DNA 87.4 1.2 2.5E-05 59.5 7.7 64 214-278 182-246 (434)
485 TIGR02538 type_IV_pilB type IV 87.3 0.72 1.6E-05 63.3 5.8 45 214-260 305-349 (564)
486 COG1061 SSL2 DNA or RNA helica 87.3 1.2 2.6E-05 59.5 7.6 63 214-279 42-104 (442)
487 PRK09694 helicase Cas3; Provis 87.3 1.6 3.5E-05 62.2 9.3 56 226-281 300-357 (878)
488 PF13207 AAA_17: AAA domain; P 87.2 0.37 8E-06 51.9 2.4 19 1084-1102 2-20 (121)
489 smart00382 AAA ATPases associa 87.1 0.38 8.3E-06 52.0 2.5 21 1082-1102 3-23 (148)
490 COG1474 CDC6 Cdc6-related prot 87.1 1.3 2.8E-05 57.4 7.6 53 227-279 42-97 (366)
491 PRK14574 hmsH outer membrane p 87.1 34 0.00074 49.2 22.0 21 1695-1715 42-62 (822)
492 PLN03088 SGT1, suppressor of 87.1 1.7 3.7E-05 56.4 8.8 82 1697-1808 12-93 (356)
493 PRK04040 adenylate kinase; Pro 87.1 0.5 1.1E-05 55.6 3.5 24 228-251 3-26 (188)
494 PRK11189 lipoprotein NlpI; Pro 87.0 8.3 0.00018 48.8 14.6 109 1697-1835 74-189 (296)
495 PRK01172 ski2-like helicase; P 87.0 1.3 2.9E-05 62.3 8.3 52 227-278 37-88 (674)
496 TIGR00603 rad25 DNA repair hel 87.0 0.94 2E-05 62.8 6.5 60 215-278 262-321 (732)
497 TIGR02397 dnaX_nterm DNA polym 87.0 0.7 1.5E-05 59.7 5.2 42 212-253 18-62 (355)
498 PRK08118 topology modulation p 86.9 0.47 1E-05 54.7 3.1 22 230-251 4-25 (167)
499 COG0378 HypB Ni2+-binding GTPa 86.9 0.63 1.4E-05 54.0 4.0 34 229-263 15-48 (202)
500 TIGR00708 cobA cob(I)alamin ad 86.9 0.94 2E-05 52.2 5.5 37 227-263 5-41 (173)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=1.3e-66 Score=633.51 Aligned_cols=296 Identities=35% Similarity=0.489 Sum_probs=263.2
Q ss_pred HHHHHhcCCcEEEEccccchhhhhccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhh
Q 000053 550 LKRFCLKRASLFFSTASSSYMLHSVAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEAC 629 (2576)
Q Consensus 550 i~~~~l~~a~VI~~T~sss~~l~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~ 629 (2576)
.++.++.+|+||+|||.+++.... ....|..|+||||.|.+||++++|+.+ +++++||||||+||+|++..+.+..++
T Consensus 541 ~e~ell~~AdVIccTcv~Agd~rl-~~~kfr~VLiDEaTQatEpe~LiPlvl-G~kq~VlVGDh~QLgpvi~~kK~a~Ag 618 (935)
T KOG1802|consen 541 AEKELLNQADVICCTCVGAGDRRL-SKFKFRTVLIDEATQATEPECLIPLVL-GAKQLVLVGDHKQLGPVIMCKKAATAG 618 (935)
T ss_pred HHHHHHhhcCEEEEecccccchhh-ccccccEEEEecccccCCcchhhhhhh-cceeEEEeccccccCceeeeHHHHHhH
Confidence 667788999999999998776433 335799999999999999999999987 899999999999999999999999999
Q ss_pred ccccHHHHHhhccCCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCC-CcEEEEccCCcccc-
Q 000053 630 FGRSLFERLSHLRHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYG-PYSFINVFGGREEF- 707 (2576)
Q Consensus 630 ~~~SLfeRL~~~g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~-~~~fidv~~g~e~~- 707 (2576)
+.+||||||+..|+.+++|.+||||||.|++||+..||+|.|.++.....+......+|.|... |+.|... .|.|+.
T Consensus 619 l~qsLferli~lg~~P~~L~vQYRmhP~lSefpsn~fY~G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~-~g~eeis 697 (935)
T KOG1802|consen 619 LSQSLFERLISLGIKPIRLQVQYRMHPALSEFPSNMFYEGELQNGVTEIERSPLGVDFPWPQPDKPLFFYVC-YGQEEIS 697 (935)
T ss_pred HHHHHHHHHHhccCCceEEEEeeeeChhhhhcchhhhccchhhcCcchhhhccCCCCCCCCCCCCccceEEe-ccceeee
Confidence 9999999999999999999999999999999999999999999999888887766666665444 5556555 666655
Q ss_pred -ccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCC--CCceEEccCCCCCCccCC
Q 000053 708 -IEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSA--GFAVKVMSVDGFQGGEED 784 (2576)
Q Consensus 708 -~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~--~~~v~V~TVd~fQG~E~D 784 (2576)
.|+|+.|..||..+.+++..|++.+. .+..|||||||.+|+..|-+.++..-.... ...|.|.|||+|||+|+|
T Consensus 698 asGtSf~Nr~Ea~~~ekii~~l~~~gv---~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKd 774 (935)
T KOG1802|consen 698 ASGTSFLNRTEAANCEKIITKLLKSGV---KPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKD 774 (935)
T ss_pred ccccceecHHHHHHHHHHHHHHHHcCC---CHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccc
Confidence 78999999999999999999999875 778999999999999999998854211111 136799999999999999
Q ss_pred EEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCceeccC
Q 000053 785 IIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFFNAD 852 (2576)
Q Consensus 785 iVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~~~~ 852 (2576)
+||+||||+|....+||+.|++|+|||+||||++|+||||+..|.++ ++|..+|.++++++|++..+
T Consensus 775 fIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k~-~LW~~li~h~~eke~l~eg~ 841 (935)
T KOG1802|consen 775 FIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRKH-PLWGHLITHYKEKEVLVEGP 841 (935)
T ss_pred eEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhhc-hHHHHHHHHhhcccceeecc
Confidence 99999999999999999999999999999999999999999999995 99999999999999998753
No 2
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=5e-64 Score=618.09 Aligned_cols=291 Identities=31% Similarity=0.444 Sum_probs=247.6
Q ss_pred HHHHHhcCCcEEEEccccchhhhhccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhh
Q 000053 550 LKRFCLKRASLFFSTASSSYMLHSVAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEAC 629 (2576)
Q Consensus 550 i~~~~l~~a~VI~~T~sss~~l~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~ 629 (2576)
.-..++.+++|||||..++.. ..+....||+||||||+|+.||++++|+. ..+++||+|||+||||++.+..+...|
T Consensus 331 ~v~eii~n~~VVfaTl~ga~~-~~~~~~~fD~vIIDEaaQamE~~cWipvl--k~kk~ILaGDp~QLpP~v~S~~a~~~g 407 (649)
T KOG1803|consen 331 TVKEIISNSRVVFATLGGALD-RLLRKRTFDLVIIDEAAQAMEPQCWIPVL--KGKKFILAGDPKQLPPTVLSDKAKRGG 407 (649)
T ss_pred HHHHhhcccceEEEeccchhh-hhhcccCCCEEEEehhhhhccchhhhHHh--cCCceEEeCCcccCCcccccchhhhcc
Confidence 334568999999999887665 22233569999999999999999999996 448999999999999999999999999
Q ss_pred ccccHHHHHhhc--cCCccccccccccCcccccccccccccCcccCCccccccccccccC---CCCCCCCcEEEEccCCc
Q 000053 630 FGRSLFERLSHL--RHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFL---PGPMYGPYSFINVFGGR 704 (2576)
Q Consensus 630 ~~~SLfeRL~~~--g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~---~~~~~~~~~fidv~~g~ 704 (2576)
++.|+|+|+... +....+|++|||||..|+.|+|..||+|++++++++..+.....+. ..+...|+.|+|+.+..
T Consensus 408 l~~Sl~erlae~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~ 487 (649)
T KOG1803|consen 408 LQVSLLERLAEKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEK 487 (649)
T ss_pred chhhHHHHHHHHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccch
Confidence 999999999875 4567899999999999999999999999999999887764332211 12246799999995432
Q ss_pred c------ccccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCC
Q 000053 705 E------EFIEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGF 778 (2576)
Q Consensus 705 e------~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~f 778 (2576)
. +....|++|..||++|+..+..|+..+. ++.+|||||||++|+.++++.. .....++.|+|||+|
T Consensus 488 ~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV---~p~dIaVIsPY~aQv~llR~~~-----~~~~~~veV~TVD~f 559 (649)
T KOG1803|consen 488 DEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGV---QPSDIAVISPYNAQVSLLREED-----EEDFRDVEVGTVDGF 559 (649)
T ss_pred hhhhccchhhccccCCHHHHHHHHHHHHHHHHcCC---ChhHeEEeccchHHHHHHhhcc-----cccCccceeeccccc
Confidence 1 1133589999999999999999999875 7889999999999999999322 223447999999999
Q ss_pred CCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCceecc
Q 000053 779 QGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFFNA 851 (2576)
Q Consensus 779 QG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~~~ 851 (2576)
||+|+|+||||+||+|+.+.+||+.+.||+|||+||||+++.||||..++.......+.++.++.+++-++..
T Consensus 560 QGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh~~vIgds~tl~~~~~~l~k~~~f~~~~~~~~~p 632 (649)
T KOG1803|consen 560 QGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRARRHFVVIGDSRTLKEGNEFLKKLVEFLEENKLVFGP 632 (649)
T ss_pred ccceeeEEEEEEEeecCcccccccCCcceeeEEEEeccceEEEEcCcHHHHhhHHHHHHHHHHhhhcceeccc
Confidence 9999999999999999999999999999999999999999999999999985558899999999999887743
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=100.00 E-value=3e-59 Score=622.94 Aligned_cols=287 Identities=34% Similarity=0.436 Sum_probs=241.7
Q ss_pred HHHHHHhcCCcEEEEccccchhhhhccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhh
Q 000053 549 LLKRFCLKRASLFFSTASSSYMLHSVAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEA 628 (2576)
Q Consensus 549 ~i~~~~l~~a~VI~~T~sss~~l~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~ 628 (2576)
.+...++..|+++++|+.+. .+....||+||||||+|++||++++|+. .++++||||||+||||++.+.. ..
T Consensus 336 ~~~~~il~~a~v~~st~~~~----~l~~~~Fd~vIIDEAsQ~~ep~~lipl~--~~~~~vLvGD~~QLpP~v~s~~--~~ 407 (637)
T TIGR00376 336 RIENEILAESDVVQSTNSSA----GLKGWEFDVAVIDEASQAMEPSCLIPLL--KARKLILAGDHKQLPPTILSHD--AE 407 (637)
T ss_pred HHHHHHHhhCCEEEeccCcH----hhccCCCCEEEEECccccchHHHHHHHh--hCCeEEEecChhhcCCcccccc--cc
Confidence 36678899999998886542 2345689999999999999999999996 3479999999999999998754 45
Q ss_pred hccccHHHHHhhc-cCCccccccccccCcccccccccccccCcccCCccccccccccccCC--------CCCCCCcEEEE
Q 000053 629 CFGRSLFERLSHL-RHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLP--------GPMYGPYSFIN 699 (2576)
Q Consensus 629 ~~~~SLfeRL~~~-g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~--------~~~~~~~~fid 699 (2576)
+++.|+|+||... +...++|++||||||+|+.|+|..||+|+|.+++++..+........ .....|+.|+|
T Consensus 408 ~l~~SlferL~~~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fid 487 (637)
T TIGR00376 408 ELELTLFERLIKEYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFID 487 (637)
T ss_pred ccchhHHHHHHHhCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEE
Confidence 7889999999875 33478999999999999999999999999998877654322111000 01134899999
Q ss_pred ccCCcc----ccccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccC
Q 000053 700 VFGGRE----EFIEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSV 775 (2576)
Q Consensus 700 v~~g~e----~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TV 775 (2576)
+.+... ...++|+.|..||..|.+++..|++.+. +..+|||||||++|+.+|++.|... ...+.|+||
T Consensus 488 t~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~---~~~~IgVItPY~aQv~~L~~~l~~~-----~~~i~v~TV 559 (637)
T TIGR00376 488 TSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGV---PANDIGVITPYDAQVDLLRQLLEHR-----HIDIEVSSV 559 (637)
T ss_pred CCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCC---CcceEEEEcccHHHHHHHHHHHHhh-----CCCeEEccc
Confidence 954332 2356799999999999999999998654 6789999999999999999999642 236899999
Q ss_pred CCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCceeccC
Q 000053 776 DGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFFNAD 852 (2576)
Q Consensus 776 d~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~~~~ 852 (2576)
|+|||+|+|+||+|+|+++..+.+||+.+++|+|||+||||++||||||..+|.++ +.|+.|+++|+++||+..++
T Consensus 560 d~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~~-~~~~~li~~~~~~~~~~~~~ 635 (637)
T TIGR00376 560 DGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNH-KFYKRLIEWCKQHGEVREAF 635 (637)
T ss_pred cccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhccC-hHHHHHHHHHHHCCCEEcCC
Confidence 99999999999999999999889999999999999999999999999999999875 89999999999999998764
No 4
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=100.00 E-value=2.3e-62 Score=665.13 Aligned_cols=742 Identities=31% Similarity=0.364 Sum_probs=562.3
Q ss_pred CCCCCccceEeccchhhhhchhcccccccccCcccCChhHHHhhchhhHHHHHHHHHHhhhhcccCCCceEEEEEe---c
Q 000053 19 PYDYGFTDTVFSWSLEDIFNEDLFKDKVKRIPFSFRSVGQYFESFVFPLLEETRANLMSGMEKISNAPFAQVVAFE---D 95 (2576)
Q Consensus 19 ~~~~~l~~~v~sWs~~diln~~l~~~~v~~IP~tF~s~~~Y~~sf~~~LlEEtra~l~Ssl~~is~ap~~~i~~~~---~ 95 (2576)
.++.+|++.++||++.|+.|+ +++|+||.+..+|..+|.|||+||+|++++|+...++.+++.++...+ .
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~p~~~ee~~~~l~~s~~~~~~~~~~~~~~~~~~~~ 75 (827)
T KOG1801|consen 3 NEGTDLLDSSLSWSLRDVENE-------ETEPETFQSMEEYIREFFPPLLEECRSSLVSSSRKLKAPFLLEKPEQEQIAI 75 (827)
T ss_pred cccccHHHHhHHHHhhhhhhh-------hccchhhhhHHHHHHHhhhhhhHHHHHHHhhhhhhhccchhhhhhhhhhhhc
Confidence 457799999999999999999 999999999999999999999999999999999999999987654333 2
Q ss_pred cCCC---CCceEEEEEcccccccCCCCCCcccCCCCCEEEEccCCCCCCccccccCceeEEEEEeeeccCCcccCCCCce
Q 000053 96 SKPY---GSMLYDVKVDCWRNRFSNLGREPYKTLPGDILVLADAKPETASDLQRVGRMWTFVSVANVTEDENEIDTSPTY 172 (2576)
Q Consensus 96 ~~~~---~~~~y~i~~~~~~~~~~~~~~~~y~p~~GDii~lt~~kP~~~~dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~ 172 (2576)
.++. ..++|........+...-.....-..+++|++.+++..|..++|+.....+|..+.+...+-..+ .+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~ 149 (827)
T KOG1801|consen 76 TKNNPTSKDLRQLTNEKNIFTKEKSEKTASSVEKHLDNIRHSDAIGFAASDHIPGLLPYLASPDLEKGPSVD------LS 149 (827)
T ss_pred ccCCCCchhhhcchhHHHHHhhhhccccccccccccchhhhcccCCccccccChhhhhhhcccccccccccc------cc
Confidence 2221 12333332221111000001122245899999999999999999987777877776654322210 11
Q ss_pred eEEEeeccccccccCcceEEEEeecccchhhHhhhcccCC-CHHHHHHHHhcC---------------------------
Q 000053 173 FKVNATKEIQIDVSKKSLFVIFLINRTSNRRIWNSLHMKG-NLKIIKELLCTD--------------------------- 224 (2576)
Q Consensus 173 ~~v~~sk~i~~~~~~~~~~~~~L~N~~t~~ri~~~l~~~~-~~~~i~~vl~~~--------------------------- 224 (2576)
.....+.+ ....+++++.+++++.++|.+++-.. |...+...++.+
T Consensus 150 ~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~ 223 (827)
T KOG1801|consen 150 LAATKSLP------SLICAGAFLRVLVENKNEYILIACHANNHGLHRPDLRFNEVNERTVHKVFENFSVIGSLFVGDVIR 223 (827)
T ss_pred cchhcccc------ccchHHHHHHHHhhcchhhhhccccccccccccccccccccccccccccccccccccccchhhhhh
Confidence 11111111 11223699999999999999975321 111111111111
Q ss_pred ----------------------CCCCeEEEEcCCCC--ChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHH
Q 000053 225 ----------------------SGATVQLIWGPPGT--GKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVK 280 (2576)
Q Consensus 225 ----------------------~~~~v~LIwGPPGT--GKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~ 280 (2576)
...++++||||||| |||+|+..++..+....+++++|+++|.++.++..|+.+...
T Consensus 224 ~~~l~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~r~~~~~~ 303 (827)
T KOG1801|consen 224 FTKLSRDQEPLIRGVLSQRNCEWEVSISLVVGRPGTASGKFKTVAQLLNVLLGLDCQMLVCSLSNSNILLLTSRLYKQTA 303 (827)
T ss_pred hcccchhhHHHHhhccCccccccccceeeeeCCCCccccceeccchHHHHHHhcccceeEeeccccchhhhHHHHHhccc
Confidence 01889999999999 999999999999999999999999999999999999999987
Q ss_pred -hhhhhccccccccccccEEEccCcccccccc----cchhhhHHHHHHHHhhhccCCCCcchhhhhhHHHHHhhHHHHHH
Q 000053 281 -ESVERDCRDALFFPLGEILLLGNNERLKVDS----GVEEIYLDYRVKRLADCFAPLTGWSHCFASMVEFLDNCVSQYHT 355 (2576)
Q Consensus 281 -es~~~~~~~~~~~~lgdillfGn~~rm~id~----~l~~v~Ld~Rv~~L~~~f~~~~gw~~~L~sli~lLen~~~~y~~ 355 (2576)
.+++. ..+++|+++..++..+|.... .+.+++...+...+..|+.|..+|...+.+++.+++++..++..
T Consensus 304 ~~s~e~-----~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 378 (827)
T KOG1801|consen 304 RFSSEK-----IVYGFGEIVLVENRTQLGIRLNKLISLPNSFGTIPTGSLSELSPPTGGIGSRLFSGEELLENNVPQSEK 378 (827)
T ss_pred cCCchh-----hhhcccchhhhhhhHhhhhhhhhhcccccccccccccccchhhccccchhhhhHHHHHhhcCcHHHHHH
Confidence 55544 578999999999999998733 45678888999999999999999999999999999999999988
Q ss_pred HHHhhhhccccccccchhhhhhccccCCccccccchhhHHHhhhhhhcccccchhhhcccccccc-cccccchhHHHHHh
Q 000053 356 YMENESMKQSEDINGDIIKEKECGKEADASDVEIKPFLEFVRERFKCIINGDIIKEKECGKEADA-SDVEIKPFLEFVRE 434 (2576)
Q Consensus 356 ~l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~sf~~f~~~ 434 (2576)
+.........- . ... ......++.++..+
T Consensus 379 ~~~~~~~~~~s-----------~---------------------------------------~~~p~~~~~~~~~~~~~~ 408 (827)
T KOG1801|consen 379 IVLMCLRMGFS-----------L---------------------------------------IQLPVDNGRFLSREFAEE 408 (827)
T ss_pred HHHHHHhhchh-----------h---------------------------------------hccchhhccccchhhHHh
Confidence 77644310000 0 000 12234456666666
Q ss_pred hhhcccchhhhhhhhhccCCCccccccchhhHHHHHHHHHHHHHHHhhhcccchHHHHHHhcccccccchhhHHHHHHHH
Q 000053 435 RFKCIAAPLRSCIFNFCTHIPKCYIGEDNFHVMATLISLLDSFETLLFEDNLVSEELEELLSHSVDEDLSESIVDIKYLL 514 (2576)
Q Consensus 435 ~~~~~~~~l~~~~~~l~~~lp~~~~s~~~~~~~~~l~~~L~~~~~ll~~~~~~~eel~~~~~~~~~~~~~~~~~~~~~~l 514 (2576)
++.............+++|+|...+...+...+...-+.+..... ....++. ... ........
T Consensus 409 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~-----~~~l~~~---~~~---------~~~~~~~~ 471 (827)
T KOG1801|consen 409 NLRKLKPLPSIACIDLITHLPTLGLYDTNQVVRIGGGSVLNSGAI-----ETVLEGD---KIR---------KDKNKAII 471 (827)
T ss_pred hhhhcccchhhhhhcchhcCccceEecCCeeEEecCCccceecee-----eeeehhh---hhh---------hHHhhhhh
Confidence 666665556677778889999998877643211111111100000 0000000 000 00000000
Q ss_pred Hh---hhhhhHHHHHHHHhhhhccCCChhhhhHHHHHHHHHHHhc----CCcEEEEccccchh-hhhccCCCCCEEEEEc
Q 000053 515 HK---RRSECHFVLRKLLSSFNELNLPSAVEKDLLEDLLKRFCLK----RASLFFSTASSSYM-LHSVAMKPLNFLVIDE 586 (2576)
Q Consensus 515 ~~---~r~~~~~~lk~L~~~~~~l~lp~~~~k~~~~~~i~~~~l~----~a~VI~~T~sss~~-l~~~~~~~fD~VIIDE 586 (2576)
.. ....+...+.... +.+.++....... ...+++. .+.+|+||++++.. +......++|.|||||
T Consensus 472 ~~~~~i~~~~~~~l~~~~---~~~~i~~~~~~~~----~~~~~~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDe 544 (827)
T KOG1801|consen 472 ERFNGLPKNIPKALSIKD---DIFKIPSQLERPE----VRILDLGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDE 544 (827)
T ss_pred hccccccccchhhhcccc---chhhhhhhccchh----hhcchhhhccccceeEeecccccceEeecccCCCceEEEEeh
Confidence 00 1122222222111 1122222222222 5556666 99999999998766 4555667899999999
Q ss_pred CCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccCccccccccccc
Q 000053 587 AAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMHPSISFFPNSYF 666 (2576)
Q Consensus 587 AsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmhp~I~~f~n~~f 666 (2576)
|+|..++.+++||++.+..|.+++||+.||||+|.+..+..+.+.+|+|+|+...+++.++|++||||||+|+.|||..|
T Consensus 545 aaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf~rl~l~~~~~~~L~vqyrmhp~Is~fP~~~f 624 (827)
T KOG1801|consen 545 AAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSSPAGCFKYMTSLFERLELAGHKTLLLTVQYRMHPEISRFPSKEF 624 (827)
T ss_pred hhhhcCccchhhhhhcCCceEEEecccccCChhhccchhccccchhhHHHHHHHccCccceecceeecCCccccCccccc
Confidence 99999999999999988999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcccCCccccccccccccCCCCCCCCcEEEEccCCcccc-ccccccCHHHHHHHHHHHHHHHhcccCCCC-CCeEEEE
Q 000053 667 YENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEF-IEHSCRNMVEVSVVMKILLNLYKGWINSKE-KLSIGIV 744 (2576)
Q Consensus 667 Y~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~-~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~-~~sIgII 744 (2576)
|+++|.+++.+....+...++.+++++++.|+++..|++.. .+.|..|..|+.++..++..+++....... +..+|||
T Consensus 625 y~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvi 704 (827)
T KOG1801|consen 625 YGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVI 704 (827)
T ss_pred cccccccCcccchhhccccCcCCCccCceEEEEecccccccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeE
Confidence 99999999999988888999999999999999998898887 558999999999999999999988766555 7899999
Q ss_pred cccHHHHHHHHHHhccccccCCC--CceEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEE
Q 000053 745 SPYIAQVAAIQEKLGSKYVNSAG--FAVKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWIL 822 (2576)
Q Consensus 745 TPY~aQv~~I~~~L~~~~~~~~~--~~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIV 822 (2576)
|||+.|+..+++.+...+..... ..+.+.|||+|||+|.||+|+|+||++..+.+||+.|.+|+|||+||||+|+|++
T Consensus 705 sPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~ 784 (827)
T KOG1801|consen 705 SPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLV 784 (827)
T ss_pred CchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEe
Confidence 99999999999999887764433 4899999999999999999999999999999999999999999999999999999
Q ss_pred echhhhhcCchHHHHHHHHHHhcCceeccCCChhHH
Q 000053 823 GNERTLTRNRSVWKALVDDAKARQCFFNADDDKDLG 858 (2576)
Q Consensus 823 Gn~~~L~~~~~~W~~li~~~~~r~~~~~~~~~~~l~ 858 (2576)
||..+|..+++.|..++.+++.|||+++...+.++.
T Consensus 785 Gne~~L~~~~~~w~~li~da~~r~~~~~~~~~~~~~ 820 (827)
T KOG1801|consen 785 GNEITLAPSCSIWASLILDAKGRGCFMDRAADVNDF 820 (827)
T ss_pred cCccccccccchhhhhcchhcccccccccccccchh
Confidence 999999999999999999999999999987665543
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=100.00 E-value=2.1e-51 Score=523.08 Aligned_cols=280 Identities=29% Similarity=0.415 Sum_probs=233.1
Q ss_pred hcCCcEEEEccccchhhhhccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhhccccH
Q 000053 555 LKRASLFFSTASSSYMLHSVAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEACFGRSL 634 (2576)
Q Consensus 555 l~~a~VI~~T~sss~~l~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SL 634 (2576)
+.+..||+|||-+... ..+....||++|||||||+..|-++.||.++ +++||||||.||||.|.+..+...|++.||
T Consensus 774 ~~~~~IVa~TClgi~~-plf~~R~FD~cIiDEASQI~lP~~LgPL~~s--~kFVLVGDh~QLpPLV~s~ear~~Gl~~SL 850 (1100)
T KOG1805|consen 774 LDQTSIVACTCLGINH-PLFVNRQFDYCIIDEASQILLPLCLGPLSFS--NKFVLVGDHYQLPPLVRSSEARQEGLSESL 850 (1100)
T ss_pred hCCCcEEEEEccCCCc-hhhhccccCEEEEccccccccchhhhhhhhc--ceEEEecccccCCccccchhhhhcCcchHH
Confidence 4678999999988653 2334456999999999999999999999865 999999999999999999999999999999
Q ss_pred HHHHhhcc-CCccccccccccCcccccccccccccCcccCCcccccccc-------------------ccccCCCCCCCC
Q 000053 635 FERLSHLR-HSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSY-------------------EKRFLPGPMYGP 694 (2576)
Q Consensus 635 feRL~~~g-~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~-------------------~~~~~~~~~~~~ 694 (2576)
|+||.... -....|+.||||..+|+.++|.+||+|+|..+........ +...+..| ..+
T Consensus 851 FkrL~e~hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p-~~~ 929 (1100)
T KOG1805|consen 851 FKRLSEKHPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEP-TRD 929 (1100)
T ss_pred HHHHhhhCchHHHhHHHHHhhcchHHhhhhhheECCeeeecChhhhhhhccccchhhhhhcccccchHHHHHhhcC-Ccc
Confidence 99999843 2457899999999999999999999999998876544210 01111223 346
Q ss_pred cEEEEccCCc---cccccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceE
Q 000053 695 YSFINVFGGR---EEFIEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVK 771 (2576)
Q Consensus 695 ~~fidv~~g~---e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~ 771 (2576)
++|+++..-. +....+.-.|..||..+.+++..++..|. +..+|||||||++|+.+|++.+... .++
T Consensus 930 v~f~~~D~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv---~~~dIGIis~YraQv~Li~~~l~~~-------~lE 999 (1100)
T KOG1805|consen 930 VCFVNTDTCSTIESQGEKGGITNHGEAKLISELVEDFVKSGV---KPSDIGIISPYRAQVELIRKILSSA-------VLE 999 (1100)
T ss_pred ceEEecCcccchhhhccccCcCchhHHHHHHHHHHHHHHcCC---CHHHeeeeehHHHHHHHHHhhcccc-------cee
Confidence 6776663221 22244556699999999999999999876 7789999999999999999999653 389
Q ss_pred EccCCCCCCccCCEEEEEcccCCCCCccc-cCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCcee
Q 000053 772 VMSVDGFQGGEEDIIIISTVRSNNGGSIG-FISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFF 849 (2576)
Q Consensus 772 V~TVd~fQG~E~DiVIlS~Vrs~~~~~~g-Fl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~ 849 (2576)
|.|||+|||+++|+||+|+||+|.....| .+.|.+|+|||+||||++||+||+..+|... +..+.|+++...|..++
T Consensus 1000 inTVD~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~-~~~~~l~~~l~~~~~l~ 1077 (1100)
T KOG1805|consen 1000 INTVDRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESY-PPFRQLLKLLENRIELL 1077 (1100)
T ss_pred eeehhhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccC-chHHHHHhhhhhhhhHH
Confidence 99999999999999999999999886666 6789999999999999999999999999887 78899999987766543
No 6
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=100.00 E-value=5.7e-47 Score=468.69 Aligned_cols=285 Identities=29% Similarity=0.426 Sum_probs=244.1
Q ss_pred HHHHHhcCCcEEEEccccchhhhh-ccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccc-cchhh
Q 000053 550 LKRFCLKRASLFFSTASSSYMLHS-VAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVES-KVSDE 627 (2576)
Q Consensus 550 i~~~~l~~a~VI~~T~sss~~l~~-~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s-~~~~~ 627 (2576)
...++++.|+||++|++++.+... +..-.+.+|||+||+.+.|+..+.++ .+.+.|+||||||+||.|.... +.+..
T Consensus 691 ~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal-~p~~EhviLIGDHKQLrP~~~vy~L~q~ 769 (1025)
T KOG1807|consen 691 FDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAAL-TPHTEHVILIGDHKQLRPFSGVYKLPQI 769 (1025)
T ss_pred HHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhh-cccceeEEEecchhhcCCCcchhhHhHh
Confidence 456779999999999999877643 34445789999999999999966666 4678999999999999997542 44566
Q ss_pred hhccccHHHHHhhccCCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCcccc
Q 000053 628 ACFGRSLFERLSHLRHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEF 707 (2576)
Q Consensus 628 ~~~~~SLfeRL~~~g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~ 707 (2576)
+++..|+||||+..|.|..+|+.||||+|.|++.....||++ |.+++++..... .+| |.....|+.+....+..
T Consensus 770 fnL~iSlFERLVe~glpfsrLn~QhRM~p~IsrllvpsiYdd-l~d~esvk~yed----I~g-ms~nlfFv~hnspee~~ 843 (1025)
T KOG1807|consen 770 FNLSISLFERLVEAGLPFSRLNLQHRMRPCISRLLVPSIYDD-LLDSESVKEYED----IRG-MSKNLFFVQHNSPEECM 843 (1025)
T ss_pred cchhHHHHHHHHHcCCChhhhhHHhhhchHHHHHhhHHHhhh-hhcchhhccccc----ccc-ccceeeEEecCCcccCc
Confidence 788899999999999999999999999999999999999974 667777654321 122 34566677764444445
Q ss_pred ccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCCEEE
Q 000053 708 IEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEEDIII 787 (2576)
Q Consensus 708 ~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVI 787 (2576)
++.|+.|..||.++++++..|+++.+ .+.+|.|+|||.+|...|++.+...+.. .|.|.|||+|||.|.|||+
T Consensus 844 de~S~~NlhEa~mlv~l~kyli~q~y---~psdIviLttY~gQk~ci~rllp~~~~s----tv~VatVDsfQGeEndIVL 916 (1025)
T KOG1807|consen 844 DEMSIGNLHEAGMLVKLTKYLIQQQY---KPSDIVILTTYNGQKECIKRLLPQNYRS----TVQVATVDSFQGEENDIVL 916 (1025)
T ss_pred chhhhhhHHHHHHHHHHHHHHHhcCC---CccceEEEeechhHHHHHHHHhHHHhcC----cceEEEeccccCccccEEE
Confidence 77999999999999999999999765 7789999999999999999999876554 5999999999999999999
Q ss_pred EEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCce
Q 000053 788 ISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCF 848 (2576)
Q Consensus 788 lS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~ 848 (2576)
+|+||+|..|.+||+..++|++||+||||++|+||||...+..+.++|.++|+-.++++.+
T Consensus 917 lSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~~pLWnkivntLrenn~I 977 (1025)
T KOG1807|consen 917 LSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADTPPLWNKIVNTLRENNAI 977 (1025)
T ss_pred EEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccCchhHHHHHHHHHhcccc
Confidence 9999999999999999999999999999999999999999999889999999999887653
No 7
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=100.00 E-value=7.6e-45 Score=491.34 Aligned_cols=324 Identities=18% Similarity=0.230 Sum_probs=208.6
Q ss_pred CCCHHHHHhhcC-CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILF-PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~-~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|+++|.+ .||++|+||||||||+||+.|+. |.+... +.++.+||++||
T Consensus 2 ~Ln~~Q~~av~~~~g~~lV~AgpGSGKT~vL~~Ria-----~Li~~~---------------------~v~p~~IL~lTF 55 (672)
T PRK10919 2 RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIA-----HLIRGC---------------------GYQARHIAAVTF 55 (672)
T ss_pred CCCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHH-----HHHHhc---------------------CCCHHHeeeEec
Confidence 589999999977 58999999999999999999995 333212 234589999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|++||.+|++|+.++..... ..-+.+.|||+||..+-.... .
T Consensus 56 T~kAA~em~~Rl~~~l~~~~----------------------------------~~~v~i~TfHS~~~~iLr~~~----~ 97 (672)
T PRK10919 56 TNKAAREMKERVAQTLGRKE----------------------------------ARGLMISTFHTLGLDIIKREY----A 97 (672)
T ss_pred hHHHHHHHHHHHHHHhCccc----------------------------------ccCcEEEcHHHHHHHHHHHHH----H
Confidence 99999999999987632100 011348899999977743210 0
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
.. .....+..+... ....+++.... + .. +......++.+.|.. .....+++
T Consensus 98 ~~-g~~~~~~i~d~~~~~~~l~~~~~~-------~-----~~---------~~~~~~~~~~~~i~~------~k~~~~~~ 149 (672)
T PRK10919 98 AL-GMKSNFSLFDDTDQLALLKELTEG-------L-----IE---------DDKVLLQQLISTISN------WKNDLKTP 149 (672)
T ss_pred Hh-CCCCCCeeCCHHHHHHHHHHHHHH-------h-----cc---------cchHHHHHHHHHHHH------HHHcCCCH
Confidence 00 000001111110 01111111110 0 00 011112223233311 11234555
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CCCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KGDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~~~yd~IlVDE~QD~~~~ 1382 (2576)
+++..... ......+..+|..|++.+.+.+.+||+|++..+..+|...+. ...+|+||+||||||||+.
T Consensus 150 ~~~~~~~~-------~~~~~~~~~~~~~Ye~~l~~~~~lDf~Dll~~~~~ll~~~~~~~~~~~~~~~~ilVDE~QDtn~~ 222 (672)
T PRK10919 150 AQAAAGAK-------GERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTS 222 (672)
T ss_pred HHHHHHhc-------chhHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCHHHHHHHHhcCCEEEEEchhcCCHH
Confidence 55533221 011234567899999999999999999999999999976443 3578999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+.+|+.|+.. +.++++|||++|+||+ ||.++...+. .|.. ..++...+.|++||||+++|+
T Consensus 223 Q~~ll~~l~~~-~~~l~~VGD~~QsIY~---frGA~~~~~~--~f~~------------~~~~~~~~~L~~NyRs~~~I~ 284 (672)
T PRK10919 223 QYELVKLLVGS-RARFTVVGDDDQSIYS---WRGARPQNLV--LLSQ------------DFPALQVIKLEQNYRSSGRIL 284 (672)
T ss_pred HHHHHHHHHcC-CCEEEEEcCCcccccc---cCCCChHHHH--HHHH------------hCCCCcEEECCCCCCCcHHHH
Confidence 99999999865 5689999999999987 5555443331 2210 112356789999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhh
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNT 1514 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i 1514 (2576)
++||.++......++..... ....|+.|.+..+.+...++..++..+
T Consensus 285 ~~an~li~~n~~~~~k~~~~-----~~~~g~~~~~~~~~~~~~ea~~i~~~i 331 (672)
T PRK10919 285 KAANILIANNPHVFEKRLFS-----ELGYGDELKVLSANNEEHEAERVTGEL 331 (672)
T ss_pred HHHHHHHhhCcccccccccc-----CCCCCCceEEEcCCCHHHHHHHHHHHH
Confidence 99999997654333321111 112367788888877777777665554
No 8
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=100.00 E-value=2.6e-44 Score=494.37 Aligned_cols=347 Identities=20% Similarity=0.288 Sum_probs=228.9
Q ss_pred CCCHHHHHhhcC-CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILF-PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~-~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|+++|.+ .||++|+||||||||+||++|+. |.+... ...|.+||++||
T Consensus 4 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~~l~~ria-----~Li~~~---------------------~i~P~~IL~lTF 57 (726)
T TIGR01073 4 HLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIA-----HLIAEK---------------------NVAPWNILAITF 57 (726)
T ss_pred ccCHHHHHHHhCCCCCEEEEeCCCCCHHHHHHHHHH-----HHHHcC---------------------CCCHHHeeeeec
Confidence 599999999976 57999999999999999999995 333222 234579999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|++||.+|++|+.++.... ..-+.+.|||+||..+-.....
T Consensus 58 T~kAA~em~~Rl~~~~~~~-----------------------------------~~~~~i~TFHs~~~~iLr~~~~---- 98 (726)
T TIGR01073 58 TNKAAREMKERVEKLLGPV-----------------------------------AEDIWISTFHSMCVRILRRDID---- 98 (726)
T ss_pred cHHHHHHHHHHHHHHhccc-----------------------------------cCCcEEEcHHHHHHHHHHHHHH----
Confidence 9999999999998774210 0113488999999776322110
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
..+....+..+... ....++..+.....+. +.+++.. +...++.+| ...+++
T Consensus 99 -~~g~~~~f~i~d~~~~~~ll~~~~~~~~~~~----------------~~~~~~~-~~~~i~~~k---------~~~~~~ 151 (726)
T TIGR01073 99 -RIGINRNFSIIDPTDQLSLMKTILKDKNLDP----------------KKFEPRS-ILGTISNAK---------NELLPP 151 (726)
T ss_pred -HhCCCCCCCcCCHHHHHHHHHHHHHhcCCCc----------------ccCCHHH-HHHHHHHHH---------HcCCCH
Confidence 00000111111111 1122222332211111 1122322 233444454 344566
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CCCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KGDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~~~yd~IlVDE~QD~~~~ 1382 (2576)
+++..... ....+.+..+|..|++.+.+.+.+||+|++..+...|...+. ...+|+||+||||||||+.
T Consensus 152 ~~~~~~~~-------~~~~~~~~~iy~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~v~~~~~~~~~~IlVDEfQDtn~~ 224 (726)
T TIGR01073 152 EDFAKEAT-------NYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRA 224 (726)
T ss_pred HHHHHhhc-------chHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHH
Confidence 66643321 113456789999999999999999999999999999976543 2569999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+.++..|+.. ..++++|||++|+||. ||.+++..+.. |.. ..+....+.|++||||+++|+
T Consensus 225 Q~~ll~~L~~~-~~~l~vVGD~~QsIY~---fRgA~~~~~~~--f~~------------~~~~~~~i~L~~NyRS~~~Il 286 (726)
T TIGR01073 225 QYTLVRLLASR-FRNLCVVGDADQSIYG---WRGADIQNILS--FEK------------DYPNATTILLEQNYRSTKNIL 286 (726)
T ss_pred HHHHHHHHhCC-CCEEEEEeCCCccccc---cCCCChHHHHH--HHH------------hCCCCeEEECccCCCCCHHHH
Confidence 99999999875 5689999999999997 66666654431 210 012356789999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhh
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCV 1537 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~ 1537 (2576)
++||.++.......+..... ....|+.|.+..+.+...++..+...+......+..-..++|||+|++..
T Consensus 287 ~~an~li~~~~~r~~~~l~~-----~~~~g~~v~~~~~~~~~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~ 356 (726)
T TIGR01073 287 QAANEVIEHNSNRKPKNLWT-----ENSSGDKITYYEADTERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQ 356 (726)
T ss_pred HHHHHHHHhccccccccccc-----CCCCCcceEEEeCCCHHHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchh
Confidence 99999997654333322111 11236677888888888888888877766543321112456666666443
No 9
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=100.00 E-value=2.5e-44 Score=492.38 Aligned_cols=344 Identities=19% Similarity=0.265 Sum_probs=221.6
Q ss_pred CCCHHHHHhhcCC-CCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILFP-RSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~~-~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|+++|.++ ||++|+||||||||+||++|+. |.+... ..++.+||+|||
T Consensus 9 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~vl~~Ria-----~Li~~~---------------------~v~p~~IL~lTF 62 (721)
T PRK11773 9 SLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIA-----WLMQVE---------------------NASPYSIMAVTF 62 (721)
T ss_pred hcCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHH-----HHHHcC---------------------CCChhHeEeeec
Confidence 5999999999775 7999999999999999999995 333222 234589999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|++||.+|++|+.++.... ..-+.+.|||+||..+-.....
T Consensus 63 T~kAA~Em~~Rl~~~~~~~-----------------------------------~~~~~i~TfHs~~~~iLr~~~~---- 103 (721)
T PRK11773 63 TNKAAAEMRHRIEQLLGTS-----------------------------------QGGMWVGTFHGLAHRLLRAHWQ---- 103 (721)
T ss_pred cHHHHHHHHHHHHHHhccC-----------------------------------CCCCEEEcHHHHHHHHHHHHHH----
Confidence 9999999999998874310 0124588999999776322100
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
. ......+..+... ....++..+....+. . +.+++.. ....++..| ...+++
T Consensus 104 ~-~g~~~~f~i~d~~d~~~~i~~~~~~~~~~-----~-----------~~~~~~~-~~~~i~~~k---------~~~~~~ 156 (721)
T PRK11773 104 D-ANLPQDFQILDSDDQLRLLKRLIKALNLD-----E-----------KQWPPRQ-AQWYINGQK---------DEGLRP 156 (721)
T ss_pred H-hCCCCCCeecCHHHHHHHHHHHHHHcCCC-----c-----------ccCCHHH-HHHHHHHHH---------HcCCCH
Confidence 0 0000001111110 111122222211100 0 1111211 122233333 223445
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CCCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KGDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~~~yd~IlVDE~QD~~~~ 1382 (2576)
+++.... ....+.+..+|..|++.+.+++.+||+|++..++.+|...+. ...+|+||+||||||||+.
T Consensus 157 ~~~~~~~--------~~~~~~~~~iy~~Y~~~~~~~~~~DfdDll~~~~~lL~~~~~~~~~~~~~~~~IlVDEfQDtn~~ 228 (721)
T PRK11773 157 QHIQSYG--------DPVEQTWLKIYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEFQDTNAI 228 (721)
T ss_pred HHHHhcc--------ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEchhcCCHH
Confidence 4443211 123456788999999999999999999999999999976543 3578999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+.+++.|+.. +.++++|||++|+||+ ||.++...+. .|.. ..+....+.|++||||+++|+
T Consensus 229 Q~~ll~~L~~~-~~~l~vVGD~dQsIY~---fRGA~~~~~~--~f~~------------~~~~~~~i~L~~NyRSt~~Il 290 (721)
T PRK11773 229 QYAWIRLLAGD-TGKVMIVGDDDQSIYG---WRGAQVENIQ--RFLN------------DFPGAETIRLEQNYRSTANIL 290 (721)
T ss_pred HHHHHHHHhCC-CCeEEEEecCcccccc---cCCCChHHHH--HHHH------------hCCCCeEEECCcCCCCCHHHH
Confidence 99999999875 5689999999999987 5555554332 2211 012456789999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechh
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDC 1536 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~ 1536 (2576)
++||.++.......+.... .....|+.|.+....+..+++..+++.+......+..+ .+++||+|++.
T Consensus 291 ~~an~li~~n~~r~~k~~~-----~~~~~g~~v~~~~~~~~~~Ea~~ia~~I~~l~~~g~~~-~diAVL~R~~~ 358 (721)
T PRK11773 291 KAANALIANNNGRLGKELW-----TDGGDGEPISLYCAFNELDEARFVVERIKTWQDNGGAL-SDCAILYRSNA 358 (721)
T ss_pred HHHHHHHHhcccccCcccc-----cCCCCCCeeEEEeCCCHHHHHHHHHHHHHHHHHcCCCc-ccEEEEEecch
Confidence 9999999765433222111 11123667777777777777877877776544333221 34555555543
No 10
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=100.00 E-value=6.5e-44 Score=489.10 Aligned_cols=326 Identities=19% Similarity=0.262 Sum_probs=211.4
Q ss_pred CCCHHHHHhhcCC-CCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILFP-RSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~~-~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|+++|.++ +|++|+||||||||+||+.|+. |.+... ..++.+||+|||
T Consensus 4 ~Ln~~Q~~av~~~~g~~lV~AgaGSGKT~~L~~Ria-----~Li~~~---------------------~v~p~~IL~lTF 57 (715)
T TIGR01075 4 GLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIA-----WLLSVE---------------------NASPHSIMAVTF 57 (715)
T ss_pred ccCHHHHHHHcCCCCCEEEEecCCCCHHHHHHHHHH-----HHHHcC---------------------CCCHHHeEeeec
Confidence 5999999999775 7999999999999999999995 333222 234589999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|++||.+|++|+.++.... ..-+.+.|||+||..+-.....
T Consensus 58 TnkAA~em~~Rl~~~~~~~-----------------------------------~~~~~i~TfHs~~~~iLr~~~~---- 98 (715)
T TIGR01075 58 TNKAAAEMRHRIGALLGTS-----------------------------------ARGMWIGTFHGLAHRLLRAHHL---- 98 (715)
T ss_pred cHHHHHHHHHHHHHHhccc-----------------------------------ccCcEEEcHHHHHHHHHHHHHH----
Confidence 9999999999998874310 0123488999999776332110
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
.......+..+... .....+..+.... +.. +.+.+..+ ...++..| ...+++
T Consensus 99 -~~g~~~~f~i~d~~d~~~l~~~~~~~~~-----~~~-----------~~~~~~~~-~~~i~~~k---------~~~~~~ 151 (715)
T TIGR01075 99 -DAGLPQDFQILDSDDQLRLLKRLIKALN-----LDE-----------KQWPPRQA-MWYINNQK---------DEGLRP 151 (715)
T ss_pred -HhCCCCCCeecCHHHHHHHHHHHHHHcC-----CCc-----------ccCCHHHH-HHHHHHHH---------HCCCCH
Confidence 00000001111110 0111111111110 000 01112111 12223333 233444
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CCCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KGDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~~~yd~IlVDE~QD~~~~ 1382 (2576)
+++.... ....+.+..+|+.|++.+.+++.+||+|++..+...|...+. ...+|+||+||||||||+.
T Consensus 152 ~~~~~~~--------~~~~~~~~~iy~~Y~~~~~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDtn~~ 223 (715)
T TIGR01075 152 SHIQAFD--------NPVERTWIKIYQAYQEACDRAGLVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEFQDTNKI 223 (715)
T ss_pred HHHHhcc--------ChHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCEEEEEccccCCHH
Confidence 4443211 112345678999999999999999999999999999976543 3578999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+.+|+.|+.. +.++++|||++|+||. ||++++..+. .|.. ..+....+.|++||||+++|+
T Consensus 224 Q~~ll~~L~~~-~~~l~vVGD~~QsIY~---fRGA~~~~i~--~f~~------------~~~~~~~~~L~~NyRS~~~Il 285 (715)
T TIGR01075 224 QYAWIRLLAGN-TGNVMIVGDDDQSIYG---WRGAQVENIQ--KFLK------------DFPGAETIRLEQNYRSTANIL 285 (715)
T ss_pred HHHHHHHHhCC-CCeEEEEeCCcccccc---cCCCCHHHHH--HHHH------------hCCCCeEEECcccCCCCHHHH
Confidence 99999999875 5689999999999997 5666655432 2210 012356789999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhh
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEV 1517 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~ 1517 (2576)
++||.++.......+.... .....|+.+.+....+..+++..+...+...
T Consensus 286 ~~an~li~~~~~r~~~~~~-----~~~~~g~~i~~~~~~~~~~Ea~~ia~~I~~l 335 (715)
T TIGR01075 286 AAANALIANNDERLGKNLW-----TDGEVGEPISLYSAFNELDEARFVVSRIKTW 335 (715)
T ss_pred HHHHHHHHhcccccccccc-----CCCCCCCceEEEeCCCHHHHHHHHHHHHHHH
Confidence 9999999755333222111 1112356667777777777777777766544
No 11
>PRK11054 helD DNA helicase IV; Provisional
Probab=100.00 E-value=7.1e-42 Score=457.38 Aligned_cols=459 Identities=16% Similarity=0.206 Sum_probs=275.0
Q ss_pred CCCCHHHHHhhcC-CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEE
Q 000053 1068 FEVTDEQLDMILF-PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVT 1146 (2576)
Q Consensus 1068 f~Lt~EQ~~iI~~-~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vT 1146 (2576)
..||++|+++|.. .++++|+|||||||||||+.|+. |.+... ...+.+||++|
T Consensus 195 ~~L~~~Q~~av~~~~~~~lV~agaGSGKT~vl~~r~a-----yLl~~~---------------------~~~~~~IL~lt 248 (684)
T PRK11054 195 SPLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAG-----WLLARG---------------------QAQPEQILLLA 248 (684)
T ss_pred CCCCHHHHHHHhCCCCCeEEEEeCCCCHHHHHHHHHH-----HHHHhC---------------------CCCHHHeEEEe
Confidence 6799999999965 57999999999999999999995 333211 12347999999
Q ss_pred cCHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccc--h
Q 000053 1147 VSPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCN--S 1224 (2576)
Q Consensus 1147 fS~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~--~ 1224 (2576)
||++||.+|++|+....+. .-+.+.|||+||..+-..... |
T Consensus 249 ft~~AA~em~eRL~~~lg~-------------------------------------~~v~v~TFHSlal~Il~~~~~~~p 291 (684)
T PRK11054 249 FGRQAAEEMDERIRERLGT-------------------------------------EDITARTFHALALHIIQQGSKKVP 291 (684)
T ss_pred ccHHHHHHHHHHHHHhcCC-------------------------------------CCcEEEeHHHHHHHHHHHhhhcCC
Confidence 9999999999998865320 013388999999777443221 1
Q ss_pred hhHHHhhhhhhhhccccc-hhH-HHHHHHHh---hhhhhhhhcccCChhhhHhhh---hcC-ChhHHHHHHHHHHhcccc
Q 000053 1225 YFERFHNIWKNYGQLQNS-KSV-FIETIIRK---KEVNYERFSSSYWPHFNAQLA---RKL-DPSRVFTEIISHIKGGLQ 1295 (2576)
Q Consensus 1225 ff~~~~~~~~~~~~~~~~-~~~-~~~~~i~~---~~v~~~~F~~~~w~~~~~~~~---k~l-d~~~v~~EI~s~IkG~~~ 1295 (2576)
-+.... .... ... ..+..... .......+.. |+....... ..+ ....+...+...+.-...
T Consensus 292 ~~s~~~--------~d~~~~~~~l~~~~~~~~~~~~~~~k~~~~--wl~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 361 (684)
T PRK11054 292 VISKLE--------NDSKARHALLIAEWRKQCSEKKAQAKGWRQ--WLTEELQWDVPEGNFWDDEKLQRRLASRLERWVS 361 (684)
T ss_pred CcCccc--------cchHHHHHHHHHHHHHHhhhcccchhhhhh--cchHHhhhcccchhhhhhhhHHHHHHHHHHHHHH
Confidence 111000 0000 000 00011100 0000011110 111000000 000 000011111111110000
Q ss_pred chhhhccCCCHHHHHhhhhh-ccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcccCCCCccEEEEe
Q 000053 1296 SIEVVNGKLNREDYVNLSET-RNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESYKGDEFHFVYID 1374 (2576)
Q Consensus 1296 ~~~~~~~~ls~e~Y~~l~r~-r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~~~~~yd~IlVD 1374 (2576)
. ......+.++....... ....+ ......++.+|+.|++.+.+++.+||+|++..+...|.... ...+|+||+||
T Consensus 362 -~-~~~~g~~~~~~~~~~~~~~~~~~-~~~l~~l~~iy~~Ye~~L~~~~~iDf~Dml~~A~~lL~~~~-~~~~~~~IlVD 437 (684)
T PRK11054 362 -L-MRMHGGSQAEMIAQAPEEVRDLF-QKRLKLMAPLLKAWKKALKAENAVDFSGLIHQAVNYLEKGR-FISPWKHILVD 437 (684)
T ss_pred -H-HHhcCCCHHHHHhhhhhhhhhhH-HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhhh-hhhcccEEEEE
Confidence 0 01122333222111100 00111 11235678999999999999999999999999999997654 34689999999
Q ss_pred cCCCCCHHHHHHHHHHhhc-CCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEeccc
Q 000053 1375 EVQDLTMSQVALFKYVCKN-IEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQ 1453 (2576)
Q Consensus 1375 E~QD~~~~ql~LL~~L~~~-~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~ 1453 (2576)
|+||+|+.|+.+|+.|+.. ++.++++|||++|+||+ |++++... ...|.. ..+....+.|++
T Consensus 438 E~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~---frGa~~~~--~~~f~~------------~f~~~~~~~L~~ 500 (684)
T PRK11054 438 EFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYR---FSGADLSL--TTAFHE------------RFGEGDRCHLDT 500 (684)
T ss_pred ccccCCHHHHHHHHHHhccCCCCeEEEEECCCccccc---cCCCChHH--HHHHHh------------hcCCCeEEEeCC
Confidence 9999999999999999864 34679999999999987 56555432 122210 001345789999
Q ss_pred ccCCchHHHHHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEe
Q 000053 1454 NFRTHVGVLNLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVR 1533 (2576)
Q Consensus 1454 NYRS~~~Il~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr 1533 (2576)
||||+++|+++||.++......++ .+-.+...|+.|.+....+. .+..+.+.+...... +..++||+|
T Consensus 501 nYRs~~~I~~~An~~i~~n~~~~~------k~l~s~~~g~~p~v~~~~~~--~~~~il~~l~~~~~~----~~~I~IL~R 568 (684)
T PRK11054 501 TYRFNSRIGEVANRFIQQNPHQLK------KPLNSLTKGDKKAVTLLPED--QLEALLDKLSGYAKP----DERILLLAR 568 (684)
T ss_pred CCCCCHHHHHHHHHHHHhCccccC------CcccccCCCCCceEEEeCCH--HHHHHHHHHHHhhcC----CCcEEEEEe
Confidence 999999999999999864322221 12223345777776666553 344455555443322 357899999
Q ss_pred chhhHHHHHHHhC-----CCeEEEeeeccCCccccEEEEeecccC---CCCchhhHHHHhhhccccccCCCCCCCCCCch
Q 000053 1534 DDCVRKEISNYVG-----KQALVLTIVESKGLEFQDVLLYKFFSA---SPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFN 1605 (2576)
Q Consensus 1534 ~~~~~~~l~~~L~-----~~V~V~TIH~aKGLEFd~ViL~n~f~~---~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~ 1605 (2576)
++.....+.+... .+|.++|+|.|||||||+|||+|+.++ +|....-..+. .... +
T Consensus 569 ~~~~~~~~l~~~~~~~~~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~---------~~~~-------~ 632 (684)
T PRK11054 569 YHHLRPALLDKAATRWPKLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIME---------EALL-------P 632 (684)
T ss_pred chhhHHHHHHHHHhhcccCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhh---------hccc-------c
Confidence 9877765544332 379999999999999999999998765 44321100000 0000 0
Q ss_pred hhhccchhHHHhhHhhhhccccceeEEEEecCCCCchhhHHhh
Q 000053 1606 EVKHNILCSELKQLYVAITRTRQRLWIWENKEEFSKPMFDYWK 1648 (2576)
Q Consensus 1606 ~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~~~~p~~~~w~ 1648 (2576)
........||||+||||+||||+.|+|+.+....+..+.++..
T Consensus 633 ~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~~~S~fv~el~~ 675 (684)
T PRK11054 633 PPEDFPDAEERRLLYVALTRAKHRVWLLFNKGNPSPFVEELKN 675 (684)
T ss_pred cccccccHHHHHHHHHHhhhhhcEEEEEEcCCCCCHHHHHHhh
Confidence 1111233589999999999999999999875554445444433
No 12
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=100.00 E-value=1.4e-40 Score=455.45 Aligned_cols=325 Identities=19% Similarity=0.237 Sum_probs=209.9
Q ss_pred CCCHHHHHhhcC-CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILF-PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~-~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|+++|.+ .+|++|+||||||||+||+.|+.. .+... ...+.+||+|||
T Consensus 1 ~Ln~~Q~~av~~~~~~~~V~Ag~GSGKT~~L~~ri~~-----ll~~~---------------------~~~p~~IL~vTF 54 (664)
T TIGR01074 1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAY-----LIQNC---------------------GYKARNIAAVTF 54 (664)
T ss_pred CCCHHHHHHHhCCCCCEEEEecCCCCHHHHHHHHHHH-----HHHhc---------------------CCCHHHeEEEec
Confidence 489999999976 579999999999999999999953 22211 234589999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|+.+|.+|++|+.+...... ..-+.+.|||+||..+-.....
T Consensus 55 t~~Aa~em~~Rl~~~l~~~~----------------------------------~~~v~v~TfHs~a~~il~~~~~---- 96 (664)
T TIGR01074 55 TNKAAREMKERVAKTLGKGE----------------------------------ARGLTISTFHTLGLDIIKREYN---- 96 (664)
T ss_pred cHHHHHHHHHHHHHHhCccc----------------------------------cCCeEEEeHHHHHHHHHHHHHH----
Confidence 99999999999987642100 0113488999999776322100
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
.. .....+..+... ....++..+.... .+....+.++.+.|.. .....+++
T Consensus 97 ~~-g~~~~~~il~~~~~~~ll~~~~~~~~---------------------~~~~~~~~~~~~~i~~------~k~~~~~~ 148 (664)
T TIGR01074 97 AL-GYKSNFSLFDETDQLALLKELTEGLI---------------------KDDKDLLDKLISTISN------WKNDLLTP 148 (664)
T ss_pred Hh-CCCCCCEEeCHHHHHHHHHHHHHHhc---------------------ccchhHHHHHHHHHHH------HHHcCCCH
Confidence 00 000000111100 1111222211100 0001112222222211 11345666
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CCCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KGDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~~~yd~IlVDE~QD~~~~ 1382 (2576)
+++....+. .....+..+|..|++.+.++|.+||+|++..+...|...+. ...+|+||+||||||||+.
T Consensus 149 ~~~~~~~~~-------~~~~~~~~i~~~Y~~~l~~~~~ldf~Dll~~~~~~L~~~~~i~~~~~~~~~~ilVDEfQD~~~~ 221 (664)
T TIGR01074 149 EQALASARG-------EREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTS 221 (664)
T ss_pred HHHHHhccC-------hHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhhChHHHHHHHHhCCEEEEeehccCCHH
Confidence 666443211 12345678999999999999999999999999999976543 3568999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+++|+.|+.. +.++++|||++||||+ ||.++...++. |.. ..+....+.|.+||||+++|+
T Consensus 222 Q~~ll~~L~~~-~~~l~~vGD~~QsIY~---frga~~~~~~~--~~~------------~~~~~~~~~L~~NyRs~~~Il 283 (664)
T TIGR01074 222 QYELVKLLVGD-RARFTVVGDDDQSIYS---WRGARPENLVL--LKE------------DFPQLKVIKLEQNYRSTGRIL 283 (664)
T ss_pred HHHHHHHHhcC-CCeEEEEcCCcccccC---CCCCCHHHHHH--HHH------------hCCCCeEEECCCCCCChHHHH
Confidence 99999999875 5689999999999987 55555544331 210 012345789999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhh
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTG 1515 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~ 1515 (2576)
+++|.++......++... ......|..|.+..+.+...++..++..+.
T Consensus 284 ~~~n~l~~~~~~~~~~~~-----~~~~~~g~~v~~~~~~~~~~Ea~~ia~~I~ 331 (664)
T TIGR01074 284 KAANILIANNPHVFEKKL-----FSELGYGEKIKVIECNNEEHEAERIAGEII 331 (664)
T ss_pred HHHHHHHhcCcccccccc-----cccCCCCCceEEEeCCCHHHHHHHHHHHHH
Confidence 999998864322221111 011123567888888888877777776664
No 13
>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=100.00 E-value=5.9e-38 Score=447.27 Aligned_cols=133 Identities=26% Similarity=0.412 Sum_probs=107.0
Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcc--------cCCCCccEEEEecCCCCCHHHHHHHHHHhhcC--C
Q 000053 1326 ERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEES--------YKGDEFHFVYIDEVQDLTMSQVALFKYVCKNI--E 1395 (2576)
Q Consensus 1326 ~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~--------~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~--~ 1395 (2576)
..+..++..|++.|.++|.+||+|+...++.+|...+ ..+.+|+|||||||||||++|..||..|++.. +
T Consensus 339 ~l~~~~~~~y~~~K~~~~~lDF~DL~~~a~~lL~~~~~~~~~v~~~l~~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~ 418 (1232)
T TIGR02785 339 QLVKDFIEAFGAEKREKNVLDFSDLEHYALQILSNENESPSEAAEFYREKFKEVLVDEYQDTNLLQESILQLLKRGEEDE 418 (1232)
T ss_pred HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHhCCCEEEEECCcCCCHHHHHHHHHHhccCCCC
Confidence 4556778899999999999999999999999997654 23679999999999999999999999998741 3
Q ss_pred CcEEEEeCCCCccccCCCcchhhHHHHHH--HhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHH
Q 000053 1396 EGFVFSGDTAQTIARGIDFRFQDIRSLFY--KKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELL 1472 (2576)
Q Consensus 1396 ~~l~~vGD~~QSIy~g~~frf~~l~~~f~--~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~ 1472 (2576)
+++|+|||++||||+ ||.++...+.. ..|. .........+.|++||||+++|++++|.++..+
T Consensus 419 ~nLf~VGD~KQSIY~---FRGAdp~lf~~~~~~f~-----------~~~~~~~~~i~L~~NfRS~~~Il~~~N~lF~~~ 483 (1232)
T TIGR02785 419 GNLFMVGDVKQSIYR---FRQADPSLFLEKYHRFA-----------QEGNEHGKRIDLAENFRSRKEVLDTTNYLFKQL 483 (1232)
T ss_pred CeEEEEcCCcchhhh---hcCCChHHHHHHHHHhh-----------hhccCCceEEECCcCCCCcHHHHHHHHHHHHHh
Confidence 689999999999988 67666654332 1211 001113567899999999999999999999765
No 14
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=7e-38 Score=428.67 Aligned_cols=362 Identities=22% Similarity=0.262 Sum_probs=240.0
Q ss_pred CCCHHHHHhhcCC-CCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1069 EVTDEQLDMILFP-RSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~~-~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
.||++|++++.++ ||++|+||||||||+|++.|+. |.+... ...|.+||.+||
T Consensus 2 ~Ln~~Q~~av~~~~gp~lV~AGaGsGKT~vlt~Ria-----~li~~~---------------------~v~p~~Il~vTF 55 (655)
T COG0210 2 KLNPEQREAVLHPDGPLLVLAGAGSGKTRVLTERIA-----YLIAAG---------------------GVDPEQILAITF 55 (655)
T ss_pred CCCHHHHHHHhcCCCCeEEEECCCCCchhhHHHHHH-----HHHHcC---------------------CcChHHeeeeec
Confidence 5899999999876 7999999999999999999995 444322 234478999999
Q ss_pred CHHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhH
Q 000053 1148 SPKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFE 1227 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~ 1227 (2576)
|++||.+|++|+.++..... ..-+.+.|||+|+..+-........
T Consensus 56 TnkAA~em~~Rl~~~~~~~~----------------------------------~~~~~v~TfHs~~~~~lr~~~~~~~- 100 (655)
T COG0210 56 TNKAAAEMRERLLKLLGLPA----------------------------------AEGLTVGTFHSFALRILRRHGERLG- 100 (655)
T ss_pred hHHHHHHHHHHHHHHhCccc----------------------------------ccCcEEeeHHHHHHHHHHHHHHhcC-
Confidence 99999999999998853200 0015588999999666321110000
Q ss_pred HHhhhhhhhhccccc-hhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCH
Q 000053 1228 RFHNIWKNYGQLQNS-KSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNR 1306 (2576)
Q Consensus 1228 ~~~~~~~~~~~~~~~-~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~ 1306 (2576)
....+..+... .....+...... ... ..+...+.. ....++..| ...+.+
T Consensus 101 ----~~~~~~i~d~~d~~~~~~~~~~~~-~~~--------------~~~~~~~~~-~~~~i~~~k---------~~~~~~ 151 (655)
T COG0210 101 ----LNANFTILDSDDQLALIKELLRRE-LNL--------------DDKELLPRE-ALRYISEAK---------NALLSP 151 (655)
T ss_pred ----CCCCCEEecHHHHHHHHHHHHHhh-ccc--------------ccccccHHH-HHHHHHHHH---------hhCCCh
Confidence 00001111100 000011111000 000 000111111 111222222 334444
Q ss_pred HHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcccC----CCCccEEEEecCCCCCHH
Q 000053 1307 EDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESYK----GDEFHFVYIDEVQDLTMS 1382 (2576)
Q Consensus 1307 e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~~----~~~yd~IlVDE~QD~~~~ 1382 (2576)
.++........ .......+..+|..|++.+...+.+||+|++..++.++...+.. ..+|+||+|||+||||++
T Consensus 152 ~~~~~~~~~~~---~~~~~~~~~~~y~~Y~~~~~~~~~~df~dll~~~~~l~~~~~~v~~~~~~rf~~iLvDE~QDtn~~ 228 (655)
T COG0210 152 LEASALLLAAI---KSEAEKKLAELYEEYQELLRLNNALDFDDLLLLALRLLEENPEVLEALQARFRYILVDEFQDTNPL 228 (655)
T ss_pred hhhhhhhhhcc---ccHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCHHHHHHHHhhCCEEEEeCcCCCCHH
Confidence 44432111111 12235668889999999999999999999999999999875533 689999999999999999
Q ss_pred HHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHH
Q 000053 1383 QVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVL 1462 (2576)
Q Consensus 1383 ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il 1462 (2576)
|+.+++.|+.. ..++++|||++||||. ||.+++..+.. |. .+ .+..+.+.|.+||||++.|+
T Consensus 229 Q~~ll~~la~~-~~~l~~VGD~dQsIY~---frGA~~~ni~~--f~-------~d-----f~~~~~i~Le~NyRSt~~Il 290 (655)
T COG0210 229 QYELLKLLAGN-AANLFVVGDDDQSIYG---FRGADPENILD--FE-------KD-----FPAAKVIKLEQNYRSTPNIL 290 (655)
T ss_pred HHHHHHHHhCC-CCCEEEEcCCccccce---eCCCChHHHHH--HH-------hh-----CCCCcEEEecCCCCCcHHHH
Confidence 99999999987 5689999999999988 66666665531 10 01 12267899999999999999
Q ss_pred HHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHH
Q 000053 1463 NLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEIS 1542 (2576)
Q Consensus 1463 ~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~ 1542 (2576)
.+||.++.......+....... ...|+.|.+....+..+++..+...+......+.....+++||.|++.....+.
T Consensus 291 ~~An~~i~~n~~r~~k~l~~~~----~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~~~~~~~d~aiL~R~n~~s~~~e 366 (655)
T COG0210 291 AAANKVIANNKKRQAKTLRTEV----EGSGEKVVLLLANDEEDEARWIASEIDALIEIGKVNYSDIAILYRTNAQSRLIE 366 (655)
T ss_pred HHHHHHHhcCCccCCCcceecc----CCCCCCceEEeCCChHHHHHHHHHHHHHHHHcCCCChhhEEEEEecCcchHHHH
Confidence 9999999855555544433321 334889999999999999999998888754443223467889999877776665
Q ss_pred HHh
Q 000053 1543 NYV 1545 (2576)
Q Consensus 1543 ~~L 1545 (2576)
..+
T Consensus 367 ~~l 369 (655)
T COG0210 367 EAL 369 (655)
T ss_pred HHH
Confidence 544
No 15
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.2e-36 Score=423.30 Aligned_cols=291 Identities=36% Similarity=0.513 Sum_probs=244.2
Q ss_pred HHHHHhcCCcEEEEccccchhhhhccCCCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhh
Q 000053 550 LKRFCLKRASLFFSTASSSYMLHSVAMKPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEAC 629 (2576)
Q Consensus 550 i~~~~l~~a~VI~~T~sss~~l~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~ 629 (2576)
....+...+++|+||++.+.... +....||+||||||+|++++.+++|+.. ++++|++|||+||||++........+
T Consensus 461 ~~~~i~~~~~~~~~~~~~a~~~~-~~~~~fd~viiDEAsQ~~~~~~~~~l~~--~~~~il~GD~kQL~p~~~~~~~~~~~ 537 (767)
T COG1112 461 AVTKILEAADVVLSTLSIAGFSI-LKKYEFDYVIIDEASQATEPSALIALSR--AKKVILVGDHKQLPPTVFFKESSPEG 537 (767)
T ss_pred HHHHHHHhcCeEEEeccchhHHH-hcccccCEEEEcchhcccchhHHHhHhh--cCeEEEecCCccCCCeecchhhcccc
Confidence 34444555568888887654332 2222799999999999999999999975 79999999999999998765445667
Q ss_pred ccccHHHHHhhccC-CccccccccccCcccccccccccccCcccCCccccccccccccCCCC-CCCCcEEEEccCCcccc
Q 000053 630 FGRSLFERLSHLRH-SKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGP-MYGPYSFINVFGGREEF 707 (2576)
Q Consensus 630 ~~~SLfeRL~~~g~-~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~-~~~~~~fidv~~g~e~~ 707 (2576)
+..|+|+++...+. ...+|+.||||||.|+.|+|..||+|++..++............+.. ...|+.++++.+..+..
T Consensus 538 ~~~slf~~~~~~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (767)
T COG1112 538 LSASLFERLIDNGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEEFF 617 (767)
T ss_pred hhHhHHHHHHHhCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCccccc
Confidence 88999999998775 88999999999999999999999999999988766543322222222 14578899995555535
Q ss_pred ccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCCEEE
Q 000053 708 IEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEEDIII 787 (2576)
Q Consensus 708 ~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVI 787 (2576)
...+..|..||..+..++..+.+.+. ...+|||||||++|+..|++.+.... ..+.|+|||+|||+|+||||
T Consensus 618 ~~~~~~n~~e~~~~~~~~~~~~~~~~---~~~~igvis~y~~q~~~i~~~~~~~~-----~~v~v~tvd~fQG~EkdvIi 689 (767)
T COG1112 618 ESKSKLNELEAEIVKVIVDELLKDGL---EENDIGVISPYRAQVSLIRRLLNEAG-----KGVEVGTVDGFQGREKDVII 689 (767)
T ss_pred CccceecHHHHHHHHHHHHHHHHcCC---cHHHcceecccHHHHHHHHHHHHhcC-----CceEEeeccccCCccCcEEE
Confidence 78899999999999999999998765 44569999999999999999997643 46999999999999999999
Q ss_pred EEcccCCCC-CccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCceeccC
Q 000053 788 ISTVRSNNG-GSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFFNAD 852 (2576)
Q Consensus 788 lS~Vrs~~~-~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~~~~ 852 (2576)
+|+||++.. +.+||+.|+||+|||+||||++|||||+..++... +.|+.++.+++.++++....
T Consensus 690 ~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~~-~~~~~~~~~~~~~~~~~~~~ 754 (767)
T COG1112 690 LSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLESD-PLYKRLINDLKRKGLLAELN 754 (767)
T ss_pred EEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhhc-hhHHHHHHHHHhcCcEeecc
Confidence 999999988 79999999999999999999999999999998886 89999999999999987654
No 16
>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=100.00 E-value=3.6e-36 Score=424.76 Aligned_cols=130 Identities=22% Similarity=0.334 Sum_probs=106.9
Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc--c----cCCCCccEEEEecCCCCCHHHHHHHHHHhhcCC-CcE
Q 000053 1326 ERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEE--S----YKGDEFHFVYIDEVQDLTMSQVALFKYVCKNIE-EGF 1398 (2576)
Q Consensus 1326 ~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~--~----~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~-~~l 1398 (2576)
..+..+...|++.|+++|.+||+|++..+.+.|... + ....+|++|+||||||||+.|++|+..|+.... .++
T Consensus 249 ~~~~~v~~~~~~~K~~~~~ldFdDLl~~a~~lL~~~~~~~l~~~lr~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L 328 (1087)
T TIGR00609 249 TLLKEVQEELKKEKKRRREIGFDDLLSRLETALKSAEGEKLAQAIREQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSL 328 (1087)
T ss_pred HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhccchHHHHHHHHhCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeE
Confidence 456678899999999999999999999999999653 2 236799999999999999999999999986533 279
Q ss_pred EEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHHhc
Q 000053 1399 VFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYR 1474 (2576)
Q Consensus 1399 ~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~ 1474 (2576)
++|||++||||+ ||.+++..++... . . ....+.|++||||+++|++++|.++.....
T Consensus 329 ~~VGDpKQSIY~---FRGAD~~~~~~~~--~-----------~---~~~~~~L~~NyRS~~~Iv~~~N~lf~~~~~ 385 (1087)
T TIGR00609 329 FLIGDPKQAIYS---FRGADIFTYLQAK--S-----------K---ADARYTLGTNWRSTPALVGSLNKLFSLISN 385 (1087)
T ss_pred EEEECCcccccc---CCCCCHHHHHHHH--H-----------h---cCcEEECCCCCCCcHHHHHHHHHHHhcccc
Confidence 999999999998 7878876554211 0 0 115689999999999999999999976543
No 17
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.2e-35 Score=415.33 Aligned_cols=130 Identities=22% Similarity=0.358 Sum_probs=109.6
Q ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc-----CCCCccEEEEecCCCCCHHHHHHHHHHhhcCC---CcE
Q 000053 1327 RIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY-----KGDEFHFVYIDEVQDLTMSQVALFKYVCKNIE---EGF 1398 (2576)
Q Consensus 1327 ~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~-----~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~---~~l 1398 (2576)
.+..+.+.|.+.|++++.+||+|+...+..+|.+.+. ...+|++|||||||||||.|++||..|..... .++
T Consensus 333 l~~~~~~~~~~~K~~r~~ldFdDl~~~~~~lL~~~~~~l~~~lr~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~l 412 (1139)
T COG1074 333 LLEELIERYDAEKRQRNALDFDDLIHRLAKLLTSEGEELAESLREQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTL 412 (1139)
T ss_pred HHHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHhcCcHHHHHHHHhcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCce
Confidence 3455777788899999999999999999999988721 26899999999999999999999999998754 489
Q ss_pred EEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHHh
Q 000053 1399 VFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLY 1473 (2576)
Q Consensus 1399 ~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~ 1473 (2576)
|+|||++||||+ ||.+|+..++...- . ......+.|.+||||++.|++..|.|+....
T Consensus 413 F~VGD~KQSIY~---FRgAD~~~f~~a~~-----------~---~~~~~~~~L~~N~RS~~~vl~avN~lF~~~~ 470 (1139)
T COG1074 413 FLVGDPKQSIYR---FRGADIFTFLEAAS-----------S---EKAFARITLETNYRSTPELLNAVNALFKQAM 470 (1139)
T ss_pred EEecCchHHhhh---hcCCChHHHHHHhh-----------c---cccCceeecccccCCcHHHHHHHHHHHhhhh
Confidence 999999999998 88888877664320 0 1246678999999999999999999998765
No 18
>PRK13909 putative recombination protein RecB; Provisional
Probab=100.00 E-value=2e-34 Score=402.21 Aligned_cols=192 Identities=18% Similarity=0.275 Sum_probs=125.7
Q ss_pred HHHHHHHHHHHHHHHC----CCCCHHHHHHHHHHHHHhcc--------cCCCCccEEEEecCCCCCHHHHHHHHHHhhc-
Q 000053 1327 RIYDIFESYEQMKMRN----GEFDLADLVNDLHHRLKEES--------YKGDEFHFVYIDEVQDLTMSQVALFKYVCKN- 1393 (2576)
Q Consensus 1327 ~i~~if~~Y~~~k~~~----g~~D~~Dlv~~~~~~L~~~~--------~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~- 1393 (2576)
.+..++..|++.+.+. |.+||+|+...++.+|.... ....+|+||+||||||||+.|+++|..|+.+
T Consensus 276 ~l~~l~~~y~~~~~~~k~~~~~ldf~Dl~~~a~~lL~~~~~~~~~~~~~l~~~~~~ilVDEfQDTs~~Q~~il~~L~~~~ 355 (910)
T PRK13909 276 KLFKLLQLYKEAKNELNKKKNALDFDDISKKVYELLGEEEIDKDFLYFRLDSKISHILIDEFQDTSVLQYKILLPLIDEI 355 (910)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHccCCCccHHHHHHHhcCCCEEEEECccCCCHHHHHHHHHHHHHh
Confidence 3556677777765554 99999999999999994321 1267999999999999999999999998632
Q ss_pred -------CCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHH
Q 000053 1394 -------IEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQ 1466 (2576)
Q Consensus 1394 -------~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn 1466 (2576)
.+.++|+|||++||||+ ||.++.. .+..+... + +...+.|++||||+++|++++|
T Consensus 356 ~~~~~~~~~~~lf~VGD~kQSIY~---FRGA~~~--~f~~~~~~---~----------~~~~~~L~~NyRS~~~Iv~~~N 417 (910)
T PRK13909 356 KSGEGQKKFRSFFYVGDVKQSIYR---FRGGKKE--LFDKVSKD---F----------KQKVDNLDTNYRSAPLIVDFVN 417 (910)
T ss_pred hcccccCCCCeEEEEcCchhhhhh---hcCCChH--HHHHHHHH---h----------hhhhcccccCCCCChHHHHHHH
Confidence 13579999999999987 5544432 22221100 0 1145789999999999999999
Q ss_pred HHHHHHhccCCCCccccCCcccccCCCCCEEEccCC-HHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHH
Q 000053 1467 SIIELLYRFFPHSVDILKPETSLIYGEPPILLESGD-EENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEIS 1542 (2576)
Q Consensus 1467 ~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~-~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~ 1542 (2576)
.++......++.... . ....++.+.+....+ ....+..+...+......++. ..++|||||++.....+.
T Consensus 418 ~~f~~~~~~~~~~~~---~--~~~~~g~v~i~~~~~~~~~~a~~ia~~I~~l~~~g~~-~~dIaILvR~~~~~~~l~ 488 (910)
T PRK13909 418 EVFKKKYKNYKTQYA---E--QHKSGGYVEVVEVADESEELLEQLLQEIQFLLEKGID-PDDIAILCWTNDDALEIK 488 (910)
T ss_pred HHHHHHHHhhhhhhc---c--cccCCCcEEEEECCCccHHHHHHHHHHHHHHHHcCCC-cCCEEEEEecCccHHHHH
Confidence 999765432221110 0 011233444443333 333455666666655444333 357899999876555444
No 19
>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=100.00 E-value=1.5e-33 Score=403.52 Aligned_cols=136 Identities=18% Similarity=0.256 Sum_probs=105.6
Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc-------CCCCccEEEEecCCCCCHHHHHHHHHHhhc-----
Q 000053 1326 ERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY-------KGDEFHFVYIDEVQDLTMSQVALFKYVCKN----- 1393 (2576)
Q Consensus 1326 ~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~-------~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~----- 1393 (2576)
..+..++..|++.|.++|.+||+|++..++.+|...+. ...+|+||+||||||||+.|++||..|+.+
T Consensus 343 ~l~~~~~~~y~~~K~~~~~lDF~Dli~~a~~lL~~~~~~~~v~~~l~~r~~~iLVDEFQDTs~~Q~~il~~L~~~~~~g~ 422 (1141)
T TIGR02784 343 RLAARLLQRYDRLKKARGLLDFNDLIERTVALLARPGAGAWVHYKLDRGIDHILVDEAQDTSPEQWDIIQALAEEFFSGE 422 (1141)
T ss_pred HHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHcCCCchHHHHHHHHcCCCEEEEECCcCCCHHHHHHHHHHHHhhcccc
Confidence 44557888899999999999999999999999975432 257999999999999999999999999863
Q ss_pred -----CCCcEEEEeCCCCccccCCCcchhhHHHHHH--HhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHH
Q 000053 1394 -----IEEGFVFSGDTAQTIARGIDFRFQDIRSLFY--KKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQ 1466 (2576)
Q Consensus 1394 -----~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~--~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn 1466 (2576)
.+.++|+|||++||||+ ||.+++..+.. ..|... ....+.+...+.|++||||+++|++++|
T Consensus 423 ~~~~~~~~~lf~VGD~kQSIY~---FRGAd~~~f~~~~~~~~~~--------~~~~~~~~~~~~L~~NyRS~~~Il~~~N 491 (1141)
T TIGR02784 423 GARSGVERTIFAVGDEKQSIYS---FQGADPDRFAEERREFNRK--------VRAVGAKFEDLSLNYSFRSTPDVLAAVD 491 (1141)
T ss_pred cccCCCCCeEEEEeCCcccCcc---ccCCCHHHHHHHHHHHHHh--------hhhccCCceEeeCCcCCCChHHHHHHHH
Confidence 13579999999999998 66666654432 111000 0001123467899999999999999999
Q ss_pred HHHHHH
Q 000053 1467 SIIELL 1472 (2576)
Q Consensus 1467 ~vi~~~ 1472 (2576)
.++..+
T Consensus 492 ~lf~~~ 497 (1141)
T TIGR02784 492 LVFADP 497 (1141)
T ss_pred HHHhCc
Confidence 999753
No 20
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=100.00 E-value=6.1e-34 Score=401.96 Aligned_cols=129 Identities=26% Similarity=0.408 Sum_probs=105.6
Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcc------cCCCCccEEEEecCCCCCHHHHHHHHHHhhc-CCCcE
Q 000053 1326 ERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEES------YKGDEFHFVYIDEVQDLTMSQVALFKYVCKN-IEEGF 1398 (2576)
Q Consensus 1326 ~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~------~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~-~~~~l 1398 (2576)
..+..++..|++.|.+++.+||+|++..+...|.... ....+|++|+||||||||+.|++++..|+.+ ...++
T Consensus 330 ~~~~~~~~~~~~~k~~~~~~dFdDll~~~~~~L~~~~~~~~~~~~~~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l 409 (1181)
T PRK10876 330 RALAEIRETVAQEKRRRGELGFDDLLSRLDSALQSEGGEALAAAIRTRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETAL 409 (1181)
T ss_pred HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCChHHHHHHHHhCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeE
Confidence 4455688999999999999999999999999996531 2368999999999999999999999999864 24579
Q ss_pred EEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHHh
Q 000053 1399 VFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLY 1473 (2576)
Q Consensus 1399 ~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~ 1473 (2576)
++|||++||||+ ||++++..++... ......+.|.+||||+++|++++|.++....
T Consensus 410 ~~VGDpkQsIY~---FRGAd~~~~l~~~----------------~~~~~~~~L~~NyRS~~~Iv~~~N~lf~~~~ 465 (1181)
T PRK10876 410 LLIGDPKQAIYA---FRGADIFTYMKAR----------------SEVSAHYTLDTNWRSAPGMVNSVNKLFSQTD 465 (1181)
T ss_pred EEEeCCcccccc---CCCCCchHHHHHH----------------hccCCeeECCCCcCcCHHHHHHHHHHHhccc
Confidence 999999999997 7777775544211 0013468999999999999999999997654
No 21
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=99.97 E-value=2.2e-32 Score=320.43 Aligned_cols=196 Identities=40% Similarity=0.588 Sum_probs=138.8
Q ss_pred ccccHHHHHhhcc-CCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccc
Q 000053 630 FGRSLFERLSHLR-HSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFI 708 (2576)
Q Consensus 630 ~~~SLfeRL~~~g-~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~ 708 (2576)
+++|||+|+...+ .+.++|++||||||+|++|+|..||+|+|.+.++.............+...++.|+++.+......
T Consensus 1 ~~~Slferl~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~ 80 (200)
T PF13087_consen 1 LDRSLFERLIKNGSVPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSE 80 (200)
T ss_dssp TTS-HHHHHHHCT----EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEET
T ss_pred CCccHHHHHHHcCCCCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEeccccccccc
Confidence 4689999999998 999999999999999999999999999999988766554431112222356799999955544443
Q ss_pred c--ccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCCEE
Q 000053 709 E--HSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEEDII 786 (2576)
Q Consensus 709 ~--~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiV 786 (2576)
. +|+.|..||..+++++..|...+.....+.+|||||||++|+.+|++.+.+.........+.|+|||+|||+|+|+|
T Consensus 81 ~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~E~diV 160 (200)
T PF13087_consen 81 SSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQEADIV 160 (200)
T ss_dssp TC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT--EEEE
T ss_pred ccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccccceEE
Confidence 3 89999999999999999999876522235799999999999999999998654322111289999999999999999
Q ss_pred EEEcccCCCCCccccCCCCCceEEecccccccEEEEech
Q 000053 787 IISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNE 825 (2576)
Q Consensus 787 IlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~ 825 (2576)
|+|+|+++....+||+.+++|+|||+||||+++|||||+
T Consensus 161 i~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~ 199 (200)
T PF13087_consen 161 IVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNP 199 (200)
T ss_dssp EEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H
T ss_pred EEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecC
Confidence 999999997788999999999999999999999999996
No 22
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.96 E-value=5e-30 Score=335.04 Aligned_cols=284 Identities=29% Similarity=0.289 Sum_probs=229.1
Q ss_pred cCCcEEEEccccchhhhh--ccCCCCCEEEEEcCCCCChhHHhhhcccc-CcceEEEecCCCCCCccccccchhhhhccc
Q 000053 556 KRASLFFSTASSSYMLHS--VAMKPLNFLVIDEAAQLKESESTIPLQLS-GIKHAVLFGDECQLPAMVESKVSDEACFGR 632 (2576)
Q Consensus 556 ~~a~VI~~T~sss~~l~~--~~~~~fD~VIIDEAsQ~~e~e~lipL~l~-~~k~vILVGD~~QLpPvv~s~~~~~~~~~~ 632 (2576)
...+++.||+++++.+.. .....|..+++|||++.+|++.++|+... ...++||.|||+||+|++.+..+...|+++
T Consensus 418 ~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~r 497 (775)
T KOG1804|consen 418 WPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDR 497 (775)
T ss_pred cceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhcccH
Confidence 455788999988776644 34567889999999999999999998743 234899999999999999999999999999
Q ss_pred cHHHHHhhc------------cCCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEc
Q 000053 633 SLFERLSHL------------RHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINV 700 (2576)
Q Consensus 633 SLfeRL~~~------------g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv 700 (2576)
|||+|+... ....+.|-.+||+||.|...+|+.||++.|.............. + ...+.|.-+
T Consensus 498 sLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~~~~~~v~~~~~-w----~~liif~g~ 572 (775)
T KOG1804|consen 498 SLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAEASEVDVRGLEL-W----SGLILFYGA 572 (775)
T ss_pred HHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeeeccHHHHHHHHh-c----ccceecccc
Confidence 999999753 23356788999999999999999999999987665544321111 1 112445444
Q ss_pred cCCcccc--ccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCC
Q 000053 701 FGGREEF--IEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGF 778 (2576)
Q Consensus 701 ~~g~e~~--~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~f 778 (2576)
.|..+. ...|+.|..||..|..++..+..... ....+|||||||++|+..|+..+... +..++.|++|+.|
T Consensus 573 -~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~--~~~~DIgvitpy~aq~~~i~~~l~~~----~~~~~~vgsVe~f 645 (775)
T KOG1804|consen 573 -PGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEV--AQPQDIGVITPYTAQVSEIRKALRRL----GVPGVKVGSVEEF 645 (775)
T ss_pred -ccccccccCChhhccHHHHHHHHHHHhccCCCCc--cccccceeeCcHHHHHHHHHHHhccc----CCCCCcccceeee
Confidence 444433 55689999999999988888876543 33349999999999999999999753 3447899999999
Q ss_pred CCccCCEEEEEcccCCCC------CccccCCCCCceEEecccccccEEEEechhhhhcCchHHHHHHHHHHhcCceeccC
Q 000053 779 QGGEEDIIIISTVRSNNG------GSIGFISNPRRVNVALTRARHCLWILGNERTLTRNRSVWKALVDDAKARQCFFNAD 852 (2576)
Q Consensus 779 QG~E~DiVIlS~Vrs~~~------~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~~~~W~~li~~~~~r~~~~~~~ 852 (2576)
||+|+.|||+|+||+... ...+|+++++|+|||+|||+.-++++|+...+.. +..|+.++..+.++|.+...+
T Consensus 646 qGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~-~~~~~~~l~~~~~n~~y~~c~ 724 (775)
T KOG1804|consen 646 QGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGG-DPPWGLLLLLRVENGRYPGCD 724 (775)
T ss_pred ccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccC-CCChhhheeeeecCCcccCCC
Confidence 999999999999999764 1223899999999999999999999999987766 589999999999998877664
No 23
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.94 E-value=4.5e-28 Score=308.65 Aligned_cols=267 Identities=27% Similarity=0.343 Sum_probs=212.0
Q ss_pred hcCCcEEEEccccch-hhhhc--cCCCCCEEEEEcCCCCChhHHhhhccccC-------cceEEEecCCCCCCccccc-c
Q 000053 555 LKRASLFFSTASSSY-MLHSV--AMKPLNFLVIDEAAQLKESESTIPLQLSG-------IKHAVLFGDECQLPAMVES-K 623 (2576)
Q Consensus 555 l~~a~VI~~T~sss~-~l~~~--~~~~fD~VIIDEAsQ~~e~e~lipL~l~~-------~k~vILVGD~~QLpPvv~s-~ 623 (2576)
.+.|.||.||+..+. +...+ ....+|-+++.|++|+.|.+..+|+.+.+ .+++|++|||.|+||++.+ .
T Consensus 965 ~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~a 1044 (1320)
T KOG1806|consen 965 VKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQA 1044 (1320)
T ss_pred cccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchH
Confidence 489999999988643 32222 13358999999999999999999986532 4689999999999999854 4
Q ss_pred chhhhhccccHHHHHhhccCCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccC-
Q 000053 624 VSDEACFGRSLFERLSHLRHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFG- 702 (2576)
Q Consensus 624 ~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~- 702 (2576)
.........|+|.|++..++|.+.|+.|+|..++|+.+.+..+ . .|...+.+...+.....-.|. ..+++|+++.+
T Consensus 1045 fqkysnm~qslf~r~vRl~ip~i~lnaqgrar~sI~~Ly~wry-~-lLg~l~~v~~lp~f~~aNagf-~~~~qlinv~Df 1121 (1320)
T KOG1806|consen 1045 FQKYSNMEQSLFTRLVRLGVPIIDLNAQGRARASIASLYNWRY-P-LLGNLPHVSPLPRFQYANAGF-AYEFQFINVPDF 1121 (1320)
T ss_pred HHHHhcchhhhhhcceecccceecchhhhhHHHHHHHHHHhhh-c-ccccCcCCccchhhhccccCc-eeeEEEecchhh
Confidence 4555667889999999999999999999999999999988653 2 344444444433222222222 34788998842
Q ss_pred ---CccccccccccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhccccccC--CCCceEEccCCC
Q 000053 703 ---GREEFIEHSCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNS--AGFAVKVMSVDG 777 (2576)
Q Consensus 703 ---g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~--~~~~v~V~TVd~ 777 (2576)
|..++....+.|..||+.++++..++...|. +...|.|.|.|.+|+.+|++.+..+.... .+..-.|+|||.
T Consensus 1122 ~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgy---pa~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk 1198 (1320)
T KOG1806|consen 1122 KGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGY---PANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDK 1198 (1320)
T ss_pred ccccccCCCcccccCCchhhhHHHHHHHHHHhCC---chhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCcccc
Confidence 2333366678899999999999999988776 67789999999999999999998765543 355778999999
Q ss_pred CCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhc
Q 000053 778 FQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTR 830 (2576)
Q Consensus 778 fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~ 830 (2576)
|||+..|.||+|+|++.. +|.+.|++|+.||+||||.+++|+|....+.+
T Consensus 1199 ~qgqqndfiIlslv~tr~---~gh~rdvrrlvva~srarlglyv~~r~~lf~~ 1248 (1320)
T KOG1806|consen 1199 FQGQQNDFIILSLVRTRE---VGHLRDVRRLVVAMSRARLGLYVLCRRSLFRS 1248 (1320)
T ss_pred ccccccceEEeeehhhhh---hhhhccHHHHHHHHHHhhccchhHHHHHHHHH
Confidence 999999999999999974 67799999999999999999999998766544
No 24
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.94 E-value=1.3e-25 Score=276.88 Aligned_cols=224 Identities=18% Similarity=0.237 Sum_probs=162.6
Q ss_pred CCHHHHHHHHHHHHHhccc-CCCCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCC-cchhhHHHH
Q 000053 1345 FDLADLVNDLHHRLKEESY-KGDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGID-FRFQDIRSL 1422 (2576)
Q Consensus 1345 ~D~~Dlv~~~~~~L~~~~~-~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~-frf~~l~~~ 1422 (2576)
++.+|+...++-.....+. ...++.|++|||+||.++.|+.-++.+|.. .+++++||-.|.||...+ -.|......
T Consensus 505 l~~dD~a~~lyikd~ldG~k~~~~~kh~vIDeaqdys~~q~~~~r~l~~~--as~tivgd~gq~i~~~~~e~~~~e~~~~ 582 (747)
T COG3973 505 LLSDDVAPRLYIKDPLDGIKTERRLKHTVIDEAQDYSRFQFTDNRTLAER--ASMTIVGDYGQVIYDEAQELSPMERMDV 582 (747)
T ss_pred hhhhhhhhhhhhccccccccccccccceeechhhhcchhhhHHHhhhhhh--ccceEeccCCceehhhhcccCHHHHHHH
Confidence 4444544444433222222 356789999999999999999999999976 789999999999996421 234444444
Q ss_pred HHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCC
Q 000053 1423 FYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGD 1502 (2576)
Q Consensus 1423 f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~ 1502 (2576)
++.. ++...+.|..+|||+.+|.++||++.. . ..+..+-.++|++|..+.+..
T Consensus 583 ~fed-----------------~~~e~v~l~~syrSt~eI~efan~~l~-------d---~~~~~p~~rsge~p~~i~~~~ 635 (747)
T COG3973 583 FFED-----------------PSFEYVGLIASYRSTAEIDEFANSLLP-------D---RFRIHPLTRSGEKPAVIMSVA 635 (747)
T ss_pred HHhC-----------------CCchhhhhhhhhcChHHHHHHHHHhcc-------C---CCccchhhcCCCCceeeeccc
Confidence 4332 235667899999999999999999973 1 222233346699999999988
Q ss_pred HHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhC----------------CCeEEEeeeccCCccccEEE
Q 000053 1503 EENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVG----------------KQALVLTIVESKGLEFQDVL 1566 (2576)
Q Consensus 1503 ~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~----------------~~V~V~TIH~aKGLEFd~Vi 1566 (2576)
.++.....-..+......+. ..++|++++......+.+.++ .+..|+.++-+||||||+||
T Consensus 636 ne~l~qr~~~ii~~mkk~~~---etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~vi 712 (747)
T COG3973 636 NEELVQRNPDIIPRMKKRGS---ETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVI 712 (747)
T ss_pred hHHHHHhhHHHHHHHHhcCC---CceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEE
Confidence 87766655555554444433 358899999999998888774 56889999999999999999
Q ss_pred EeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEec
Q 000053 1567 LYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENK 1636 (2576)
Q Consensus 1567 L~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~ 1636 (2576)
|+++- .++.....+|.||||+|||-+.|+|++.+
T Consensus 713 v~d~s------------------------------------~~e~te~~~r~LYva~TRAlh~l~if~~g 746 (747)
T COG3973 713 VVDPS------------------------------------IVEETEQDLRDLYVAVTRALHSLYIFGEG 746 (747)
T ss_pred Eecch------------------------------------hhcccccchhhHHHHHHHHHHHHHHhhcC
Confidence 99441 11111245899999999999999998654
No 25
>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=99.92 E-value=1.4e-24 Score=271.91 Aligned_cols=282 Identities=22% Similarity=0.273 Sum_probs=160.5
Q ss_pred CCHHHHHhhcC-CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEcC
Q 000053 1070 VTDEQLDMILF-PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTVS 1148 (2576)
Q Consensus 1070 Lt~EQ~~iI~~-~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTfS 1148 (2576)
||+||.++|.. .+|++|.|+|||||||||+.|+..+ +... ..++.+||++|||
T Consensus 1 l~~eQ~~~i~~~~~~~lV~a~AGSGKT~~l~~ri~~l-----l~~~---------------------~~~~~~Il~lTft 54 (315)
T PF00580_consen 1 LTDEQRRIIRSTEGPLLVNAGAGSGKTTTLLERIAYL-----LYEG---------------------GVPPERILVLTFT 54 (315)
T ss_dssp S-HHHHHHHHS-SSEEEEEE-TTSSHHHHHHHHHHHH-----HHTS---------------------SSTGGGEEEEESS
T ss_pred CCHHHHHHHhCCCCCEEEEeCCCCCchHHHHHHHHHh-----hccc---------------------cCChHHheecccC
Confidence 79999999988 5799999999999999999999633 2111 1345799999999
Q ss_pred HHHHHHHHHHHHhhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhHH
Q 000053 1149 PKLCFAVKQHISHMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFER 1228 (2576)
Q Consensus 1149 ~~la~eik~ri~~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~~ 1228 (2576)
+.+|.+|++|+............. ...+.... ...+-+.|.|||+||..+-.......
T Consensus 55 ~~aa~e~~~ri~~~l~~~~~~~~~-------~~~~~~~~------------~~~~~~~i~T~hsf~~~ll~~~~~~~--- 112 (315)
T PF00580_consen 55 NAAAQEMRERIRELLEEEQQESSD-------NERLRRQL------------SNIDRIYISTFHSFCYRLLREYGYEI--- 112 (315)
T ss_dssp HHHHHHHHHHHHHHHHHCCHCCTT--------HHHHHHH------------HHCTTSEEEEHHHHHHHHHHHHHGGT---
T ss_pred HHHHHHHHHHHHHhcCcccccccc-------cccccccc------------cccchheeehhhhhhhhhhhhhhhhh---
Confidence 999999999998754321100000 00000000 00123558899999976632211000
Q ss_pred Hhhhhhhhhccccc------hhHHHHHHHHhh-----hhhhh--------hhcccCChhhhHhhhhcCChhHHHHHHHHH
Q 000053 1229 FHNIWKNYGQLQNS------KSVFIETIIRKK-----EVNYE--------RFSSSYWPHFNAQLARKLDPSRVFTEIISH 1289 (2576)
Q Consensus 1229 ~~~~~~~~~~~~~~------~~~~~~~~i~~~-----~v~~~--------~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~ 1289 (2576)
.....+...... ......+..... ....+ .+...+|.. ............+...
T Consensus 113 --~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~ 185 (315)
T PF00580_consen 113 --GIDPNFEILDEEEQEILIQRELFKEILERYEKDKLNLDKEKLEKLIKEFSKSRYIKK-----IDESLSKRFIEELKEF 185 (315)
T ss_dssp --TSHTTTEEECHHHHHHCCHHHHHHHHHHCHSTTTTTHHCCHHHHHHHHHCCCCCCCC-----CCCCCHHHHHHHHHHH
T ss_pred --hccccceeecchhcccccchhhhhHHhhhhccccccccccccccccccccccccccc-----cccccchhhHHHHHHH
Confidence 000000111100 011111122100 00000 000000100 0001112222333333
Q ss_pred HhccccchhhhccCCCHHHHHhhhhhccccccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhccc----CC
Q 000053 1290 IKGGLQSIEVVNGKLNREDYVNLSETRNSSLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESY----KG 1365 (2576)
Q Consensus 1290 IkG~~~~~~~~~~~ls~e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~----~~ 1365 (2576)
++. .....+........ .......+..++++++.|++.+...+.+||+|++..+...+...+. ..
T Consensus 186 ~~~------~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~y~~~~~~~~~~d~~d~~~~~~~~l~~~~~~~~~~~ 254 (315)
T PF00580_consen 186 IKR------IKEKQLEPKEQEKK-----FEISKNEREEIAEIYEEYEEQLRERGLIDFDDLLLLALELLRKDPEIREKIR 254 (315)
T ss_dssp HHH------HHHTTCCTTHHTC-------TSSSHHHHHHHHHHHHHHHHHHHHTCEEHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred HHH------hhhhccchhhhcch-----hhhhhHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHhhccCHHHHHHHH
Confidence 321 01112222111110 1233456788999999999999999999999999999999887432 35
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHH
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRS 1421 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~ 1421 (2576)
.+|+||+||||||+|+.|+.+|..|+.. ..++++|||++|+||+ ||+++...
T Consensus 255 ~~~~~i~IDE~QD~s~~Q~~il~~l~~~-~~~~~~vGD~~QsIY~---frga~~~~ 306 (315)
T PF00580_consen 255 QRYDHILIDEFQDTSPLQLRILKKLFKN-PENLFIVGDPNQSIYG---FRGADPEL 306 (315)
T ss_dssp HHSSEEEESSGGG-BHHHHHHHHHHHTT-TTTEEEEE-GGG--GG---GGTB-THH
T ss_pred hhCCeEEeEccccCCHHHHHHHHHHHHh-hceeEEeCCCCcceee---cCCCCHHH
Confidence 6899999999999999999999999987 4469999999999987 66666543
No 26
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.92 E-value=1.2e-24 Score=260.36 Aligned_cols=72 Identities=40% Similarity=0.597 Sum_probs=48.7
Q ss_pred HHHHHhcCCcEEEEccccchhhhhccC-CCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccc
Q 000053 550 LKRFCLKRASLFFSTASSSYMLHSVAM-KPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVES 622 (2576)
Q Consensus 550 i~~~~l~~a~VI~~T~sss~~l~~~~~-~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s 622 (2576)
+...+++.++||+||++++........ ..||+||||||||++++++++|+.. +++++||||||+||||++.+
T Consensus 163 ~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAsq~~e~~~l~~l~~-~~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 163 LRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEASQITEPEALIPLSR-APKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp HHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGGGS-HHHHHHHHTT-TBSEEEEEE-TTS-----S-
T ss_pred hhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCCCcchHHHHHHHHH-hCCEEEEECChhhcCCeeCC
Confidence 557778999999999998743322222 2799999999999999999999964 44999999999999999876
No 27
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=99.86 E-value=5.9e-20 Score=264.61 Aligned_cols=308 Identities=18% Similarity=0.198 Sum_probs=175.9
Q ss_pred EEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEE----EcCHHHHHHHHHHHH
Q 000053 1085 FILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFV----TVSPKLCFAVKQHIS 1160 (2576)
Q Consensus 1085 lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~v----TfS~~la~eik~ri~ 1160 (2576)
+|+||||||||++|+.|+.+. +..+ ...+..+++| ||+ ++.++.
T Consensus 5 fi~G~aGSGKT~~l~~ri~~~-----l~~~---------------------~~~~~~illVPeq~TF~------~e~rl~ 52 (1158)
T TIGR02773 5 FIYGRAGTGKSTFCIDEIKQK-----IKEN---------------------PLGKPIILIVPDQMTFQ------MEQALL 52 (1158)
T ss_pred EEEeCCCCChHHHHHHHHHHH-----HhhC---------------------CCCCcEEEEcCCcccHH------HHHHHH
Confidence 799999999999999999532 2111 1233566777 886 456555
Q ss_pred hhhccccCCcccccCCCCCCcchhhhhhhhcCCCccccCCcccCCchhcHHHHHHHHhccccchhhHHHhhhhhhhhccc
Q 000053 1161 HMKSSTIGGKFATEGSLIDTDDIDDAEKLKDIPNSFIDIPAKSYPLVITFHKFLMMLDGTLCNSYFERFHNIWKNYGQLQ 1240 (2576)
Q Consensus 1161 ~l~~~~~~~~~~~~~~~~~~~~~d~~e~f~~ip~~~~~l~~~~fPl~~Tf~~fl~lLd~~l~~~ff~~~~~~~~~~~~~~ 1240 (2576)
.+.... + . .-..|.|||+|+..+-...+..- ...+.
T Consensus 53 ~~~~~~-~---------------------------~------~~v~V~SF~rLa~~ilr~~~~~~----------~~~ld 88 (1158)
T TIGR02773 53 NDIELN-G---------------------------S------LRAQVLSFSRLAWRVFQETGGLT----------RTFLT 88 (1158)
T ss_pred Hhcccc-C---------------------------e------EEEEEeeeHHHHHHHHHHcCCcc----------ccccc
Confidence 442110 0 0 01238899999977633321100 00111
Q ss_pred c-chhHHHHHHHHhhhhhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCHHHHHhhhhh-ccc
Q 000053 1241 N-SKSVFIETIIRKKEVNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNREDYVNLSET-RNS 1318 (2576)
Q Consensus 1241 ~-~~~~~~~~~i~~~~v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~e~Y~~l~r~-r~~ 1318 (2576)
. .+...++.++.........|... ....+....+..+++.+| ...+++++....... ...
T Consensus 89 ~~g~~~ll~~il~~~~~~l~~f~~~---------~~~~gf~~~l~~~Iselk---------~~~i~pe~l~~~~~~~~~~ 150 (1158)
T TIGR02773 89 QAGKEMMIRKLLEEHKDELKVYQKA---------SRQKGFSAKLSEMITEFK---------RYEVTPEDLRTFAEDIEDS 150 (1158)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHhh---------cCCccHHHHHHHHHHHHH---------HcCCCHHHHHHHHHhcccc
Confidence 1 12344455555443333333221 111222334445555555 456777777554322 111
Q ss_pred -cccHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcccCCCCccEEEEecCCCCCHHHHHHHHHHhhcCCCc
Q 000053 1319 -SLSRQKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESYKGDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEG 1397 (2576)
Q Consensus 1319 -~l~~~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~ 1397 (2576)
.+ ......+..+|..|++.+.+ +++|++|++..+...|...+.. +..+|+||||||||+.|+.+|+.|++. ..+
T Consensus 151 ~~l-~~Kl~dl~~IY~~Ye~~l~~-~~iD~dDlL~~~~~~L~~~~~l--~~~~I~VDeFqdf~~~Q~~lI~~L~~~-~~~ 225 (1158)
T TIGR02773 151 TRL-KEKLEDLSLIYQYFEERLHG-EYIDSEDQLNLLIEKLSQSEWI--KGAEIYIDGFHSFTPQEYSVIGALMKK-AKK 225 (1158)
T ss_pred hHH-HHHHHHHHHHHHHHHHHHHh-cCCChHHHHHHHHHHhccCccc--CCCEEEEccCCCCCHHHHHHHHHHHHh-CCc
Confidence 11 22234678899999999886 8999999999999999765543 357999999999999999999999986 568
Q ss_pred EEEEeCCCCccccCCC----cchhh--HHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCC--chHHHHHHHHHH
Q 000053 1398 FVFSGDTAQTIARGID----FRFQD--IRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRT--HVGVLNLAQSII 1469 (2576)
Q Consensus 1398 l~~vGD~~QSIy~g~~----frf~~--l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS--~~~Il~lAn~vi 1469 (2576)
+++|||.+|+ +++.+ |+|.. ...+. .+... .++ .....+.+..|++. ++.+..+...++
T Consensus 226 v~Vv~d~Dq~-~~~~~~~~lf~~~~~~~~~l~--~~~~~-~~~---------~~~~~i~~~~~~~~~~~~~l~~Lek~l~ 292 (1158)
T TIGR02773 226 VTVTLTLDGP-KSLEDELSLFRATSETYYRLK--ELAKE-LGI---------EVEEPIFLNEYRPNKKNKELAHLEKQFD 292 (1158)
T ss_pred EEEEEEeCCc-cccCCccccchhHHHHHHHHH--HHHHH-cCC---------CcccccccccccCCCCCHHHHHHHHHHh
Confidence 9999999998 22211 33321 11110 11000 000 01122445667774 677888887776
Q ss_pred HHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhh
Q 000053 1470 ELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGE 1516 (2576)
Q Consensus 1470 ~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~ 1516 (2576)
.... .. ....+..+.+..+.+...++..++..+..
T Consensus 293 ~~~~-------~~-----~~~~~~~I~i~~~~~~~~Eae~va~~I~~ 327 (1158)
T TIGR02773 293 ARPF-------NA-----YIEEDGSISIFEANNRRAEVEGVARQILR 327 (1158)
T ss_pred hCCC-------CC-----CCCCCCCeEEEEcCCHHHHHHHHHHHHHH
Confidence 4210 00 00124456666667766666666665543
No 28
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=99.82 E-value=4.7e-19 Score=217.43 Aligned_cols=279 Identities=17% Similarity=0.191 Sum_probs=213.9
Q ss_pred hhcHHHHHHHHHHcCChhHHHHHHHHH--HHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHH
Q 000053 1700 EQNYEMATICFEKAKDTYWEGRSKASG--LKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGT 1777 (2576)
Q Consensus 1700 ~~~ye~A~k~f~ragd~~~~~l~~A~~--l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~e 1777 (2576)
.++|++|+..-+--|.+.+.++...|. |..+.+. .+||++-++-|+--.|+++|.++|.+-+|++
T Consensus 570 lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd-------------~ka~elk~sdgd~laaiqlyika~~p~~a~~ 636 (1636)
T KOG3616|consen 570 LHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQD-------------EKAAELKESDGDGLAAIQLYIKAGKPAKAAR 636 (1636)
T ss_pred HHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCch-------------hhhhhhccccCccHHHHHHHHHcCCchHHHH
Confidence 566777777777777776666555442 3333332 7899999999999999999999999999998
Q ss_pred HHHHh----CCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHH
Q 000053 1778 IYLER----CEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKE 1853 (2576)
Q Consensus 1778 ly~~~----~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~ 1853 (2576)
+.... .++..+++.|..+.+...|++|.++|+|..+|++|+++|.|+..|.+|++++| -..+.+++..++.|.
T Consensus 637 ~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielar---fafp~evv~lee~wg 713 (1636)
T KOG3616|consen 637 AALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELAR---FAFPEEVVKLEEAWG 713 (1636)
T ss_pred hhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHH---hhCcHHHhhHHHHHh
Confidence 87643 35678899999999999999999999999999999999999999999999999 677888889999999
Q ss_pred HHHHhHHhHHHHHHHHHHcCChHHHHHH-------HHHhCcHHH--------------------------HHHHHHhcCC
Q 000053 1854 MKKIEQDFLQSCALHFHKLNDNKSMMKF-------VRAFHSMDL--------------------------IRNFLNSKGC 1900 (2576)
Q Consensus 1854 ~~~~e~~~le~~a~~f~klgd~~~A~~~-------~k~~~~~e~--------------------------a~~~l~~~~~ 1900 (2576)
.......+++++.+||.++++..+|+++ -+++.+.+. |.+++.+.+.
T Consensus 714 ~hl~~~~q~daainhfiea~~~~kaieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~ 793 (1636)
T KOG3616|consen 714 DHLEQIGQLDAAINHFIEANCLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADL 793 (1636)
T ss_pred HHHHHHHhHHHHHHHHHHhhhHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcch
Confidence 9999999999999999999888876443 333333331 3344444444
Q ss_pred HHHHHHHHHhccCHHHHHHHH-----------------------------------------------------------
Q 000053 1901 FDELLVLEEESESFMDAANIA----------------------------------------------------------- 1921 (2576)
Q Consensus 1901 ~dea~ell~~~g~feeAa~ia----------------------------------------------------------- 1921 (2576)
+..|+..+..+|+|+.|++++
T Consensus 794 ~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv 873 (1636)
T KOG3616|consen 794 FKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLV 873 (1636)
T ss_pred hHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHH
Confidence 444554444455555441111
Q ss_pred --------------------------------HHcCCHHHHHHHHHHcCCHHHHHHHHH------HHHHHHhhcCCCCCC
Q 000053 1922 --------------------------------RLRGDILRTVDLLQKVGNFKEACNLTL------NYVLSNSLWSSGSKG 1963 (2576)
Q Consensus 1922 --------------------------------~~~G~~~eA~kly~~aG~~~eA~klll------~~~~~~~lw~~~~~g 1963 (2576)
.+.|.|.-|+.||...|-|++|.++.- .+-.+..||+.+-+|
T Consensus 874 ~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksigg 953 (1636)
T KOG3616|consen 874 EKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAGDFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGG 953 (1636)
T ss_pred HHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCc
Confidence 123444455555555566666666543 245678999999999
Q ss_pred CCccccccHHHHHHHHHHHHhhhhccchhhh
Q 000053 1964 WPLKQFTQKKELLEKAKLLAKNESNKFYNFV 1994 (2576)
Q Consensus 1964 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 1994 (2576)
..++++|+|-|||+.|++||.++|.|.|+|-
T Consensus 954 daavkllnk~gll~~~id~a~d~~afd~afd 984 (1636)
T KOG3616|consen 954 DAAVKLLNKHGLLEAAIDFAADNCAFDFAFD 984 (1636)
T ss_pred HHHHHHHHhhhhHHHHhhhhhcccchhhHHH
Confidence 9999999999999999999999999999884
No 29
>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=99.81 E-value=2.9e-19 Score=236.97 Aligned_cols=55 Identities=25% Similarity=0.294 Sum_probs=45.6
Q ss_pred eEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhh
Q 000053 770 VKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLT 829 (2576)
Q Consensus 770 v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~ 829 (2576)
..+.|||++||+|+|.||+....... -+.+++.+|||+||||+.++|+|+...|.
T Consensus 521 ayA~TvHKSQGsef~~Vi~~l~~~~~-----~~l~r~llYTaiTRAk~~l~i~~~~~~l~ 575 (586)
T TIGR01447 521 AFAMTVHKSQGSEFDHVILILPNGNS-----PVLTRELLYTGITRAKDQLSVWSDKETLN 575 (586)
T ss_pred EEEEEeeHhcCCcCCeEEEECCCCCC-----cccccceeEEEeeehhCeEEEEECHHHHH
Confidence 45679999999999999998764321 25678999999999999999999976553
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=99.81 E-value=4.9e-17 Score=238.85 Aligned_cols=71 Identities=18% Similarity=0.170 Sum_probs=54.8
Q ss_pred CCCEEEEEcCCCCChhHHhhhccc--cCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccC
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQL--SGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMH 655 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~l--~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmh 655 (2576)
+-|+||||||||+...++...+.. ....++|||||+.||||+-.+ +.|.-|...|.+.+.|+..-|..
T Consensus 529 ~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG----------~~f~~L~~~gv~t~~l~~i~rq~ 598 (1960)
T TIGR02760 529 NKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAG----------SAIDLLKEGGVTTYAWVDTKQQK 598 (1960)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccc----------hHHHHHHHCCCcEEEeecccccC
Confidence 468999999999999887777752 235799999999999998533 45777777788888887765554
Q ss_pred ccc
Q 000053 656 PSI 658 (2576)
Q Consensus 656 p~I 658 (2576)
-.+
T Consensus 599 ~~v 601 (1960)
T TIGR02760 599 ASV 601 (1960)
T ss_pred cce
Confidence 443
No 31
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=99.79 E-value=8.1e-18 Score=226.25 Aligned_cols=219 Identities=17% Similarity=0.147 Sum_probs=130.3
Q ss_pred CCCccEEEEecC-CCCCHHHHHHHHHHhhcCCCcEEEEeCCCC---ccccCCCcchhhH-HHHHHHhhhhhccCCCCCCc
Q 000053 1365 GDEFHFVYIDEV-QDLTMSQVALFKYVCKNIEEGFVFSGDTAQ---TIARGIDFRFQDI-RSLFYKKFVLESRNNGNDGR 1439 (2576)
Q Consensus 1365 ~~~yd~IlVDE~-QD~~~~ql~LL~~L~~~~~~~l~~vGD~~Q---SIy~g~~frf~~l-~~~f~~~f~~~~~~~~~~~~ 1439 (2576)
...||+|+|||+ |.+.|. .+-.+... .++++|||+.| .|.... -.++ .++|.+-..
T Consensus 359 ~~~Fd~vIIDEAsQ~~ep~---~lipl~~~--~~~vLvGD~~QLpP~v~s~~---~~~l~~SlferL~~----------- 419 (637)
T TIGR00376 359 GWEFDVAVIDEASQAMEPS---CLIPLLKA--RKLILAGDHKQLPPTILSHD---AEELELTLFERLIK----------- 419 (637)
T ss_pred cCCCCEEEEECccccchHH---HHHHHhhC--CeEEEecChhhcCCcccccc---ccccchhHHHHHHH-----------
Confidence 468999999999 766663 22223332 47999999999 664311 1111 233322110
Q ss_pred ccccCCccEEecccccCCchHHHHHHHHHHHHHh-ccCCCC----ccccCCccc-----ccCCCCCEEEc----------
Q 000053 1440 QEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLY-RFFPHS----VDILKPETS-----LIYGEPPILLE---------- 1499 (2576)
Q Consensus 1440 ~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~-~~~p~~----~~~l~~~~~-----~~~G~~P~l~~---------- 1499 (2576)
..+.....|+.+||+|+.|.++++..+-... ...+.- ...++.... ......|.++.
T Consensus 420 ---~~~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~~fidt~g~~~~e~ 496 (637)
T TIGR00376 420 ---EYPERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANILLRDLPKVEATDSEDDLETEIPLLFIDTSGCELFEL 496 (637)
T ss_pred ---hCCCceeecchhcCCCHHHHhhhHHhhcCCccccCcchhhhhhhhcccccccccccccCCCCCEEEEECCCcccccc
Confidence 0112356799999999999999998762110 000000 000000000 00112233321
Q ss_pred ------cCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhC---CCeEEEeeeccCCccccEEEEeec
Q 000053 1500 ------SGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVG---KQALVLTIVESKGLEFQDVLLYKF 1570 (2576)
Q Consensus 1500 ------~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~---~~V~V~TIH~aKGLEFd~ViL~n~ 1570 (2576)
+..+..++..+...+......++. ..+++||++.+.+...+...+. ..+.|.|+|.++|.|.|+||+.-+
T Consensus 497 ~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~-~~~IgVItPY~aQv~~L~~~l~~~~~~i~v~TVd~fQG~E~DvIi~S~v 575 (637)
T TIGR00376 497 KEADSTSKYNPGEAELVSEIIQALVKMGVP-ANDIGVITPYDAQVDLLRQLLEHRHIDIEVSSVDGFQGREKEVIIISFV 575 (637)
T ss_pred ccCCCCCcCCHHHHHHHHHHHHHHHhcCCC-cceEEEEcccHHHHHHHHHHHHhhCCCeEEccccccCCccccEEEEEEE
Confidence 111345566666666655443433 3578999999999888887774 469999999999999999998633
Q ss_pred ccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCC
Q 000053 1571 FSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEE 1638 (2576)
Q Consensus 1571 f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~ 1638 (2576)
.+.. ... ..+-.+.|.|+||+||||+.|+|+++...
T Consensus 576 rsn~-----------------------~~~---------~gFl~d~rRLNVAlTRAK~~LiIvGn~~~ 611 (637)
T TIGR00376 576 RSNR-----------------------KGE---------VGFLKDLRRLNVALTRARRKLIVIGDSRT 611 (637)
T ss_pred ecCC-----------------------CCC---------cccccCcceeeeehhhhhCceEEEECHHH
Confidence 2110 000 01113467799999999999999987654
No 32
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.79 E-value=1.2e-18 Score=231.17 Aligned_cols=51 Identities=39% Similarity=0.542 Sum_probs=44.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC----CCeEEEEecChHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM----KFRTLVCTPTIVAIKELASRVVK 277 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~----~~rVLv~ApTN~AVd~V~~RL~~ 277 (2576)
+++.+|+||||||||+|+..++..+++. +.+|++||||+.|...+.+++..
T Consensus 167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~ 221 (615)
T PRK10875 167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK 221 (615)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence 7899999999999999999999998764 36899999999999887776653
No 33
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.76 E-value=6.8e-18 Score=230.10 Aligned_cols=210 Identities=17% Similarity=0.199 Sum_probs=122.1
Q ss_pred CCCEEEEEcCCCCChhHHhhhcc-ccCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc-cCCccccccccccC
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQ-LSGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL-RHSKHLLSIQYRMH 655 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~-l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~-g~~~~~L~~qYRmh 655 (2576)
+.|+||||||||+....+...+. ++...++|+|||+.||||+..+ ..|..+... ..+.+.|++.||..
T Consensus 416 ~~~llIvDEaSMvd~~~~~~Ll~~~~~~~rlilvGD~~QLpsV~~G----------~v~~dl~~~~~~~~~~L~~i~RQ~ 485 (720)
T TIGR01448 416 DCDLLIVDESSMMDTWLALSLLAALPDHARLLLVGDTDQLPSVGPG----------QVLKDLILSQAIPVTRLTKVYRQA 485 (720)
T ss_pred cCCEEEEeccccCCHHHHHHHHHhCCCCCEEEEECccccccCCCCC----------chHHHHHhcCCCCEEEeCeeeccC
Confidence 47899999999999876555443 3445799999999999998543 235545444 47889999999986
Q ss_pred c--ccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhccc
Q 000053 656 P--SISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGWI 733 (2576)
Q Consensus 656 p--~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~ 733 (2576)
. .|....... -.|.+.. .. .+.+... + .+..+ .....+..++..+.....
T Consensus 486 ~~s~i~~~a~~i-~~g~~~~---~~---------------~~~~~~~----~----~~~~~-~~~~~i~~~v~~~~~~~~ 537 (720)
T TIGR01448 486 AGSPIITLAHGI-LHGEAPA---WG---------------DFKFLNL----T----RSEPE-GAARHIPLMVEKIVGMAR 537 (720)
T ss_pred CCcHHHHHHHHH-HcCCCch---hh---------------hhhcccc----c----cccch-hhHHHHHHHHHHHHHHHH
Confidence 4 355554432 1222210 00 0000000 0 00011 111223333443333110
Q ss_pred -CCCCCCeEEEEcccH---HHHHHHHHHhcccccc------------------------------------------CCC
Q 000053 734 -NSKEKLSIGIVSPYI---AQVAAIQEKLGSKYVN------------------------------------------SAG 767 (2576)
Q Consensus 734 -~~~~~~sIgIITPY~---aQv~~I~~~L~~~~~~------------------------------------------~~~ 767 (2576)
......++-||||.+ .-+..|.+.+++.+.. ...
T Consensus 538 ~~~~~~~d~qVL~p~~~g~~Gv~~lN~~lq~~lnp~~~~~~~~~~~~~~~~~GDkVm~~~N~~~~~v~NGdiG~I~~i~~ 617 (720)
T TIGR01448 538 VGGIPGADIQVLAPMYKGPLGIDALNQHLQALLNPYQKGQGGIEIAEGEYRKGDRVMQTKNDYNNEIFNGDLGMIVKIEG 617 (720)
T ss_pred hcCCChhHeeEeCccccCccCHHHHHHHHHHHhCccCCCCceeecCCceecCCCEEEEeeecchhccccCCeeEEEeccc
Confidence 011334677777763 1222233222211100 000
Q ss_pred ------Cce----------------------EEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccE
Q 000053 768 ------FAV----------------------KVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCL 819 (2576)
Q Consensus 768 ------~~v----------------------~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~L 819 (2576)
..+ .+.|||++||+|+|.||+....+.. .+.+++.++||+||||+.+
T Consensus 618 ~~~~~~~~i~v~f~g~~v~~~~~~~~~l~lAYAiTvHKsQGSe~~~Vii~l~~~~~-----~~l~r~llYTAiTRAk~~l 692 (720)
T TIGR01448 618 AKQGKKDQVVVDFDGNEVELTRAELFNLTLAYATSIHKSQGSEFPTVILPIHTAHM-----RMLYRNLLYTALTRAKKRV 692 (720)
T ss_pred cccCCCceEEEEECCeEEEEcHHHhhhhhhhheeeehhccCccCCEEEEECCcccc-----hhhhhchheeeeeeeceEE
Confidence 001 1349999999999999998765432 3678999999999999999
Q ss_pred EEEechhhhhc
Q 000053 820 WILGNERTLTR 830 (2576)
Q Consensus 820 iIVGn~~~L~~ 830 (2576)
+|||+...|..
T Consensus 693 ~lvg~~~a~~~ 703 (720)
T TIGR01448 693 ILVGSAEAFDI 703 (720)
T ss_pred EEEECHHHHHH
Confidence 99999877743
No 34
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.76 E-value=9.3e-18 Score=203.39 Aligned_cols=235 Identities=17% Similarity=0.204 Sum_probs=155.9
Q ss_pred CCCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccC
Q 000053 1365 GDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQ 1444 (2576)
Q Consensus 1365 ~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~ 1444 (2576)
..-||||+|||.|||...-++|+..+++. ..+++++||.-|+|.. +......++|...- -+.+...-.+.
T Consensus 293 ~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd-~KrlvyAyDelQnls~---~~m~ppe~iFg~d~------dg~P~V~l~ra 362 (660)
T COG3972 293 KKAYDYILIDESQDFPQSFIDLCFMVTKD-KKRLVYAYDELQNLSN---VKMRPPEEIFGPDS------DGEPRVNLARA 362 (660)
T ss_pred cccccEEEecccccCCHHHHHHHHHHhcC-cceEEEehHhhhcccc---cCCCCHHHhcCcCC------CCCcccccccC
Confidence 46799999999999999999999998885 6789999999999954 56666667775431 01011121223
Q ss_pred CccEEecccccCCchHHHHHHHHHHHHH----hccCCC--------------------CccccC-Ccccc----cCCC--
Q 000053 1445 LSDIFNLRQNFRTHVGVLNLAQSIIELL----YRFFPH--------------------SVDILK-PETSL----IYGE-- 1493 (2576)
Q Consensus 1445 ~~~~~~L~~NYRS~~~Il~lAn~vi~~~----~~~~p~--------------------~~~~l~-~~~~~----~~G~-- 1493 (2576)
+...+.|.++||+++..+-+|+.+--.+ ...|.. .+.... ++.+. ..+.
T Consensus 363 dr~DiVL~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~ 442 (660)
T COG3972 363 DRNDIVLKKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPT 442 (660)
T ss_pred ccccchHHHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChh
Confidence 4566889999999999999998764221 111211 011001 01000 0111
Q ss_pred -CCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHH----HHHhC----------------------
Q 000053 1494 -PPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEI----SNYVG---------------------- 1546 (2576)
Q Consensus 1494 -~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l----~~~L~---------------------- 1546 (2576)
...++.+++..+++.++..++.+....... ..+++|+..+....+.+ ...|.
T Consensus 443 ~i~~fi~fd~~~deivwi~~qI~~~~edeLe-~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~d 521 (660)
T COG3972 443 AIHLFIGFDNGPDEIVWIIIQIKEFREDELE-QDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQD 521 (660)
T ss_pred hhheeeccCCcchhhHHHHHHHHHhcccccc-cCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccC
Confidence 124566677888999999998885544444 24566666666543332 22221
Q ss_pred CCeEEEeeeccCCccccEEEEeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccc
Q 000053 1547 KQALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRT 1626 (2576)
Q Consensus 1547 ~~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRA 1626 (2576)
+.|.+++|+.|||.|++.|+++++..-+ ..+...||.+|+||||.
T Consensus 522 gkvtis~IyrAKGnEapfV~aL~a~~ls-----------------------------------~~la~~RN~LfTamTRS 566 (660)
T COG3972 522 GKVTISRIYRAKGNEAPFVYALGAAYLS-----------------------------------TGLADWRNILFTAMTRS 566 (660)
T ss_pred ceEEeeeehhccCCCCcEEEEehhhhhC-----------------------------------ccchhHHhHHHHHHhhh
Confidence 4799999999999999999998541111 12346688999999999
Q ss_pred cceeEEEEecCCCCchhhH
Q 000053 1627 RQRLWIWENKEEFSKPMFD 1645 (2576)
Q Consensus 1627 r~~L~I~~s~~~~~~p~~~ 1645 (2576)
|..+.++..++..+.-+.+
T Consensus 567 kawvrv~glgpqmqrLi~e 585 (660)
T COG3972 567 KAWVRVVGLGPQMQRLITE 585 (660)
T ss_pred hhhhhhhccChHHHHHHHH
Confidence 9999999987765554433
No 35
>PRK11054 helD DNA helicase IV; Provisional
Probab=99.75 E-value=4.6e-17 Score=219.60 Aligned_cols=211 Identities=19% Similarity=0.282 Sum_probs=129.7
Q ss_pred CCCCEEEEEcCCCCChhHHhhhcccc---CcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc-c-CCccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLS---GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL-R-HSKHLLSIQ 651 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~---~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~-g-~~~~~L~~q 651 (2576)
.++++|+|||++.++..+.-+.-.+. +..++++|||+.|---- -.|....++..+... + ...+.|+++
T Consensus 429 ~~~~~IlVDE~QD~s~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~-------frGa~~~~~~~f~~~f~~~~~~~L~~n 501 (684)
T PRK11054 429 SPWKHILVDEFQDISPQRAALLAALRKQNSQTTLFAVGDDWQAIYR-------FSGADLSLTTAFHERFGEGDRCHLDTT 501 (684)
T ss_pred hcccEEEEEccccCCHHHHHHHHHHhccCCCCeEEEEECCCccccc-------cCCCChHHHHHHHhhcCCCeEEEeCCC
Confidence 36999999999999988755544432 23689999999994211 112222334333321 1 245789999
Q ss_pred cccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhc
Q 000053 652 YRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKG 731 (2576)
Q Consensus 652 YRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~ 731 (2576)
||++++|.++.|..+=.+. ........ ....++ .|.+.+-- ..+.+.+++.+..+..
T Consensus 502 YRs~~~I~~~An~~i~~n~-----~~~~k~l~-s~~~g~--~p~v~~~~--------------~~~~~~il~~l~~~~~- 558 (684)
T PRK11054 502 YRFNSRIGEVANRFIQQNP-----HQLKKPLN-SLTKGD--KKAVTLLP--------------EDQLEALLDKLSGYAK- 558 (684)
T ss_pred CCCCHHHHHHHHHHHHhCc-----cccCCccc-ccCCCC--CceEEEeC--------------CHHHHHHHHHHHHhhc-
Confidence 9999999999986541111 00000000 000111 11111110 1244444544444332
Q ss_pred ccCCCCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCCEEEEEcccCCCCCc-------------
Q 000053 732 WINSKEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEEDIIIISTVRSNNGGS------------- 798 (2576)
Q Consensus 732 ~~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~------------- 798 (2576)
+..+|+||+.|..+...+.+.+...+. ..+|.+.|+|..-|.|+|.||+..+.....|-
T Consensus 559 -----~~~~I~IL~R~~~~~~~~l~~~~~~~~---~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~gfP~~~~~~~~~~~~ 630 (684)
T PRK11054 559 -----PDERILLLARYHHLRPALLDKAATRWP---KLQIDFMTIHASKGQQADYVIILGLQEGQDGFPAPARESIMEEAL 630 (684)
T ss_pred -----CCCcEEEEEechhhHHHHHHHHHhhcc---cCCeEEEehhhhcCCcCCEEEEecCCcCcccCCcccccchhhhcc
Confidence 346999999999888766665554432 34799999999999999999997765432100
Q ss_pred ----ccc--CCCCCceEEecccccccEEEEech
Q 000053 799 ----IGF--ISNPRRVNVALTRARHCLWILGNE 825 (2576)
Q Consensus 799 ----~gF--l~d~~RlNVAlTRAR~~LiIVGn~ 825 (2576)
-.| ...++.++||+||||+.++|+.+.
T Consensus 631 ~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~ 663 (684)
T PRK11054 631 LPPPEDFPDAEERRLLYVALTRAKHRVWLLFNK 663 (684)
T ss_pred cccccccccHHHHHHHHHHhhhhhcEEEEEEcC
Confidence 011 124788999999999999999873
No 36
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=99.73 E-value=9.9e-17 Score=196.80 Aligned_cols=247 Identities=15% Similarity=0.216 Sum_probs=210.2
Q ss_pred cCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHH----hHhhcCChHHHHH
Q 000053 1669 ASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAA----DRISSSNPLEARI 1744 (2576)
Q Consensus 1669 ~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a----~~l~~~~~~~a~~ 1744 (2576)
..+..+|+..+.+ ++....|+.|+++|.|-.|..+-++.-....++.. +.+...+.-++++
T Consensus 582 gVv~~DW~~LA~~---------------ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLlA~~~Ay~g 646 (1081)
T KOG1538|consen 582 GVTDTDWRELAME---------------ALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLLADVFAYQG 646 (1081)
T ss_pred ceecchHHHHHHH---------------HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHHHHHHHhhh
Confidence 3567799999988 88899999999999999986554433222211111 1122222335689
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCC---chHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHH
Q 000053 1745 ILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCE---EPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVC 1821 (2576)
Q Consensus 1745 ~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~---~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y 1821 (2576)
.|.|||++|.++|.-.+|++||.++++|+-|.|......+ +.++++-|+|....++.+.|||+..-+|+.+||++++
T Consensus 647 KF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~ 726 (1081)
T KOG1538|consen 647 KFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEIC 726 (1081)
T ss_pred hHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhh
Confidence 9999999999999999999999999999999998775432 2468999999999999999999999999999999999
Q ss_pred HcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCCH
Q 000053 1822 SKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGCF 1901 (2576)
Q Consensus 1822 ~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~~ 1901 (2576)
...+|.|.++++.+ .....+.+-++.|+.++.++..+..|.+++++++++....++..+.+.|
T Consensus 727 ~d~gW~d~lidI~r-----------------kld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~ksiVqlHve~~~W 789 (1081)
T KOG1538|consen 727 GDHGWVDMLIDIAR-----------------KLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDLKSLVQLHVETQRW 789 (1081)
T ss_pred hcccHHHHHHHHHh-----------------hcchhhhhHHHHHHHHHhhccccchHHHHHHHhccHHHHhhheeecccc
Confidence 99999999999999 3445566778899999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCHHHH-----HHHHHHcCCHHHHHHHHHHcCCHHHHHHHH
Q 000053 1902 DELLVLEEESESFMDA-----ANIARLRGDILRTVDLLQKVGNFKEACNLT 1947 (2576)
Q Consensus 1902 dea~ell~~~g~feeA-----a~ia~~~G~~~eA~kly~~aG~~~eA~kll 1947 (2576)
+||+.++..+.+|-+- ++|+...++|+||.++|.+||+-.||++++
T Consensus 790 ~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vL 840 (1081)
T KOG1538|consen 790 DEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVL 840 (1081)
T ss_pred hHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHH
Confidence 9999999999988754 899999999999999999999999999953
No 37
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=99.73 E-value=2.8e-17 Score=205.69 Aligned_cols=238 Identities=17% Similarity=0.160 Sum_probs=134.3
Q ss_pred CCCccEEEEecC-CCCCHHH-HHHHHHHhhcCCCcEEEEeCCCCc---cccCCCcchhhHHHHHHHhhhhhccCCCCCCc
Q 000053 1365 GDEFHFVYIDEV-QDLTMSQ-VALFKYVCKNIEEGFVFSGDTAQT---IARGIDFRFQDIRSLFYKKFVLESRNNGNDGR 1439 (2576)
Q Consensus 1365 ~~~yd~IlVDE~-QD~~~~q-l~LL~~L~~~~~~~l~~vGD~~QS---Iy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~ 1439 (2576)
...||.++|||+ |=+-|.- +.+++ ..+++++||++|- |+....-++.--.++|.+-.
T Consensus 356 ~~~fD~vIIDEaaQamE~~cWipvlk------~kk~ILaGDp~QLpP~v~S~~a~~~gl~~Sl~erla------------ 417 (649)
T KOG1803|consen 356 KRTFDLVIIDEAAQAMEPQCWIPVLK------GKKFILAGDPKQLPPTVLSDKAKRGGLQVSLLERLA------------ 417 (649)
T ss_pred ccCCCEEEEehhhhhccchhhhHHhc------CCceEEeCCcccCCcccccchhhhccchhhHHHHHH------------
Confidence 367999999999 5444433 33332 3479999999994 33221112221223332211
Q ss_pred ccccCCccEEecccccCCchHHHHHHHHHHHHHhc--cCC---CCccccCCcccccCCCCCEEEcc--------------
Q 000053 1440 QEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYR--FFP---HSVDILKPETSLIYGEPPILLES-------------- 1500 (2576)
Q Consensus 1440 ~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~--~~p---~~~~~l~~~~~~~~G~~P~l~~~-------------- 1500 (2576)
......-...|+.-||++..|.+++|..+-...- ... .....++.......-..|.++..
T Consensus 418 -e~~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~~v~~~lL~dl~~v~~t~~t~~PlvlvDT~~~~~~e~~~e~~ 496 (649)
T KOG1803|consen 418 -EKFGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAASSVASHLLRDLPNVLATESTKSPLVLVDTQGEKDEEKRGEEE 496 (649)
T ss_pred -HHcccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecchhhhhhhhcccCCCCccccCCcEEEEecccchhhhhccchh
Confidence 0111223456999999999999999988732110 000 00000000000011223333211
Q ss_pred ----CCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhC---CCeEEEeeeccCCccccEEEEeecccC
Q 000053 1501 ----GDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVG---KQALVLTIVESKGLEFQDVLLYKFFSA 1573 (2576)
Q Consensus 1501 ----~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~---~~V~V~TIH~aKGLEFd~ViL~n~f~~ 1573 (2576)
.....++.-+...+......++. ..+++|+.+...+...++.... ..+.|.|+.+..|.|+|+||+.-+ -+
T Consensus 497 ~~~S~~N~gEa~Iv~~Hv~~L~~~gV~-p~dIaVIsPY~aQv~llR~~~~~~~~~veV~TVD~fQGrEkdvVIfsmV-RS 574 (649)
T KOG1803|consen 497 ELGSKYNEGEAKIVMEHVKRLLEAGVQ-PSDIAVISPYNAQVSLLREEDEEDFRDVEVGTVDGFQGREKDVVIFSLV-RS 574 (649)
T ss_pred hccccCCHHHHHHHHHHHHHHHHcCCC-hhHeEEeccchHHHHHHhhcccccCccceeecccccccceeeEEEEEEE-ee
Confidence 12233444444555555444433 3569999999999888884332 358999999999999999999611 11
Q ss_pred CCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCCCC------chhhHHh
Q 000053 1574 SPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEEFS------KPMFDYW 1647 (2576)
Q Consensus 1574 ~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~~~------~p~~~~w 1647 (2576)
... ..-.+-.|-|.|.|||||||+++.+++++.... ..+.+|+
T Consensus 575 ----------------------N~k---------~evGFL~e~RRLNVAiTRaRRh~~vIgds~tl~~~~~~l~k~~~f~ 623 (649)
T KOG1803|consen 575 ----------------------NDK---------GEVGFLGETRRLNVAITRARRHFVVIGDSRTLKEGNEFLKKLVEFL 623 (649)
T ss_pred ----------------------cCc---------ccccccCCcceeeEEEEeccceEEEEcCcHHHHhhHHHHHHHHHHh
Confidence 100 111122456789999999999999999887644 2233455
Q ss_pred hhccccc
Q 000053 1648 KKRFLVQ 1654 (2576)
Q Consensus 1648 ~~~~lve 1654 (2576)
.+..++-
T Consensus 624 ~~~~~~~ 630 (649)
T KOG1803|consen 624 EENKLVF 630 (649)
T ss_pred hhcceec
Confidence 5544443
No 38
>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=99.68 E-value=5.4e-16 Score=212.40 Aligned_cols=205 Identities=17% Similarity=0.149 Sum_probs=118.7
Q ss_pred CCCEEEEEcCCCCChhHHhhhcc--ccCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccC
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQ--LSGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMH 655 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~--l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmh 655 (2576)
+.|+||||||||+....+...+. .....++|||||+.||||+..+ ..|..+.. ..+.+.|++.||..
T Consensus 439 ~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG----------~~f~~l~~-~~~~~~Lt~I~RQ~ 507 (744)
T TIGR02768 439 DKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG----------AAFRAIAE-RIGYAELETIRRQR 507 (744)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC----------cHHHHHHH-hhCeEEeeeEEecC
Confidence 57899999999999877555443 2234789999999999999654 24555544 36788999999985
Q ss_pred cccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHH-HHHHHHHHHHHHhcccC
Q 000053 656 PSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVE-VSVVMKILLNLYKGWIN 734 (2576)
Q Consensus 656 p~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~E-a~~v~~lv~~L~~~~~~ 734 (2576)
..-..-....+-.|....+... +.. .+ ++... .+..+ ...++......+..
T Consensus 508 ~~~~~~aa~~i~~G~~~~~l~~---------~~~--~~---~i~~~-----------~~~~~~~~~i~~~~~~~~~~--- 559 (744)
T TIGR02768 508 EAWARQASLELARGDVEKALAA---------YRD--HG---HITIH-----------DTREEAIEQVVADWKQDLRE--- 559 (744)
T ss_pred CHHHHHHHHHHHcCCHHHHHHH---------Hhh--CC---CEeec-----------CCHHHHHHHHHHHHHHhhhh---
Confidence 4321111112222221110000 000 00 01110 01111 12222222221111
Q ss_pred CCCCCeEEEEcccHHHHHHHHHHhccccccC-------------C------CC---------------------------
Q 000053 735 SKEKLSIGIVSPYIAQVAAIQEKLGSKYVNS-------------A------GF--------------------------- 768 (2576)
Q Consensus 735 ~~~~~sIgIITPY~aQv~~I~~~L~~~~~~~-------------~------~~--------------------------- 768 (2576)
..+.....||||.+..+..|...+++.+... + +.
T Consensus 560 ~~~~~~~lIla~tn~~v~~LN~~ir~~L~~~g~l~~~~~~~~~~g~~~~~~GDrV~~~~N~~~~gv~NGd~g~V~~i~~~ 639 (744)
T TIGR02768 560 ANPAGSQIMLAHTRKDVRALNEAAREALIERGELGESILFQTARGERKFAAGDRIVFLENNRDLGVKNGMLGTVEEIEDG 639 (744)
T ss_pred cCcccceEEEcCchHhHHHHHHHHHHHHHhcCccCcCceeeccCCCceecCCCEEEEEecccccCCcCCCEEEEEEecCC
Confidence 1122233588888888777766664322100 0 00
Q ss_pred -----------------------ceEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEech
Q 000053 769 -----------------------AVKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNE 825 (2576)
Q Consensus 769 -----------------------~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~ 825 (2576)
--.+.|||+.||+|+|.||+.. ..+.+++.+|||+||||+.++|+|+.
T Consensus 640 ~i~v~~~~G~~v~~~~~~~~~l~laYA~TvHKsQGst~~~viv~~---------~~~l~r~llYvAiTRar~~~~l~~~~ 710 (744)
T TIGR02768 640 RLVVQLDSGELVIIPQAEYDALDHGYATTIHKSQGVTVDRAFVLA---------SKSMDRHLAYVAMTRHRESVQLYAGK 710 (744)
T ss_pred eEEEEECCCCEEEECHHHhCccCceEEeccccccCCccCcEEEec---------CCccccchhhhhhhcccceeEEEEch
Confidence 0124499999999999999862 12467899999999999999999998
Q ss_pred hhhhc
Q 000053 826 RTLTR 830 (2576)
Q Consensus 826 ~~L~~ 830 (2576)
..+..
T Consensus 711 ~~~~~ 715 (744)
T TIGR02768 711 EDFTD 715 (744)
T ss_pred hhccC
Confidence 87754
No 39
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=99.61 E-value=1.1e-14 Score=179.69 Aligned_cols=281 Identities=16% Similarity=0.109 Sum_probs=208.2
Q ss_pred HHHHHhhcHHHHHHHHHHcCChhHHHHH--HHHHHHHHHhHhh--------cC-ChHH-----HHHHHHHHHHHHHHcCC
Q 000053 1695 LWLFYEQNYEMATICFEKAKDTYWEGRS--KASGLKAAADRIS--------SS-NPLE-----ARIILREAAKIFEAIGK 1758 (2576)
Q Consensus 1695 ~~l~~~~~ye~A~k~f~ragd~~~~~l~--~A~~l~~~a~~l~--------~~-~~~~-----a~~~~~eAA~~fe~~G~ 1758 (2576)
.++++.|+|+-|...|..|++...+..+ .|.++.++.-.+. +. .++. ..+.|+.|-++|.+.|.
T Consensus 714 ~hl~~~~q~daainhfiea~~~~kaieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~ 793 (1636)
T KOG3616|consen 714 DHLEQIGQLDAAINHFIEANCLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADL 793 (1636)
T ss_pred HHHHHHHhHHHHHHHHHHhhhHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcch
Confidence 4489999999999999999985433221 1223333221111 10 2222 25678888888888888
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHhCCc----hHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHH
Q 000053 1759 VDSAAKCFFDMGEYERAGTIYLERCEE----PELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYI 1834 (2576)
Q Consensus 1759 ~~~Aa~~y~kag~~~~A~ely~~~~~~----~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~ 1834 (2576)
+..|+.||.++|.|..|.++..+-... ..+..-|+-+.+.|.|.+|.++|...|+.++||.||.+.|..|.+++++
T Consensus 794 ~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv 873 (1636)
T KOG3616|consen 794 FKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLV 873 (1636)
T ss_pred hHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHH
Confidence 888888888888888888887773222 3466778888999999999999999999999999999999999999999
Q ss_pred HhhhhcCCcccccccchHHHHHHhHH-hHHHHHHHHHHcCChHHHHHHHHHhCcHHH-----------------------
Q 000053 1835 SYWKQHADTDVGRVKSSKEMKKIEQD-FLQSCALHFHKLNDNKSMMKFVRAFHSMDL----------------------- 1890 (2576)
Q Consensus 1835 r~~~~~~~~~~~~~~~s~~~~~~e~~-~le~~a~~f~klgd~~~A~~~~k~~~~~e~----------------------- 1890 (2576)
.+|......+++.. -+.+.+.. -+.++..||.++||++++..+++..+.|++
T Consensus 874 ~k~h~d~l~dt~~~----f~~e~e~~g~lkaae~~flea~d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwak 949 (1636)
T KOG3616|consen 874 EKHHGDHLHDTHKH----FAKELEAEGDLKAAEEHFLEAGDFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAK 949 (1636)
T ss_pred HHhChhhhhHHHHH----HHHHHHhccChhHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHH
Confidence 98776555554432 33333333 578889999999999999999999999987
Q ss_pred ------HHHHHHhcCCHHHHHHHHHhccCHHHHHHHHH------------------------------------------
Q 000053 1891 ------IRNFLNSKGCFDELLVLEEESESFMDAANIAR------------------------------------------ 1922 (2576)
Q Consensus 1891 ------a~~~l~~~~~~dea~ell~~~g~feeAa~ia~------------------------------------------ 1922 (2576)
|.++|.++|.+++++.+.++.+.|+-|+++++
T Consensus 950 siggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaiklntyni 1029 (1636)
T KOG3616|consen 950 SIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNTYNI 1029 (1636)
T ss_pred hhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhcccccc
Confidence 57788899999999988887777777744432
Q ss_pred ---------------H-cCCHHHHHHHHHHcCCHHHHHHHHHHHH---HHHhhcCCCCCCCCccccccHHHHHHHH
Q 000053 1923 ---------------L-RGDILRTVDLLQKVGNFKEACNLTLNYV---LSNSLWSSGSKGWPLKQFTQKKELLEKA 1979 (2576)
Q Consensus 1923 ---------------~-~G~~~eA~kly~~aG~~~eA~klll~~~---~~~~lw~~~~~g~~~~~~~~~~~l~~~~ 1979 (2576)
+ .+++++|++||.+..+|..|-++.-.|| +...|=++-.+.---+.|++-||+|-.|
T Consensus 1030 twcqavpsrfd~e~ir~gnkpe~av~mfi~dndwa~aervae~h~~~~l~dv~tgqar~aiee~d~~kae~fllra 1105 (1636)
T KOG3616|consen 1030 TWCQAVPSRFDAEFIRAGNKPEEAVEMFIHDNDWAAAERVAEAHCEDLLADVLTGQARGAIEEGDFLKAEGFLLRA 1105 (1636)
T ss_pred hhhhcccchhhHHHHHcCCChHHHHHHhhhcccHHHHHHHHHhhChhhhHHHHhhhhhccccccchhhhhhheeec
Confidence 2 2366777888888888888888888876 3344444455556667788888877554
No 40
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=99.61 E-value=1.3e-14 Score=180.91 Aligned_cols=207 Identities=25% Similarity=0.233 Sum_probs=141.1
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc----cCCcccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL----RHSKHLLSIQY 652 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~----g~~~~~L~~qY 652 (2576)
..+.++|||||+....-++...-.+.++..+.++||-.|-- + ..++ ..+..+|+... .+..+.|..+|
T Consensus 527 ~~~kh~vIDeaqdys~~q~~~~r~l~~~as~tivgd~gq~i--~-----~~~~-e~~~~e~~~~~fed~~~e~v~l~~sy 598 (747)
T COG3973 527 RRLKHTVIDEAQDYSRFQFTDNRTLAERASMTIVGDYGQVI--Y-----DEAQ-ELSPMERMDVFFEDPSFEYVGLIASY 598 (747)
T ss_pred ccccceeechhhhcchhhhHHHhhhhhhccceEeccCCcee--h-----hhhc-ccCHHHHHHHHHhCCCchhhhhhhhh
Confidence 35889999999999887766665677788999999999931 1 0010 12344444332 25567899999
Q ss_pred ccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhcc
Q 000053 653 RMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGW 732 (2576)
Q Consensus 653 Rmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~ 732 (2576)
|++.+|.+|.|...=+ ..+. .|+ .. .|.....-.+-.|..=++.+-+++..|-+.+
T Consensus 599 rSt~eI~efan~~l~d-----~~~~-----------~p~-------~r-sge~p~~i~~~~ne~l~qr~~~ii~~mkk~~ 654 (747)
T COG3973 599 RSTAEIDEFANSLLPD-----RFRI-----------HPL-------TR-SGEKPAVIMSVANEELVQRNPDIIPRMKKRG 654 (747)
T ss_pred cChHHHHHHHHHhccC-----CCcc-----------chh-------hc-CCCCceeeeccchHHHHHhhHHHHHHHHhcC
Confidence 9999999999965321 1000 000 00 1222223344456666777788888887664
Q ss_pred cCCCCCCeEEEEcccHHHHHHHHHHhccccc--------cCCCCceEEccCCCCCCccCCEEEEEcccCCCCCccccCCC
Q 000053 733 INSKEKLSIGIVSPYIAQVAAIQEKLGSKYV--------NSAGFAVKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISN 804 (2576)
Q Consensus 733 ~~~~~~~sIgIITPY~aQv~~I~~~L~~~~~--------~~~~~~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d 804 (2576)
..+||||||...|+..+.+.|+++-. ..-.....|--|+-..|-|+|.||+.-....... -.+
T Consensus 655 -----~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~viv~d~s~~e~t----e~~ 725 (747)
T COG3973 655 -----SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDHVIVVDPSIVEET----EQD 725 (747)
T ss_pred -----CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeeeEEEecchhhccc----ccc
Confidence 37999999999999999999975311 1123366788889999999999987654311111 346
Q ss_pred CCceEEecccccccEEEEec
Q 000053 805 PRRVNVALTRARHCLWILGN 824 (2576)
Q Consensus 805 ~~RlNVAlTRAR~~LiIVGn 824 (2576)
.+.++||+|||-|.|+|+|-
T Consensus 726 ~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 726 LRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred hhhHHHHHHHHHHHHHHhhc
Confidence 89999999999999999874
No 41
>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=99.60 E-value=3.3e-14 Score=189.18 Aligned_cols=104 Identities=14% Similarity=0.159 Sum_probs=63.5
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCC----CCCCc-c
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNN----GNDGR-Q 1440 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~----~~~~~-~ 1440 (2576)
..+|+|+|||+.-.+...+.-|..-.+. ..+++++||++|--..+.|.-|.++-......+....... ..... .
T Consensus 258 l~~dvlIiDEaSMvd~~l~~~ll~al~~-~~rlIlvGD~~QLpsV~~G~vl~dl~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (586)
T TIGR01447 258 LPLDVLVVDEASMVDLPLMAKLLKALPP-NTKLILLGDKNQLPSVEAGAVLGDLCELASIGYLFQSAQAYALCKKINSKT 336 (586)
T ss_pred CcccEEEEcccccCCHHHHHHHHHhcCC-CCEEEEECChhhCCCCCCChhHHHHHHhhccccchhhhhhhcccccccccc
Confidence 3689999999999987766544333333 5789999999996665666667776543321100000000 00000 0
Q ss_pred cccCCccEEecccccCCch--HHHHHHHHHHH
Q 000053 1441 EKRQLSDIFNLRQNFRTHV--GVLNLAQSIIE 1470 (2576)
Q Consensus 1441 ~~~~~~~~~~L~~NYRS~~--~Il~lAn~vi~ 1470 (2576)
...-+...+.|+++||... +|..+|+.|..
T Consensus 337 ~~~i~~~~~~L~~~~R~~~~S~I~~lA~~I~~ 368 (586)
T TIGR01447 337 RNPLSDNVCFLKTSHRFGKDSGIGQLAKAINS 368 (586)
T ss_pred cCCCCCcEEEeceeecCCCCccHHHHHHHHHc
Confidence 0001234889999999965 79999998863
No 42
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=99.60 E-value=2.5e-15 Score=190.88 Aligned_cols=92 Identities=18% Similarity=0.253 Sum_probs=62.9
Q ss_pred EecccccCCchHHHHHHHHHHHHH-----hccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCccc
Q 000053 1449 FNLRQNFRTHVGVLNLAQSIIELL-----YRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVG 1523 (2576)
Q Consensus 1449 ~~L~~NYRS~~~Il~lAn~vi~~~-----~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~ 1523 (2576)
+.|++||||++.|++++|.++... ....+.... ......+..|.+..+.+...++..++..+......++.
T Consensus 1 i~L~~NyRS~~~Iv~~~N~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~e~~~i~~~I~~l~~~~~~ 76 (351)
T PF13361_consen 1 ITLTTNYRSSPNIVDFANRLFENILPNDNKDRYEKEIQ----SAENSEDGKISIIEFDNEEEEAEYIAEEIKELIRNGIP 76 (351)
T ss_dssp EEE-EESSS-HHHHHHHHHHHCC---TTSSSSCCCEEE----ESSTCEESSEEEEEESSHHHHHHHHHHHHHHHHHTTS-
T ss_pred CCCCCCcCcCHHHHHHHHHHHHhhhhhhccchhhhhhc----cccccccCCceeeccCCHHHHHHHHHHHHHHHhhcCCC
Confidence 579999999999999999998321 111111111 00111126778888999999999999988876544444
Q ss_pred CCccEEEEEechhhHHHHHHHh
Q 000053 1524 FGAEQVILVRDDCVRKEISNYV 1545 (2576)
Q Consensus 1524 ~~~~~aILvr~~~~~~~l~~~L 1545 (2576)
..++|||+|++.....+...|
T Consensus 77 -~~diAVL~R~~~~~~~i~~~L 97 (351)
T PF13361_consen 77 -PSDIAVLVRTNSQIKEIEDAL 97 (351)
T ss_dssp -GGGEEEEESSGGHHHHHHHHH
T ss_pred -cccEEEEEECchhHHHHHHHH
Confidence 367999999999998888877
No 43
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.59 E-value=6.9e-14 Score=186.15 Aligned_cols=103 Identities=17% Similarity=0.200 Sum_probs=61.6
Q ss_pred CCccEEEEecCCCCCHHHHH-HHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhh-------ccCCCCC
Q 000053 1366 DEFHFVYIDEVQDLTMSQVA-LFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLE-------SRNNGND 1437 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~-LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~-------~~~~~~~ 1437 (2576)
..+|.|+|||+--.+...+. |+..+ +. ..++++|||++|--.-+.|.-|.|+-......+... -.+....
T Consensus 264 l~~dvlIvDEaSMvd~~lm~~ll~al-~~-~~rlIlvGD~~QL~sV~~G~VL~DL~~~~~~~~~~~~~~~l~~~~~~~~~ 341 (615)
T PRK10875 264 LHLDVLVVDEASMVDLPMMARLIDAL-PP-HARVIFLGDRDQLASVEAGAVLGDICRFAEAGYSAERAQQLSRLTGCHLP 341 (615)
T ss_pred CCCCeEEEChHhcccHHHHHHHHHhc-cc-CCEEEEecchhhcCCCCCCchHHHHHHhhhcccchhhhhHHhhhcccccc
Confidence 35799999999877755544 44433 22 578999999999777677777777754311110000 0000000
Q ss_pred Ccc--ccc-CCccEEecccccCCc--hHHHHHHHHHHH
Q 000053 1438 GRQ--EKR-QLSDIFNLRQNFRTH--VGVLNLAQSIIE 1470 (2576)
Q Consensus 1438 ~~~--~~~-~~~~~~~L~~NYRS~--~~Il~lAn~vi~ 1470 (2576)
... ... -......|+++||.. .+|..+|+.|..
T Consensus 342 ~~~~~~~~~~~~~~~~L~~~~Rf~~~SgI~~lA~~I~~ 379 (615)
T PRK10875 342 AGTGTEAASVRDSLCLLRKSYRFGSDSGIGQLAAAVNR 379 (615)
T ss_pred ccccccCCccccceeecceeecCCCCCcHHHHHHHHHC
Confidence 000 000 012346899999985 689999999964
No 44
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.59 E-value=2.2e-14 Score=197.72 Aligned_cols=68 Identities=22% Similarity=0.292 Sum_probs=52.9
Q ss_pred CCEEEEEcCCCCChhHHhhhcccc--CcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccCc
Q 000053 579 LNFLVIDEAAQLKESESTIPLQLS--GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMHP 656 (2576)
Q Consensus 579 fD~VIIDEAsQ~~e~e~lipL~l~--~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmhp 656 (2576)
-++||||||||+...++...+... ...++|||||+.||||+-.+ ..|..+.. .++.+.|++.||...
T Consensus 469 ~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG----------~~f~~l~~-~i~~a~LteI~RQ~~ 537 (1102)
T PRK13826 469 KTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG----------AAFRAIAD-RIGYAELETIYRQRE 537 (1102)
T ss_pred CcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC----------cHHHHHHh-hcCEEEeeeeeecCC
Confidence 579999999999988876655432 34799999999999999643 34555554 567899999999865
Q ss_pred c
Q 000053 657 S 657 (2576)
Q Consensus 657 ~ 657 (2576)
+
T Consensus 538 ~ 538 (1102)
T PRK13826 538 Q 538 (1102)
T ss_pred h
Confidence 4
No 45
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.57 E-value=2.4e-14 Score=197.01 Aligned_cols=203 Identities=17% Similarity=0.144 Sum_probs=117.9
Q ss_pred CCCEEEEEcCCCCChhHHhhhccc--cCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccC
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQL--SGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMH 655 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~l--~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmh 655 (2576)
+.++||||||||+....+.-.+.. ....++|||||+.|||||-.+ ..|..|.. .++.+.|++.+|..
T Consensus 433 ~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG----------~~f~~L~~-~~~~a~LteI~RQ~ 501 (988)
T PRK13889 433 SRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAG----------AAFRSIHE-RHGGAEIGEVRRQR 501 (988)
T ss_pred cCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCC----------chHHHHHH-hcCeEEeceeecCC
Confidence 468999999999998876655532 345799999999999999432 34555543 35788999999986
Q ss_pred cccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhcccCC
Q 000053 656 PSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGWINS 735 (2576)
Q Consensus 656 p~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~ 735 (2576)
.+...-....+-.|+...+... +....++.. ..+..++ +..++....... ..
T Consensus 502 ~~~~r~aa~~i~~G~~~~al~~--------------~~~~g~v~~-----------~~~~e~~--~~~lv~~~~~~r-~~ 553 (988)
T PRK13889 502 EDWQRDATRDLATGRTGEALDA--------------YEAHGMVHA-----------AATREQA--RADLIDRWDRDR-QA 553 (988)
T ss_pred CHHHHHHHHHHHcCCchhhhhh--------------hhccCeEec-----------cCCHHHH--HHHHHHHHHHhh-cc
Confidence 5432222223333332111000 000001111 0111111 122222211111 11
Q ss_pred CCCCeEEEEcccHHHHHHHHHHhccccccC-------------C------CC---------------------------c
Q 000053 736 KEKLSIGIVSPYIAQVAAIQEKLGSKYVNS-------------A------GF---------------------------A 769 (2576)
Q Consensus 736 ~~~~sIgIITPY~aQv~~I~~~L~~~~~~~-------------~------~~---------------------------~ 769 (2576)
.+..++.||||.+..+..|...+++.+... + +. .
T Consensus 554 ~~~~~~lVLaptn~~v~~LN~~iR~~L~~~G~lg~~~~~~~~~g~r~~~vGDrVm~~rNd~~lgV~NGd~GtV~~I~~~~ 633 (988)
T PRK13889 554 APDRSRIILTHTNDEVRALNEAARERMRAAGDLGDDVRVTVERGERSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQS 633 (988)
T ss_pred CCcccEEEEcCCcccHHHHHHHHHHHhhccCCccccceeccccCCccccCCCEEEEeecCCcCCEeCCCeEEEEEecCCe
Confidence 233578899999888877777664322100 0 00 0
Q ss_pred ----------e-------------EEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechh
Q 000053 770 ----------V-------------KVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNER 826 (2576)
Q Consensus 770 ----------v-------------~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~ 826 (2576)
| ...|||+.||.++|-|++.... ..+.+.+|||+||||+.+.|+.+..
T Consensus 634 i~V~~d~gr~V~~~~~~~~~ldlaYA~TIHKSQGsT~d~V~vl~~~---------~~~r~l~YVAiTRar~~v~l~~~~~ 704 (988)
T PRK13889 634 MSVRLDDGRSVAFDLKDYDRIDHGYAATIHKAQGMTVDRTHVLATP---------GMDAHSSYVALSRHRDGVDLHYGRD 704 (988)
T ss_pred EEEEECCCeEEEecHHHcCcccchhhhhhHHhcCCCCCeEEEeccc---------ccccchhHHhhhhhhheEEEEecCc
Confidence 0 0229999999999988876411 2356789999999999999997544
Q ss_pred hh
Q 000053 827 TL 828 (2576)
Q Consensus 827 ~L 828 (2576)
.+
T Consensus 705 ~~ 706 (988)
T PRK13889 705 DF 706 (988)
T ss_pred cc
Confidence 33
No 46
>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=99.57 E-value=6.9e-14 Score=191.24 Aligned_cols=82 Identities=17% Similarity=0.235 Sum_probs=58.4
Q ss_pred CccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCc
Q 000053 1367 EFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLS 1446 (2576)
Q Consensus 1367 ~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~ 1446 (2576)
..+.|+|||++.++...+.-|....+ .+.++++|||++|-..-+.|--|.++ +.. ...
T Consensus 416 ~~~llIvDEaSMvd~~~~~~Ll~~~~-~~~rlilvGD~~QLpsV~~G~v~~dl---~~~------------------~~~ 473 (720)
T TIGR01448 416 DCDLLIVDESSMMDTWLALSLLAALP-DHARLLLVGDTDQLPSVGPGQVLKDL---ILS------------------QAI 473 (720)
T ss_pred cCCEEEEeccccCCHHHHHHHHHhCC-CCCEEEEECccccccCCCCCchHHHH---Hhc------------------CCC
Confidence 57899999999999876655444333 35789999999996655555444443 110 123
Q ss_pred cEEecccccCCc--hHHHHHHHHHHH
Q 000053 1447 DIFNLRQNFRTH--VGVLNLAQSIIE 1470 (2576)
Q Consensus 1447 ~~~~L~~NYRS~--~~Il~lAn~vi~ 1470 (2576)
....|+++||.. .+|+.+|+.+..
T Consensus 474 ~~~~L~~i~RQ~~~s~i~~~a~~i~~ 499 (720)
T TIGR01448 474 PVTRLTKVYRQAAGSPIITLAHGILH 499 (720)
T ss_pred CEEEeCeeeccCCCcHHHHHHHHHHc
Confidence 467899999986 579999999864
No 47
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=99.55 E-value=1.7e-13 Score=189.30 Aligned_cols=64 Identities=23% Similarity=0.299 Sum_probs=52.4
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC----CCeEEEEecChHHHHHHHHHHHHHH
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM----KFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~----~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
|-++.+.|... .+-.+|-|+||||||+|+...+..|+.. +.+||++++||.|..++.+|+.+++
T Consensus 11 n~~Q~~av~~~---~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~ 78 (721)
T PRK11773 11 NDKQREAVAAP---LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLL 78 (721)
T ss_pred CHHHHHHHhCC---CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHh
Confidence 45555555443 2356788888999999999999999963 5789999999999999999999876
No 48
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=99.47 E-value=6.6e-13 Score=167.11 Aligned_cols=238 Identities=16% Similarity=0.216 Sum_probs=184.3
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhH-HHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCH
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYW-EGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEY 1772 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~-~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~ 1772 (2576)
|||+++.|..|-|...|..|.|... .++.+-.+...+|.++...+. ........|++||..|++.+|+..|.++.-|
T Consensus 919 gqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esg--d~AAcYhlaR~YEn~g~v~~Av~FfTrAqaf 996 (1416)
T KOG3617|consen 919 GQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESG--DKAACYHLARMYENDGDVVKAVKFFTRAQAF 996 (1416)
T ss_pred HHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcc--cHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence 4789999999999999999998432 222222222222222221111 1346789999999999999999999999999
Q ss_pred HHHHHHHHHhC------------CchHHHHHHHHHHHcC-CHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhh
Q 000053 1773 ERAGTIYLERC------------EEPELEKAGECFSLAG-CYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQ 1839 (2576)
Q Consensus 1773 ~~A~ely~~~~------------~~~~~~~aAe~~e~~g-~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~ 1839 (2576)
..|+++..+.. ...++..||.+|++.| ++.+|..+|.|+|++.+|+++......|. |++++- +
T Consensus 997 snAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~g~~~~~AVmLYHkAGm~~kALelAF~tqQf~-aL~lIa---~ 1072 (1416)
T KOG3617|consen 997 SNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEELGGYAHKAVMLYHKAGMIGKALELAFRTQQFS-ALDLIA---K 1072 (1416)
T ss_pred HHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHcchhhhHHHHHHHhhcchHHHHHHHHhhcccH-HHHHHH---H
Confidence 99999987641 2345789999999988 99999999999999999999999988887 666665 2
Q ss_pred cCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCC--HHHHHHHHHh--ccCHH
Q 000053 1840 HADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGC--FDELLVLEEE--SESFM 1915 (2576)
Q Consensus 1840 ~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~--~dea~ell~~--~g~fe 1915 (2576)
... ...+++.+..|+.+|.....+++|..++-+....+.|.+++..+|- -+|..+++-. -+.++
T Consensus 1073 DLd------------~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~ 1140 (1416)
T KOG3617|consen 1073 DLD------------AGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPN 1140 (1416)
T ss_pred hcC------------CCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCcc
Confidence 211 1235668899999999999999999999999999999999987664 3455555432 25666
Q ss_pred HH---------HHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1916 DA---------ANIARLRGDILRTVDLLQKVGNFKEACNLTLN 1949 (2576)
Q Consensus 1916 eA---------a~ia~~~G~~~eA~kly~~aG~~~eA~klll~ 1949 (2576)
|+ ++.+.++|.+..|.|.|.+||+...|||.+|+
T Consensus 1141 e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~AMraLLK 1183 (1416)
T KOG3617|consen 1141 EQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLSAMRALLK 1183 (1416)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHHHHHHHHh
Confidence 66 77788999999999999999999999995443
No 49
>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=99.46 E-value=6.8e-12 Score=179.39 Aligned_cols=174 Identities=13% Similarity=0.000 Sum_probs=97.1
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccccC-cc--eEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLSG-IK--HAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~~-~k--~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYR 653 (2576)
.+|++|+|||++.....+.-+.-.+.+ .. .+++||||+|- |. .--|.+...|.+........+.|+++||
T Consensus 295 ~ry~~vLVDEFQDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQS--IY-----~FRGAD~~~~~~~~~~~~~~~~L~~NyR 367 (1087)
T TIGR00609 295 EQYPIALIDEFQDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQA--IY-----SFRGADIFTYLQAKSKADARYTLGTNWR 367 (1087)
T ss_pred hCCCEEEEECCcCCCHHHHHHHHHHHhCCCCCeEEEEECCccc--cc-----cCCCCCHHHHHHHHHhcCcEEECCCCCC
Confidence 469999999999999888655544332 22 79999999993 11 1111222344444332225679999999
Q ss_pred cCcccccccccccccCcccC-----Ccccccccc---ccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHH
Q 000053 654 MHPSISFFPNSYFYENKIHD-----SPTVEKRSY---EKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKIL 725 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~-----~~~~~~~~~---~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv 725 (2576)
++|.|.+++|..|-...-.. ...+..... .....+++..+++.++..... . . +....-..+|..+..-+
T Consensus 368 S~~~Iv~~~N~lf~~~~~~~~~~~~~~~v~a~~~~~~~~~~~~~~~~~~i~~~~~~~~-~-~-~~~~~~~~~a~~~a~~I 444 (1087)
T TIGR00609 368 STPALVGSLNKLFSLISNPFLEKPIFIPVLAHQKNSKGSFVINGQEQPPIHFFTTEVE-S-E-GVDDYRQTIAQKCAREI 444 (1087)
T ss_pred CcHHHHHHHHHHHhccccccccCCCCCcccchhhcCCCccccCCCCCCCeEEeecCCc-c-c-ccchHHHHHHHHHHHHH
Confidence 99999999998874321100 000100000 000112222334555444111 1 0 00011223455566656
Q ss_pred HHHHhccc------------CCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 726 LNLYKGWI------------NSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 726 ~~L~~~~~------------~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
..++..+. ...+..+|+|++.-+.|...|++.|.+
T Consensus 445 ~~ll~~~~~~~~~~~~~~~~r~v~~~DIAVLvRs~~~a~~i~~aL~~ 491 (1087)
T TIGR00609 445 ALWLASAALGLANFIATFGGRPLRAGDIAVLVRGRKEANQIRKALKK 491 (1087)
T ss_pred HHHHHhccccccccccccCcCCCCcccEEEEEeCCchHHHHHHHHHH
Confidence 66554321 234567999999999888888877743
No 50
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=99.45 E-value=1e-12 Score=164.12 Aligned_cols=229 Identities=16% Similarity=0.160 Sum_probs=126.3
Q ss_pred CCCccEEEEecC-CCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCC---CcchhhHHHHHHHhhhhhccCCCCCCcc
Q 000053 1365 GDEFHFVYIDEV-QDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGI---DFRFQDIRSLFYKKFVLESRNNGNDGRQ 1440 (2576)
Q Consensus 1365 ~~~yd~IlVDE~-QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~---~frf~~l~~~f~~~f~~~~~~~~~~~~~ 1440 (2576)
.-+|+.|+|||+ |-+-|.-+ --|... -..+++|||..|-= +.+ -..-+++...++....
T Consensus 566 ~~kfr~VLiDEaTQatEpe~L---iPlvlG-~kq~VlVGDh~QLg-pvi~~kK~a~Agl~qsLferli------------ 628 (935)
T KOG1802|consen 566 KFKFRTVLIDEATQATEPECL---IPLVLG-AKQLVLVGDHKQLG-PVIMCKKAATAGLSQSLFERLI------------ 628 (935)
T ss_pred cccccEEEEecccccCCcchh---hhhhhc-ceeEEEeccccccC-ceeeeHHHHHhHHHHHHHHHHH------------
Confidence 468999999999 55544322 223322 35799999999931 100 0111222222222111
Q ss_pred cccCCccEEecccccCCchHHHHHHHHHHHHHhccCCCCccccCC-cccc----cCCCCCEEEccC-----------C--
Q 000053 1441 EKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFPHSVDILKP-ETSL----IYGEPPILLESG-----------D-- 1502 (2576)
Q Consensus 1441 ~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p~~~~~l~~-~~~~----~~G~~P~l~~~~-----------~-- 1502 (2576)
.-....+.|..-||.||.|.++.+.++-. ..+.++...... ..+. +....|.++... +
T Consensus 629 --~lg~~P~~L~vQYRmhP~lSefpsn~fY~--G~LqnGVT~~~R~~~g~~~pwp~p~~pl~fy~~~g~eeisasGtSf~ 704 (935)
T KOG1802|consen 629 --SLGIKPIRLQVQYRMHPALSEFPSNMFYE--GELQNGVTEIERSPLGVDFPWPQPDKPLFFYVCYGQEEISASGTSFL 704 (935)
T ss_pred --hccCCceEEEEeeeeChhhhhcchhhhcc--chhhcCcchhhhccCCCCCCCCCCCCccceEEeccceeeecccccee
Confidence 11234578999999999999999877631 111111111100 0000 011122222111 0
Q ss_pred HHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhC----------CCeEEEeeeccCCccccEEEEeeccc
Q 000053 1503 EENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVG----------KQALVLTIVESKGLEFQDVLLYKFFS 1572 (2576)
Q Consensus 1503 ~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~----------~~V~V~TIH~aKGLEFd~ViL~n~f~ 1572 (2576)
...++......+......++. +..+-||.+.+.++.-+..+++ ..|.|.|+.+..|.|-|.+|+-=+ -
T Consensus 705 Nr~Ea~~~ekii~~l~~~gv~-~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGrEKdfIIlSCV-R 782 (935)
T KOG1802|consen 705 NRTEAANCEKIITKLLKSGVK-PSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGREKDFIILSCV-R 782 (935)
T ss_pred cHHHHHHHHHHHHHHHHcCCC-HHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCcccceEEEEEe-e
Confidence 112222233333333233322 4567799999999988887664 457999999999999999998511 1
Q ss_pred CCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCCCCchhhHHhhh
Q 000053 1573 ASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEEFSKPMFDYWKK 1649 (2576)
Q Consensus 1573 ~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~~~~p~~~~w~~ 1649 (2576)
.. .+. .-.+-.+-|.|-||+||||..|+|+++....++ ..+|..
T Consensus 783 sn---------------------~~q----------gIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k--~~LW~~ 826 (935)
T KOG1802|consen 783 SN---------------------EHQ----------GIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRK--HPLWGH 826 (935)
T ss_pred cc---------------------ccc----------ccccccCchhhhhhhhhcccceEEecCHHHhhh--chHHHH
Confidence 00 000 000113456799999999999999988765443 345654
No 51
>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=99.43 E-value=4.7e-12 Score=174.00 Aligned_cols=72 Identities=18% Similarity=0.113 Sum_probs=51.5
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCC
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQL 1445 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~ 1445 (2576)
...+.|+|||+.-.+..++.-|...+...+..+++|||++|--.-+.|--|.++...
T Consensus 438 ~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG~~f~~l~~~----------------------- 494 (744)
T TIGR02768 438 SDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAGAAFRAIAER----------------------- 494 (744)
T ss_pred CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccCcHHHHHHHh-----------------------
Confidence 367999999999999888766655554446789999999996655555555554321
Q ss_pred ccEEecccccCCchH
Q 000053 1446 SDIFNLRQNFRTHVG 1460 (2576)
Q Consensus 1446 ~~~~~L~~NYRS~~~ 1460 (2576)
.....|++.||...+
T Consensus 495 ~~~~~Lt~I~RQ~~~ 509 (744)
T TIGR02768 495 IGYAELETIRRQREA 509 (744)
T ss_pred hCeEEeeeEEecCCH
Confidence 124679999997654
No 52
>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=99.41 E-value=2.3e-11 Score=175.92 Aligned_cols=55 Identities=24% Similarity=0.295 Sum_probs=47.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCC---eEEEEecChHHHHHHHHHHHHHHHh
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKF---RTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~---rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
+.-.+|.++||||||+|++..+..++..+. +||+++.||.|..++-+|+.+.+.+
T Consensus 14 ~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~ 71 (1232)
T TIGR02785 14 GQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQK 71 (1232)
T ss_pred CCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHH
Confidence 334589999999999999999998887654 5999999999999999999987654
No 53
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.41 E-value=4.3e-13 Score=156.83 Aligned_cols=58 Identities=33% Similarity=0.467 Sum_probs=47.3
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASR 274 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~R 274 (2576)
..++.++.. ...+.+|+||||||||+++..+...+...|.+|+++||||.|+.++.++
T Consensus 8 ~a~~~~l~~--~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~ 65 (196)
T PF13604_consen 8 EAVRAILTS--GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREK 65 (196)
T ss_dssp HHHHHHHHC--TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHH
T ss_pred HHHHHHHhc--CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHh
Confidence 445555543 3679999999999999999999999999999999999999999876554
No 54
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.40 E-value=7e-11 Score=163.72 Aligned_cols=80 Identities=18% Similarity=0.185 Sum_probs=54.6
Q ss_pred CccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCc
Q 000053 1367 EFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLS 1446 (2576)
Q Consensus 1367 ~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~ 1446 (2576)
.-+.|+|||+.-.+..++.-|...+...+..+++|||+.|--.-+.|--|..+.. ..
T Consensus 468 ~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~l~~-----------------------~i 524 (1102)
T PRK13826 468 NKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAIAD-----------------------RI 524 (1102)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHHHHh-----------------------hc
Confidence 3579999999999988887666666554678999999998554444444444321 12
Q ss_pred cEEecccccCCchH-HHHHHHHHH
Q 000053 1447 DIFNLRQNFRTHVG-VLNLAQSII 1469 (2576)
Q Consensus 1447 ~~~~L~~NYRS~~~-Il~lAn~vi 1469 (2576)
....|++.||...+ +.+++..+.
T Consensus 525 ~~a~LteI~RQ~~~~~r~Aa~~i~ 548 (1102)
T PRK13826 525 GYAELETIYRQREQWMRDASLDLA 548 (1102)
T ss_pred CEEEeeeeeecCChHHHHHHHHHH
Confidence 34789999997654 555555443
No 55
>PRK13909 putative recombination protein RecB; Provisional
Probab=99.39 E-value=1.3e-11 Score=174.28 Aligned_cols=156 Identities=21% Similarity=0.187 Sum_probs=93.3
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccc-----cC-----cceEEEecCCCCCCccccccchhhhhccccHHHHHhhc-cCCc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQL-----SG-----IKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL-RHSK 645 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l-----~~-----~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~-g~~~ 645 (2576)
..|++|+|||++.++..+.-+...+ .+ ...+++|||++|- + -.-.|....+|.++... +...
T Consensus 327 ~~~~~ilVDEfQDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQS--I-----Y~FRGA~~~~f~~~~~~~~~~~ 399 (910)
T PRK13909 327 SKISHILIDEFQDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQS--I-----YRFRGGKKELFDKVSKDFKQKV 399 (910)
T ss_pred cCCCEEEEECccCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchhh--h-----hhhcCCChHHHHHHHHHhhhhh
Confidence 4699999999999998774333221 11 3579999999992 1 11112233567766542 1145
Q ss_pred cccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHH
Q 000053 646 HLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKIL 725 (2576)
Q Consensus 646 ~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv 725 (2576)
..|+++||++|+|.+|.|..|-.. ....+. .. . .. ....+.+.+... . .....++..+++.+
T Consensus 400 ~~L~~NyRS~~~Iv~~~N~~f~~~-~~~~~~-~~-~----~~-~~~~g~v~i~~~-~---------~~~~~~a~~ia~~I 461 (910)
T PRK13909 400 DNLDTNYRSAPLIVDFVNEVFKKK-YKNYKT-QY-A----EQ-HKSGGYVEVVEV-A---------DESEELLEQLLQEI 461 (910)
T ss_pred cccccCCCCChHHHHHHHHHHHHH-HHhhhh-hh-c----cc-ccCCCcEEEEEC-C---------CccHHHHHHHHHHH
Confidence 789999999999999999887331 110000 00 0 00 000112222211 0 11234577788888
Q ss_pred HHHHhcccCCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 726 LNLYKGWINSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 726 ~~L~~~~~~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
..+++.+. +..+|+|+++.+.|+..+.+.|.+
T Consensus 462 ~~l~~~g~---~~~dIaILvR~~~~~~~l~~~L~~ 493 (910)
T PRK13909 462 QFLLEKGI---DPDDIAILCWTNDDALEIKEFLQE 493 (910)
T ss_pred HHHHHcCC---CcCCEEEEEecCccHHHHHHHHHh
Confidence 88776643 567899999988877777665543
No 56
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.39 E-value=7.1e-13 Score=172.68 Aligned_cols=223 Identities=15% Similarity=0.205 Sum_probs=127.7
Q ss_pred CCCccEEEEecCCCC-CHHHHHHHHHHhhcCCCcEEEEeCCCCccc--cCCCcchhhHHHHHHHhhhhhccCCCCCCccc
Q 000053 1365 GDEFHFVYIDEVQDL-TMSQVALFKYVCKNIEEGFVFSGDTAQTIA--RGIDFRFQDIRSLFYKKFVLESRNNGNDGRQE 1441 (2576)
Q Consensus 1365 ~~~yd~IlVDE~QD~-~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy--~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~ 1441 (2576)
..+|||++|||+--. -|.-+--| . ..+.|++|||..|--- +....|-.++..-+++.+..
T Consensus 794 ~R~FD~cIiDEASQI~lP~~LgPL---~--~s~kFVLVGDh~QLpPLV~s~ear~~Gl~~SLFkrL~e------------ 856 (1100)
T KOG1805|consen 794 NRQFDYCIIDEASQILLPLCLGPL---S--FSNKFVLVGDHYQLPPLVRSSEARQEGLSESLFKRLSE------------ 856 (1100)
T ss_pred ccccCEEEEccccccccchhhhhh---h--hcceEEEecccccCCccccchhhhhcCcchHHHHHHhh------------
Confidence 467999999999333 33333222 1 1357999999999542 22223333443333333311
Q ss_pred ccCCccEEecccccCCchHHHHHHHHHHHHHhccCCCCcccc--------------CCcc-------cccCCCCCEEE-c
Q 000053 1442 KRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFPHSVDIL--------------KPET-------SLIYGEPPILL-E 1499 (2576)
Q Consensus 1442 ~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p~~~~~l--------------~~~~-------~~~~G~~P~l~-~ 1499 (2576)
..+.....|+.-||...+|..++|.++-... .--++.+.. .... .......++.+ .
T Consensus 857 -~hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~-L~Cgs~eVs~~~~~~~~~~~~~~~~~s~s~~wl~~v~~p~~~v~f~~ 934 (1100)
T KOG1805|consen 857 -KHPEAVSSLTLQYRMNREIMRLSNKLIYGNR-LKCGSKEVSRASELDRKGALSVYMDDSSSDHWLQAVLEPTRDVCFVN 934 (1100)
T ss_pred -hCchHHHhHHHHHhhcchHHhhhhhheECCe-eeecChhhhhhhccccchhhhhhcccccchHHHHHhhcCCccceEEe
Confidence 1234456799999999999999998863110 000000000 0000 00011112222 1
Q ss_pred cCC--------------HHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhCC-CeEEEeeeccCCccccE
Q 000053 1500 SGD--------------EENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVGK-QALVLTIVESKGLEFQD 1564 (2576)
Q Consensus 1500 ~~~--------------~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~~-~V~V~TIH~aKGLEFd~ 1564 (2576)
.++ ...++..+...+......++. ..++-|+.+.+.+.+-+...+.. .+.|-||.+..|.+-|.
T Consensus 935 ~D~~~~ie~~~e~~~i~N~~EA~li~~~~~~fv~sGv~-~~dIGIis~YraQv~Li~~~l~~~~lEinTVD~yQGRDKd~ 1013 (1100)
T KOG1805|consen 935 TDTCSTIESQGEKGGITNHGEAKLISELVEDFVKSGVK-PSDIGIISPYRAQVELIRKILSSAVLEINTVDRYQGRDKDC 1013 (1100)
T ss_pred cCcccchhhhccccCcCchhHHHHHHHHHHHHHHcCCC-HHHeeeeehHHHHHHHHHhhccccceeeeehhhhcCCCCCE
Confidence 111 111233333333333333332 25677999999999999988863 46899999999999999
Q ss_pred EEEeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCC
Q 000053 1565 VLLYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEE 1638 (2576)
Q Consensus 1565 ViL~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~ 1638 (2576)
|++- |.... .......+-++.|.+-||+||||++|+++++.+.
T Consensus 1014 IivS-fvrsn------------------------------~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~ 1056 (1100)
T KOG1805|consen 1014 IIVS-FVRSN------------------------------KKSKVGELLKDWRRLNVALTRAKKKLILVGSKST 1056 (1100)
T ss_pred EEEE-EEecC------------------------------CcccHHHHHHhhHHHHHHHHhhhceEEEEecccc
Confidence 9995 21110 0011122346788899999999999999998764
No 57
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=99.39 E-value=1.3e-13 Score=179.48 Aligned_cols=108 Identities=27% Similarity=0.276 Sum_probs=81.5
Q ss_pred CCCHHHHHHHHHHHHHhcccCCCCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcch--hhHHH
Q 000053 1344 EFDLADLVNDLHHRLKEESYKGDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRF--QDIRS 1421 (2576)
Q Consensus 1344 ~~D~~Dlv~~~~~~L~~~~~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf--~~l~~ 1421 (2576)
..|++++....+..+...........+++|||+||+.+.|+..+. ++.. ..+..+||++|+||+ |+. +..+-
T Consensus 206 l~dsct~~~~~~~~~q~~~~~~n~~t~vLvdEfqd~~~~qL~p~~-~~k~--~~~a~tGdt~qsIy~---fa~~~a~~~~ 279 (853)
T KOG2108|consen 206 LEDSCTLAMNSLKVLQRPRVCSNKITHVLVDEFQDILKIQLEPLQ-VLKI--KAFAGTGDTDQSIYK---FAGKWAEIRI 279 (853)
T ss_pred ccchHHHHHHHHHHhhcchhccCCcceEEeeccccccccccchHH-HHhh--hhheeecCchHHHHH---HhhhhhhHHH
Confidence 789999999888888777777778899999999999999999998 4544 479999999999987 443 33332
Q ss_pred HHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHH
Q 000053 1422 LFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIEL 1471 (2576)
Q Consensus 1422 ~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~ 1471 (2576)
++.+ | ..........|-.|||+++.|+.+|..++..
T Consensus 280 l~~~-f-------------~~~~~~~~~~lf~n~rs~~~ih~la~~~I~~ 315 (853)
T KOG2108|consen 280 LYVT-F-------------NKFIATQAERLFPNNRSCKTIHSLAYGAIGR 315 (853)
T ss_pred HHHh-h-------------CcHHHHHHHHHhhcccccHHHHHHHHHHHhh
Confidence 2211 1 0001223456889999999999999988863
No 58
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=99.38 E-value=5.6e-12 Score=180.42 Aligned_cols=175 Identities=19% Similarity=0.143 Sum_probs=104.9
Q ss_pred CCCCEEEEEcCCCCChhHHhhhcccc-C----cceEEEecCCCCCCccccccchhhhhccccHHHHHhh--ccCCccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLS-G----IKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSH--LRHSKHLLS 649 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~-~----~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~--~g~~~~~L~ 649 (2576)
..|+++.|||++.....+--|.-.+. + ...+++||||+|- +-.--|.+..+|..... .....+.|.
T Consensus 377 ~~~~~iLIDEfQDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQS-------IY~FRgAD~~~f~~a~~~~~~~~~~~L~ 449 (1139)
T COG1074 377 EQYPHILIDEFQDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQS-------IYRFRGADIFTFLEAASSEKAFARITLE 449 (1139)
T ss_pred hcCCeEEeeccccCCHHHHHHHHHHHhcCCCCCCceEEecCchHH-------hhhhcCCChHHHHHHhhccccCceeecc
Confidence 46999999999999987644332222 1 2489999999992 22222345566777666 456788999
Q ss_pred cccccCccccccccccccc------CcccCCccccccccccccCCCCC---CCCc-EEEEccC-Cccccc--cccccCHH
Q 000053 650 IQYRMHPSISFFPNSYFYE------NKIHDSPTVEKRSYEKRFLPGPM---YGPY-SFINVFG-GREEFI--EHSCRNMV 716 (2576)
Q Consensus 650 ~qYRmhp~I~~f~n~~fY~------g~L~~~~~~~~~~~~~~~~~~~~---~~~~-~fidv~~-g~e~~~--~~S~~N~~ 716 (2576)
++||+.|++.+++|..|=. +.+...+.... .... ..++.. ..+. .+..... +..... ........
T Consensus 450 ~N~RS~~~vl~avN~lF~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~ 527 (1139)
T COG1074 450 TNYRSTPELLNAVNALFKQAMFAYPGEIDYDPVAEL-GARN-GSPGSVNGEPLPALKFWEEEDDWTAPENEEDEREIADL 527 (1139)
T ss_pred cccCCcHHHHHHHHHHHhhhhhhcCCCCCCchhhhh-hccc-CCCCCCCcccchhhhhhcCcccccCCCCchhHHHHHHH
Confidence 9999999999999988842 12211111111 0000 011100 0111 1111100 001001 11344566
Q ss_pred HHHHHHHHHHHHHhcc-----cCCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 717 EVSVVMKILLNLYKGW-----INSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 717 Ea~~v~~lv~~L~~~~-----~~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
+|..|...+..+.... .+..+.++|+|++.-++++..|++.|++
T Consensus 528 ~a~~Ia~~L~~~~~~~~~~~~~r~i~~~DIaILVR~~~ea~~i~~aL~~ 576 (1139)
T COG1074 528 EARQIAAWLRELIEGEAVLDGERPIRAGDIAVLVRSRNEAAAIERALKK 576 (1139)
T ss_pred HHHHHHHHHHHHhhCCccccCCCCCChhheEEEeecchhHHHHHHHHHh
Confidence 7777888887777543 1356788999999999999999888864
No 59
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.35 E-value=3.1e-11 Score=166.84 Aligned_cols=80 Identities=15% Similarity=0.094 Sum_probs=54.2
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCC
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQL 1445 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~ 1445 (2576)
...+.|+|||+--.+..++.-|...+...+..+++|||++|--.-+.|.-|.++...
T Consensus 432 ~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~aG~~f~~L~~~----------------------- 488 (988)
T PRK13889 432 TSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEAGAAFRSIHER----------------------- 488 (988)
T ss_pred ccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCCCchHHHHHHh-----------------------
Confidence 356899999999999888776655554556789999999995554555555554221
Q ss_pred ccEEecccccCCchHH-HHHHHHH
Q 000053 1446 SDIFNLRQNFRTHVGV-LNLAQSI 1468 (2576)
Q Consensus 1446 ~~~~~L~~NYRS~~~I-l~lAn~v 1468 (2576)
.....|++.+|...+. ...++.+
T Consensus 489 ~~~a~LteI~RQ~~~~~r~aa~~i 512 (988)
T PRK13889 489 HGGAEIGEVRRQREDWQRDATRDL 512 (988)
T ss_pred cCeEEeceeecCCCHHHHHHHHHH
Confidence 1236799999986543 3444444
No 60
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=99.35 E-value=1.1e-10 Score=167.43 Aligned_cols=173 Identities=13% Similarity=0.091 Sum_probs=95.2
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccccC---cceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLSG---IKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~~---~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYR 653 (2576)
.+|++|+|||++.+...+.-+...+.+ ...+++||||+|- |.. --|.+...|-.........+.|+++||
T Consensus 376 ~~y~~ilIDEfQDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQs--IY~-----FRGAd~~~~l~~~~~~~~~~~L~~NyR 448 (1181)
T PRK10876 376 TRYPVAMIDEFQDTDPQQYRIFRRIYRHQPETALLLIGDPKQA--IYA-----FRGADIFTYMKARSEVSAHYTLDTNWR 448 (1181)
T ss_pred hCCCEEEEECCccCCHHHHHHHHHHHcCCCCCeEEEEeCCccc--ccc-----CCCCCchHHHHHHhccCCeeECCCCcC
Confidence 479999999999999888665554432 3479999999993 110 001111112111111124578999999
Q ss_pred cCcccccccccccccCcc---c---CCccccc--cccccccC-CCCCCCCcEEEEccCCccccccccccCHHHHHHHHHH
Q 000053 654 MHPSISFFPNSYFYENKI---H---DSPTVEK--RSYEKRFL-PGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKI 724 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L---~---~~~~~~~--~~~~~~~~-~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~l 724 (2576)
++|+|.+++|..|-...- . +..++.. ........ .+....+..++-. .+.. .........||..|..-
T Consensus 449 S~~~Iv~~~N~lf~~~~~~~~~~~i~~~~v~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~--~~~~~~~~~eA~~iA~~ 525 (1181)
T PRK10876 449 SAPGMVNSVNKLFSQTDDPFLFREIPFIPVKAAGKNQALRFVVKGETQPAMKFWLM-EGEG--VGVGDYQQTMAQQCAAQ 525 (1181)
T ss_pred cCHHHHHHHHHHHhcccccccCCCCCccccccccccccccccccCCCCCceeeeec-CCCc--cCcchHHHHHHHHHHHH
Confidence 999999999988754321 0 0000000 00000000 0110112223222 1111 01112234577888887
Q ss_pred HHHHHhccc------------CCCCCCeEEEEcccHHHHHHHHHHhc
Q 000053 725 LLNLYKGWI------------NSKEKLSIGIVSPYIAQVAAIQEKLG 759 (2576)
Q Consensus 725 v~~L~~~~~------------~~~~~~sIgIITPY~aQv~~I~~~L~ 759 (2576)
+..++..+. ...+..+|+|++..+.|...|++.|.
T Consensus 526 I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~ 572 (1181)
T PRK10876 526 IRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALT 572 (1181)
T ss_pred HHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHH
Confidence 877775431 12456789999998888888776664
No 61
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=99.34 E-value=7.3e-11 Score=147.07 Aligned_cols=271 Identities=13% Similarity=0.055 Sum_probs=199.4
Q ss_pred HHHhhcCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHH
Q 000053 1664 QAMQVASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEAR 1743 (2576)
Q Consensus 1664 ~~~~~~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~ 1743 (2576)
+.....+.|.-|+-.++. ++....++-|..+|.|+||....++.+...-. ..+.++..+....-
T Consensus 684 qfiEdnPHprLWrllAe~---------------Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i-~s~~~q~aei~~~~ 747 (1189)
T KOG2041|consen 684 QFIEDNPHPRLWRLLAEY---------------ALFKLALDTAEHAFVRCGDYAGIKLVKRLRTI-HSKEQQRAEISAFY 747 (1189)
T ss_pred HHHhcCCchHHHHHHHHH---------------HHHHHhhhhHhhhhhhhccccchhHHHHhhhh-hhHHHHhHhHhhhh
Confidence 334557888899887765 78888999999999999998776666543211 01112223444567
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhC---C----chHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1744 IILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERC---E----EPELEKAGECFSLAGCYKLAADVYARGSFLAE 1816 (2576)
Q Consensus 1744 ~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~---~----~~~~~~aAe~~e~~g~~~eAAelY~kagd~~k 1816 (2576)
+.|+||.++|..+.+-+.|++++.+.|+|-+..++++.-. + +..++..|++|.....|++|++.|.++|+.+.
T Consensus 748 g~feeaek~yld~drrDLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~ 827 (1189)
T KOG2041|consen 748 GEFEEAEKLYLDADRRDLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTEN 827 (1189)
T ss_pred cchhHhhhhhhccchhhhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHh
Confidence 8899999999999999999999999999999999999732 1 13588999999999999999999999999999
Q ss_pred HHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHH
Q 000053 1817 CLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLN 1896 (2576)
Q Consensus 1817 Ai~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~ 1896 (2576)
-++++.....|++.-.+++..... ..++...+..|...|.-..|.+++..++....|..-++
T Consensus 828 ~~ecly~le~f~~LE~la~~Lpe~------------------s~llp~~a~mf~svGMC~qAV~a~Lr~s~pkaAv~tCv 889 (1189)
T KOG2041|consen 828 QIECLYRLELFGELEVLARTLPED------------------SELLPVMADMFTSVGMCDQAVEAYLRRSLPKAAVHTCV 889 (1189)
T ss_pred HHHHHHHHHhhhhHHHHHHhcCcc------------------cchHHHHHHHHHhhchHHHHHHHHHhccCcHHHHHHHH
Confidence 999999999999999888843321 12444555666666666666666666666666666666
Q ss_pred hcCCHHHHHHHHHhccCHHH------HHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcCCCCCCCCccccc
Q 000053 1897 SKGCFDELLVLEEESESFMD------AANIARLRGDILRTVDLLQKVGNFKEACNLTLNYVLSNSLWSSGSKGWPLKQFT 1970 (2576)
Q Consensus 1897 ~~~~~dea~ell~~~g~fee------Aa~ia~~~G~~~eA~kly~~aG~~~eA~klll~~~~~~~lw~~~~~g~~~~~~~ 1970 (2576)
..++|.+|+++.....-.+- -+.-+...++..+|++++.+||++-+|.|++.+ --=+..-+|.|+-+ +
T Consensus 890 ~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~q-----mae~e~~K~~p~lr-~ 963 (1189)
T KOG2041|consen 890 ELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQ-----MAEREQEKYVPYLR-L 963 (1189)
T ss_pred HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHH-----HhHHHhhccCCHHH-H
Confidence 66777777666653322221 122234678888999999999999999996443 33456667888776 5
Q ss_pred cHHH
Q 000053 1971 QKKE 1974 (2576)
Q Consensus 1971 ~~~~ 1974 (2576)
+|-=
T Consensus 964 KklY 967 (1189)
T KOG2041|consen 964 KKLY 967 (1189)
T ss_pred HHHH
Confidence 5543
No 62
>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=99.30 E-value=3.6e-10 Score=163.96 Aligned_cols=58 Identities=26% Similarity=0.316 Sum_probs=49.4
Q ss_pred cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC---CCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 223 TDSGATVQLIWGPPGTGKTKTVSMLLVILLQM---KFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 223 ~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~---~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
.+...++ +|.+++|||||++++..+..|+.. +.+||++++||.|+.|+.+|+.+.+.+
T Consensus 7 ~dp~~~~-~~~a~agsgkt~~l~~~~~~~~~~~~~~~~i~~~t~t~~aa~em~~Ri~~~L~~ 67 (1141)
T TIGR02784 7 SDPKTSA-WVSANAGSGKTHVLTQRVIRLLLNGVPPSKILCLTYTKAAAAEMQNRVFDRLGE 67 (1141)
T ss_pred cCCCCCE-EEEEECCCCHHHHHHHHHHHHHHcCCCCCeEEEEecCHHHHHHHHHHHHHHHHH
Confidence 3444554 599999999999999999988865 478999999999999999999988754
No 63
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=99.25 E-value=1.4e-10 Score=161.20 Aligned_cols=156 Identities=15% Similarity=0.110 Sum_probs=98.7
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccc-cCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc--cCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQL-SGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL--RHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l-~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~--g~~~~~L~~qYR 653 (2576)
..|++|+|||++.++..+..+.-.+ ...+++++|||+.|- +. .-.|.....+.++... +...+.|+++||
T Consensus 208 ~~~~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Qs--IY-----~fRgA~~~~~~~f~~~~~~~~~i~L~~NyR 280 (726)
T TIGR01073 208 RKFQYIHVDEYQDTNRAQYTLVRLLASRFRNLCVVGDADQS--IY-----GWRGADIQNILSFEKDYPNATTILLEQNYR 280 (726)
T ss_pred HhCCEEEEEccccCCHHHHHHHHHHhCCCCEEEEEeCCCcc--cc-----ccCCCChHHHHHHHHhCCCCeEEECccCCC
Confidence 4699999999999998886544333 235789999999992 21 1111122223333221 234578999999
Q ss_pred cCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhccc
Q 000053 654 MHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGWI 733 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~ 733 (2576)
++|.|.++.|..+-.+.-...... ....+...++.++.. ..-..|+..|+..+..++..+.
T Consensus 281 S~~~Il~~an~li~~~~~r~~~~l--------~~~~~~g~~v~~~~~-----------~~~~~Ea~~ia~~I~~l~~~~~ 341 (726)
T TIGR01073 281 STKNILQAANEVIEHNSNRKPKNL--------WTENSSGDKITYYEA-----------DTERDEAQFVAGEIDKLVKNGE 341 (726)
T ss_pred CCHHHHHHHHHHHHhccccccccc--------ccCCCCCcceEEEeC-----------CCHHHHHHHHHHHHHHHHHcCC
Confidence 999999999977644321100000 000111112223222 1124688999999988887642
Q ss_pred CCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 734 NSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 734 ~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
.+..+|+|+++.+.|...+...|.+
T Consensus 342 --~~~~diAVL~R~~~~~~~l~~~L~~ 366 (726)
T TIGR01073 342 --RKYGDFAILYRTNAQSRVFEETLLK 366 (726)
T ss_pred --CCcCCEEEEEeCchhHHHHHHHHHH
Confidence 3668999999999999999999965
No 64
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=99.24 E-value=2.4e-10 Score=158.64 Aligned_cols=155 Identities=14% Similarity=0.103 Sum_probs=98.7
Q ss_pred CCCCEEEEEcCCCCChhHHhhhcccc-CcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc--cCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLS-GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL--RHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~-~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~--g~~~~~L~~qYR 653 (2576)
..|++|+|||++.++..+..+.-.+. ..+++++|||+.|- +. .-.|.....+.++... +...+.|+++||
T Consensus 207 ~~~~~ilVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~Qs--IY-----~fRGA~~~~i~~f~~~~~~~~~~~L~~NyR 279 (715)
T TIGR01075 207 ERFTHILVDEFQDTNKIQYAWIRLLAGNTGNVMIVGDDDQS--IY-----GWRGAQVENIQKFLKDFPGAETIRLEQNYR 279 (715)
T ss_pred HhCCEEEEEccccCCHHHHHHHHHHhCCCCeEEEEeCCccc--cc-----ccCCCCHHHHHHHHHhCCCCeEEECcccCC
Confidence 46999999999999988865554433 35789999999992 11 1111122223333221 224678999999
Q ss_pred cCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhccc
Q 000053 654 MHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGWI 733 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~ 733 (2576)
+++.|.++.|..+-.+.-...... ....+...++.++.. .....||..|++.+..+...+.
T Consensus 280 S~~~Il~~an~li~~~~~r~~~~~--------~~~~~~g~~i~~~~~-----------~~~~~Ea~~ia~~I~~l~~~g~ 340 (715)
T TIGR01075 280 STANILAAANALIANNDERLGKNL--------WTDGEVGEPISLYSA-----------FNELDEARFVVSRIKTWQRNGG 340 (715)
T ss_pred CCHHHHHHHHHHHHhccccccccc--------cCCCCCCCceEEEeC-----------CCHHHHHHHHHHHHHHHHHcCC
Confidence 999999999977643321100000 000000112222221 1124689999999988887643
Q ss_pred CCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 734 NSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 734 ~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
+..+|+|++..+.|...+...|.+
T Consensus 341 ---~~~diAVL~R~~~~~~~le~~L~~ 364 (715)
T TIGR01075 341 ---ALDECAVLYRSNAQSRVLEEALLQ 364 (715)
T ss_pred ---CccCEEEEEecCchHHHHHHHHHH
Confidence 568999999999999999999965
No 65
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.23 E-value=1.8e-10 Score=163.42 Aligned_cols=76 Identities=18% Similarity=0.189 Sum_probs=58.8
Q ss_pred CCCEEEEEcCCCCChhHHhhhcccc--CcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc-cCCcccccccccc
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQLS--GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL-RHSKHLLSIQYRM 654 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~l~--~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~-g~~~~~L~~qYRm 654 (2576)
+.+++|||||||+...++...+.+. ...++|||||+.||||+-.+ +.|+.+... +.+...|++.+|.
T Consensus 930 ~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG----------~~F~~lq~~~~~~ta~L~eI~RQ 999 (1623)
T PRK14712 930 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG----------QPFRLQQTRSAADVVIMKEIVRQ 999 (1623)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC----------HHHHHHHHcCCCCeEEeCeeecC
Confidence 3589999999999987765544322 23699999999999999533 568888775 6889999999999
Q ss_pred Ccccccccc
Q 000053 655 HPSISFFPN 663 (2576)
Q Consensus 655 hp~I~~f~n 663 (2576)
.|++-..+.
T Consensus 1000 ~~elr~AV~ 1008 (1623)
T PRK14712 1000 TPELREAVY 1008 (1623)
T ss_pred CHHHHHHHH
Confidence 887655443
No 66
>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=99.22 E-value=2.9e-10 Score=145.27 Aligned_cols=90 Identities=17% Similarity=0.254 Sum_probs=61.6
Q ss_pred CCCCccEEEEecCCCCCH--------HHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCC
Q 000053 1364 KGDEFHFVYIDEVQDLTM--------SQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNG 1435 (2576)
Q Consensus 1364 ~~~~yd~IlVDE~QD~~~--------~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~ 1435 (2576)
....||+|+|||+|++.. .+...|..+.+. ...++++.|+.|+|+++.-...+.+.......
T Consensus 80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~-~kv~v~f~D~~Q~i~~~e~~~~~~l~~~~~~~--------- 149 (352)
T PF09848_consen 80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR-AKVVVFFYDENQSIRPSEIGTLENLEEIAENL--------- 149 (352)
T ss_pred cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc-CCEEEEEEccccEeecccCCCHHHHHHHHHhc---------
Confidence 357899999999999998 234566666665 44688889999999875422223333333111
Q ss_pred CCCcccccCCccE-EecccccCC--chHHHHHHHHHHH
Q 000053 1436 NDGRQEKRQLSDI-FNLRQNFRT--HVGVLNLAQSIIE 1470 (2576)
Q Consensus 1436 ~~~~~~~~~~~~~-~~L~~NYRS--~~~Il~lAn~vi~ 1470 (2576)
...... +.|+..||+ ++.++++.+.++.
T Consensus 150 -------~~~~~~~~~L~~q~R~~~~~~~~~wI~~ll~ 180 (352)
T PF09848_consen 150 -------GIEVRHFFELKTQFRCHGSKEYIDWIDNLLD 180 (352)
T ss_pred -------CCccccCcCcCcceecCCCHHHHHHHHHHHh
Confidence 011122 489999999 8889999998875
No 67
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=99.21 E-value=3.2e-10 Score=155.45 Aligned_cols=155 Identities=17% Similarity=0.057 Sum_probs=93.0
Q ss_pred CCCCEEEEEcCCCCChhHHhhhcccc-CcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc--cCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLS-GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL--RHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~-~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~--g~~~~~L~~qYR 653 (2576)
..|++|+|||++.+...+.-+.-.+. ...++++|||+.|--- .-.|.....|.++... +...+.|+++||
T Consensus 206 ~~~~~ilVDE~QDtn~~Q~~ll~~l~~~~~~l~~VGD~~QsIY-------~frGA~~~~~~~f~~~~~~~~~~~L~~NyR 278 (672)
T PRK10919 206 NKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQSIY-------SWRGARPQNLVLLSQDFPALQVIKLEQNYR 278 (672)
T ss_pred hcCCEEEEEchhcCCHHHHHHHHHHHcCCCEEEEEcCCccccc-------ccCCCChHHHHHHHHhCCCCcEEECCCCCC
Confidence 36999999999999988866554443 3468999999999311 1112223344443331 235678999999
Q ss_pred cCcccccccccccccCcccCCccccccccccccCC-CCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhcc
Q 000053 654 MHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLP-GPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGW 732 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~-~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~ 732 (2576)
++++|..+.|..+=.+.-. ..+.... .+...++.++.. ..-..||..|+.-+......
T Consensus 279 s~~~I~~~an~li~~n~~~---------~~k~~~~~~~~g~~~~~~~~-----------~~~~~ea~~i~~~i~~~~~~- 337 (672)
T PRK10919 279 SSGRILKAANILIANNPHV---------FEKRLFSELGYGDELKVLSA-----------NNEEHEAERVTGELIAHHFV- 337 (672)
T ss_pred CcHHHHHHHHHHHhhCccc---------cccccccCCCCCCceEEEcC-----------CCHHHHHHHHHHHHHHHHHh-
Confidence 9999999999766332210 0000000 010112222221 01135677665443332211
Q ss_pred cCCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 733 INSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 733 ~~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
...+..+|+|++--+.|...+.+.|.+
T Consensus 338 -~~~~~~diAVL~Rs~~~~~~le~~L~~ 364 (672)
T PRK10919 338 -NKTQYKDYAILYRGNHQSRVFEKFLMQ 364 (672)
T ss_pred -cCCCcCcEEEEEeCchhHHHHHHHHHH
Confidence 224568999999999999999999965
No 68
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.20 E-value=9.3e-11 Score=168.70 Aligned_cols=70 Identities=20% Similarity=0.272 Sum_probs=55.8
Q ss_pred CCEEEEEcCCCCChhHHhhhcccc--CcceEEEecCCCCCCccccccchhhhhccccHHHHHhh-ccCCccccccccccC
Q 000053 579 LNFLVIDEAAQLKESESTIPLQLS--GIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSH-LRHSKHLLSIQYRMH 655 (2576)
Q Consensus 579 fD~VIIDEAsQ~~e~e~lipL~l~--~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~-~g~~~~~L~~qYRmh 655 (2576)
.+++|||||||+...++...+... ...++|||||+.||||+-.+ ..|..|.. .+++...|++.+|..
T Consensus 1063 ~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG----------~~f~~l~~~~~i~~~~L~eI~RQ~ 1132 (1747)
T PRK13709 1063 NTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG----------QPFRLMQTRSAADVAIMKEIVRQT 1132 (1747)
T ss_pred CcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC----------hHHHHHHHhCCCCeEEeCeEEcCc
Confidence 489999999999987766665432 23699999999999999532 56777776 478899999999998
Q ss_pred ccc
Q 000053 656 PSI 658 (2576)
Q Consensus 656 p~I 658 (2576)
+.+
T Consensus 1133 ~~l 1135 (1747)
T PRK13709 1133 PEL 1135 (1747)
T ss_pred HHH
Confidence 743
No 69
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=99.12 E-value=2.5e-09 Score=148.16 Aligned_cols=155 Identities=16% Similarity=0.078 Sum_probs=92.5
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccccC-cceEEEecCCCCCCccccccchhhhhccccHHHHHhh-c-cCCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSH-L-RHSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~~-~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~-~-g~~~~~L~~qYR 653 (2576)
..|++|+|||++.++..+.-+.-.+.+ ..++.+|||+.|--- .-.|.+...|.++.. . +...+.|+++||
T Consensus 205 ~~~~~ilVDEfQD~~~~Q~~ll~~L~~~~~~l~~vGD~~QsIY-------~frga~~~~~~~~~~~~~~~~~~~L~~NyR 277 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNTSQYELVKLLVGDRARFTVVGDDDQSIY-------SWRGARPENLVLLKEDFPQLKVIKLEQNYR 277 (664)
T ss_pred HhCCEEEEeehccCCHHHHHHHHHHhcCCCeEEEEcCCccccc-------CCCCCCHHHHHHHHHhCCCCeEEECCCCCC
Confidence 468999999999999888665544432 468999999999211 001111222333322 1 234578999999
Q ss_pred cCcccccccccccccCcccCCccccccccccccCC-CCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhcc
Q 000053 654 MHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLP-GPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGW 732 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~-~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~ 732 (2576)
++|+|.++.|..+-.+. ... .+...+ .+..+++.++.. .....|+..|+..+......
T Consensus 278 s~~~Il~~~n~l~~~~~-----~~~----~~~~~~~~~~g~~v~~~~~-----------~~~~~Ea~~ia~~I~~~~~~- 336 (664)
T TIGR01074 278 STGRILKAANILIANNP-----HVF----EKKLFSELGYGEKIKVIEC-----------NNEEHEAERIAGEIIAHKLV- 336 (664)
T ss_pred ChHHHHHHHHHHHhcCc-----ccc----cccccccCCCCCceEEEeC-----------CCHHHHHHHHHHHHHHHHHc-
Confidence 99999999998543221 000 000000 010112233222 11245777777766532211
Q ss_pred cCCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 733 INSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 733 ~~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
...+..+|+|++..+.|...|...|.+
T Consensus 337 -~~~~~~diAVL~R~~~~~~~l~~~l~~ 363 (664)
T TIGR01074 337 -NKTQYKDYAILYRGNHQSRLLEKALMQ 363 (664)
T ss_pred -CCCCcccEEEEEecCchHHHHHHHHHH
Confidence 134668999999999999999999965
No 70
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=99.05 E-value=3.5e-08 Score=140.74 Aligned_cols=244 Identities=10% Similarity=0.094 Sum_probs=146.6
Q ss_pred hHHHHHHHHhhh-hhhhhhcccCChhhhHhhhhcCChhHHHHHHHHHHhccccchhhhccCCCHHHHHhhhhhccccccH
Q 000053 1244 SVFIETIIRKKE-VNYERFSSSYWPHFNAQLARKLDPSRVFTEIISHIKGGLQSIEVVNGKLNREDYVNLSETRNSSLSR 1322 (2576)
Q Consensus 1244 ~~~~~~~i~~~~-v~~~~F~~~~w~~~~~~~~k~ld~~~v~~EI~s~IkG~~~~~~~~~~~ls~e~Y~~l~r~r~~~l~~ 1322 (2576)
.+.++..+.... -....|... .+.......+...++.+| ...+++++...+.. .
T Consensus 86 ~Mll~~il~e~~~~eL~~f~~~---------~~~~GFi~~l~~~i~Elk---------~~~i~pe~L~~~~~-------~ 140 (1076)
T TIGR02774 86 AMIFYRALAQLEPGDLKVYGRL---------KQDPQFIQQLVELYKELQ---------KSQLSILDLENLTS-------P 140 (1076)
T ss_pred HHHHHHHHHHcChhhhHHHHhh---------cCCccHHHHHHHHHHHHH---------HcCCCHHHHHHHhH-------H
Confidence 455556666554 445555432 122233344444444444 56788887765543 3
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcc-cCCCCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEE
Q 000053 1323 QKRERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEES-YKGDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFS 1401 (2576)
Q Consensus 1323 ~~r~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~-~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~v 1401 (2576)
.....+.-+|..|++.+.+ .++|-+|.+..+...+.... ...-+=.+|+|||||||||.|+.+|..|... ..+++++
T Consensus 141 ~Kl~Dl~lIy~~f~~~l~~-~y~~~ed~L~~l~~~l~~~~~~~~l~~~~i~IDgF~~FTp~Q~~vIe~L~~~-~~~v~v~ 218 (1076)
T TIGR02774 141 DKREDLLAIFEKVTAYLNQ-GQYAQQSKLAHFIEAIESGKLDSDLKNTVLVIDGFTRFSAEEEALVSLLHGK-GVEIIIG 218 (1076)
T ss_pred HhHHHHHHHHHHHHHHHHh-cCCCcHHHHHHHHHHHhcccccHhhCCCEEEEccCCCCCHHHHHHHHHHHHh-CCEEEEE
Confidence 3455677788888888776 57888999988888886521 1123457899999999999999999999987 5679999
Q ss_pred eCCCCccccCCCcch----hhHHHHHHHhhhhhccCCCCCCcccccCCccEEecccccCCchHHHHHHHHHHHHHhccCC
Q 000053 1402 GDTAQTIARGIDFRF----QDIRSLFYKKFVLESRNNGNDGRQEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFP 1477 (2576)
Q Consensus 1402 GD~~QSIy~g~~frf----~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p 1477 (2576)
+|.+|++|.. +|+. ......+. .+.. ..+.....+..|||++++|..+++.+.. ...++
T Consensus 219 l~~D~~~~~~-~~~~~~LF~~s~~~L~-~la~-------------~~~i~v~~~~~~~R~~~~L~~Le~~~~~--~~~~~ 281 (1076)
T TIGR02774 219 AYASQKAYKS-SFSEGNLYQASVKFLH-DLAQ-------------KYQTKAEFISSTHESKDSFDKLSRLLEA--SHDFS 281 (1076)
T ss_pred EEcCcccccc-CCCcccchHHHHHHHH-HHHH-------------HcCCCcccCccccccCHHHHHHHHHHhh--cccCC
Confidence 9999999731 1222 11111111 1100 0012223345889999999999985543 11122
Q ss_pred CCccccCCcccccCCCCCEEEccCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechh
Q 000053 1478 HSVDILKPETSLIYGEPPILLESGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDC 1536 (2576)
Q Consensus 1478 ~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~ 1536 (2576)
...-.... ..++.+.+..+.+...++..++..+......+.. ..+++|++|+..
T Consensus 282 ~~~~~~~~----~~~~~I~i~~a~n~~~Eve~va~~I~~lv~~g~r-y~DIaVl~rd~~ 335 (1076)
T TIGR02774 282 ELALDLDD----KDKDNLTIWSCLTQKEEVEHVARSIRQKLYEGYR-YKDILVLLGDVD 335 (1076)
T ss_pred cccccCCC----CCCCceEEEEcCCHHHHHHHHHHHHHHHHHcCCC-hhheEEEcCCHH
Confidence 21000000 0124578888889888888888888764433332 234555555543
No 71
>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=99.02 E-value=7.3e-10 Score=164.43 Aligned_cols=74 Identities=18% Similarity=0.213 Sum_probs=54.6
Q ss_pred CCCEEEEEcCCCCChhHHhhhccc--cCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhc-cCCcccccccccc
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQL--SGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHL-RHSKHLLSIQYRM 654 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~l--~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~-g~~~~~L~~qYRm 654 (2576)
+-+++|||||||+...++.-.+.+ ....++|||||+.||||+-.+ ..|+-+... .++.+.|++.+|.
T Consensus 1112 ~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~aG----------~~f~~~~~~~~~~~~~L~~I~RQ 1181 (1960)
T TIGR02760 1112 RNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAAG----------KPFELAITFDIIDTAIMKEIVRQ 1181 (1960)
T ss_pred cccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCCC----------cCHHHHHhcCCCCeEEeeeEecC
Confidence 357999999999998876666542 334799999999999998432 235555543 4788999999998
Q ss_pred C--cccccc
Q 000053 655 H--PSISFF 661 (2576)
Q Consensus 655 h--p~I~~f 661 (2576)
. |.+...
T Consensus 1182 ~~~~~l~~a 1190 (1960)
T TIGR02760 1182 NNSAELKAA 1190 (1960)
T ss_pred CCCHHHHHH
Confidence 3 555443
No 72
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=98.99 E-value=1.1e-08 Score=127.53 Aligned_cols=161 Identities=18% Similarity=0.201 Sum_probs=130.2
Q ss_pred CChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHH--HHHHHHHHHHhHhhcCChHHHHHHHH
Q 000053 1670 SSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGR--SKASGLKAAADRISSSNPLEARIILR 1747 (2576)
Q Consensus 1670 ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l--~~A~~l~~~a~~l~~~~~~~a~~~~~ 1747 (2576)
+..++-+++|+- -..+++|+.+.++|+|.+|++.|.+.|....+.. ..-..+-.+.+.+...++++.....+
T Consensus 621 ~EL~~~k~rge~------P~~iLlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~R 694 (1081)
T KOG1538|consen 621 SELEERKKRGET------PNDLLLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIR 694 (1081)
T ss_pred HHHHHHHhcCCC------chHHHHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHH
Confidence 344455555542 2468999999999999999999999998765431 11112223344567789999999999
Q ss_pred HHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhC---------------CchHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 000053 1748 EAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERC---------------EEPELEKAGECFSLAGCYKLAADVYARGS 1812 (2576)
Q Consensus 1748 eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~---------------~~~~~~~aAe~~e~~g~~~eAAelY~kag 1812 (2576)
+-|++-..+.+++.||+|...+|+.++|+++..+.. +.+-+..+|.++.+...+-.||++|.+.|
T Consensus 695 KRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~g 774 (1081)
T KOG1538|consen 695 KRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMG 774 (1081)
T ss_pred HHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhc
Confidence 999999999999999999999999999998866431 22457899999999999999999999999
Q ss_pred CHHHHHHHHHcCCCHHHHHHHHHh
Q 000053 1813 FLAECLDVCSKGKLFDIGLQYISY 1836 (2576)
Q Consensus 1813 d~~kAi~~y~k~k~fd~A~~l~r~ 1836 (2576)
|....+.+....+.|++|..++.+
T Consensus 775 D~ksiVqlHve~~~W~eAFalAe~ 798 (1081)
T KOG1538|consen 775 DLKSLVQLHVETQRWDEAFALAEK 798 (1081)
T ss_pred cHHHHhhheeecccchHhHhhhhh
Confidence 999999999999999999999983
No 73
>PF13245 AAA_19: Part of AAA domain
Probab=98.99 E-value=7.3e-10 Score=109.13 Aligned_cols=50 Identities=42% Similarity=0.618 Sum_probs=47.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhC----CCeEEEEecChHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQM----KFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~----~~rVLv~ApTN~AVd~V~~RL 275 (2576)
.+++.+|+||||||||+|++.++..++.. +.+||+++|||.|++++.+|+
T Consensus 9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 9 GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 36799999999999999999999999977 899999999999999999999
No 74
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=98.97 E-value=2.4e-08 Score=127.14 Aligned_cols=276 Identities=14% Similarity=0.164 Sum_probs=191.0
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCH-
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEY- 1772 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~- 1772 (2576)
|+||+..+.-+-|...|++++......-..-.+...+.+.....-. ....|.==|++.|+.|+-+.|+..|.++++|
T Consensus 865 A~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~--d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~f 942 (1416)
T KOG3617|consen 865 AKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKR--DESLYSWWGQYLESVGEMDAALSFYSSAKDYF 942 (1416)
T ss_pred HHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhcc--chHHHHHHHHHHhcccchHHHHHHHHHhhhhh
Confidence 7889999999999999999998644322111111111111111000 1235666788889999999999999887665
Q ss_pred ------------HHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhhc
Q 000053 1773 ------------ERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQH 1840 (2576)
Q Consensus 1773 ------------~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~~ 1840 (2576)
++|++|+.+..+...--..|+.|+..|...+|...|.++.-|++||++|.++++-|+...++- ..
T Consensus 943 s~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~nlal---~s 1019 (1416)
T KOG3617|consen 943 SMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLANLAL---MS 1019 (1416)
T ss_pred hheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh---hc
Confidence 788899888555555667889999999999999999999999999999999998888888877 22
Q ss_pred CCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcH-------------------HHHHHHHHhcCCH
Q 000053 1841 ADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSM-------------------DLIRNFLNSKGCF 1901 (2576)
Q Consensus 1841 ~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~-------------------e~a~~~l~~~~~~ 1901 (2576)
.+.+- + .+-..++--.-+...+..-|+++|...+|.++.=+.+.. ..+++|+..+.+|
T Consensus 1020 ~~~d~--v-~aArYyEe~g~~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qy 1096 (1416)
T KOG3617|consen 1020 GGSDL--V-SAARYYEELGGYAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQY 1096 (1416)
T ss_pred CchhH--H-HHHHHHHHcchhhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHH
Confidence 11110 0 001111222224555666777788777775543222211 1258889999999
Q ss_pred HHHHHHHHhccCHHHHHHHHHHcCCH--HHHHHHHH--HcCCHHHHHHHHHHHHHHHhhcCCCCCCCCccccccHHHHHH
Q 000053 1902 DELLVLEEESESFMDAANIARLRGDI--LRTVDLLQ--KVGNFKEACNLTLNYVLSNSLWSSGSKGWPLKQFTQKKELLE 1977 (2576)
Q Consensus 1902 dea~ell~~~g~feeAa~ia~~~G~~--~eA~kly~--~aG~~~eA~klll~~~~~~~lw~~~~~g~~~~~~~~~~~l~~ 1977 (2576)
+.|+.+++.+..|++|..++...|-. ++-++++. +.|.+.++.+.-+.--+...+=++++---+.|+|++--.=|.
T Consensus 1097 ekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdKl~ 1176 (1416)
T KOG3617|consen 1097 EKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDKLS 1176 (1416)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhHHH
Confidence 99999999999999999999887765 56677775 447888888876666666777788888778888876544343
No 75
>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=98.95 E-value=5.7e-10 Score=134.48 Aligned_cols=81 Identities=19% Similarity=0.254 Sum_probs=52.9
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCC
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQL 1445 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~ 1445 (2576)
..++.++|||+|++++-++.++..+.+. ..++++||+.|..|....-++.. ..+ ....
T Consensus 61 ~~~~~liiDE~~~~~~g~l~~l~~~~~~--~~~~l~GDp~Q~~~~~~~~~~~~------~~~--------------~~~~ 118 (234)
T PF01443_consen 61 KSYDTLIIDEAQLLPPGYLLLLLSLSPA--KNVILFGDPLQIPYISRNDSFLL------PHF--------------ISDI 118 (234)
T ss_pred CcCCEEEEeccccCChHHHHHHHhhccC--cceEEEECchhccCCccccccee------ccc--------------ccce
Confidence 4699999999999999999886555433 57999999999987531110000 000 0001
Q ss_pred ccEEecccccCCchHHHHHHHHH
Q 000053 1446 SDIFNLRQNFRTHVGVLNLAQSI 1468 (2576)
Q Consensus 1446 ~~~~~L~~NYRS~~~Il~lAn~v 1468 (2576)
.....+...||+...+..+.+..
T Consensus 119 ~~~~~~~~~~r~~~~~~~~~~~~ 141 (234)
T PF01443_consen 119 SHRFGKRTSYRCPSDRFDIISAL 141 (234)
T ss_pred eeeecceeEeecccccceeeecc
Confidence 34456778899887776666544
No 76
>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=98.87 E-value=5.1e-09 Score=126.27 Aligned_cols=171 Identities=24% Similarity=0.289 Sum_probs=99.0
Q ss_pred CCCEEEEEcCCCCChhHHhhhccccCcceEEEecCCCCCCccccccchhhhhccccHHHHHhhccCCccccccccccCcc
Q 000053 578 PLNFLVIDEAAQLKESESTIPLQLSGIKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLRHSKHLLSIQYRMHPS 657 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~lipL~l~~~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g~~~~~L~~qYRmhp~ 657 (2576)
.++++||||+++++.......+...+++.++++|||.|.+............+.... .....+.+.||+...
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~r~~~~ 133 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYISRNDSFLLPHFISDI--------SHRFGKRTSYRCPSD 133 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCCcccccceecccccce--------eeeecceeEeecccc
Confidence 589999999999997665555555667899999999998776432211111111111 234456788999888
Q ss_pred cccccccccc-cCcccCCccccccccccccCCCCCCCCcEEEEccCCccccccccccCHHHHHHHHHHHHHHHhcccCCC
Q 000053 658 ISFFPNSYFY-ENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEFIEHSCRNMVEVSVVMKILLNLYKGWINSK 736 (2576)
Q Consensus 658 I~~f~n~~fY-~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~~~~~ 736 (2576)
+..+.+...+ ....... ... .+.. . ....
T Consensus 134 ~~~~~~~~~~~~~~~~~~------------------~~~-~~~~-----~--------------------------~~~~ 163 (234)
T PF01443_consen 134 RFDIISALVYTEDHVESS------------------VEF-RVET-----D--------------------------PSGV 163 (234)
T ss_pred cceeeecccccCCceeec------------------ccc-cccc-----c--------------------------Cccc
Confidence 8888775511 1100000 000 0000 0 0000
Q ss_pred CCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEeccccc
Q 000053 737 EKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRAR 816 (2576)
Q Consensus 737 ~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR 816 (2576)
+ ..+.+++ ......+.+... .+.|++.+||.|+|.|++......... -+..++++++||+||||
T Consensus 164 ~-~~~~~~~----~~~~~~~~~~~~---------~~~T~~e~qG~tf~~V~l~~~~~~~~~--~~~~~~~~~~VALTR~~ 227 (234)
T PF01443_consen 164 D-KVIVYLT----FTQAEKEQLGSD---------RVFTVHESQGLTFDNVTLVLLSDTDNE--LYSESRNHLYVALTRHT 227 (234)
T ss_pred C-cccchhh----HHHHHHHHcCCC---------ceechHHcceEEeCCEEEEECCCcccc--cccCCcccEEEEccccc
Confidence 0 1111222 222222222110 588999999999999988665443211 12236999999999999
Q ss_pred ccEEEE
Q 000053 817 HCLWIL 822 (2576)
Q Consensus 817 ~~LiIV 822 (2576)
+.|.|+
T Consensus 228 ~~l~i~ 233 (234)
T PF01443_consen 228 KSLVIL 233 (234)
T ss_pred cEEEEE
Confidence 999986
No 77
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.84 E-value=2e-08 Score=117.84 Aligned_cols=80 Identities=19% Similarity=0.222 Sum_probs=49.9
Q ss_pred CCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCC--ccccCCCcchhhHHHHHHHhhhhhccCCCCCCccccc
Q 000053 1366 DEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQ--TIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKR 1443 (2576)
Q Consensus 1366 ~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~Q--SIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~ 1443 (2576)
...+.|+|||+...+..++.-|..++...+..++++||++| +|..| --|..+ . .
T Consensus 92 ~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~g--~~~~~l---~-~------------------ 147 (196)
T PF13604_consen 92 PKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGAG--SPFADL---Q-E------------------ 147 (196)
T ss_dssp TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCSTT--CHHHHH---C-G------------------
T ss_pred CcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcCC--cHHHHH---H-h------------------
Confidence 45679999999999999998887777765678999999999 55332 222221 1 0
Q ss_pred CCccEEecccccCCc-hHHHHHHHHHH
Q 000053 1444 QLSDIFNLRQNFRTH-VGVLNLAQSII 1469 (2576)
Q Consensus 1444 ~~~~~~~L~~NYRS~-~~Il~lAn~vi 1469 (2576)
.....+.|++++|.. +.+.+++..+.
T Consensus 148 ~~~~~~~L~~i~Rq~~~~~~~~~~~~~ 174 (196)
T PF13604_consen 148 SGGITVELTEIRRQKDPELREAAKAIR 174 (196)
T ss_dssp CSTTEEEE---SCCCCTHHHHHHHHHC
T ss_pred cCCCeEEeChhhcCCChHHHHHHHHHH
Confidence 112278999999987 56666666663
No 78
>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=98.81 E-value=5.7e-08 Score=122.14 Aligned_cols=56 Identities=32% Similarity=0.313 Sum_probs=49.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCC----CeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMK----FRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~----~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
.++..+|.|+||||||+|++..+..|+..+ .+||++++||.|+.++.+|+.+.+.+
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~ 71 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEE 71 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHH
T ss_pred CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCc
Confidence 467889999999999999999999999865 79999999999999999999998766
No 79
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.80 E-value=1.2e-07 Score=137.33 Aligned_cols=82 Identities=18% Similarity=0.111 Sum_probs=55.6
Q ss_pred CccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCc
Q 000053 1367 EFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLS 1446 (2576)
Q Consensus 1367 ~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~ 1446 (2576)
..+.|+|||+=-.+..++.-|..++...+..+++|||++|--.-+.|--|.++... ...
T Consensus 1062 ~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG~~f~~l~~~---------------------~~i 1120 (1747)
T PRK13709 1062 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPGQPFRLMQTR---------------------SAA 1120 (1747)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCChHHHHHHHh---------------------CCC
Confidence 34899999999998777766666665546789999999995544444334443110 124
Q ss_pred cEEecccccCCchHHHHHHHHHH
Q 000053 1447 DIFNLRQNFRTHVGVLNLAQSII 1469 (2576)
Q Consensus 1447 ~~~~L~~NYRS~~~Il~lAn~vi 1469 (2576)
....|++.+|-.......+..++
T Consensus 1121 ~~~~L~eI~RQ~~~lr~Av~~~~ 1143 (1747)
T PRK13709 1121 DVAIMKEIVRQTPELREAVYSLI 1143 (1747)
T ss_pred CeEEeCeEEcCcHHHHHHHHHHH
Confidence 56789999999876555554444
No 80
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=98.76 E-value=2.5e-07 Score=128.28 Aligned_cols=156 Identities=17% Similarity=0.075 Sum_probs=101.1
Q ss_pred CCCCEEEEEcCCCCChhHHhhhccccC-cceEEEecCCCCCCccccccchhhhhccccHHHHHhhcc--CCccccccccc
Q 000053 577 KPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSDEACFGRSLFERLSHLR--HSKHLLSIQYR 653 (2576)
Q Consensus 577 ~~fD~VIIDEAsQ~~e~e~lipL~l~~-~k~vILVGD~~QLpPvv~s~~~~~~~~~~SLfeRL~~~g--~~~~~L~~qYR 653 (2576)
.+|++|+|||.+.....+..+.-.+.+ ...+.+|||+.|--= .-.|.....+.++...- .+.+.|..+||
T Consensus 212 ~rf~~iLvDE~QDtn~~Q~~ll~~la~~~~~l~~VGD~dQsIY-------~frGA~~~ni~~f~~df~~~~~i~Le~NyR 284 (655)
T COG0210 212 ARFRYILVDEFQDTNPLQYELLKLLAGNAANLFVVGDDDQSIY-------GFRGADPENILDFEKDFPAAKVIKLEQNYR 284 (655)
T ss_pred hhCCEEEEeCcCCCCHHHHHHHHHHhCCCCCEEEEcCCccccc-------eeCCCChHHHHHHHhhCCCCcEEEecCCCC
Confidence 569999999999999877555544433 468889999999311 11222233333333321 46789999999
Q ss_pred cCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEE-ccCCccccccccccCHHHHHHHHHHHHHHHhcc
Q 000053 654 MHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFIN-VFGGREEFIEHSCRNMVEVSVVMKILLNLYKGW 732 (2576)
Q Consensus 654 mhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fid-v~~g~e~~~~~S~~N~~Ea~~v~~lv~~L~~~~ 732 (2576)
+.|.|....|...=.+. .... +. .+.. ...|.............||..+...+..+...+
T Consensus 285 St~~Il~~An~~i~~n~-----~r~~----k~----------l~~~~~~~~~~~~~~~~~~~~~ea~~i~~~I~~l~~~~ 345 (655)
T COG0210 285 STPNILAAANKVIANNK-----KRQA----KT----------LRTEVEGSGEKVVLLLANDEEDEARWIASEIDALIEIG 345 (655)
T ss_pred CcHHHHHHHHHHHhcCC-----ccCC----Cc----------ceeccCCCCCCceEEeCCChHHHHHHHHHHHHHHHHcC
Confidence 99999999886542111 1110 00 0111 101111112233445789999999999998875
Q ss_pred cCCCCCCeEEEEcccHHHHHHHHHHhcc
Q 000053 733 INSKEKLSIGIVSPYIAQVAAIQEKLGS 760 (2576)
Q Consensus 733 ~~~~~~~sIgIITPY~aQv~~I~~~L~~ 760 (2576)
. ....+++|+.-.+.|...+.+.+..
T Consensus 346 ~--~~~~d~aiL~R~n~~s~~~e~~l~~ 371 (655)
T COG0210 346 K--VNYSDIAILYRTNAQSRLIEEALRA 371 (655)
T ss_pred C--CChhhEEEEEecCcchHHHHHHHHH
Confidence 3 4678999999999999999999963
No 81
>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=98.73 E-value=1.6e-08 Score=129.31 Aligned_cols=87 Identities=18% Similarity=0.204 Sum_probs=55.0
Q ss_pred CCCCCEEEEEcCCCCChh----------HHhhhccccCcceEEEecCCCCC-CccccccchhhhhccccHHHHH-hhccC
Q 000053 576 MKPLNFLVIDEAAQLKES----------ESTIPLQLSGIKHAVLFGDECQL-PAMVESKVSDEACFGRSLFERL-SHLRH 643 (2576)
Q Consensus 576 ~~~fD~VIIDEAsQ~~e~----------e~lipL~l~~~k~vILVGD~~QL-pPvv~s~~~~~~~~~~SLfeRL-~~~g~ 643 (2576)
...+|+||||||..+..- ..+.-+ +..++.+|++-|+.|- .|-- . .+...++.+ ...+.
T Consensus 81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i-~~~~kv~v~f~D~~Q~i~~~e-------~-~~~~~l~~~~~~~~~ 151 (352)
T PF09848_consen 81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEI-IKRAKVVVFFYDENQSIRPSE-------I-GTLENLEEIAENLGI 151 (352)
T ss_pred CCcCCEEEEehhHhhhhccccccccccHHHHHHH-HhcCCEEEEEEccccEeeccc-------C-CCHHHHHHHHHhcCC
Confidence 356999999999999881 222222 2235788888898883 2211 0 111223333 22332
Q ss_pred Cc---ccccccccc--CcccccccccccccCcc
Q 000053 644 SK---HLLSIQYRM--HPSISFFPNSYFYENKI 671 (2576)
Q Consensus 644 ~~---~~L~~qYRm--hp~I~~f~n~~fY~g~L 671 (2576)
.. +.|++|||| .+++.+|++..++....
T Consensus 152 ~~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~~ 184 (352)
T PF09848_consen 152 EVRHFFELKTQFRCHGSKEYIDWIDNLLDNKNI 184 (352)
T ss_pred ccccCcCcCcceecCCCHHHHHHHHHHHhcccc
Confidence 22 489999999 89999999988776543
No 82
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=98.73 E-value=1.3e-08 Score=141.45 Aligned_cols=55 Identities=25% Similarity=0.364 Sum_probs=46.9
Q ss_pred eEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEechhhhhc
Q 000053 770 VKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNERTLTR 830 (2576)
Q Consensus 770 v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~ 830 (2576)
-.+.|||++||+|+|.||+...+ ... +.+++.++||+||||+.+.++|+...|..
T Consensus 622 ayA~TIHKsQGSef~~v~v~l~~-~~~-----~l~r~l~YtAiTRar~~l~l~~~~~~~~~ 676 (696)
T COG0507 622 AYAMTIHKSQGSEFDRVIVLLPS-HSP-----MLSRELLYTAITRARDRLILYGDEKAFAA 676 (696)
T ss_pred heeeeEecccCCCCCeEEEEcCC-Cch-----hhhhhHHHHHhhhhheeEEEEcChHHHHH
Confidence 35779999999999999999987 321 56899999999999999999998776653
No 83
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.71 E-value=7.7e-09 Score=108.58 Aligned_cols=50 Identities=40% Similarity=0.525 Sum_probs=38.1
Q ss_pred CeEEEeeeccCCccccEEEEeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhcccc
Q 000053 1548 QALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTR 1627 (2576)
Q Consensus 1548 ~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr 1627 (2576)
.+.++|+|+|||||||.|++++.... ......+|+||||||||+
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~------------------------------------~~~~~~~~~lYva~TRA~ 98 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSS------------------------------------NFDELSRRLLYVAITRAK 98 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGG------------------------------------SGCGCHHHHHHHHHTTEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcc------------------------------------cCCchhhccEEeeHhHhh
Confidence 78899999999999999999843111 001245888999999999
Q ss_pred ceeEEE
Q 000053 1628 QRLWIW 1633 (2576)
Q Consensus 1628 ~~L~I~ 1633 (2576)
+.|+|+
T Consensus 99 ~~L~iv 104 (104)
T PF13538_consen 99 HELYIV 104 (104)
T ss_dssp EEEEEE
T ss_pred hhhCCC
Confidence 999986
No 84
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=98.70 E-value=2.7e-07 Score=132.06 Aligned_cols=83 Identities=19% Similarity=0.135 Sum_probs=58.3
Q ss_pred CccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCcccccCCc
Q 000053 1367 EFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGRQEKRQLS 1446 (2576)
Q Consensus 1367 ~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~~~~~~~~ 1446 (2576)
..+.|+|||+=-.+..++.-+..++...+..+++|||++|--.-+.|--|..+.. ....
T Consensus 930 ~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~~F~~lq~---------------------~~~~ 988 (1623)
T PRK14712 930 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQT---------------------RSAA 988 (1623)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCCHHHHHHHH---------------------cCCC
Confidence 3589999999999988876655566554678999999999665444433443311 0124
Q ss_pred cEEecccccCCchHHHHHHHHHHH
Q 000053 1447 DIFNLRQNFRTHVGVLNLAQSIIE 1470 (2576)
Q Consensus 1447 ~~~~L~~NYRS~~~Il~lAn~vi~ 1470 (2576)
....|++.+|-.+.....+..++.
T Consensus 989 ~ta~L~eI~RQ~~elr~AV~~~~~ 1012 (1623)
T PRK14712 989 DVVIMKEIVRQTPELREAVYSLIN 1012 (1623)
T ss_pred CeEEeCeeecCCHHHHHHHHHHHc
Confidence 567899999998877777665554
No 85
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=98.67 E-value=4.6e-08 Score=115.15 Aligned_cols=159 Identities=16% Similarity=0.083 Sum_probs=84.1
Q ss_pred ccEEecccccCCchHHHHHHHHHHHHHh-ccCCCCccccCC-cccccCCCCCEEE-c-------------cCCHHHHHHH
Q 000053 1446 SDIFNLRQNFRTHVGVLNLAQSIIELLY-RFFPHSVDILKP-ETSLIYGEPPILL-E-------------SGDEENAILK 1509 (2576)
Q Consensus 1446 ~~~~~L~~NYRS~~~Il~lAn~vi~~~~-~~~p~~~~~l~~-~~~~~~G~~P~l~-~-------------~~~~~~~i~~ 1509 (2576)
...+.|+.+||+|++|.+++|.++=... ...+........ .........|.+. . +.-...++..
T Consensus 15 ~~~~~L~~qyR~~~~I~~~~s~~fY~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~~s~~N~~Ea~~ 94 (200)
T PF13087_consen 15 VPVVMLTEQYRMHPEIADFSSRLFYNGKLVSGPSVKNRPAPLLKLLPSPQNPIVFIDVSGSESSSESSQTSYYNPDEAEF 94 (200)
T ss_dssp ---EE--EE-SS-HHHHHHHHHHHSTT--EESS-TCCCS-T-----SSTTSSEEEEE----EEEETTC-SCEEEHHHHHH
T ss_pred CCceecccccCCCHHHHHHHHHHHhchhcccCcccccccccccccccCCCCceEEEecccccccccccccceechhhHHH
Confidence 5668899999999999999998762110 001100000000 0001112223222 1 1113445555
Q ss_pred HHHhhhhhcCCccc--CCccEEEEEechhhHHHHHHHhC----CC----eEEEeeeccCCccccEEEEeecccCCCCchh
Q 000053 1510 IFGNTGEVGGNMVG--FGAEQVILVRDDCVRKEISNYVG----KQ----ALVLTIVESKGLEFQDVLLYKFFSASPLKNQ 1579 (2576)
Q Consensus 1510 i~~~i~~~~~~~i~--~~~~~aILvr~~~~~~~l~~~L~----~~----V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~ 1579 (2576)
+...+......... ...++.||++...+...+.+.+. .. +.|.|||++.|.|+|+||+.-+-+.
T Consensus 95 i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~~~~~~~~~~~v~Tvd~~QG~E~diVi~s~v~~~------ 168 (200)
T PF13087_consen 95 IVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSRYPSSPIKDIKVSTVDSFQGQEADIVIVSLVRTN------ 168 (200)
T ss_dssp HHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHCSTCHHHHCSEEEEHHHHTT--EEEEEEEE---S------
T ss_pred HHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhhccccccceEEEecHHHhccccceEEEEEeccCC------
Confidence 55555443322221 13578999999999999888875 22 8999999999999999999621110
Q ss_pred hHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEec
Q 000053 1580 WRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENK 1636 (2576)
Q Consensus 1580 w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~ 1636 (2576)
.......-.+.|.+.||+||||..|+|+++.
T Consensus 169 --------------------------~~~~~~f~~~~~r~nVA~SRAk~~liiig~~ 199 (200)
T PF13087_consen 169 --------------------------SSSNIGFLNDPNRLNVALSRAKSGLIIIGNP 199 (200)
T ss_dssp --------------------------TTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H
T ss_pred --------------------------ccccccccCCcCeeeeeHHHHhcCEEEEecC
Confidence 0001112245788999999999999999864
No 86
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.51 E-value=5.6e-07 Score=107.97 Aligned_cols=71 Identities=23% Similarity=0.235 Sum_probs=47.0
Q ss_pred CCCHHHHHhhcC---CCC-EEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEE
Q 000053 1069 EVTDEQLDMILF---PRS-TFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLF 1144 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~---~~~-~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~ 1144 (2576)
+||++|+++|.+ ... ++|.||||||||++++.-+..+.+... ........++|+
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~----------------------~~~~~~~~~il~ 58 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFK----------------------SRSADRGKKILV 58 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-----------------------------HCCCSS-EEE
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchh----------------------hhhhhcccccee
Confidence 489999999953 333 899999999999999987743210000 001123479999
Q ss_pred EEcCHHHHHHHHHHHHh
Q 000053 1145 VTVSPKLCFAVKQHISH 1161 (2576)
Q Consensus 1145 vTfS~~la~eik~ri~~ 1161 (2576)
++.|+.++.++-+++.+
T Consensus 59 ~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 59 VSPSNAAVDNILERLKK 75 (236)
T ss_dssp EESSHHHHHHHHHHHHC
T ss_pred ecCCchhHHHHHHHHHh
Confidence 99999999999887776
No 87
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=98.48 E-value=4.6e-06 Score=105.50 Aligned_cols=186 Identities=13% Similarity=0.135 Sum_probs=129.4
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhHHH-HHHHHH-HHHHHhHhhc--CCh-----H----------HHHHHHHHHHHHH
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYWEG-RSKASG-LKAAADRISS--SNP-----L----------EARIILREAAKIF 1753 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~~~-l~~A~~-l~~~a~~l~~--~~~-----~----------~a~~~~~eAA~~f 1753 (2576)
+|++...-|+|++|.+.|..+..-.++. +....+ +..--+.+.. ++. + .....+.+|+++|
T Consensus 740 ~aei~~~~g~feeaek~yld~drrDLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY 819 (1189)
T KOG2041|consen 740 RAEISAFYGEFEEAEKLYLDADRRDLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYY 819 (1189)
T ss_pred hHhHhhhhcchhHhhhhhhccchhhhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4666778899999999999887654432 111111 1111111111 111 0 1256789999999
Q ss_pred HHcCCHHHHHHHHHHcCCHHHHHHHHHHhC-CchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHH
Q 000053 1754 EAIGKVDSAAKCFFDMGEYERAGTIYLERC-EEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQ 1832 (2576)
Q Consensus 1754 e~~G~~~~Aa~~y~kag~~~~A~ely~~~~-~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~ 1832 (2576)
+.+|+.+.-++||.++.+|+.--.+.+... +.+.+...|+.|...|.-++|.++|.+.++..+|+..|..-+.|.+|++
T Consensus 820 ~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pkaAv~tCv~LnQW~~ave 899 (1189)
T KOG2041|consen 820 SYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPKAAVHTCVELNQWGEAVE 899 (1189)
T ss_pred HhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999988777776653 3468899999999999999999999999999999999999999999999
Q ss_pred HHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHH
Q 000053 1833 YISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNF 1894 (2576)
Q Consensus 1833 l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~ 1894 (2576)
+++++.- +. . +..+..-+.++...+...+|++..|+.+..=+|+++
T Consensus 900 laq~~~l---~q---------v----~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarl 945 (1189)
T KOG2041|consen 900 LAQRFQL---PQ---------V----QTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARL 945 (1189)
T ss_pred HHHhccc---hh---------H----HHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHH
Confidence 9994332 11 1 122334455566666666677766655433333333
No 88
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=98.42 E-value=1.5e-06 Score=117.01 Aligned_cols=160 Identities=18% Similarity=0.122 Sum_probs=125.2
Q ss_pred HHHhhcHHHHHHHHHHcCChhHHHHHHHH--HHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTYWEGRSKAS--GLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYER 1774 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~~~~l~~A~--~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~ 1774 (2576)
-..++.|.+|..+|. .+.......+.+| +|++.. .+.+||-+|+.+|+.++|.++|..+|+|++
T Consensus 918 I~kh~Ly~~aL~ly~-~~~e~~k~i~~~ya~hL~~~~-------------~~~~Aal~Ye~~GklekAl~a~~~~~dWr~ 983 (1265)
T KOG1920|consen 918 IKKHGLYDEALALYK-PDSEKQKVIYEAYADHLREEL-------------MSDEAALMYERCGKLEKALKAYKECGDWRE 983 (1265)
T ss_pred HHhcccchhhhheec-cCHHHHHHHHHHHHHHHHHhc-------------cccHHHHHHHHhccHHHHHHHHHHhccHHH
Confidence 344777888887776 4444444444433 455444 579999999999999999999999999999
Q ss_pred HHHHHHHhCC-ch-HH---HHHHHHHHHcCCHHHHHHHHHH-cCCHHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccc
Q 000053 1775 AGTIYLERCE-EP-EL---EKAGECFSLAGCYKLAADVYAR-GSFLAECLDVCSKGKLFDIGLQYISYWKQHADTDVGRV 1848 (2576)
Q Consensus 1775 A~ely~~~~~-~~-~~---~~aAe~~e~~g~~~eAAelY~k-agd~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~ 1848 (2576)
|..+..+... +. .. +..+.-+.+.+++.+||++-.. ++++++|+..|+++..|++|++++..+++.+.-++...
T Consensus 984 ~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~av~ll~ka~~~~eAlrva~~~~~~d~iee~l~ 1063 (1265)
T KOG1920|consen 984 ALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEEAVALLCKAKEWEEALRVASKAKRDDIIEEVLK 1063 (1265)
T ss_pred HHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHHHHHHHhhHhHHHHHHHHHHhcccchHHHHHHh
Confidence 9999887532 22 22 5667777789999999999877 99999999999999999999999998887776777777
Q ss_pred cchHHHHHHhHHhHHHHHHHHH
Q 000053 1849 KSSKEMKKIEQDFLQSCALHFH 1870 (2576)
Q Consensus 1849 ~~s~~~~~~e~~~le~~a~~f~ 1870 (2576)
+.+.++......+++++...|.
T Consensus 1064 ~al~e~~~~~~~~L~~~k~~f~ 1085 (1265)
T KOG1920|consen 1064 PALLEAFGEVLEFLEDVKEQFV 1085 (1265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 7777776666667777777765
No 89
>KOG2108 consensus 3'-5' DNA helicase [Replication, recombination and repair]
Probab=98.39 E-value=9.2e-08 Score=126.03 Aligned_cols=71 Identities=31% Similarity=0.375 Sum_probs=47.9
Q ss_pred CeEEEeeeccCCccccEEEEeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhcccc
Q 000053 1548 QALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTR 1627 (2576)
Q Consensus 1548 ~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr 1627 (2576)
.+.+.|+|++||+|||.|-+-|.+-..+... ......+.+..+. ...+|.+.+|||+|||+
T Consensus 674 ~~~l~Tih~akglefd~v~~~n~~~~~~~s~-----------------~~~~r~~~~r~~t--~~~~e~n~lyV~vtRak 734 (853)
T KOG2108|consen 674 NVILGTIHQAKGLEFDNVHLQNDFVKVFGSV-----------------SNFERLPSFRVET--YNEDEWNFLYVAVTRAK 734 (853)
T ss_pred hhhhHHHHhccCcccceeecccCcccccccc-----------------cchhhcchhhhhh--hhhhhhhheeeeecchh
Confidence 4788999999999999999987655522110 0001112222222 23478999999999999
Q ss_pred ceeEEEEecC
Q 000053 1628 QRLWIWENKE 1637 (2576)
Q Consensus 1628 ~~L~I~~s~~ 1637 (2576)
++||...+-.
T Consensus 735 krl~~~k~~~ 744 (853)
T KOG2108|consen 735 KRLIMCKSLH 744 (853)
T ss_pred hhcccccccc
Confidence 9999875543
No 90
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=98.34 E-value=7.7e-06 Score=105.60 Aligned_cols=226 Identities=19% Similarity=0.176 Sum_probs=123.3
Q ss_pred CccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCc-chhhH----HHHHHHhhhhhccCCCCCCccc
Q 000053 1367 EFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDF-RFQDI----RSLFYKKFVLESRNNGNDGRQE 1441 (2576)
Q Consensus 1367 ~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~f-rf~~l----~~~f~~~f~~~~~~~~~~~~~~ 1441 (2576)
..+.++|.|+-+.-. .-++..+.+. -..++++||.+|-= ++.+. ..... -++|.+-. .
T Consensus 720 ~pkivivEEAAEVlE--ahiIaal~p~-~EhviLIGDHKQLr-P~~~vy~L~q~fnL~iSlFERLV-e------------ 782 (1025)
T KOG1807|consen 720 QPKIVIVEEAAEVLE--AHIIAALTPH-TEHVILIGDHKQLR-PFSGVYKLPQIFNLSISLFERLV-E------------ 782 (1025)
T ss_pred CCcEEEEhhHhHHhh--cchhhhhccc-ceeEEEecchhhcC-CCcchhhHhHhcchhHHHHHHHH-H------------
Confidence 457899999976543 3455556654 45799999999943 22221 11111 23443321 1
Q ss_pred ccCCccEEecccccCCchHHHHHHH-HHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHH-----------HHHHH
Q 000053 1442 KRQLSDIFNLRQNFRTHVGVLNLAQ-SIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEE-----------NAILK 1509 (2576)
Q Consensus 1442 ~~~~~~~~~L~~NYRS~~~Il~lAn-~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~-----------~~i~~ 1509 (2576)
.+-...+|+.-||.++.|.++.- +|.+.+... ++....+...+. +.--.++...+.+ -++..
T Consensus 783 --~glpfsrLn~QhRM~p~IsrllvpsiYddl~d~--esvk~yedI~gm--s~nlfFv~hnspee~~de~S~~NlhEa~m 856 (1025)
T KOG1807|consen 783 --AGLPFSRLNLQHRMRPCISRLLVPSIYDDLLDS--ESVKEYEDIRGM--SKNLFFVQHNSPEECMDEMSIGNLHEAGM 856 (1025)
T ss_pred --cCCChhhhhHHhhhchHHHHHhhHHHhhhhhcc--hhhccccccccc--cceeeEEecCCcccCcchhhhhhHHHHHH
Confidence 12233469999999999988876 554432110 000000100000 1111111111111 11222
Q ss_pred HHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHh----CCCeEEEeeeccCCccccEEEEeecccCCCCchhhHHHHh
Q 000053 1510 IFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYV----GKQALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVVYE 1585 (2576)
Q Consensus 1510 i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L----~~~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l~~ 1585 (2576)
+....+-...++. -..+++||..-..++.-+.+.+ +..|.|-|+.+..|.|-|+|++--+-
T Consensus 857 lv~l~kyli~q~y-~psdIviLttY~gQk~ci~rllp~~~~stv~VatVDsfQGeEndIVLlSLVR-------------- 921 (1025)
T KOG1807|consen 857 LVKLTKYLIQQQY-KPSDIVILTTYNGQKECIKRLLPQNYRSTVQVATVDSFQGEENDIVLLSLVR-------------- 921 (1025)
T ss_pred HHHHHHHHHhcCC-CccceEEEeechhHHHHHHHHhHHHhcCcceEEEeccccCccccEEEEEEEe--------------
Confidence 2222222222222 2467899999998887766655 46799999999999999999995221
Q ss_pred hhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCCCCchhhHHhhh
Q 000053 1586 YMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEEFSKPMFDYWKK 1649 (2576)
Q Consensus 1586 ~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~~~~p~~~~w~~ 1649 (2576)
....+. -.|-. -.+..-||+||||+.|||+++..-.... ..+|.+
T Consensus 922 ---------sn~~gr-iGFL~--------~anRvCVALSRAr~glyiiGN~q~la~~-~pLWnk 966 (1025)
T KOG1807|consen 922 ---------SNISGR-IGFLR--------QANRVCVALSRARWGLYIIGNVQILADT-PPLWNK 966 (1025)
T ss_pred ---------ccCCce-eeeee--------ccchhhhhhhhhhcceEEecceeecccC-chhHHH
Confidence 111111 11111 1345789999999999999987653332 345554
No 91
>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=98.33 E-value=7.5e-07 Score=114.43 Aligned_cols=47 Identities=26% Similarity=0.335 Sum_probs=41.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHH
Q 000053 225 SGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKEL 271 (2576)
Q Consensus 225 ~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V 271 (2576)
..+..-.|.||+|||||+++-++...+-..++.|++||||..|..++
T Consensus 20 ~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i 66 (364)
T PF05970_consen 20 EEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNI 66 (364)
T ss_pred cCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhc
Confidence 34667899999999999999999999888899999999999998533
No 92
>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]
Probab=98.32 E-value=0.00049 Score=93.46 Aligned_cols=213 Identities=14% Similarity=0.182 Sum_probs=111.3
Q ss_pred hHHHHHHHHHHhccccchhhhccCCCHHHHHhhhhhccccccHHHHHHHHHHHHHHHHHHH--HCCCCCHHHHHHHHHHH
Q 000053 1280 SRVFTEIISHIKGGLQSIEVVNGKLNREDYVNLSETRNSSLSRQKRERIYDIFESYEQMKM--RNGEFDLADLVNDLHHR 1357 (2576)
Q Consensus 1280 ~~v~~EI~s~IkG~~~~~~~~~~~ls~e~Y~~l~r~r~~~l~~~~r~~i~~if~~Y~~~k~--~~g~~D~~Dlv~~~~~~ 1357 (2576)
..-+.+..+.+| ...++.+++..... ....+.+.+++..|++... .++++|.+|-+..+...
T Consensus 117 ~~~l~el~~E~K---------k~~lsve~L~~~~~-------~~~~~kl~dl~liyee~~~~l~~~~l~~ed~l~~lad~ 180 (1108)
T COG3857 117 IEQLAELYTEFK---------KYQLSVEDLEDTAD-------EQSLKKLHDLSLIYEEFEANLYNNYLDPEDSLSRLADK 180 (1108)
T ss_pred HHHHHHHHHHHH---------HhcCCHHHHhcccc-------hhhhhhhhhHHHHHHHHHHHHHhccCChHHHHHHHHHh
Confidence 344445555555 44577777744321 2234466677777777433 35889999988887776
Q ss_pred HHhcccCCCCccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccc-cCC--CcchhhHHHHHHHhhhhhccCC
Q 000053 1358 LKEESYKGDEFHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIA-RGI--DFRFQDIRSLFYKKFVLESRNN 1434 (2576)
Q Consensus 1358 L~~~~~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy-~g~--~frf~~l~~~f~~~f~~~~~~~ 1434 (2576)
+..... -+=-.|+||.|.+|+|.|..++..|.+. ...+++--=.++.=| ++. +.-|+......++ +.+..
T Consensus 181 ~~~s~~--L~~~~IvIDGFt~FS~~E~~vIe~L~~~-~~~v~I~lt~d~~~y~~~~~~~~if~~s~~~l~~---L~~~a- 253 (1108)
T COG3857 181 IKKSEQ--LKQAAIVIDGFTRFSPEEYRVIELLMKK-CARVTIGLTADKKAYTKGSEEGNIFRASKKTLFR---LLSKA- 253 (1108)
T ss_pred cccchh--hccceEEEeccccCCHHHHHHHHHHHhc-CceEEEEEecCchhhccCcccchHHHHhHHHHHH---HHHHh-
Confidence 543222 2336899999999999999999999877 334443322232222 110 0112222222211 11000
Q ss_pred CCCCcccccCCccEEecccccC---CchHHHHHHHHHHHHHhccCCCCccccCCcccccCCCCCEEEccCCHHHHHHHHH
Q 000053 1435 GNDGRQEKRQLSDIFNLRQNFR---THVGVLNLAQSIIELLYRFFPHSVDILKPETSLIYGEPPILLESGDEENAILKIF 1511 (2576)
Q Consensus 1435 ~~~~~~~~~~~~~~~~L~~NYR---S~~~Il~lAn~vi~~~~~~~p~~~~~l~~~~~~~~G~~P~l~~~~~~~~~i~~i~ 1511 (2576)
... +...-+-..+++ ..++...+.+.+.+. ..+ .-..+++.-.+..+.+..+++..++
T Consensus 254 -----~~~--~i~~~~~~~~~~~~~~~~~L~~l~~~~~~~-------~~~-----~~~~~~~~i~I~qa~n~keEiEgvA 314 (1108)
T COG3857 254 -----EEL--NISIEQYNEVLYKFTKLQDLAHLENDFDQL-------PIE-----IYAKDADHISIWQASNQKEEIEGVA 314 (1108)
T ss_pred -----hcc--cccchHHHHHHHhhhcchhHHHHHhhhhhc-------cch-----hhccCccceehHhhhchHHHHHHHH
Confidence 000 000001222222 344455554444321 011 1111234556677778888888888
Q ss_pred HhhhhhcCCcccCCccEEEEEech
Q 000053 1512 GNTGEVGGNMVGFGAEQVILVRDD 1535 (2576)
Q Consensus 1512 ~~i~~~~~~~i~~~~~~aILvr~~ 1535 (2576)
+.|.....++..+ .+++||+++.
T Consensus 315 r~Irq~i~eg~rY-kDiaIL~gD~ 337 (1108)
T COG3857 315 REIRQKIREGYRY-KDIAILLGDP 337 (1108)
T ss_pred HHHHHHhhcCCcc-ceeeeeeCCh
Confidence 8877654443332 5677777773
No 93
>PF13245 AAA_19: Part of AAA domain
Probab=98.25 E-value=2.3e-06 Score=84.52 Aligned_cols=53 Identities=21% Similarity=0.297 Sum_probs=39.9
Q ss_pred CCCE-EEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHH
Q 000053 1081 PRST-FILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHI 1159 (2576)
Q Consensus 1081 ~~~~-lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri 1159 (2576)
+.++ +|.|+||||||++++.++... +... ... ..+++++|||+.++.++++++
T Consensus 9 ~~~~~vv~g~pGtGKT~~~~~~i~~l-----~~~~--------------------~~~-~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 9 GSPLFVVQGPPGTGKTTTLAARIAEL-----LAAR--------------------ADP-GKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred hCCeEEEECCCCCCHHHHHHHHHHHH-----HHHh--------------------cCC-CCeEEEECCCHHHHHHHHHHH
Confidence 3454 569999999999999999532 1100 011 479999999999999999976
No 94
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=98.23 E-value=3.1e-05 Score=96.48 Aligned_cols=83 Identities=18% Similarity=0.289 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCC----chHHHHHHHHHHHcCCHHHHHHHHHHcCCHH
Q 000053 1740 LEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCE----EPELEKAGECFSLAGCYKLAADVYARGSFLA 1815 (2576)
Q Consensus 1740 ~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~----~~~~~~aAe~~e~~g~~~eAAelY~kagd~~ 1815 (2576)
+++...|.+||..|...|++++|++||.+ |++++.+..+ ...+.++|.+|.+. ++.+|.++|.
T Consensus 32 e~Aa~~y~~Aa~~fk~~~~~~~A~~ay~k------Aa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~------ 98 (282)
T PF14938_consen 32 EEAADLYEKAANCFKLAKDWEKAAEAYEK------AADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYE------ 98 (282)
T ss_dssp HHHHHHHHHHHHHHHHTT-CHHHHHHHHH------HHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHH------
T ss_pred HHHHHHHHHHHHHHHHHhccchhHHHHHH------HHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHH------
Confidence 45666777777777777777777766654 3333333110 11233455555444 5555555443
Q ss_pred HHHHHHHcCCCHHHHHHHHH
Q 000053 1816 ECLDVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1816 kAi~~y~k~k~fd~A~~l~r 1835 (2576)
+|+++|.+.|.+..|.+...
T Consensus 99 ~A~~~y~~~G~~~~aA~~~~ 118 (282)
T PF14938_consen 99 KAIEIYREAGRFSQAAKCLK 118 (282)
T ss_dssp HHHHHHHHCT-HHHHHHHHH
T ss_pred HHHHHHHhcCcHHHHHHHHH
Confidence 35556666777776666655
No 95
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=98.16 E-value=4.9e-05 Score=94.71 Aligned_cols=168 Identities=22% Similarity=0.314 Sum_probs=98.4
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhHHH---HHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH--
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYWEG---RSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFD-- 1768 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~~~---l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~k-- 1768 (2576)
|..+-..++|++|.+||.+|++.+... ...+..+.+++..+...+|+++...|.+|.++|.+.|++..|++|+.+
T Consensus 42 a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA 121 (282)
T PF14938_consen 42 ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELA 121 (282)
T ss_dssp HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 344555899999999999998866532 223334566777777779999999999999999999999998887755
Q ss_pred -----c-CCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhhcCC
Q 000053 1769 -----M-GEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQHAD 1842 (2576)
Q Consensus 1769 -----a-g~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~~~~ 1842 (2576)
. |++++|++.|.+ |+++|+..|....|.+++.+++ .++.+.+.|++|+++.++......
T Consensus 122 ~~ye~~~~d~e~Ai~~Y~~---------A~~~y~~e~~~~~a~~~~~~~A------~l~~~l~~y~~A~~~~e~~~~~~l 186 (282)
T PF14938_consen 122 EIYEEQLGDYEKAIEYYQK---------AAELYEQEGSPHSAAECLLKAA------DLYARLGRYEEAIEIYEEVAKKCL 186 (282)
T ss_dssp HHHCCTT--HHHHHHHHHH---------HHHHHHHTT-HHHHHHHHHHHH------HHHHHTT-HHHHHHHHHHHHHTCC
T ss_pred HHHHHHcCCHHHHHHHHHH---------HHHHHHHCCChhhHHHHHHHHH------HHHHHhCCHHHHHHHHHHHHHHhh
Confidence 3 677788777665 6666666555444444443322 244444455555555543222111
Q ss_pred cccccccchHHHHHHhHH-hHHHHHHHHHHcCChHHHHHHHHH
Q 000053 1843 TDVGRVKSSKEMKKIEQD-FLQSCALHFHKLNDNKSMMKFVRA 1884 (2576)
Q Consensus 1843 ~~~~~~~~s~~~~~~e~~-~le~~a~~f~klgd~~~A~~~~k~ 1884 (2576)
.. . ...-...+ ++..+.-| ...||+..|.+.+..
T Consensus 187 ~~-~------l~~~~~~~~~l~a~l~~-L~~~D~v~A~~~~~~ 221 (282)
T PF14938_consen 187 EN-N------LLKYSAKEYFLKAILCH-LAMGDYVAARKALER 221 (282)
T ss_dssp CH-C------TTGHHHHHHHHHHHHHH-HHTT-HHHHHHHHHH
T ss_pred cc-c------ccchhHHHHHHHHHHHH-HHcCCHHHHHHHHHH
Confidence 01 0 00011122 34444444 447888877776554
No 96
>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=98.03 E-value=7.7e-06 Score=95.63 Aligned_cols=39 Identities=23% Similarity=0.382 Sum_probs=23.3
Q ss_pred cEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCcc
Q 000053 1369 HFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTI 1408 (2576)
Q Consensus 1369 d~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSI 1408 (2576)
.+|+|||+|.+++.|+..+..-... +..+++.||+.|.=
T Consensus 121 ~~iIvDEaQN~t~~~~k~ilTR~g~-~skii~~GD~~Q~D 159 (205)
T PF02562_consen 121 AFIIVDEAQNLTPEELKMILTRIGE-GSKIIITGDPSQID 159 (205)
T ss_dssp EEEEE-SGGG--HHHHHHHHTTB-T-T-EEEEEE------
T ss_pred eEEEEecccCCCHHHHHHHHcccCC-CcEEEEecCceeec
Confidence 7999999999999999888544433 46799999999953
No 97
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=98.03 E-value=0.00015 Score=98.44 Aligned_cols=171 Identities=14% Similarity=0.088 Sum_probs=123.2
Q ss_pred ChHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHcCCHHHHHHHHHHhCC--chHHHHHHHHHHHcCCHHHHHHHHHHcCC
Q 000053 1738 NPLEARIILREAAKIFEAIG--KVDSAAKCFFDMGEYERAGTIYLERCE--EPELEKAGECFSLAGCYKLAADVYARGSF 1813 (2576)
Q Consensus 1738 ~~~~a~~~~~eAA~~fe~~G--~~~~Aa~~y~kag~~~~A~ely~~~~~--~~~~~~aAe~~e~~g~~~eAAelY~kagd 1813 (2576)
..+...+.|..|-.+..++| .++.+..+-.+-|.|..|..+|.-..+ +......|+++.+.+.|++||-+|+++|.
T Consensus 888 ~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk 967 (1265)
T KOG1920|consen 888 KIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK 967 (1265)
T ss_pred eHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc
Confidence 45567889999999999999 799999999999999999999875211 23467889999999999999999999999
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHH
Q 000053 1814 LAECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRN 1893 (2576)
Q Consensus 1814 ~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~ 1893 (2576)
.++|+.+|...+.|.+|+.+++|.... .+ +....+ +.-+-.+.+.+.+-.|.++
T Consensus 968 lekAl~a~~~~~dWr~~l~~a~ql~~~--~d--------e~~~~a----~~L~s~L~e~~kh~eAa~i------------ 1021 (1265)
T KOG1920|consen 968 LEKALKAYKECGDWREALSLAAQLSEG--KD--------ELVILA----EELVSRLVEQRKHYEAAKI------------ 1021 (1265)
T ss_pred HHHHHHHHHHhccHHHHHHHHHhhcCC--HH--------HHHHHH----HHHHHHHHHcccchhHHHH------------
Confidence 999999999999999999999943321 11 110000 1111122333333323222
Q ss_pred HHHhcCCHHHHHHHHHhccCHHHHHHHHHHcCCHHHHHHHH
Q 000053 1894 FLNSKGCFDELLVLEEESESFMDAANIARLRGDILRTVDLL 1934 (2576)
Q Consensus 1894 ~l~~~~~~dea~ell~~~g~feeAa~ia~~~G~~~eA~kly 1934 (2576)
.+.-.+...+|+.+++++..|++|...+...++-+.-.+.+
T Consensus 1022 l~e~~sd~~~av~ll~ka~~~~eAlrva~~~~~~d~iee~l 1062 (1265)
T KOG1920|consen 1022 LLEYLSDPEEAVALLCKAKEWEEALRVASKAKRDDIIEEVL 1062 (1265)
T ss_pred HHHHhcCHHHHHHHHhhHhHHHHHHHHHHhcccchHHHHHH
Confidence 22335678888888899999999988887777544433333
No 98
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.98 E-value=5.6e-05 Score=86.75 Aligned_cols=117 Identities=25% Similarity=0.304 Sum_probs=79.0
Q ss_pred hhcHHHHHHHHHHcCChhHHHHH---HHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHH
Q 000053 1700 EQNYEMATICFEKAKDTYWEGRS---KASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAG 1776 (2576)
Q Consensus 1700 ~~~ye~A~k~f~ragd~~~~~l~---~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ 1776 (2576)
.++|..|..+|.+|.+.++..-. .|...++++......+|+++...+..|.++|...|++..||+.+.. -+
T Consensus 47 aK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~------ia 120 (288)
T KOG1586|consen 47 AKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIE------IA 120 (288)
T ss_pred HHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhh------HH
Confidence 55666666666666665554333 3455677777788889999999999999999999999988755443 34
Q ss_pred HHHHHhCCchH-------HHHHHHHHHH-------cCCHHHHHHHHHHcCCHHHHHHHHHcC
Q 000053 1777 TIYLERCEEPE-------LEKAGECFSL-------AGCYKLAADVYARGSFLAECLDVCSKG 1824 (2576)
Q Consensus 1777 ely~~~~~~~~-------~~~aAe~~e~-------~g~~~eAAelY~kagd~~kAi~~y~k~ 1824 (2576)
++|.. +..+ +++||+||.. .+|+.++|++-.+.+.|++||++|.+-
T Consensus 121 EiyEs--dl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqv 180 (288)
T KOG1586|consen 121 EIYES--DLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQV 180 (288)
T ss_pred HHHhh--hHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44443 1122 3346666654 566777777777778888888877553
No 99
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=97.94 E-value=2.2e-05 Score=111.42 Aligned_cols=219 Identities=16% Similarity=0.160 Sum_probs=120.4
Q ss_pred CccEEEEecC-CCCCHHHHHHHHHHhhcCCCcEEEEeCCCCccccCCCc---chhhHHHHHHHhhhhhccCCCCCCcccc
Q 000053 1367 EFHFVYIDEV-QDLTMSQVALFKYVCKNIEEGFVFSGDTAQTIARGIDF---RFQDIRSLFYKKFVLESRNNGNDGRQEK 1442 (2576)
Q Consensus 1367 ~yd~IlVDE~-QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSIy~g~~f---rf~~l~~~f~~~f~~~~~~~~~~~~~~~ 1442 (2576)
.||+++|||+ |-+.+.-+-.+.. + ..++++||+.|--.. ..+ ...++..-.+..+..
T Consensus 488 ~fd~viiDEAsQ~~~~~~~~~l~~-~----~~~il~GD~kQL~p~-~~~~~~~~~~~~~slf~~~~~------------- 548 (767)
T COG1112 488 EFDYVIIDEASQATEPSALIALSR-A----KKVILVGDHKQLPPT-VFFKESSPEGLSASLFERLID------------- 548 (767)
T ss_pred ccCEEEEcchhcccchhHHHhHhh-c----CeEEEecCCccCCCe-ecchhhcccchhHhHHHHHHH-------------
Confidence 6999999999 5555555544443 2 469999999995422 111 122222222222111
Q ss_pred cCCccEEecccccCCchHHHHHHHHHHHHHhcc-CCCCccccC------------C-cccccCCCCCEEEccC--CHHHH
Q 000053 1443 RQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRF-FPHSVDILK------------P-ETSLIYGEPPILLESG--DEENA 1506 (2576)
Q Consensus 1443 ~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~-~p~~~~~l~------------~-~~~~~~G~~P~l~~~~--~~~~~ 1506 (2576)
........|...||.|+.|..+.+..+-...-. .+....... + ......+..+ ..... ....+
T Consensus 549 ~~~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~n~~e 627 (767)
T COG1112 549 NGPEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHTSFLAFTLLDGEIPEVVISNPLEFYDTLGAEE-FFESKSKLNELE 627 (767)
T ss_pred hCCchheeeeeecccChhhhhCchhhccCCccccCcchhhhhhhccccccccccCceEEEEecCccc-ccCccceecHHH
Confidence 011355779999999999999999886422100 000000000 0 0000111122 00000 11222
Q ss_pred HHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhCC---CeEEEeeeccCCccccEEEEeecccCCCCchhhHHH
Q 000053 1507 ILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVGK---QALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVV 1583 (2576)
Q Consensus 1507 i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~~---~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l 1583 (2576)
+..+...+......++.. .++-|+.+-+.+...+.+.+.. .+.|.|++...|-|-|+||+--. .+..
T Consensus 628 ~~~~~~~~~~~~~~~~~~-~~igvis~y~~q~~~i~~~~~~~~~~v~v~tvd~fQG~EkdvIi~S~v-~s~~-------- 697 (767)
T COG1112 628 AEIVKVIVDELLKDGLEE-NDIGVISPYRAQVSLIRRLLNEAGKGVEVGTVDGFQGREKDVIILSLV-RSND-------- 697 (767)
T ss_pred HHHHHHHHHHHHHcCCcH-HHcceecccHHHHHHHHHHHHhcCCceEEeeccccCCccCcEEEEEEE-eecC--------
Confidence 222222222222222221 2256899999999988888753 79999999999999998887411 1110
Q ss_pred HhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecC
Q 000053 1584 YEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKE 1637 (2576)
Q Consensus 1584 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~ 1637 (2576)
.. ..-....+.|.|-||+||||+.|+++++..
T Consensus 698 --------------~~--------~~i~~l~d~rRLNVAlTRAk~~livvg~~~ 729 (767)
T COG1112 698 --------------DK--------GEIGFLGDPRRLNVALTRAKRKLIVVGSSS 729 (767)
T ss_pred --------------CC--------ccccccCchhhhhhhhhcccceEEEEcChh
Confidence 00 000122457889999999999999998443
No 100
>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.90 E-value=0.00019 Score=82.64 Aligned_cols=17 Identities=29% Similarity=0.489 Sum_probs=14.1
Q ss_pred hhcHHHHHHHHHHcCCh
Q 000053 1700 EQNYEMATICFEKAKDT 1716 (2576)
Q Consensus 1700 ~~~ye~A~k~f~ragd~ 1716 (2576)
...|++|..+|++|++.
T Consensus 27 ~~k~eeAadl~~~Aan~ 43 (288)
T KOG1586|consen 27 SNKYEEAAELYERAANM 43 (288)
T ss_pred CcchHHHHHHHHHHHHH
Confidence 34799999999998886
No 101
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=97.75 E-value=0.0028 Score=89.25 Aligned_cols=76 Identities=11% Similarity=-0.026 Sum_probs=39.3
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhC------CchHHHHHHHHHHHcCCHHHHHHHHHHcCC-----HHHHHHHHHcCCCHHH
Q 000053 1761 SAAKCFFDMGEYERAGTIYLERC------EEPELEKAGECFSLAGCYKLAADVYARGSF-----LAECLDVCSKGKLFDI 1829 (2576)
Q Consensus 1761 ~Aa~~y~kag~~~~A~ely~~~~------~~~~~~~aAe~~e~~g~~~eAAelY~kagd-----~~kAi~~y~k~k~fd~ 1829 (2576)
..+..|.+.|++++|.+++.+.. +........+.|.+.|++++|.++|.+... |...|..|.+.|.+++
T Consensus 330 ~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~ 409 (697)
T PLN03081 330 IMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTK 409 (697)
T ss_pred HHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHH
Confidence 33444445555555555544321 112244555566666666666666655332 4455556666666666
Q ss_pred HHHHHHh
Q 000053 1830 GLQYISY 1836 (2576)
Q Consensus 1830 A~~l~r~ 1836 (2576)
|++++++
T Consensus 410 A~~lf~~ 416 (697)
T PLN03081 410 AVEMFER 416 (697)
T ss_pred HHHHHHH
Confidence 6666653
No 102
>PRK10536 hypothetical protein; Provisional
Probab=97.72 E-value=0.00016 Score=86.84 Aligned_cols=38 Identities=21% Similarity=0.281 Sum_probs=31.7
Q ss_pred CCEEEEEcCCCCChhHHhhhcc-ccCcceEEEecCCCCC
Q 000053 579 LNFLVIDEAAQLKESESTIPLQ-LSGIKHAVLFGDECQL 616 (2576)
Q Consensus 579 fD~VIIDEAsQ~~e~e~lipL~-l~~~k~vILVGD~~QL 616 (2576)
-++||||||++++..++-..+. ++...++|++||+.|.
T Consensus 177 ~~~vIvDEaqn~~~~~~k~~ltR~g~~sk~v~~GD~~Qi 215 (262)
T PRK10536 177 NAVVILDEAQNVTAAQMKMFLTRLGENVTVIVNGDITQC 215 (262)
T ss_pred CCEEEEechhcCCHHHHHHHHhhcCCCCEEEEeCChhhc
Confidence 4799999999999988766665 3456799999999995
No 103
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.69 E-value=0.00027 Score=81.82 Aligned_cols=160 Identities=14% Similarity=0.090 Sum_probs=89.5
Q ss_pred HHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHH
Q 000053 1753 FEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQ 1832 (2576)
Q Consensus 1753 fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~ 1832 (2576)
+-.++.|.+|+.+|..+++|++|....+ +|+++|+....+-.||..|++++.. ..+...|.+++.
T Consensus 28 dgaas~yekAAvafRnAk~feKakdcLl---------kA~~~yEnnrslfhAAKayEqaamL------ake~~klsEvvd 92 (308)
T KOG1585|consen 28 DGAASLYEKAAVAFRNAKKFEKAKDCLL---------KASKGYENNRSLFHAAKAYEQAAML------AKELSKLSEVVD 92 (308)
T ss_pred hhhHHHHHHHHHHHHhhccHHHHHHHHH---------HHHHHHHhcccHHHHHHHHHHHHHH------HHHHHHhHHHHH
Confidence 3334456678888888888888876533 4667777777777777777665552 222233444444
Q ss_pred HHHh----hhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHH-hCcHHHHHHHHHhcCCHHHHHHH
Q 000053 1833 YISY----WKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRA-FHSMDLIRNFLNSKGCFDELLVL 1907 (2576)
Q Consensus 1833 l~r~----~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~-~~~~e~a~~~l~~~~~~dea~el 1907 (2576)
++++ |.+++.+++.. .-++.++... +-.+++.|.++++. +...+.-.+.-+.-..+..+..+
T Consensus 93 l~eKAs~lY~E~GspdtAA------------maleKAak~l-env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~ 159 (308)
T KOG1585|consen 93 LYEKASELYVECGSPDTAA------------MALEKAAKAL-ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRV 159 (308)
T ss_pred HHHHHHHHHHHhCCcchHH------------HHHHHHHHHh-hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhH
Confidence 4442 33444444211 1234444433 35567777777652 21111111111111223345567
Q ss_pred HHhccCHHHHHHHHHHcCCHHHHHHHHHHcCCH
Q 000053 1908 EEESESFMDAANIARLRGDILRTVDLLQKVGNF 1940 (2576)
Q Consensus 1908 l~~~g~feeAa~ia~~~G~~~eA~kly~~aG~~ 1940 (2576)
++...+|+||+..+.+.|.+-.-.+.|...++.
T Consensus 160 lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~ 192 (308)
T KOG1585|consen 160 LVRLEKFTEAATAFLKEGVAADKCDAYNSQCKA 192 (308)
T ss_pred hhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHH
Confidence 788888999988888888777666666554443
No 104
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=97.63 E-value=0.0098 Score=85.28 Aligned_cols=71 Identities=15% Similarity=0.114 Sum_probs=38.3
Q ss_pred HHHcCCHHHHHHHHHHhC-----CchHHHHHHHHHHHcCCHHHHHHHHHHcCC--------HHHHHHHHHcCCCHHHHHH
Q 000053 1766 FFDMGEYERAGTIYLERC-----EEPELEKAGECFSLAGCYKLAADVYARGSF--------LAECLDVCSKGKLFDIGLQ 1832 (2576)
Q Consensus 1766 y~kag~~~~A~ely~~~~-----~~~~~~~aAe~~e~~g~~~eAAelY~kagd--------~~kAi~~y~k~k~fd~A~~ 1832 (2576)
|.+.|++++|.+++.+.. +...+...|.++...|++++|.+.|.++-. +.....+|.+.+.+++|..
T Consensus 577 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~ 656 (899)
T TIGR02917 577 YLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAIT 656 (899)
T ss_pred HHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHH
Confidence 334566666666665431 123455666666666777777666655311 2233334455566666666
Q ss_pred HHHh
Q 000053 1833 YISY 1836 (2576)
Q Consensus 1833 l~r~ 1836 (2576)
..++
T Consensus 657 ~~~~ 660 (899)
T TIGR02917 657 SLKR 660 (899)
T ss_pred HHHH
Confidence 6553
No 105
>PRK10536 hypothetical protein; Provisional
Probab=97.56 E-value=0.00031 Score=84.46 Aligned_cols=40 Identities=25% Similarity=0.314 Sum_probs=32.6
Q ss_pred ccEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCCcc
Q 000053 1368 FHFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQTI 1408 (2576)
Q Consensus 1368 yd~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~QSI 1408 (2576)
-++|+|||+|.+++.|+..+..-... +..++++||+.|.=
T Consensus 177 ~~~vIvDEaqn~~~~~~k~~ltR~g~-~sk~v~~GD~~QiD 216 (262)
T PRK10536 177 NAVVILDEAQNVTAAQMKMFLTRLGE-NVTVIVNGDITQCD 216 (262)
T ss_pred CCEEEEechhcCCHHHHHHHHhhcCC-CCEEEEeCChhhcc
Confidence 38999999999999999877544443 56799999999954
No 106
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=97.54 E-value=0.0013 Score=88.09 Aligned_cols=221 Identities=17% Similarity=0.169 Sum_probs=124.4
Q ss_pred CCCccEEEEecCCCCCHHHHHHHHHHhhcCC-----CcEEEEeCCCCccccCCCcchhhHHHHHHHhhhhhccCCCCCCc
Q 000053 1365 GDEFHFVYIDEVQDLTMSQVALFKYVCKNIE-----EGFVFSGDTAQTIARGIDFRFQDIRSLFYKKFVLESRNNGNDGR 1439 (2576)
Q Consensus 1365 ~~~yd~IlVDE~QD~~~~ql~LL~~L~~~~~-----~~l~~vGD~~QSIy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~ 1439 (2576)
+-.||-+++-|.+-.......+...+..... .++.+.||..|.--.+..-.|+.-...-...| .
T Consensus 989 gf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf-----------~ 1057 (1320)
T KOG1806|consen 989 GFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLF-----------T 1057 (1320)
T ss_pred ceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhh-----------h
Confidence 5678999999999888776655544333211 25889999999774322222322211100000 0
Q ss_pred ccccCCccEEecccccCCchHHHHHHHHHHHHHhccCCCCccccCCc-------------------cc-ccCCCCCEEEc
Q 000053 1440 QEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFPHSVDILKPE-------------------TS-LIYGEPPILLE 1499 (2576)
Q Consensus 1440 ~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p~~~~~l~~~-------------------~~-~~~G~~P~l~~ 1499 (2576)
.-.+....++.|+.-+|--+.|..+.+.....+... +. .+.++.. .+ ....+.|.+..
T Consensus 1058 r~vRl~ip~i~lnaqgrar~sI~~Ly~wry~lLg~l-~~-v~~lp~f~~aNagf~~~~qlinv~Df~g~gEt~p~p~fyQ 1135 (1320)
T KOG1806|consen 1058 RLVRLGVPIIDLNAQGRARASIASLYNWRYPLLGNL-PH-VSPLPRFQYANAGFAYEFQFINVPDFKGSGETEPSPGFYQ 1135 (1320)
T ss_pred cceecccceecchhhhhHHHHHHHHHHhhhcccccC-cC-CccchhhhccccCceeeEEEecchhhccccccCCCccccc
Confidence 112234567889999999999999998876433211 10 0001000 00 01123344444
Q ss_pred cCCHHHHHHHHHHhhhhhcCCcccCCccEEEEEechhhHHHHHHHhC----------CCeEEEeeeccCCccccEEEEee
Q 000053 1500 SGDEENAILKIFGNTGEVGGNMVGFGAEQVILVRDDCVRKEISNYVG----------KQALVLTIVESKGLEFQDVLLYK 1569 (2576)
Q Consensus 1500 ~~~~~~~i~~i~~~i~~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~----------~~V~V~TIH~aKGLEFd~ViL~n 1569 (2576)
.....+-+..++--....+.. ...+.|++.-+.++.-+.+... .-..|.|+.+..|-.-|.+|+.-
T Consensus 1136 nlgeaey~vAly~YMr~Lgyp----a~Kisilttyngq~~lirdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlsl 1211 (1320)
T KOG1806|consen 1136 NLGEAEYAVALFQYMRLLGYP----ANKISILTTYNGQKSLIRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSL 1211 (1320)
T ss_pred CCchhhhHHHHHHHHHHhCCc----hhHeeEEEeecchHHHHHHHHHHhccCCCccCCcccCCccccccccccceEEeee
Confidence 433333333333333222211 1346788888877776666542 34678999999997777777752
Q ss_pred cccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecC
Q 000053 1570 FFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKE 1637 (2576)
Q Consensus 1570 ~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~ 1637 (2576)
+++. .. ..-.+.|.||||++||+-.|++.....
T Consensus 1212 v~tr-------------------------------~~----gh~rdvrrlvva~srarlglyv~~r~~ 1244 (1320)
T KOG1806|consen 1212 VRTR-------------------------------EV----GHLRDVRRLVVAMSRARLGLYVLCRRS 1244 (1320)
T ss_pred hhhh-------------------------------hh----hhhccHHHHHHHHHHhhccchhHHHHH
Confidence 2111 00 011467889999999999999986543
No 107
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=97.52 E-value=0.019 Score=82.30 Aligned_cols=93 Identities=10% Similarity=0.001 Sum_probs=56.6
Q ss_pred HHHHHHHHHHcCCHHHHHHHHH---------------------HcCCHHHHHHHHHHhC-----CchHHHHHHHHHHHcC
Q 000053 1746 LREAAKIFEAIGKVDSAAKCFF---------------------DMGEYERAGTIYLERC-----EEPELEKAGECFSLAG 1799 (2576)
Q Consensus 1746 ~~eAA~~fe~~G~~~~Aa~~y~---------------------kag~~~~A~ely~~~~-----~~~~~~~aAe~~e~~g 1799 (2576)
+...+..|...|++++|.++|. ..|++++|.++|.+.. ....+...+..+...|
T Consensus 468 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 547 (899)
T TIGR02917 468 HNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTG 547 (899)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcC
Confidence 3444555556666655555553 3567777777776541 1234566777777788
Q ss_pred CHHHHHHHHHHcC--------CHHHHHHHHHcCCCHHHHHHHHHhhh
Q 000053 1800 CYKLAADVYARGS--------FLAECLDVCSKGKLFDIGLQYISYWK 1838 (2576)
Q Consensus 1800 ~~~eAAelY~kag--------d~~kAi~~y~k~k~fd~A~~l~r~~~ 1838 (2576)
.+++|.+.|.++- .+.....+|.+.+.+++|+.++++..
T Consensus 548 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~ 594 (899)
T TIGR02917 548 NEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAA 594 (899)
T ss_pred CHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 8888887777641 12234455666777777777777443
No 108
>PLN03077 Protein ECB2; Provisional
Probab=97.52 E-value=0.0081 Score=86.66 Aligned_cols=258 Identities=9% Similarity=-0.009 Sum_probs=134.4
Q ss_pred HhhcHHHHHHHHHHcCChhHH---HHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHc---C------CHHHHHHHH
Q 000053 1699 YEQNYEMATICFEKAKDTYWE---GRSKASGLKAAADRISSSNPLEARIILREAAKIFEAI---G------KVDSAAKCF 1766 (2576)
Q Consensus 1699 ~~~~ye~A~k~f~ragd~~~~---~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~---G------~~~~Aa~~y 1766 (2576)
..|++++|.+.|.+-...... .+..++ . ....+ .+|.++|.+. | -+...+..+
T Consensus 335 k~g~~~~A~~vf~~m~~~d~~s~n~li~~~--~------~~g~~-------~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~ 399 (857)
T PLN03077 335 SLGSWGEAEKVFSRMETKDAVSWTAMISGY--E------KNGLP-------DKALETYALMEQDNVSPDEITIASVLSAC 399 (857)
T ss_pred hcCCHHHHHHHHhhCCCCCeeeHHHHHHHH--H------hCCCH-------HHHHHHHHHHHHhCCCCCceeHHHHHHHH
Confidence 389999999999986543221 111111 1 11122 3333333321 1 244555666
Q ss_pred HHcCCHHHHHHHHHHhC------CchHHHHHHHHHHHcCCHHHHHHHHHHcCC-----HHHHHHHHHcCCCHHHHHHHHH
Q 000053 1767 FDMGEYERAGTIYLERC------EEPELEKAGECFSLAGCYKLAADVYARGSF-----LAECLDVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1767 ~kag~~~~A~ely~~~~------~~~~~~~aAe~~e~~g~~~eAAelY~kagd-----~~kAi~~y~k~k~fd~A~~l~r 1835 (2576)
.+.|+++.|.+++.... +........+.|.+.|++++|.++|.+..+ |...|..|.+.+.+++|+++.+
T Consensus 400 ~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~ 479 (857)
T PLN03077 400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFR 479 (857)
T ss_pred hccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence 66777777777766531 112356677888888888888888888655 6777888888888888888888
Q ss_pred hhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHH----------------------HHHHHhCcHHHHHH
Q 000053 1836 YWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMM----------------------KFVRAFHSMDLIRN 1893 (2576)
Q Consensus 1836 ~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~----------------------~~~k~~~~~e~a~~ 1893 (2576)
+......++...+.. ....|.+.|+.+.+. .++-+.+.+++|.+
T Consensus 480 ~m~~~~~pd~~t~~~--------------lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~ 545 (857)
T PLN03077 480 QMLLTLKPNSVTLIA--------------ALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWN 545 (857)
T ss_pred HHHhCCCCCHhHHHH--------------HHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHH
Confidence 654332222111110 111122222222222 22222233333322
Q ss_pred HHHhc----CCHHHHHHHHHhccCHHHHHHHHHH---cC------CHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcCCC
Q 000053 1894 FLNSK----GCFDELLVLEEESESFMDAANIARL---RG------DILRTVDLLQKVGNFKEACNLTLNYVLSNSLWSSG 1960 (2576)
Q Consensus 1894 ~l~~~----~~~dea~ell~~~g~feeAa~ia~~---~G------~~~eA~kly~~aG~~~eA~klll~~~~~~~lw~~~ 1960 (2576)
.+.+. --|...+.-+...|+.++|.+++.+ .| -+.-....+.++|..++|.+++ ..|.-..=-...
T Consensus 546 ~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f-~~M~~~~gi~P~ 624 (857)
T PLN03077 546 QFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF-HSMEEKYSITPN 624 (857)
T ss_pred HHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHH-HHHHHHhCCCCc
Confidence 22211 1133344555667777777666642 11 1223445566777777776632 233211100000
Q ss_pred C-CCCCccccccHHHHHHHHHHHHhhh
Q 000053 1961 S-KGWPLKQFTQKKELLEKAKLLAKNE 1986 (2576)
Q Consensus 1961 ~-~g~~~~~~~~~~~l~~~~~~~~~~~ 1986 (2576)
. .=--+...+.+.|.+++|.++-++-
T Consensus 625 ~~~y~~lv~~l~r~G~~~eA~~~~~~m 651 (857)
T PLN03077 625 LKHYACVVDLLGRAGKLTEAYNFINKM 651 (857)
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence 0 0012666777788888888888764
No 109
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.45 E-value=0.012 Score=75.56 Aligned_cols=245 Identities=16% Similarity=0.180 Sum_probs=152.4
Q ss_pred HHHhhcHHHHHHHHHHcCChh---------HHHHHHHHH-HHHHHhHh---hcCChHHHHHHHHHHHHHHHHcCCHHHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTY---------WEGRSKASG-LKAAADRI---SSSNPLEARIILREAAKIFEAIGKVDSAA 1763 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~---------~~~l~~A~~-l~~~a~~l---~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa 1763 (2576)
+-..|+.++|..||.+|=..+ +....++.+ ...+.+.. ...+|. ....|...+..|.+.+.|++|+
T Consensus 194 lka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Av 272 (966)
T KOG4626|consen 194 LKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAV 272 (966)
T ss_pred HHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHH
Confidence 455889999999999976521 111111111 11111100 011111 1234566778888888999999
Q ss_pred HHHHH---------------------cCCHHHHHHHHHHhCC-----chHHHHHHHHHHHcCCHHHHHHHHHHcCCH---
Q 000053 1764 KCFFD---------------------MGEYERAGTIYLERCE-----EPELEKAGECFSLAGCYKLAADVYARGSFL--- 1814 (2576)
Q Consensus 1764 ~~y~k---------------------ag~~~~A~ely~~~~~-----~~~~~~aAe~~e~~g~~~eAAelY~kagd~--- 1814 (2576)
.||.+ -|+.+-|+.-|++.-+ .......|..+...|.-.+|..+|.++-.+
T Consensus 273 s~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~ 352 (966)
T KOG4626|consen 273 SCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN 352 (966)
T ss_pred HHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc
Confidence 99987 4677778888876411 133567788888889999999999885332
Q ss_pred -H----HHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHH---HHHHHHHcCChHHHHHHHHHhC
Q 000053 1815 -A----ECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQS---CALHFHKLNDNKSMMKFVRAFH 1886 (2576)
Q Consensus 1815 -~----kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~---~a~~f~klgd~~~A~~~~k~~~ 1886 (2576)
. ..-.+|.+.+.+++|.++.++ . -+..+.+.++ -+--|.+.|...+|+.-+++.-
T Consensus 353 hadam~NLgni~~E~~~~e~A~~ly~~---a--------------l~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal 415 (966)
T KOG4626|consen 353 HADAMNNLGNIYREQGKIEEATRLYLK---A--------------LEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL 415 (966)
T ss_pred cHHHHHHHHHHHHHhccchHHHHHHHH---H--------------HhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH
Confidence 2 333467778888888888772 1 1111111111 2233566666666665555322
Q ss_pred cHH--------HHHHHHHhcCCHHHHHHHHH----hccCHHHH----HHHHHHcCCHHHHHHHHHHc----CCHHHHHHH
Q 000053 1887 SMD--------LIRNFLNSKGCFDELLVLEE----ESESFMDA----ANIARLRGDILRTVDLLQKV----GNFKEACNL 1946 (2576)
Q Consensus 1887 ~~e--------~a~~~l~~~~~~dea~ell~----~~g~feeA----a~ia~~~G~~~eA~kly~~a----G~~~eA~kl 1946 (2576)
.++ ....-+++.|+.++|++-+. ...-|.|| +.+++..|++.+|+..|..| -++.+|.--
T Consensus 416 rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cN 495 (966)
T KOG4626|consen 416 RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCN 495 (966)
T ss_pred hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhH
Confidence 111 11334567788888886543 35567777 67789999999999999987 556788888
Q ss_pred HHHHHHHHhhcCC
Q 000053 1947 TLNYVLSNSLWSS 1959 (2576)
Q Consensus 1947 ll~~~~~~~lw~~ 1959 (2576)
++.++..=+=|-.
T Consensus 496 llh~lq~vcdw~D 508 (966)
T KOG4626|consen 496 LLHCLQIVCDWTD 508 (966)
T ss_pred HHHHHHHHhcccc
Confidence 8888877777754
No 110
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=97.45 E-value=0.017 Score=80.28 Aligned_cols=71 Identities=14% Similarity=0.207 Sum_probs=37.3
Q ss_pred HHHHHhhcHHHHHHHHHHcCChh-----HHHHHHHHH----HHHH---HhHhhcCChHHHHHHHHHHHHHHHHcCCHHHH
Q 000053 1695 LWLFYEQNYEMATICFEKAKDTY-----WEGRSKASG----LKAA---ADRISSSNPLEARIILREAAKIFEAIGKVDSA 1762 (2576)
Q Consensus 1695 ~~l~~~~~ye~A~k~f~ragd~~-----~~~l~~A~~----l~~~---a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~A 1762 (2576)
..++..|+|+.|.++|+++=... +..++..+. +.++ .+.....+|+.. ..+...|..|...|++++|
T Consensus 135 ~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~-~a~~~~a~a~~~lg~~~eA 213 (615)
T TIGR00990 135 NKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYS-KALNRRANAYDGLGKYADA 213 (615)
T ss_pred HHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCH-HHHHHHHHHHHHcCCHHHH
Confidence 33888999999999999964311 111222111 0011 111112233222 2345567777778887777
Q ss_pred HHHH
Q 000053 1763 AKCF 1766 (2576)
Q Consensus 1763 a~~y 1766 (2576)
+..|
T Consensus 214 ~~~~ 217 (615)
T TIGR00990 214 LLDL 217 (615)
T ss_pred HHHH
Confidence 6544
No 111
>PLN03218 maturation of RBCL 1; Provisional
Probab=97.44 E-value=0.013 Score=84.62 Aligned_cols=110 Identities=10% Similarity=0.035 Sum_probs=60.5
Q ss_pred HHHHHHHHcCCHHHHHHHHHHhC------CchHHHHHHHHHHHcCCHHHHHHHHHHcCC-----------HHHHHHHHHc
Q 000053 1761 SAAKCFFDMGEYERAGTIYLERC------EEPELEKAGECFSLAGCYKLAADVYARGSF-----------LAECLDVCSK 1823 (2576)
Q Consensus 1761 ~Aa~~y~kag~~~~A~ely~~~~------~~~~~~~aAe~~e~~g~~~eAAelY~kagd-----------~~kAi~~y~k 1823 (2576)
.-+..|.+.|++++|.++|.+-. +...+......|.+.|++++|.++|.+... |...|.+|.+
T Consensus 512 aLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k 591 (1060)
T PLN03218 512 ALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN 591 (1060)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence 33445555556666655554421 123456666777777777777777765421 4456667777
Q ss_pred CCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1824 GKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1824 ~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
.|.+++|.++.+...+..... . .........-|.+.|+++.|.+++.
T Consensus 592 ~G~ldeA~elf~~M~e~gi~p------~-------~~tynsLI~ay~k~G~~deAl~lf~ 638 (1060)
T PLN03218 592 AGQVDRAKEVYQMIHEYNIKG------T-------PEVYTIAVNSCSQKGDWDFALSIYD 638 (1060)
T ss_pred CCCHHHHHHHHHHHHHcCCCC------C-------hHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 777777777777443322110 0 0112223444566666666666554
No 112
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=97.43 E-value=0.02 Score=85.12 Aligned_cols=23 Identities=13% Similarity=0.151 Sum_probs=19.1
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
+|..+...|+|++|.++|+++-.
T Consensus 391 Lg~~~~~~g~~~eA~~~y~~aL~ 413 (1157)
T PRK11447 391 LGDVAMARKDYAAAERYYQQALR 413 (1157)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHH
Confidence 45568889999999999999653
No 113
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.41 E-value=0.02 Score=74.67 Aligned_cols=23 Identities=13% Similarity=0.030 Sum_probs=18.6
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
.|..+...++++.|...|+++-.
T Consensus 41 ~g~~~~~~~~~~~A~~~~~~al~ 63 (389)
T PRK11788 41 KGLNFLLNEQPDKAIDLFIEMLK 63 (389)
T ss_pred HHHHHHhcCChHHHHHHHHHHHh
Confidence 45557788999999999998754
No 114
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.40 E-value=0.003 Score=80.77 Aligned_cols=225 Identities=16% Similarity=0.196 Sum_probs=109.7
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHH-HHHHHHhHhhcCChHHHHHHH--------------HHHHHHHHHcC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYWEGRSKAS-GLKAAADRISSSNPLEARIIL--------------REAAKIFEAIG 1757 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~-~l~~~a~~l~~~~~~~a~~~~--------------~eAA~~fe~~G 1757 (2576)
+|+++-..|+++.|...|+.+=...-.- ..|+ .++.+. +.....+.+...| ...+.+....|
T Consensus 122 ~aN~~kerg~~~~al~~y~~aiel~p~f-ida~inla~al--~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~G 198 (966)
T KOG4626|consen 122 LANILKERGQLQDALALYRAAIELKPKF-IDAYINLAAAL--VTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEG 198 (966)
T ss_pred HHHHHHHhchHHHHHHHHHHHHhcCchh-hHHHhhHHHHH--HhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhc
Confidence 4566777888999999998765422111 1111 111110 0111111222222 33445555667
Q ss_pred CHHHHHHHHHH---------------------cCCHHHHHHHHHHhC--Cc---hHHHHHHHHHHHcCCHHHHHHHHHHc
Q 000053 1758 KVDSAAKCFFD---------------------MGEYERAGTIYLERC--EE---PELEKAGECFSLAGCYKLAADVYARG 1811 (2576)
Q Consensus 1758 ~~~~Aa~~y~k---------------------ag~~~~A~ely~~~~--~~---~~~~~aAe~~e~~g~~~eAAelY~ka 1811 (2576)
+..+|..||.+ .|+..+|+.-|.++- +. ..+...+..|.+++.|+.|..+|.++
T Consensus 199 rl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rA 278 (966)
T KOG4626|consen 199 RLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRA 278 (966)
T ss_pred ccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHH
Confidence 77777777766 455555555555531 11 23556677777777777777777764
Q ss_pred CCHH--HHHH------HHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhH---HHHHHHHHHcCChHHHHH
Q 000053 1812 SFLA--ECLD------VCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFL---QSCALHFHKLNDNKSMMK 1880 (2576)
Q Consensus 1812 gd~~--kAi~------~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~l---e~~a~~f~klgd~~~A~~ 1880 (2576)
-... .|+. +|-+.|..|.|++--++ . -...+.|. ..-++.+.+.|++.+|.+
T Consensus 279 l~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykr---a--------------l~~~P~F~~Ay~NlanALkd~G~V~ea~~ 341 (966)
T KOG4626|consen 279 LNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKR---A--------------LELQPNFPDAYNNLANALKDKGSVTEAVD 341 (966)
T ss_pred HhcCCcchhhccceEEEEeccccHHHHHHHHHH---H--------------HhcCCCchHHHhHHHHHHHhccchHHHHH
Confidence 3211 1111 22335555655554441 1 11111121 123445566666666655
Q ss_pred HHHHh--------CcHHHHHHHHHhcCCHHHHHHHHHh----ccCHHHH----HHHHHHcCCHHHHHHHHHHc
Q 000053 1881 FVRAF--------HSMDLIRNFLNSKGCFDELLVLEEE----SESFMDA----ANIARLRGDILRTVDLLQKV 1937 (2576)
Q Consensus 1881 ~~k~~--------~~~e~a~~~l~~~~~~dea~ell~~----~g~feeA----a~ia~~~G~~~eA~kly~~a 1937 (2576)
.+... +.+........+.|.+++|..++.. ...|.+| +-+++.+|+.++|+..|..|
T Consensus 342 cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykea 414 (966)
T KOG4626|consen 342 CYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEA 414 (966)
T ss_pred HHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHH
Confidence 55431 1222233444555666666654432 2334333 44555666666666655443
No 115
>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=97.35 E-value=0.00039 Score=75.64 Aligned_cols=51 Identities=29% Similarity=0.369 Sum_probs=45.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
..+|+||||||||.++..++..+.. .+.++++++|++..+.+..+++....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~ 54 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELF 54 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHh
Confidence 4689999999999999999999887 56899999999999999998887654
No 116
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=97.35 E-value=0.0096 Score=83.87 Aligned_cols=177 Identities=11% Similarity=0.079 Sum_probs=116.8
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhC--CchHHHHHHHHHHHcCCHHHHHHHHHHcCC---------HHHHHHHHHcCCCHH
Q 000053 1760 DSAAKCFFDMGEYERAGTIYLERC--EEPELEKAGECFSLAGCYKLAADVYARGSF---------LAECLDVCSKGKLFD 1828 (2576)
Q Consensus 1760 ~~Aa~~y~kag~~~~A~ely~~~~--~~~~~~~aAe~~e~~g~~~eAAelY~kagd---------~~kAi~~y~k~k~fd 1828 (2576)
..-+.+|.+.|+++.|.+++.+.. +..-|...+..|.+.|+.++|.++|.+... |...+..|.+.|..+
T Consensus 364 ~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~ 443 (697)
T PLN03081 364 TALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSE 443 (697)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHH
Confidence 445666667777777777766532 223588899999999999999999998433 677888999999999
Q ss_pred HHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCCHHHHHHHH
Q 000053 1829 IGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGCFDELLVLE 1908 (2576)
Q Consensus 1829 ~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~~dea~ell 1908 (2576)
+|.++.....+..... +. ..........|.+.|..++|.++++.......+ .-|...+...
T Consensus 444 ~a~~~f~~m~~~~g~~----p~--------~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~-------~~~~~Ll~a~ 504 (697)
T PLN03081 444 QGWEIFQSMSENHRIK----PR--------AMHYACMIELLGREGLLDEAYAMIRRAPFKPTV-------NMWAALLTAC 504 (697)
T ss_pred HHHHHHHHHHHhcCCC----CC--------ccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCH-------HHHHHHHHHH
Confidence 9999998543211100 00 012333556678889988888877643221111 1144445555
Q ss_pred HhccCHHHHHHHHHH--------cCCHHHHHHHHHHcCCHHHHHHHHHHHHHHHhh
Q 000053 1909 EESESFMDAANIARL--------RGDILRTVDLLQKVGNFKEACNLTLNYVLSNSL 1956 (2576)
Q Consensus 1909 ~~~g~feeAa~ia~~--------~G~~~eA~kly~~aG~~~eA~klll~~~~~~~l 1956 (2576)
...|+++.|..++++ .+.+..-+.+|.++|++++|.++ +.-|.-+.+
T Consensus 505 ~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v-~~~m~~~g~ 559 (697)
T PLN03081 505 RIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKV-VETLKRKGL 559 (697)
T ss_pred HHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHH-HHHHHHcCC
Confidence 667777777666543 45677788899999999999884 344554443
No 117
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=97.27 E-value=8.3e-05 Score=100.31 Aligned_cols=280 Identities=22% Similarity=0.214 Sum_probs=178.2
Q ss_pred CcEEEEccccchhh--hhccCCCCCEEEEEcCCCCChhHHhhhccccC-cceEEEecCCCCCCccccccchhhhhccccH
Q 000053 558 ASLFFSTASSSYML--HSVAMKPLNFLVIDEAAQLKESESTIPLQLSG-IKHAVLFGDECQLPAMVESKVSDEACFGRSL 634 (2576)
Q Consensus 558 a~VI~~T~sss~~l--~~~~~~~fD~VIIDEAsQ~~e~e~lipL~l~~-~k~vILVGD~~QLpPvv~s~~~~~~~~~~SL 634 (2576)
-+|++.|...+... .....+.|.+.+.|||+++.++..+.|++++. ..+++|+||+.|+-|.+.+....+.... .+
T Consensus 243 Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~~ 321 (775)
T KOG1804|consen 243 HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVAREEQALH-LL 321 (775)
T ss_pred cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhhhhhhh-hc
Confidence 45666666554422 23334568899999999999999999987654 5799999999999998876655544443 22
Q ss_pred HHHHhh----ccCCccccccccccCcccccccccccccCcccCCccccccccccccCCCCCCCCcEEEEccCCcccc--c
Q 000053 635 FERLSH----LRHSKHLLSIQYRMHPSISFFPNSYFYENKIHDSPTVEKRSYEKRFLPGPMYGPYSFINVFGGREEF--I 708 (2576)
Q Consensus 635 feRL~~----~g~~~~~L~~qYRmhp~I~~f~n~~fY~g~L~~~~~~~~~~~~~~~~~~~~~~~~~fidv~~g~e~~--~ 708 (2576)
..++.. .|.+.+-.+.+||++-.+..|.+..||...........+.. ......+..|... .+.... .
T Consensus 322 ~~~~~~~y~~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~p~~a~~k~~------~~rl~~p~~~~~~-~~~~~~~~~ 394 (775)
T KOG1804|consen 322 LCRLPEPYIVFGPPGTGKTENYREAIAIVSFTSPHFYILVCAPSNASGKQP------AHRLHYPLTFSTA-RGEDVRAKS 394 (775)
T ss_pred ccccccccccccCCCcCCccchHHHHHHHHhcchHHHhhcccccccccccc------ccccccccccccc-ccccccccc
Confidence 233222 25566788999999999999999999975332221111111 1111233444443 222222 3
Q ss_pred cccccCHHHHHHHHHHHHHHHhcccCC---CCCCeEEEEcccHHHHHHHHHHhccccccCCCCceEEccCCCCCCccCC-
Q 000053 709 EHSCRNMVEVSVVMKILLNLYKGWINS---KEKLSIGIVSPYIAQVAAIQEKLGSKYVNSAGFAVKVMSVDGFQGGEED- 784 (2576)
Q Consensus 709 ~~S~~N~~Ea~~v~~lv~~L~~~~~~~---~~~~sIgIITPY~aQv~~I~~~L~~~~~~~~~~~v~V~TVd~fQG~E~D- 784 (2576)
.....|..|+..++.-+..+.+.+... ..-.++|++|+|..|+..++..|.+.-. +.+.-.--.+|...-
T Consensus 395 ~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg------~stEpe~lv~i~~~~~ 468 (775)
T KOG1804|consen 395 STAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAG------VSTEPELLVPGKQFRQ 468 (775)
T ss_pred hhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccc------cccCcccccccccccc
Confidence 455778888888888888887554311 1234799999999999999988843211 111222222333332
Q ss_pred --EEEEEcccCCCC------CccccCCCCCceEEecccccccEEEEechhhhhcC---chHHHHHHHHHHhcCceecc
Q 000053 785 --IIIISTVRSNNG------GSIGFISNPRRVNVALTRARHCLWILGNERTLTRN---RSVWKALVDDAKARQCFFNA 851 (2576)
Q Consensus 785 --iVIlS~Vrs~~~------~~~gFl~d~~RlNVAlTRAR~~LiIVGn~~~L~~~---~~~W~~li~~~~~r~~~~~~ 851 (2576)
.||+++...--. ..-.+-.+...+|.|+|||-.+.-++|+...+..- ...|.+.+..+-.+.-+|+.
T Consensus 469 ~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~ 546 (775)
T KOG1804|consen 469 PFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLG 546 (775)
T ss_pred eeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhhHHHHhhhhHhhhccccccccc
Confidence 566665432110 01112235789999999999999999999877654 35788887777777776654
No 118
>PLN03077 Protein ECB2; Provisional
Probab=97.26 E-value=0.024 Score=81.87 Aligned_cols=76 Identities=12% Similarity=0.043 Sum_probs=44.0
Q ss_pred HHHHHHHcCCHHHHHHHHHHh------CCchHHHHHHHHHHHcCCHHHHHHHHHHcCC-----HHHHHHHHHcCCCHHHH
Q 000053 1762 AAKCFFDMGEYERAGTIYLER------CEEPELEKAGECFSLAGCYKLAADVYARGSF-----LAECLDVCSKGKLFDIG 1830 (2576)
Q Consensus 1762 Aa~~y~kag~~~~A~ely~~~------~~~~~~~~aAe~~e~~g~~~eAAelY~kagd-----~~kAi~~y~k~k~fd~A 1830 (2576)
.+..+.+.|+.+.|.+++... .+...+......|.+.|++++|.++|.+... |...+..|.+.+.+++|
T Consensus 294 ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A 373 (857)
T PLN03077 294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKA 373 (857)
T ss_pred HHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHH
Confidence 344444455555555554432 1223455666666677777777777766433 55666667777777777
Q ss_pred HHHHHhh
Q 000053 1831 LQYISYW 1837 (2576)
Q Consensus 1831 ~~l~r~~ 1837 (2576)
+++.++.
T Consensus 374 ~~lf~~M 380 (857)
T PLN03077 374 LETYALM 380 (857)
T ss_pred HHHHHHH
Confidence 7776643
No 119
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=97.24 E-value=0.00037 Score=97.64 Aligned_cols=50 Identities=36% Similarity=0.481 Sum_probs=39.3
Q ss_pred CCeEEEeeeccCCccccEEEEeecccCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccc
Q 000053 1547 KQALVLTIVESKGLEFQDVLLYKFFSASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRT 1626 (2576)
Q Consensus 1547 ~~V~V~TIH~aKGLEFd~ViL~n~f~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRA 1626 (2576)
.....||||+|.|-|||+|+|+=.. . .+. =+|.++|||||||
T Consensus 620 ~~ayA~TIHKsQGSef~~v~v~l~~-~---------------------------~~~----------l~r~l~YtAiTRa 661 (696)
T COG0507 620 ELAYAMTIHKSQGSEFDRVIVLLPS-H---------------------------SPM----------LSRELLYTAITRA 661 (696)
T ss_pred hhheeeeEecccCCCCCeEEEEcCC-C---------------------------chh----------hhhhHHHHHhhhh
Confidence 4678999999999999999997110 0 000 2478999999999
Q ss_pred cceeEEEE
Q 000053 1627 RQRLWIWE 1634 (2576)
Q Consensus 1627 r~~L~I~~ 1634 (2576)
|+.|.++.
T Consensus 662 r~~l~l~~ 669 (696)
T COG0507 662 RDRLILYG 669 (696)
T ss_pred heeEEEEc
Confidence 99999993
No 120
>PLN03218 maturation of RBCL 1; Provisional
Probab=97.24 E-value=0.02 Score=82.69 Aligned_cols=176 Identities=13% Similarity=0.097 Sum_probs=116.7
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHhC------CchHHHHHHHHHHHcCCHHHHHHHHHHcCC---------HHHHHHHHHc
Q 000053 1759 VDSAAKCFFDMGEYERAGTIYLERC------EEPELEKAGECFSLAGCYKLAADVYARGSF---------LAECLDVCSK 1823 (2576)
Q Consensus 1759 ~~~Aa~~y~kag~~~~A~ely~~~~------~~~~~~~aAe~~e~~g~~~eAAelY~kagd---------~~kAi~~y~k 1823 (2576)
|..-+.+|.+.|++++|.+++.+.. +...+......|.+.|++++|.++|.+... |...+..|.+
T Consensus 582 ynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k 661 (1060)
T PLN03218 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661 (1060)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence 3455667777788888887776541 124577888999999999999999987432 5678889999
Q ss_pred CCCHHHHHHHHHhhhhcCC-cccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCCHH
Q 000053 1824 GKLFDIGLQYISYWKQHAD-TDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGCFD 1902 (2576)
Q Consensus 1824 ~k~fd~A~~l~r~~~~~~~-~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~~d 1902 (2576)
.+.+++|.++..+..+... .+ ..........|.+.|+++.|.+++....... .-...--|.
T Consensus 662 ~G~~eeA~~l~~eM~k~G~~pd--------------~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g----~~PdvvtyN 723 (1060)
T PLN03218 662 AGDLDKAFEILQDARKQGIKLG--------------TVSYSSLMGACSNAKNWKKALELYEDIKSIK----LRPTVSTMN 723 (1060)
T ss_pred CCCHHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC----CCCCHHHHH
Confidence 9999999999985443321 11 1123345566888999999888776432100 000111255
Q ss_pred HHHHHHHhccCHHHHHHHHHH---cCC------HHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 000053 1903 ELLVLEEESESFMDAANIARL---RGD------ILRTVDLLQKVGNFKEACNLTLNYVLS 1953 (2576)
Q Consensus 1903 ea~ell~~~g~feeAa~ia~~---~G~------~~eA~kly~~aG~~~eA~klll~~~~~ 1953 (2576)
-.+..++..|++++|.+++.+ .|- +.--...+.+.|+.++|.+ ++.+|.-
T Consensus 724 ~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~-l~~~M~k 782 (1060)
T PLN03218 724 ALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD-LLSQAKE 782 (1060)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHH
Confidence 566777788888888777652 332 3445577888899988866 4444443
No 121
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.18 E-value=5.3e-05 Score=79.63 Aligned_cols=50 Identities=32% Similarity=0.339 Sum_probs=39.4
Q ss_pred ceEEccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEE
Q 000053 769 AVKVMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWIL 822 (2576)
Q Consensus 769 ~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIV 822 (2576)
.+.+.|||++||.|+|.||+........ -....++++||+||||+.|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~~~----~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSSNF----DELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGGSG----CGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcccC----CchhhccEEeeHhHhhhhhCCC
Confidence 6789999999999999999988766511 1335677999999999999987
No 122
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=97.18 E-value=0.017 Score=85.53 Aligned_cols=85 Identities=16% Similarity=0.093 Sum_probs=54.7
Q ss_pred CCeEEEeeeccCCccccEEEEeecccC-CCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhcc
Q 000053 1547 KQALVLTIVESKGLEFQDVLLYKFFSA-SPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITR 1625 (2576)
Q Consensus 1547 ~~V~V~TIH~aKGLEFd~ViL~n~f~~-~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTR 1625 (2576)
++|.|+|+|.++|++|++|+++|+.++ +|....-..++...+...+.... .+ ..........+|+.++|+|+||
T Consensus 580 d~V~v~~~~~~r~~~~k~v~vlG~ndg~~P~~~~~~~ll~d~er~~L~~~g----~~-l~~~~~~~~~~e~~~~y~alt~ 654 (1158)
T TIGR02773 580 DQVSVGTMDRAKSDNTKVIYLLGMNDGVMPARSKEEGILSDEERELLEQQG----VE-LSPTSKIKIFDEQFLVYTAFTS 654 (1158)
T ss_pred CEEEEeccccccccCcCEEEEeCCCCCcCCCCCCCCCCcCHHHHHHHHHCC----CC-CCCChHHHhhcCcHHHHHHhcC
Confidence 589999999999999999999999999 55432222121111111010000 00 0111223345789999999999
Q ss_pred ccceeEEEEec
Q 000053 1626 TRQRLWIWENK 1636 (2576)
Q Consensus 1626 Ar~~L~I~~s~ 1636 (2576)
|+++|+|++..
T Consensus 655 a~~~L~lSy~~ 665 (1158)
T TIGR02773 655 ASERLKISYPL 665 (1158)
T ss_pred ccceEEEEEEC
Confidence 99999998863
No 123
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=97.15 E-value=0.034 Score=82.70 Aligned_cols=23 Identities=13% Similarity=0.057 Sum_probs=18.9
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
+|+.++..|++++|..+|+++-.
T Consensus 357 ~g~~~~~~g~~~eA~~~~~~Al~ 379 (1157)
T PRK11447 357 QGDAALKANNLAQAERLYQQARQ 379 (1157)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHH
Confidence 35558889999999999999743
No 124
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=97.09 E-value=0.023 Score=75.20 Aligned_cols=161 Identities=16% Similarity=0.142 Sum_probs=89.6
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHH
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYE 1773 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~ 1773 (2576)
|..++.+|+|+.|...|++|=+. +++..+ ...+.. .......|.+|...+++.+|+.+| +
T Consensus 206 a~~y~~~g~~e~A~~l~k~Al~~----l~k~~G---------~~hl~v-a~~l~~~a~~y~~~~k~~eAv~ly------~ 265 (508)
T KOG1840|consen 206 AEMYAVQGRLEKAEPLCKQALRI----LEKTSG---------LKHLVV-ASMLNILALVYRSLGKYDEAVNLY------E 265 (508)
T ss_pred HHHHHHhccHHHHHHHHHHHHHH----HHHccC---------ccCHHH-HHHHHHHHHHHHHhccHHHHHHHH------H
Confidence 33366799999999999987654 222221 001111 111235777777777777777444 4
Q ss_pred HHHHHHHHhCCc------hHHHHHHHHHHHcCCHHHHHHHHHHcCCH----------------HHHHHHHHcCCCHHHHH
Q 000053 1774 RAGTIYLERCEE------PELEKAGECFSLAGCYKLAADVYARGSFL----------------AECLDVCSKGKLFDIGL 1831 (2576)
Q Consensus 1774 ~A~ely~~~~~~------~~~~~aAe~~e~~g~~~eAAelY~kagd~----------------~kAi~~y~k~k~fd~A~ 1831 (2576)
+|..+..+..++ ..+...|..|.+.|.|++|..+++++=+. .+...+|...+.+++|.
T Consensus 266 ~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~ 345 (508)
T KOG1840|consen 266 EALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAK 345 (508)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHH
Confidence 455555554332 23567777777778877777666554332 22333444456677777
Q ss_pred HHHHh----hhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHH
Q 000053 1832 QYISY----WKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRA 1884 (2576)
Q Consensus 1832 ~l~r~----~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~ 1884 (2576)
.+.++ |...... ...+.+.....-+.-|.+.|.+..|.++++.
T Consensus 346 ~l~q~al~i~~~~~g~----------~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ 392 (508)
T KOG1840|consen 346 KLLQKALKIYLDAPGE----------DNVNLAKIYANLAELYLKMGKYKEAEELYKK 392 (508)
T ss_pred HHHHHHHHHHHhhccc----------cchHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 66662 1111101 1112223334445556778888888777764
No 125
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=97.06 E-value=0.041 Score=76.48 Aligned_cols=107 Identities=9% Similarity=0.036 Sum_probs=60.3
Q ss_pred HHHHHcCCHHHHHHHHHHh-----CCchHHHHHHHHHHHcCCHHHHHHHHHHcCCH--------HHHHHHHHcCCCHHHH
Q 000053 1764 KCFFDMGEYERAGTIYLER-----CEEPELEKAGECFSLAGCYKLAADVYARGSFL--------AECLDVCSKGKLFDIG 1830 (2576)
Q Consensus 1764 ~~y~kag~~~~A~ely~~~-----~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~--------~kAi~~y~k~k~fd~A 1830 (2576)
.+|...|++++|...+.+. .....+...|.++...|+|++|.+.|.++-.. -....++.+.|.+++|
T Consensus 373 ~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA 452 (615)
T TIGR00990 373 SMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASS 452 (615)
T ss_pred HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHH
Confidence 3444455555555554433 12345667778888888888888888775221 1122355567778888
Q ss_pred HHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHH
Q 000053 1831 LQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRA 1884 (2576)
Q Consensus 1831 ~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~ 1884 (2576)
+..+++.-+..+.. .......+..+...|++..|++.+..
T Consensus 453 ~~~~~~al~~~P~~--------------~~~~~~lg~~~~~~g~~~~A~~~~~~ 492 (615)
T TIGR00990 453 MATFRRCKKNFPEA--------------PDVYNYYGELLLDQNKFDEAIEKFDT 492 (615)
T ss_pred HHHHHHHHHhCCCC--------------hHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 88877433222111 11122234456667888877776553
No 126
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.04 E-value=0.073 Score=69.35 Aligned_cols=23 Identities=4% Similarity=-0.125 Sum_probs=18.2
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
+|..+...|+++.|...|+++-.
T Consensus 75 la~~~~~~g~~~~A~~~~~~~l~ 97 (389)
T PRK11788 75 LGNLFRRRGEVDRAIRIHQNLLS 97 (389)
T ss_pred HHHHHHHcCcHHHHHHHHHHHhc
Confidence 34558889999999999987543
No 127
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=96.99 E-value=0.021 Score=75.15 Aligned_cols=135 Identities=19% Similarity=0.115 Sum_probs=96.1
Q ss_pred HHHHHHHHHHcCCHHHHHH----------HHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHH
Q 000053 1746 LREAAKIFEAIGKVDSAAK----------CFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLA 1815 (2576)
Q Consensus 1746 ~~eAA~~fe~~G~~~~Aa~----------~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~ 1815 (2576)
....+..+++.|.++.|.+ +..++|+.+.|.+++.+..+...|++.|+.+-+.|+++-|.++|.+++|++
T Consensus 298 ~~~i~~fL~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d~~ 377 (443)
T PF04053_consen 298 GQSIARFLEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDDPEKWKQLGDEALRQGNIELAEECYQKAKDFS 377 (443)
T ss_dssp HHHHHHHHHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-HH
T ss_pred HHHHHHHHHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcCcc
Confidence 4677777888887777754 456789999999997775566799999999999999999999999999999
Q ss_pred HHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHH
Q 000053 1816 ECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFL 1895 (2576)
Q Consensus 1816 kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l 1895 (2576)
+..-+|.-.|.-+...+++. --...|+...|....
T Consensus 378 ~L~lLy~~~g~~~~L~kl~~--------------------------------~a~~~~~~n~af~~~------------- 412 (443)
T PF04053_consen 378 GLLLLYSSTGDREKLSKLAK--------------------------------IAEERGDINIAFQAA------------- 412 (443)
T ss_dssp HHHHHHHHCT-HHHHHHHHH--------------------------------HHHHTT-HHHHHHHH-------------
T ss_pred ccHHHHHHhCCHHHHHHHHH--------------------------------HHHHccCHHHHHHHH-------------
Confidence 99999988887665555544 123444444433322
Q ss_pred HhcCCHHHHHHHHHhccCHHHHHHHHHHcC
Q 000053 1896 NSKGCFDELLVLEEESESFMDAANIARLRG 1925 (2576)
Q Consensus 1896 ~~~~~~dea~ell~~~g~feeAa~ia~~~G 1925 (2576)
--.|+.++.+++|.+.|++.||+-.++..|
T Consensus 413 ~~lgd~~~cv~lL~~~~~~~~A~~~A~ty~ 442 (443)
T PF04053_consen 413 LLLGDVEECVDLLIETGRLPEAALFARTYG 442 (443)
T ss_dssp HHHT-HHHHHHHHHHTT-HHHHHHHHHHTT
T ss_pred HHcCCHHHHHHHHHHcCCchHHHHHHHhcC
Confidence 124777777888888888888877776654
No 128
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=96.99 E-value=0.12 Score=72.07 Aligned_cols=75 Identities=8% Similarity=-0.085 Sum_probs=38.8
Q ss_pred HHHHHHcCCHHHHHHHHHHhC----Cc-hHHHHHHHHHHHcCCHHHHHHHHHHcCCH---------HHHHHHHHcCCCHH
Q 000053 1763 AKCFFDMGEYERAGTIYLERC----EE-PELEKAGECFSLAGCYKLAADVYARGSFL---------AECLDVCSKGKLFD 1828 (2576)
Q Consensus 1763 a~~y~kag~~~~A~ely~~~~----~~-~~~~~aAe~~e~~g~~~eAAelY~kagd~---------~kAi~~y~k~k~fd 1828 (2576)
+.+|...|++++|...|.+.. +. ..+... ..+...|++.+|.+.|.++-.. ..+..++.+.+.++
T Consensus 151 a~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~ 229 (656)
T PRK15174 151 LRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQ 229 (656)
T ss_pred HHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHH
Confidence 334455666666666655321 11 112222 2355677777777777662111 11234555667777
Q ss_pred HHHHHHHhhh
Q 000053 1829 IGLQYISYWK 1838 (2576)
Q Consensus 1829 ~A~~l~r~~~ 1838 (2576)
+|+..+++.-
T Consensus 230 eA~~~~~~al 239 (656)
T PRK15174 230 EAIQTGESAL 239 (656)
T ss_pred HHHHHHHHHH
Confidence 7777777433
No 129
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=96.97 E-value=0.0028 Score=79.80 Aligned_cols=236 Identities=17% Similarity=0.155 Sum_probs=120.6
Q ss_pred CCCEEEEEcCCCCChhHH-hhhccccCcceEEEecCCCCC-------Ccc-ccccchhhhhccccHHHHHhhccCCcccc
Q 000053 578 PLNFLVIDEAAQLKESES-TIPLQLSGIKHAVLFGDECQL-------PAM-VESKVSDEACFGRSLFERLSHLRHSKHLL 648 (2576)
Q Consensus 578 ~fD~VIIDEAsQ~~e~e~-lipL~l~~~k~vILVGD~~QL-------pPv-v~s~~~~~~~~~~SLfeRL~~~g~~~~~L 648 (2576)
-+|+|+|||++..+..=. ++-+.....+++|.+||..|= ||- +.++... |-.+--+.| ..-..+.|
T Consensus 295 ~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyAyDelQnls~~~m~ppe~iFg~d~d--g~P~V~l~r---adr~DiVL 369 (660)
T COG3972 295 AYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYAYDELQNLSNVKMRPPEEIFGPDSD--GEPRVNLAR---ADRNDIVL 369 (660)
T ss_pred cccEEEecccccCCHHHHHHHHHHhcCcceEEEehHhhhcccccCCCCHHHhcCcCCC--CCccccccc---CccccchH
Confidence 489999999999864221 111223456999999999994 221 1111000 000000001 11234678
Q ss_pred ccccccCcccccccccc---cccCcc--cCCcccccc-cc--cc--------ccCCCCCCCCcEEEEccCCcccc--ccc
Q 000053 649 SIQYRMHPSISFFPNSY---FYENKI--HDSPTVEKR-SY--EK--------RFLPGPMYGPYSFINVFGGREEF--IEH 710 (2576)
Q Consensus 649 ~~qYRmhp~I~~f~n~~---fY~g~L--~~~~~~~~~-~~--~~--------~~~~~~~~~~~~fidv~~g~e~~--~~~ 710 (2576)
...||..|...-+.-.+ .|.|-+ -+.|..-.. .| .+ ..+..+......|++..+..+.. --+
T Consensus 370 ~kCYRnsp~nLvaAHaLGfG~ysnlVqlfd~p~lW~diGY~vk~g~l~vG~~V~L~Rdpessp~fl~e~~~p~~i~~fi~ 449 (660)
T COG3972 370 KKCYRNSPKNLVAAHALGFGLYSNLVQLFDKPPLWDDIGYKVKKGDLQVGDRVHLSRDPESSPEFLPENHKPTAIHLFIG 449 (660)
T ss_pred HHHhcCCchhhhHHhhccchhhhHHHHHhcCchhhhhcCceeecccccCCCceeeccCcccCcccccccCChhhhheeec
Confidence 99999877654333222 132211 111111000 00 00 00001112222344332222111 011
Q ss_pred cccCHHHHHHHHHHHHHHHhcccCCCCCCeEEEEcccHH----HHHHHHHHhcccc-c--------------cCCCCceE
Q 000053 711 SCRNMVEVSVVMKILLNLYKGWINSKEKLSIGIVSPYIA----QVAAIQEKLGSKY-V--------------NSAGFAVK 771 (2576)
Q Consensus 711 S~~N~~Ea~~v~~lv~~L~~~~~~~~~~~sIgIITPY~a----Qv~~I~~~L~~~~-~--------------~~~~~~v~ 771 (2576)
+-.-..|+..++.-+....+. .....+|.||.+-.. =...+.+.|..+- . ..++ .|.
T Consensus 450 fd~~~deivwi~~qI~~~~ed---eLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dg-kvt 525 (660)
T COG3972 450 FDNGPDEIVWIIIQIKEFRED---ELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDG-KVT 525 (660)
T ss_pred cCCcchhhHHHHHHHHHhccc---ccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCc-eEE
Confidence 112245666655555553322 245678888876332 2333444443210 0 0111 689
Q ss_pred EccCCCCCCccCCEEEEEcccCCCCCccccCCCCCceEEecccccccEEEEech
Q 000053 772 VMSVDGFQGGEEDIIIISTVRSNNGGSIGFISNPRRVNVALTRARHCLWILGNE 825 (2576)
Q Consensus 772 V~TVd~fQG~E~DiVIlS~Vrs~~~~~~gFl~d~~RlNVAlTRAR~~LiIVGn~ 825 (2576)
+.+|-+..|.|+.+|+.-.+..=+ .|....+|-+.+|+||.|.-+-|+|-.
T Consensus 526 is~IyrAKGnEapfV~aL~a~~ls---~~la~~RN~LfTamTRSkawvrv~glg 576 (660)
T COG3972 526 ISRIYRAKGNEAPFVYALGAAYLS---TGLADWRNILFTAMTRSKAWVRVVGLG 576 (660)
T ss_pred eeeehhccCCCCcEEEEehhhhhC---ccchhHHhHHHHHHhhhhhhhhhhccC
Confidence 999999999999999987664432 466677889999999999988888843
No 130
>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.96 E-value=0.026 Score=66.09 Aligned_cols=17 Identities=35% Similarity=0.509 Sum_probs=11.5
Q ss_pred hhcHHHHHHHHHHcCCh
Q 000053 1700 EQNYEMATICFEKAKDT 1716 (2576)
Q Consensus 1700 ~~~ye~A~k~f~ragd~ 1716 (2576)
.+.|+.|.-||+-|.+.
T Consensus 31 as~yekAAvafRnAk~f 47 (308)
T KOG1585|consen 31 ASLYEKAAVAFRNAKKF 47 (308)
T ss_pred HHHHHHHHHHHHhhccH
Confidence 45677777777766654
No 131
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=96.90 E-value=0.037 Score=74.76 Aligned_cols=127 Identities=19% Similarity=0.200 Sum_probs=74.4
Q ss_pred cCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHH
Q 000053 1669 ASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILRE 1748 (2576)
Q Consensus 1669 ~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~e 1748 (2576)
.++++.|+..++- ...++++++|.-||.||=.. +|... ....+
T Consensus 204 p~d~e~W~~ladl---------------s~~~~~i~qA~~cy~rAI~~---------------------~p~n~-~~~~e 246 (895)
T KOG2076|consen 204 PKDYELWKRLADL---------------SEQLGNINQARYCYSRAIQA---------------------NPSNW-ELIYE 246 (895)
T ss_pred CCChHHHHHHHHH---------------HHhcccHHHHHHHHHHHHhc---------------------CCcch-HHHHH
Confidence 3566888888866 88899999999999975432 23322 24466
Q ss_pred HHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHc----------CCHHHHH
Q 000053 1749 AAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARG----------SFLAECL 1818 (2576)
Q Consensus 1749 AA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~ka----------gd~~kAi 1818 (2576)
-+.+|.+.|+..+|+.+|.++=++.--+.+-+ + ...+...|.+|...+.-+.|++..+.+ .+++=.+
T Consensus 247 rs~L~~~~G~~~~Am~~f~~l~~~~p~~d~er--~-~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~a 323 (895)
T KOG2076|consen 247 RSSLYQKTGDLKRAMETFLQLLQLDPPVDIER--I-EDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILA 323 (895)
T ss_pred HHHHHHHhChHHHHHHHHHHHHhhCCchhHHH--H-HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHH
Confidence 77888889988889888876332221000000 0 122344455555555555555443321 2244455
Q ss_pred HHHHcCCCHHHHHHHHH
Q 000053 1819 DVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1819 ~~y~k~k~fd~A~~l~r 1835 (2576)
+++.+.+.|+.|...+.
T Consensus 324 el~l~~~q~d~~~~~i~ 340 (895)
T KOG2076|consen 324 ELFLKNKQSDKALMKIV 340 (895)
T ss_pred HHHHHhHHHHHhhHHHH
Confidence 56666666666666665
No 132
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=96.90 E-value=0.0041 Score=77.45 Aligned_cols=172 Identities=14% Similarity=0.103 Sum_probs=62.0
Q ss_pred HHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1695 LWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYER 1774 (2576)
Q Consensus 1695 ~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~ 1774 (2576)
+.+...++++.|..+|++.=...-........+ ...+...+++++...+.++-+-+.....+..++.+|...+++++
T Consensus 52 ~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l---~~l~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ 128 (280)
T PF13429_consen 52 DLAWSLGDYDEAIEAYEKLLASDKANPQDYERL---IQLLQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDE 128 (280)
T ss_dssp ---------------------------------------------------------------------H-HHHTT-HHH
T ss_pred ccccccccccccccccccccccccccccccccc---ccccccccccccccccccccccccccchhhHHHHHHHHHhHHHH
Confidence 346778899999999997433211110000000 00011223333322222222222222345677888888888888
Q ss_pred HHHHHHHhC-------CchHHHHHHHHHHHcCCHHHHHHHHHHcCC----HH----HHHHHHHcCCCHHHHHHHHHhhhh
Q 000053 1775 AGTIYLERC-------EEPELEKAGECFSLAGCYKLAADVYARGSF----LA----ECLDVCSKGKLFDIGLQYISYWKQ 1839 (2576)
Q Consensus 1775 A~ely~~~~-------~~~~~~~aAe~~e~~g~~~eAAelY~kagd----~~----kAi~~y~k~k~fd~A~~l~r~~~~ 1839 (2576)
+.++..+.. +...+...|.++.+.|++++|.++|.++=. -. ..+-++.+.|..+++.+++..|.+
T Consensus 129 ~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~ 208 (280)
T PF13429_consen 129 AEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLK 208 (280)
T ss_dssp HHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence 888766531 223567778888888888888888777322 11 223345566777777777776555
Q ss_pred cCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1840 HADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1840 ~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
..+.+ +.+...-+..|..+|+++.|..+++
T Consensus 209 ~~~~~--------------~~~~~~la~~~~~lg~~~~Al~~~~ 238 (280)
T PF13429_consen 209 AAPDD--------------PDLWDALAAAYLQLGRYEEALEYLE 238 (280)
T ss_dssp H-HTS--------------CCHCHHHHHHHHHHT-HHHHHHHHH
T ss_pred HCcCH--------------HHHHHHHHHHhcccccccccccccc
Confidence 43222 1122233445666777777766554
No 133
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.89 E-value=0.0024 Score=73.95 Aligned_cols=62 Identities=27% Similarity=0.277 Sum_probs=50.8
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCC--CeEEEEecChHHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~--~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.++..++... ...+|.||+|||||.++...+..++..+ .++|+++||+..+.++..++.+..
T Consensus 15 ~~~~~~~~~~---~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~ 78 (201)
T smart00487 15 EAIEALLSGL---RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLG 78 (201)
T ss_pred HHHHHHHcCC---CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHh
Confidence 4445555432 6889999999999999988888887765 899999999999999988887664
No 134
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=96.82 E-value=0.023 Score=74.79 Aligned_cols=140 Identities=13% Similarity=0.089 Sum_probs=104.1
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhH-HHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYW-EGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGE 1771 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~-~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~ 1771 (2576)
++.+|..+|..+.|.++=+ |+.. =.++-..+-.+.|..+..... ....|.+.|+...+.|+++-|.+||.++++
T Consensus 301 i~~fL~~~G~~e~AL~~~~---D~~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d 375 (443)
T PF04053_consen 301 IARFLEKKGYPELALQFVT---DPDHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD 375 (443)
T ss_dssp HHHHHHHTT-HHHHHHHSS----HHHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT-
T ss_pred HHHHHHHCCCHHHHHhhcC---ChHHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC
Confidence 4556888999999988743 4321 112222222233333322222 233789999999999999999999999999
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhh
Q 000053 1772 YERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYW 1837 (2576)
Q Consensus 1772 ~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~ 1837 (2576)
+++..-+|.-..+.+.+++.|+..+..|++.-|-.++...|++++|++++.+.+.+.+|.-.++.|
T Consensus 376 ~~~L~lLy~~~g~~~~L~kl~~~a~~~~~~n~af~~~~~lgd~~~cv~lL~~~~~~~~A~~~A~ty 441 (443)
T PF04053_consen 376 FSGLLLLYSSTGDREKLSKLAKIAEERGDINIAFQAALLLGDVEECVDLLIETGRLPEAALFARTY 441 (443)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHHTT-HHHHHHHHHHHT-HHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred ccccHHHHHHhCCHHHHHHHHHHHHHccCHHHHHHHHHHcCCHHHHHHHHHHcCCchHHHHHHHhc
Confidence 999999999867778899999999999999999999999999999999999999999999888844
No 135
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=96.81 E-value=0.099 Score=68.73 Aligned_cols=118 Identities=14% Similarity=0.050 Sum_probs=72.6
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhH-hhcCChHHHHHHHHHHHHHHHHcCCHH--HHHHHH
Q 000053 1690 IIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADR-ISSSNPLEARIILREAAKIFEAIGKVD--SAAKCF 1766 (2576)
Q Consensus 1690 ~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~-l~~~~~~~a~~~~~eAA~~fe~~G~~~--~Aa~~y 1766 (2576)
.+..|-..+..|+|+.|.++..++.+..-.-. -.+.+ +++. ....+++.+...+.+|++...+..-.. .+++.+
T Consensus 87 ~~~~gl~a~~eGd~~~A~k~l~~~~~~~~~p~-l~~ll--aA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~ 163 (398)
T PRK10747 87 QTEQALLKLAEGDYQQVEKLMTRNADHAEQPV-VNYLL--AAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQ 163 (398)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHhcccchH-HHHHH--HHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Confidence 35667788889999999999998655310000 01111 1111 345566677777777776444433222 557888
Q ss_pred HHcCCHHHHHHHHHHhC-----CchHHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1767 FDMGEYERAGTIYLERC-----EEPELEKAGECFSLAGCYKLAADVYAR 1810 (2576)
Q Consensus 1767 ~kag~~~~A~ely~~~~-----~~~~~~~aAe~~e~~g~~~eAAelY~k 1810 (2576)
...|++++|...+.+.- ......-.+..|.+.|+|++|.+++.+
T Consensus 164 l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~ 212 (398)
T PRK10747 164 LARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPS 212 (398)
T ss_pred HHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 88899998888877641 123455666666666777777655554
No 136
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=96.72 E-value=0.003 Score=76.78 Aligned_cols=65 Identities=18% Similarity=0.384 Sum_probs=47.5
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
.-.++...+..+.-++ -+.|||||||||+++-.+...--....|.+-.+.||.-+..+..-+.+.
T Consensus 149 q~gllrs~ieq~~ipS-mIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~a 213 (554)
T KOG2028|consen 149 QDGLLRSLIEQNRIPS-MILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQA 213 (554)
T ss_pred cchHHHHHHHcCCCCc-eEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHH
Confidence 4456666666666554 4789999999998776555444444678999999999998887766554
No 137
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=96.66 E-value=0.45 Score=67.89 Aligned_cols=99 Identities=13% Similarity=0.125 Sum_probs=53.5
Q ss_pred ccHHHHHHHHHHHHhhhhccchhhhhhhhhccccccccHHHHHHHHHhhccCCccccchhHHHHHhhhcccccccccccc
Q 000053 1970 TQKKELLEKAKLLAKNESNKFYNFVCTEADILSNDQSDLLIMNQQLNASKRHQSVNGETLSARKILDFHLHTISSKYVWE 2049 (2576)
Q Consensus 1970 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2049 (2576)
-+=+++|++|....-++....|..+-+-.. .++ +.++...+..-..-..-...+....+.+|+|=-.. ..++
T Consensus 410 ~~A~~~l~~al~l~Pd~~~l~~~~a~~al~--~~~---~~~A~~~~~~ll~~~Pd~~~~~~~~~~~~~~~~~~---l~~~ 481 (765)
T PRK10049 410 RAAENELKKAEVLEPRNINLEVEQAWTALD--LQE---WRQMDVLTDDVVAREPQDPGVQRLARARDVHHMAE---LRIA 481 (765)
T ss_pred HHHHHHHHHHHhhCCCChHHHHHHHHHHHH--hCC---HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCce---EEEE
Confidence 445778888888776666655543332111 122 33333333332222333346688888999884432 1222
Q ss_pred hhh--hhhhh-hccccccceeeee---ehhhhH
Q 000053 2050 DEY--VLVEK-ICNNRISVQTLIY---FWNCWK 2076 (2576)
Q Consensus 2050 ~~~--~~~~~-~~~~~~~~~~~~~---~~~~~~ 2076 (2576)
... .+.++ ...|-.+.+|-+| ++..|.
T Consensus 482 ~~~~~~~~~~~~~~~~~~~~~~~ys~~~~~~~r 514 (765)
T PRK10049 482 GSTGLDSDGPDSGKHDVDITTILYSPPLADNWR 514 (765)
T ss_pred ecccCCCCCCccccCcCcceeEEecCccCCCee
Confidence 111 22333 3668899999999 556664
No 138
>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=96.58 E-value=0.0049 Score=67.70 Aligned_cols=47 Identities=23% Similarity=0.292 Sum_probs=38.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELAS 273 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~ 273 (2576)
....+|+||||||||+++..+...+...+..++.+..+..+......
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~ 65 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVA 65 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHH
Confidence 67899999999999999999988888778888888887665544433
No 139
>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=96.47 E-value=0.0042 Score=72.36 Aligned_cols=47 Identities=30% Similarity=0.227 Sum_probs=38.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
+.+|.||||||||+++..++...++.|.+++..+... ..+++.+++.
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~-~~~~~~~~~~ 47 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEE-SPEELIENAE 47 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC-CHHHHHHHHH
Confidence 4689999999999999999999999999999998654 3555555554
No 140
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=96.41 E-value=0.27 Score=60.16 Aligned_cols=202 Identities=14% Similarity=0.139 Sum_probs=115.9
Q ss_pred hHhhcCChHHHHHHHHHHHHHHHHcCCH--HHH-HHHHHHcCCHHHHHHHHHHhCC-------c--hHHHHHHHHHHHcC
Q 000053 1732 DRISSSNPLEARIILREAAKIFEAIGKV--DSA-AKCFFDMGEYERAGTIYLERCE-------E--PELEKAGECFSLAG 1799 (2576)
Q Consensus 1732 ~~l~~~~~~~a~~~~~eAA~~fe~~G~~--~~A-a~~y~kag~~~~A~ely~~~~~-------~--~~~~~aAe~~e~~g 1799 (2576)
..+.+.+|+.|...|.+-++ ++...+ .-| -.+|.+-|+.++|++|-...-+ . -.+.+.|+=|..+|
T Consensus 44 NfLLs~Q~dKAvdlF~e~l~--~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aG 121 (389)
T COG2956 44 NFLLSNQPDKAVDLFLEMLQ--EDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAG 121 (389)
T ss_pred HHHhhcCcchHHHHHHHHHh--cCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhh
Confidence 34566677666655555554 111111 112 3567777778888877554311 1 12568899999999
Q ss_pred CHHHHHHHHHHcCC---H-----HHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHH
Q 000053 1800 CYKLAADVYARGSF---L-----AECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHK 1871 (2576)
Q Consensus 1800 ~~~eAAelY~kagd---~-----~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~k 1871 (2576)
-++.|.++|...-| | ...+.+|.+.+.|++|++.++++.+..+.+ .--++++.+=|-+ ..+.-
T Consensus 122 l~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~--------~~~eIAqfyCELA-q~~~~ 192 (389)
T COG2956 122 LLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQT--------YRVEIAQFYCELA-QQALA 192 (389)
T ss_pred hhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCcc--------chhHHHHHHHHHH-HHHhh
Confidence 99999999998655 2 345668999999999999999888776554 1122333333322 22333
Q ss_pred cCChHHHHHHHHHhCcHHHHHHHHHhcCCHHHH---HHHHHhccCHHHHHHHHH----HcCCH-HHHH----HHHHHcCC
Q 000053 1872 LNDNKSMMKFVRAFHSMDLIRNFLNSKGCFDEL---LVLEEESESFMDAANIAR----LRGDI-LRTV----DLLQKVGN 1939 (2576)
Q Consensus 1872 lgd~~~A~~~~k~~~~~e~a~~~l~~~~~~dea---~ell~~~g~feeAa~ia~----~~G~~-~eA~----kly~~aG~ 1939 (2576)
..+...|++++++.-.. ...|...- ..++...|+|+.|.+.+. .+-.+ -+.. +.|.+-|+
T Consensus 193 ~~~~d~A~~~l~kAlqa--------~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~ 264 (389)
T COG2956 193 SSDVDRARELLKKALQA--------DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGK 264 (389)
T ss_pred hhhHHHHHHHHHHHHhh--------CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCC
Confidence 45666666666532111 11121111 144555666666644443 22122 2333 34556688
Q ss_pred HHHHHHHHHHHHH
Q 000053 1940 FKEACNLTLNYVL 1952 (2576)
Q Consensus 1940 ~~eA~klll~~~~ 1952 (2576)
++++...+-.++-
T Consensus 265 ~~~~~~fL~~~~~ 277 (389)
T COG2956 265 PAEGLNFLRRAME 277 (389)
T ss_pred HHHHHHHHHHHHH
Confidence 8888776666654
No 141
>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=96.37 E-value=0.0063 Score=70.16 Aligned_cols=47 Identities=23% Similarity=0.385 Sum_probs=42.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
+...+|+||+|||||.+++.++..+.. ++++++||..-+++..+.+.
T Consensus 25 ~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~~l~~Q~~~~~~ 71 (184)
T PF04851_consen 25 ERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNISLLEQWYDEFD 71 (184)
T ss_dssp CSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSHHHHHHHHHHHH
T ss_pred CCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHHHHHHHHHHHHH
Confidence 579999999999999999999888888 99999999998888887773
No 142
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.33 E-value=0.019 Score=73.80 Aligned_cols=134 Identities=16% Similarity=0.126 Sum_probs=103.6
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhH--------HHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYW--------EGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKC 1765 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~--------~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~ 1765 (2576)
|..++.+|..++|... +.|+.. .++.-|+.++..+ .....|.+.++++.+.|++..|.+|
T Consensus 621 a~Fle~~g~~e~AL~~---s~D~d~rFelal~lgrl~iA~~la~e~---------~s~~Kw~~Lg~~al~~~~l~lA~EC 688 (794)
T KOG0276|consen 621 AHFLESQGMKEQALEL---STDPDQRFELALKLGRLDIAFDLAVEA---------NSEVKWRQLGDAALSAGELPLASEC 688 (794)
T ss_pred HhHhhhccchHhhhhc---CCChhhhhhhhhhcCcHHHHHHHHHhh---------cchHHHHHHHHHHhhcccchhHHHH
Confidence 3447778888888765 333221 1122233332222 1245789999999999999999999
Q ss_pred HHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhh
Q 000053 1766 FFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQ 1839 (2576)
Q Consensus 1766 y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~ 1839 (2576)
|.+++++.--.-+|-...+.+.+..+|...+++|..--|--+|...|++++|+++++..+.+-+|.-+++.|-.
T Consensus 689 ~~~a~d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~AF~~~~l~g~~~~C~~lLi~t~r~peAal~ArtYlp 762 (794)
T KOG0276|consen 689 FLRARDLGSLLLLYTSSGNAEGLAVLASLAKKQGKNNLAFLAYFLSGDYEECLELLISTQRLPEAALFARTYLP 762 (794)
T ss_pred HHhhcchhhhhhhhhhcCChhHHHHHHHHHHhhcccchHHHHHHHcCCHHHHHHHHHhcCcCcHHHHHHhhhCh
Confidence 99999999888777665556678999999999999999999999999999999999999988888888885443
No 143
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=96.33 E-value=0.023 Score=70.90 Aligned_cols=149 Identities=16% Similarity=0.187 Sum_probs=27.1
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHH
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYE 1773 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~ 1773 (2576)
|..+...|+|+.|.+++.++-... .+......+...|.+.+..|+++.|.++|.++=..+
T Consensus 15 A~~~~~~~~~~~Al~~L~~~~~~~--------------------~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~ 74 (280)
T PF13429_consen 15 ARLLYQRGDYEKALEVLKKAAQKI--------------------APPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD 74 (280)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccc--------------------cccccccccccccccccccccccccccccccccccc
Confidence 455778999999999986432110 000011233445555555666666665555432222
Q ss_pred HHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHc-------CCHHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccc
Q 000053 1774 RAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARG-------SFLAECLDVCSKGKLFDIGLQYISYWKQHADTDVG 1846 (2576)
Q Consensus 1774 ~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~ka-------gd~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~ 1846 (2576)
.+ ....+.+.+.+ ...+++++|.++++++ ..+..++.++.+.+.++++.+++.+......
T Consensus 75 ~~--------~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~---- 141 (280)
T PF13429_consen 75 KA--------NPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPA---- 141 (280)
T ss_dssp ----------------------------------------------------H-HHHTT-HHHHHHHHHHHHH-T-----
T ss_pred cc--------ccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccC----
Confidence 22 12233344444 3555666665554443 2244555666666667766666664332110
Q ss_pred cccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1847 RVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1847 ~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
..-...++...+..+.+.|++..|.+.++
T Consensus 142 --------~~~~~~~~~~~a~~~~~~G~~~~A~~~~~ 170 (280)
T PF13429_consen 142 --------APDSARFWLALAEIYEQLGDPDKALRDYR 170 (280)
T ss_dssp ----------T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred --------CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 01122345555666677777777766555
No 144
>TIGR03623 probable DNA repair protein. Members of this protein family are bacterial proteins of about 900 amino acids in length. Members show extended homology to proteins in TIGR02786, the AddB protein of double-strand break repair via homologous recombination. Members of this family, therefore, may be DNA repair proteins.
Probab=96.27 E-value=0.67 Score=67.16 Aligned_cols=66 Identities=20% Similarity=0.144 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcccCCCCccEEEEecCCCCCHHHHHHHHHHhhc
Q 000053 1326 ERIYDIFESYEQMKMRNGEFDLADLVNDLHHRLKEESYKGDEFHFVYIDEVQDLTMSQVALFKYVCKN 1393 (2576)
Q Consensus 1326 ~~i~~if~~Y~~~k~~~g~~D~~Dlv~~~~~~L~~~~~~~~~yd~IlVDE~QD~~~~ql~LL~~L~~~ 1393 (2576)
+.+..--..|++.+.+.+.+|.+++...+...+.... ...-..|++|=|-++||.|..++..|...
T Consensus 122 ~~fl~w~~~f~~~l~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~i~l~GF~~~tP~q~~l~~~l~~~ 187 (874)
T TIGR03623 122 RLFLQWRTRFEARCRREGWIDAAQLPEQLLDLLEQGG--LRLPKQIILAGFDELTPQQQALLAALEAR 187 (874)
T ss_pred HHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHhccC--CCCCccEEEEecCCCCHHHHHHHHHHHHc
Confidence 3444445889999999999999999999998886542 24667899999999999999999998764
No 145
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.27 E-value=0.14 Score=69.10 Aligned_cols=104 Identities=13% Similarity=0.187 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHH
Q 000053 1787 ELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCA 1866 (2576)
Q Consensus 1787 ~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a 1866 (2576)
.+.+.|+-+...|.|+.|--+|....+|.+...-...-|.|..|+.-+|+.... . . +-+.|-
T Consensus 1196 ~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~---k---------t------WK~Vcf 1257 (1666)
T KOG0985|consen 1196 NIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANST---K---------T------WKEVCF 1257 (1666)
T ss_pred hHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccch---h---------H------HHHHHH
Confidence 356778888889999999999999999999888888889999999999831111 1 1 111222
Q ss_pred HHHHHcCChHHH----HHHHHHhCcHHHHHHHHHhcCCHHHHHHHHH
Q 000053 1867 LHFHKLNDNKSM----MKFVRAFHSMDLIRNFLNSKGCFDELLVLEE 1909 (2576)
Q Consensus 1867 ~~f~klgd~~~A----~~~~k~~~~~e~a~~~l~~~~~~dea~ell~ 1909 (2576)
. +...+.++.| ..++...+..++..++.+++|+|+|.+.++.
T Consensus 1258 a-Cvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~E 1303 (1666)
T KOG0985|consen 1258 A-CVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLE 1303 (1666)
T ss_pred H-HhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHH
Confidence 2 2223333332 1111123455667778888889988887775
No 146
>PRK12377 putative replication protein; Provisional
Probab=96.27 E-value=0.0052 Score=74.76 Aligned_cols=42 Identities=26% Similarity=0.256 Sum_probs=33.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIK 269 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd 269 (2576)
..--+++||||||||+++.++...+...|.+|+.++ .+..+.
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~-~~~l~~ 142 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT-VPDVMS 142 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE-HHHHHH
Confidence 346799999999999999999999999998886553 344443
No 147
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=96.26 E-value=0.43 Score=66.80 Aligned_cols=191 Identities=9% Similarity=-0.008 Sum_probs=98.5
Q ss_pred HHHcCCHHHHHHHHHHhCC------chHHHHHHHHHHHcCCHHHHHHHHHHcCCH--------HHHHHHHHcCCCHHH--
Q 000053 1766 FFDMGEYERAGTIYLERCE------EPELEKAGECFSLAGCYKLAADVYARGSFL--------AECLDVCSKGKLFDI-- 1829 (2576)
Q Consensus 1766 y~kag~~~~A~ely~~~~~------~~~~~~aAe~~e~~g~~~eAAelY~kagd~--------~kAi~~y~k~k~fd~-- 1829 (2576)
+...|++++|...+.+... .......+..+...|++.+|.+.|.++-.. ...-.+|.+.|.+++
T Consensus 187 l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~ 266 (656)
T PRK15174 187 FLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAK 266 (656)
T ss_pred HHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhH
Confidence 4445666666666554211 111234466777888888888888774221 112234455666664
Q ss_pred --HHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCCHHH----
Q 000053 1830 --GLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGCFDE---- 1903 (2576)
Q Consensus 1830 --A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~~de---- 1903 (2576)
|...+++.-...+.. ......-+..+.+.|++..|++.++..- ........
T Consensus 267 ~~A~~~~~~Al~l~P~~--------------~~a~~~lg~~l~~~g~~~eA~~~l~~al---------~l~P~~~~a~~~ 323 (656)
T PRK15174 267 LQAAEHWRHALQFNSDN--------------VRIVTLYADALIRTGQNEKAIPLLQQSL---------ATHPDLPYVRAM 323 (656)
T ss_pred HHHHHHHHHHHhhCCCC--------------HHHHHHHHHHHHHCCCHHHHHHHHHHHH---------HhCCCCHHHHHH
Confidence 566655322222211 0112223555677888888877665211 11112111
Q ss_pred HHHHHHhccCHHHHHHHHHH----cCCH----HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcCCCCCCCCccccccHHHH
Q 000053 1904 LLVLEEESESFMDAANIARL----RGDI----LRTVDLLQKVGNFKEACNLTLNYVLSNSLWSSGSKGWPLKQFTQKKEL 1975 (2576)
Q Consensus 1904 a~ell~~~g~feeAa~ia~~----~G~~----~eA~kly~~aG~~~eA~klll~~~~~~~lw~~~~~g~~~~~~~~~~~l 1975 (2576)
....+...|++++|...+.+ .... ..++.+|.+.|++++|...+-..+-... .-+.++|.+=-.-
T Consensus 324 La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P-------~~~~~~~~ea~~~ 396 (656)
T PRK15174 324 YARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA-------SHLPQSFEEGLLA 396 (656)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh-------hhchhhHHHHHHH
Confidence 23455567777777665542 2221 2245567788888888886544433311 1125666555555
Q ss_pred HHHHHHHHhhh
Q 000053 1976 LEKAKLLAKNE 1986 (2576)
Q Consensus 1976 ~~~~~~~~~~~ 1986 (2576)
+++|...+...
T Consensus 397 ~~~~~~~~~~~ 407 (656)
T PRK15174 397 LDGQISAVNLP 407 (656)
T ss_pred HHHHHHhcCCc
Confidence 56665544333
No 148
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.22 E-value=0.38 Score=65.29 Aligned_cols=93 Identities=20% Similarity=0.236 Sum_probs=82.6
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHH-HcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCC---HHHHH
Q 000053 1743 RIILREAAKIFEAIGKVDSAAKCFF-DMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSF---LAECL 1818 (2576)
Q Consensus 1743 ~~~~~eAA~~fe~~G~~~~Aa~~y~-kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd---~~kAi 1818 (2576)
.+.|+||-.+|.+-..+..|++... .-+..+||.+.+........|.+.|..--..|.-.+|.+-|.|+.| |.+.+
T Consensus 1061 ~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyikadDps~y~eVi 1140 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKADDPSNYLEVI 1140 (1666)
T ss_pred hhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhcCCcHHHHHHH
Confidence 5689999999999999999998875 6899999999987744557899999999999999999999999988 56888
Q ss_pred HHHHcCCCHHHHHHHHH
Q 000053 1819 DVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1819 ~~y~k~k~fd~A~~l~r 1835 (2576)
+.+.+.+.|++.++++.
T Consensus 1141 ~~a~~~~~~edLv~yL~ 1157 (1666)
T KOG0985|consen 1141 DVASRTGKYEDLVKYLL 1157 (1666)
T ss_pred HHHHhcCcHHHHHHHHH
Confidence 88999999999999887
No 149
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.18 E-value=0.037 Score=60.46 Aligned_cols=36 Identities=17% Similarity=0.276 Sum_probs=31.1
Q ss_pred cEEEEecCCCC-CHHHHHHHHHHhhcCCCcEEEEeCC
Q 000053 1369 HFVYIDEVQDL-TMSQVALFKYVCKNIEEGFVFSGDT 1404 (2576)
Q Consensus 1369 d~IlVDE~QD~-~~~ql~LL~~L~~~~~~~l~~vGD~ 1404 (2576)
..|+|||+|.+ +...+..|+.+....+-.++++|-+
T Consensus 89 ~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLFSDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEECh
Confidence 79999999999 9888999988887655578889987
No 150
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.16 E-value=0.18 Score=67.94 Aligned_cols=171 Identities=14% Similarity=0.138 Sum_probs=112.1
Q ss_pred HHHHcCCHHHHHHHHHHhCC-----chHHHHHHHHHHHcCCHHHHHHHHHHc-CC--HHHHHHHHHcCCCHHHHHHHHHh
Q 000053 1765 CFFDMGEYERAGTIYLERCE-----EPELEKAGECFSLAGCYKLAADVYARG-SF--LAECLDVCSKGKLFDIGLQYISY 1836 (2576)
Q Consensus 1765 ~y~kag~~~~A~ely~~~~~-----~~~~~~aAe~~e~~g~~~eAAelY~ka-gd--~~kAi~~y~k~k~fd~A~~l~r~ 1836 (2576)
+..+-++|+-|+.++.+... ++.++++|.++...|.|++|.+-|.+. |. ....+.-|.+.+.......+++.
T Consensus 343 iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s~Vi~kfLdaq~IknLt~YLe~ 422 (933)
T KOG2114|consen 343 ILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPSEVIKKFLDAQRIKNLTSYLEA 422 (933)
T ss_pred HHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChHHHHHHhcCHHHHHHHHHHHHH
Confidence 33344455555555554311 256889999999999999999999993 33 44566666556555556666664
Q ss_pred hhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhC------cHHHHHHHHHhcCCHHHHHHHHHh
Q 000053 1837 WKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFH------SMDLIRNFLNSKGCFDELLVLEEE 1910 (2576)
Q Consensus 1837 ~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~------~~e~a~~~l~~~~~~dea~ell~~ 1910 (2576)
..+.+.+. .+...---+.|.+++|.++..++++... ++|.|.+.|.+.+++++|.-++..
T Consensus 423 L~~~gla~--------------~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k 488 (933)
T KOG2114|consen 423 LHKKGLAN--------------SDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATK 488 (933)
T ss_pred HHHccccc--------------chhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHH
Confidence 44433322 1122224557999999999999999888 788888888888888888777777
Q ss_pred ccCHHHHHHHH-HHcCCHHHHHHHHHHcCCHHHHHHHHHHH
Q 000053 1911 SESFMDAANIA-RLRGDILRTVDLLQKVGNFKEACNLTLNY 1950 (2576)
Q Consensus 1911 ~g~feeAa~ia-~~~G~~~eA~kly~~aG~~~eA~klll~~ 1950 (2576)
.++-+.+.+++ ...|++.+|.+.+. .=-+++|.+++..|
T Consensus 489 ~~~he~vl~ille~~~ny~eAl~yi~-slp~~e~l~~l~ky 528 (933)
T KOG2114|consen 489 FKKHEWVLDILLEDLHNYEEALRYIS-SLPISELLRTLNKY 528 (933)
T ss_pred hccCHHHHHHHHHHhcCHHHHHHHHh-cCCHHHHHHHHHHH
Confidence 77766666554 45666777766443 23344555555444
No 151
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=96.09 E-value=0.14 Score=63.71 Aligned_cols=167 Identities=11% Similarity=0.054 Sum_probs=96.2
Q ss_pred HHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcC--------CHHHHHHH
Q 000053 1694 CLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIG--------KVDSAAKC 1765 (2576)
Q Consensus 1694 ~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G--------~~~~Aa~~ 1765 (2576)
|++.+-+|.|+.|...|+.|-.........-+... -.-++++.+.+|-+.|.+.. -.-+-|..
T Consensus 497 gn~~f~ngd~dka~~~ykeal~ndasc~ealfnig---------lt~e~~~~ldeald~f~klh~il~nn~evl~qiani 567 (840)
T KOG2003|consen 497 GNIAFANGDLDKAAEFYKEALNNDASCTEALFNIG---------LTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANI 567 (840)
T ss_pred CceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhc---------ccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 34477789999999999986543222111111111 11122333444444444432 11234556
Q ss_pred HHHcCCHHHHHHHHHHh-----CCchHHHHHHHHHHHcCCHHHHHHHHHHcCCH----HHH----HHHHHcCCCHHHHHH
Q 000053 1766 FFDMGEYERAGTIYLER-----CEEPELEKAGECFSLAGCYKLAADVYARGSFL----AEC----LDVCSKGKLFDIGLQ 1832 (2576)
Q Consensus 1766 y~kag~~~~A~ely~~~-----~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~----~kA----i~~y~k~k~fd~A~~ 1832 (2576)
|+-+.+..+|+++|.++ .+...+.+.|+.|-+.|.-..|-++|-..=.| -+. ...|.....|++|++
T Consensus 568 ye~led~aqaie~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~ 647 (840)
T KOG2003|consen 568 YELLEDPAQAIELLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAIN 647 (840)
T ss_pred HHHhhCHHHHHHHHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHH
Confidence 66677777777887776 24567788888888888888888776553221 122 235667788888888
Q ss_pred HHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1833 YISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1833 l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
++++..-..+. ..++--.++-+|.+.|+++.|.+.++
T Consensus 648 y~ekaaliqp~--------------~~kwqlmiasc~rrsgnyqka~d~yk 684 (840)
T KOG2003|consen 648 YFEKAALIQPN--------------QSKWQLMIASCFRRSGNYQKAFDLYK 684 (840)
T ss_pred HHHHHHhcCcc--------------HHHHHHHHHHHHHhcccHHHHHHHHH
Confidence 87721111111 11233346777888888888866655
No 152
>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=96.04 E-value=0.0055 Score=71.14 Aligned_cols=37 Identities=27% Similarity=0.498 Sum_probs=30.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
..--+|+||||||||++++++...++..|.+|+.+..
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~ 83 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITA 83 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeec
Confidence 4458999999999999999999999999999988864
No 153
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.00 E-value=0.015 Score=72.93 Aligned_cols=63 Identities=21% Similarity=0.352 Sum_probs=43.6
Q ss_pred CCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 212 GNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 212 ~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
+.-.++..+++....+ -.+.|||||||||+++..+.- ..+......+.|..-|.++-.-+.+.
T Consensus 34 g~~~~lrr~v~~~~l~-SmIl~GPPG~GKTTlA~liA~---~~~~~f~~~sAv~~gvkdlr~i~e~a 96 (436)
T COG2256 34 GEGKPLRRAVEAGHLH-SMILWGPPGTGKTTLARLIAG---TTNAAFEALSAVTSGVKDLREIIEEA 96 (436)
T ss_pred CCCchHHHHHhcCCCc-eeEEECCCCCCHHHHHHHHHH---hhCCceEEeccccccHHHHHHHHHHH
Confidence 3344555666655544 357899999999987765533 45778888888888887776655544
No 154
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=95.97 E-value=0.016 Score=66.00 Aligned_cols=51 Identities=29% Similarity=0.309 Sum_probs=44.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCC--eEEEEecChHHHHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKF--RTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~--rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
-.+|.||+|+|||......+...+..++ ++++++||..-+.++.+++.+..
T Consensus 16 ~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 16 NVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFF 68 (169)
T ss_dssp EEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHT
T ss_pred CEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccc
Confidence 3889999999999999977777666555 99999999999999999887664
No 155
>PRK06526 transposase; Provisional
Probab=95.92 E-value=0.0041 Score=76.15 Aligned_cols=37 Identities=35% Similarity=0.413 Sum_probs=32.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.--+|+||||||||+++.++...+...|++|+..+.
T Consensus 98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~ 134 (254)
T PRK06526 98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA 134 (254)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence 4457999999999999999999999999999877433
No 156
>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=95.91 E-value=0.014 Score=81.95 Aligned_cols=65 Identities=18% Similarity=0.293 Sum_probs=52.9
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.+..+++..-..+.+.+|+||||||||+.+...+......+.+|+++.||-.|+.+++.|+.+..
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~aA~qiA~rva~~~ 69 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLAARSAAQRLASQL 69 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 34555555555678999999999999999987665554567799999999999999999997654
No 157
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.90 E-value=0.008 Score=73.03 Aligned_cols=35 Identities=29% Similarity=0.338 Sum_probs=32.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
..-+++||||||||+++.++...|...|++|++++
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 46799999999999999999999999999998885
No 158
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=95.89 E-value=0.61 Score=58.28 Aligned_cols=219 Identities=16% Similarity=0.156 Sum_probs=130.8
Q ss_pred HHHHHHHHcCCHHHHHHHH-----HHcCCHHHHHHHHHHhC--Cc---hHHHHHHHHHHHcCCHHHHHHHHHHcCCH---
Q 000053 1748 EAAKIFEAIGKVDSAAKCF-----FDMGEYERAGTIYLERC--EE---PELEKAGECFSLAGCYKLAADVYARGSFL--- 1814 (2576)
Q Consensus 1748 eAA~~fe~~G~~~~Aa~~y-----~kag~~~~A~ely~~~~--~~---~~~~~aAe~~e~~g~~~eAAelY~kagd~--- 1814 (2576)
..|++-..+.+|..||..- ...|++++|++.|+++- +. +.+-..+-.+++.|..++|.++|.+..-.
T Consensus 477 qyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~n 556 (840)
T KOG2003|consen 477 QYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLN 556 (840)
T ss_pred HHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHh
Confidence 3444445555666555321 33588888888888762 11 23445566677777888887777663211
Q ss_pred -----HHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHH-----
Q 000053 1815 -----AECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRA----- 1884 (2576)
Q Consensus 1815 -----~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~----- 1884 (2576)
-....+|.-.....+|+++..|...-.+.+ +..++.-+..|.+.||-..|.+.+-.
T Consensus 557 n~evl~qianiye~led~aqaie~~~q~~slip~d--------------p~ilskl~dlydqegdksqafq~~ydsyryf 622 (840)
T KOG2003|consen 557 NAEVLVQIANIYELLEDPAQAIELLMQANSLIPND--------------PAILSKLADLYDQEGDKSQAFQCHYDSYRYF 622 (840)
T ss_pred hHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCC--------------HHHHHHHHHHhhcccchhhhhhhhhhccccc
Confidence 122234555556666777776544444444 33456667778888888777665432
Q ss_pred ---hCcHHHHHHHHHhcCCHHHHHHHHHhcc-------CHH-HHHHHHHHcCCHHHHHHHHHHc-CCHHHHHHHHHHHHH
Q 000053 1885 ---FHSMDLIRNFLNSKGCFDELLVLEEESE-------SFM-DAANIARLRGDILRTVDLLQKV-GNFKEACNLTLNYVL 1952 (2576)
Q Consensus 1885 ---~~~~e~a~~~l~~~~~~dea~ell~~~g-------~fe-eAa~ia~~~G~~~eA~kly~~a-G~~~eA~klll~~~~ 1952 (2576)
+..++-.+.++.+.+.++.++.++..+. +|. .-+..+++.|++..|.++|.+- .++.+-..|+-.-+.
T Consensus 623 p~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvr 702 (840)
T KOG2003|consen 623 PCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVR 702 (840)
T ss_pred CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence 2234445566677778888887765322 232 3367788999999999999875 333344454444444
Q ss_pred HHhhcCCCCCCCCccccccHHHHHHHHHHHHh
Q 000053 1953 SNSLWSSGSKGWPLKQFTQKKELLEKAKLLAK 1984 (2576)
Q Consensus 1953 ~~~lw~~~~~g~~~~~~~~~~~l~~~~~~~~~ 1984 (2576)
+. +..+=--.+.+..|.+-+||-++.-.
T Consensus 703 i~----~dlgl~d~key~~klek~eki~eir~ 730 (840)
T KOG2003|consen 703 IA----GDLGLKDAKEYADKLEKAEKIKEIRE 730 (840)
T ss_pred Hh----ccccchhHHHHHHHHHHHHHHHHHHH
Confidence 32 22233456777777777777766543
No 159
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=95.89 E-value=0.0059 Score=66.34 Aligned_cols=42 Identities=29% Similarity=0.237 Sum_probs=33.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAI 268 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AV 268 (2576)
+...+|.||||||||+++..++..+...+..++.++++...-
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~ 43 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILE 43 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccc
Confidence 357899999999999999999888877776677777765443
No 160
>PRK06893 DNA replication initiation factor; Validated
Probab=95.83 E-value=0.0096 Score=72.07 Aligned_cols=38 Identities=16% Similarity=0.246 Sum_probs=32.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
++.-+||||||||||+++.++...+...+.++.....+
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~ 76 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS 76 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence 56789999999999999999999999988888666553
No 161
>PRK08181 transposase; Validated
Probab=95.78 E-value=0.008 Score=74.07 Aligned_cols=35 Identities=29% Similarity=0.590 Sum_probs=31.8
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
.--+++||||||||+.+.++...+...|++|+.+.
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR 141 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence 34799999999999999999999999999998776
No 162
>COG5290 IkappaB kinase complex, IKAP component [Transcription]
Probab=95.72 E-value=0.25 Score=65.29 Aligned_cols=126 Identities=15% Similarity=0.064 Sum_probs=87.9
Q ss_pred HHHHhhcHHHHHHHHHHcCChhHHHH-HHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1696 WLFYEQNYEMATICFEKAKDTYWEGR-SKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYER 1774 (2576)
Q Consensus 1696 ~l~~~~~ye~A~k~f~ragd~~~~~l-~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~ 1774 (2576)
|-.++..|+-+...|+--|..+-..+ .-|-.+.++. .+.+||.+|+..|.+.+|...|..|++|+.
T Consensus 900 yi~~hdly~~~l~lyrYd~e~Qk~~~nifa~~l~~n~-------------~~~~aa~aye~~gK~~Ea~gay~sA~mwre 966 (1243)
T COG5290 900 YICRHDLYDFLLLLYRYDGELQKFKINIFAGNLVDNL-------------YHISAAKAYEVEGKYIEAHGAYDSALMWRE 966 (1243)
T ss_pred HHHhccchHHHHHHHHhhhhhhhhhHHHHHHHHHhhh-------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567778888888886555433222 1222333332 568999999999999999999999999999
Q ss_pred HHHHHHHhCCchHHHHHHHHHHH-----cCCHHHHHHHHHH-cCCHHHHHHHHHcCCCHHHHHHHHH
Q 000053 1775 AGTIYLERCEEPELEKAGECFSL-----AGCYKLAADVYAR-GSFLAECLDVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1775 A~ely~~~~~~~~~~~aAe~~e~-----~g~~~eAAelY~k-agd~~kAi~~y~k~k~fd~A~~l~r 1835 (2576)
+..+..+.. ..-++.+|+.+.. -..+-.|+.+-.. ..+..+|+.+++++-.+++|...++
T Consensus 967 c~si~~q~~-~~e~~~~AE~L~S~l~ve~R~~~da~~i~l~yl~N~~eava~~ckgs~y~ea~~~a~ 1032 (1243)
T COG5290 967 CGSISTQEK-GYEFNLCAELLPSDLLVEFRKAGDAEKILLTYLENLYEAVAMDCKGSEYREAFCEAM 1032 (1243)
T ss_pred HhhHHhhhc-chHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHHhCHHHHHHHHcccccchHHHHHHH
Confidence 998877732 2336677765554 1222333433332 5678889999999999999998888
No 163
>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=95.71 E-value=0.011 Score=72.76 Aligned_cols=48 Identities=23% Similarity=0.104 Sum_probs=39.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
.++.+|.||||||||+....++...++.|.+++.++.-..+ +.+.+++
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee~~-~~~~~~l 83 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVESPA-NFVYTSL 83 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCc-hHHHHHH
Confidence 88999999999999999999999998899999999875433 4444444
No 164
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=95.70 E-value=0.85 Score=60.07 Aligned_cols=25 Identities=12% Similarity=0.048 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1691 IFVCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1691 ~~~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
++.|+.+..+|+++.|...|+++..
T Consensus 122 llaA~aA~~~g~~~~A~~~l~~A~~ 146 (398)
T PRK10747 122 LLAAEAAQQRGDEARANQHLERAAE 146 (398)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 4556677899999999999999765
No 165
>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=95.69 E-value=0.017 Score=63.71 Aligned_cols=50 Identities=24% Similarity=0.393 Sum_probs=40.5
Q ss_pred CCeEEEEcCCCCChhH-HHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTK-TVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTk-tIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
..+++|.=.||+|||+ ++-.++...+.++.||||++||-+.+.||..-|.
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTT
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHh
Confidence 4688999999999999 5779999999999999999999999988876553
No 166
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=95.67 E-value=0.029 Score=64.88 Aligned_cols=68 Identities=16% Similarity=0.151 Sum_probs=52.3
Q ss_pred CCCCCHHHHHhhcC---C-CCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccE
Q 000053 1067 PFEVTDEQLDMILF---P-RSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQ 1142 (2576)
Q Consensus 1067 ~f~Lt~EQ~~iI~~---~-~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~ri 1142 (2576)
...+++.|.+++.. . .+++|.|++|||||+++..-++.... . ....++
T Consensus 6 ~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~------~----------------------~~~~~~ 57 (201)
T smart00487 6 FEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALK------R----------------------GKGKRV 57 (201)
T ss_pred CCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhc------c----------------------cCCCcE
Confidence 46789999999943 3 68999999999999988888753210 0 012589
Q ss_pred EEEEcCHHHHHHHHHHHHhh
Q 000053 1143 LFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1143 L~vTfS~~la~eik~ri~~l 1162 (2576)
++++.+..++.++..++..+
T Consensus 58 l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 58 LVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred EEEeCCHHHHHHHHHHHHHH
Confidence 99999999999888877654
No 167
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=95.66 E-value=0.018 Score=62.65 Aligned_cols=48 Identities=27% Similarity=0.434 Sum_probs=34.5
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHH---HHHHHHHHHHHHHh
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVA---IKELASRVVKLVKE 281 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~A---Vd~V~~RL~~lv~e 281 (2576)
||.||||||||+++..+...+ +..++-+...... ......++.+.+.+
T Consensus 2 ll~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~ 52 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSYAGDSEQKIRDFFKK 52 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSSTTHHHHHHHHHHHH
T ss_pred EEECcCCCCeeHHHHHHHhhc---cccccccccccccccccccccccccccccc
Confidence 799999999999999888776 6677777766555 33444455555444
No 168
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.65 E-value=0.13 Score=66.65 Aligned_cols=89 Identities=19% Similarity=0.175 Sum_probs=71.8
Q ss_pred HHHHHHHHHcCCHHHH----------HHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1747 REAAKIFEAIGKVDSA----------AKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAE 1816 (2576)
Q Consensus 1747 ~eAA~~fe~~G~~~~A----------a~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~k 1816 (2576)
.++|..+|+.|..++| -++..++|+++-|.+++.+..++..|++.|+++..+|++..|.|++.++.|+..
T Consensus 618 t~va~Fle~~g~~e~AL~~s~D~d~rFelal~lgrl~iA~~la~e~~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~~~ 697 (794)
T KOG0276|consen 618 TKVAHFLESQGMKEQALELSTDPDQRFELALKLGRLDIAFDLAVEANSEVKWRQLGDAALSAGELPLASECFLRARDLGS 697 (794)
T ss_pred hhHHhHhhhccchHhhhhcCCChhhhhhhhhhcCcHHHHHHHHHhhcchHHHHHHHHHHhhcccchhHHHHHHhhcchhh
Confidence 4555566666655555 456678999999999999977788999999999999999999999999999999
Q ss_pred HHHHHHcCCCHHHHHHHHH
Q 000053 1817 CLDVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1817 Ai~~y~k~k~fd~A~~l~r 1835 (2576)
.+-+|.-.++-+....++.
T Consensus 698 LlLl~t~~g~~~~l~~la~ 716 (794)
T KOG0276|consen 698 LLLLYTSSGNAEGLAVLAS 716 (794)
T ss_pred hhhhhhhcCChhHHHHHHH
Confidence 9999888776554444433
No 169
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=95.63 E-value=0.016 Score=70.31 Aligned_cols=38 Identities=34% Similarity=0.434 Sum_probs=31.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHh---CCCeEE-EEec
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQ---MKFRTL-VCTP 263 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~---~~~rVL-v~Ap 263 (2576)
..+.-|..||||||||.|+..+...|.- .++||| .||.
T Consensus 56 ~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaS 97 (346)
T KOG0989|consen 56 ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNAS 97 (346)
T ss_pred CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccc
Confidence 3788999999999999999999988886 366776 3444
No 170
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=95.57 E-value=0.018 Score=81.18 Aligned_cols=66 Identities=21% Similarity=0.324 Sum_probs=49.9
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
..+..+++..-..+...+|+||||||||+.+.-.+..-...+.+|+++.||..|+.+++.|+.+.+
T Consensus 7 ~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~aA~qia~rva~~l 72 (812)
T PRK11664 7 AAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLAARNVAQRLAEQL 72 (812)
T ss_pred HHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHHHHHHHHHHHHHh
Confidence 344555665555677899999999999999874333222234589999999999999999997654
No 171
>PRK04296 thymidine kinase; Provisional
Probab=95.55 E-value=0.015 Score=68.43 Aligned_cols=37 Identities=22% Similarity=0.361 Sum_probs=33.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
..+.+|.||||+|||+.+..++..+...+.++++..|
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 3589999999999999999999999999999998844
No 172
>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=95.54 E-value=0.017 Score=69.74 Aligned_cols=50 Identities=30% Similarity=0.327 Sum_probs=39.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecChHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
.+++.||.||||||||......+..-+.. |.+++.++....+ .++.+++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~-~~l~~~~~ 68 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP-EELIENMK 68 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H-HHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH-HHHHHHHH
Confidence 37899999999999999999999999888 9999999976555 55555544
No 173
>PRK05973 replicative DNA helicase; Provisional
Probab=95.52 E-value=0.021 Score=68.92 Aligned_cols=51 Identities=22% Similarity=0.198 Sum_probs=43.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
.++.+|.||||||||+....++...++.|.+++..+.--. -.++.+|+..+
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes-~~~i~~R~~s~ 114 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYT-EQDVRDRLRAL 114 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC-HHHHHHHHHHc
Confidence 7899999999999999999999999999999999987555 36777777543
No 174
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.51 E-value=0.023 Score=65.93 Aligned_cols=75 Identities=23% Similarity=0.288 Sum_probs=51.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCC--CeEE-EEecChHHHHHHHHHHHHHHHhhhhhccccccccccccEEEccC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMK--FRTL-VCTPTIVAIKELASRVVKLVKESVERDCRDALFFPLGEILLLGN 303 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~--~rVL-v~ApTN~AVd~V~~RL~~lv~es~~~~~~~~~~~~lgdillfGn 303 (2576)
-+=-+|.|||||||||.|..|...|+-.. .-|| +-|....-+|.|..++-...... ...+-+-.+|+.+.-
T Consensus 48 mP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ~k------v~lp~grhKIiILDE 121 (333)
T KOG0991|consen 48 MPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQKK------VTLPPGRHKIIILDE 121 (333)
T ss_pred CCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHHhh------ccCCCCceeEEEeec
Confidence 44568999999999999999999999643 3344 34556678999988887654331 112334456777665
Q ss_pred cccc
Q 000053 304 NERL 307 (2576)
Q Consensus 304 ~~rm 307 (2576)
-..|
T Consensus 122 ADSM 125 (333)
T KOG0991|consen 122 ADSM 125 (333)
T ss_pred cchh
Confidence 5555
No 175
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=95.46 E-value=0.062 Score=76.07 Aligned_cols=225 Identities=18% Similarity=0.125 Sum_probs=122.0
Q ss_pred CCCCccEEEEecC-CCCCHHHHHHHHHHhhcCCCcEEEEeCCCC--c-cccCCCcchhhHHHHHHHhhhhhccCCCCCCc
Q 000053 1364 KGDEFHFVYIDEV-QDLTMSQVALFKYVCKNIEEGFVFSGDTAQ--T-IARGIDFRFQDIRSLFYKKFVLESRNNGNDGR 1439 (2576)
Q Consensus 1364 ~~~~yd~IlVDE~-QD~~~~ql~LL~~L~~~~~~~l~~vGD~~Q--S-Iy~g~~frf~~l~~~f~~~f~~~~~~~~~~~~ 1439 (2576)
....++-++|||+ |..-+.-+.-|... +..+.+++||+.| . |-....-.|.-..++|.+-+..
T Consensus 533 ~~~p~~~vviDeaaq~~e~~s~~PL~l~---g~~~~~lvgd~~qlP~~V~s~~~~~~k~~~slf~rl~l~---------- 599 (827)
T KOG1801|consen 533 GGPPLDTVVIDEAAQKYEPSSLEPLQLA---GYQHCILVGDLAQLPATVHSSPAGCFKYMTSLFERLELA---------- 599 (827)
T ss_pred cCCCceEEEEehhhhhcCccchhhhhhc---CCceEEEecccccCChhhccchhccccchhhHHHHHHHc----------
Confidence 3578999999998 77766665555433 2457899999999 3 2121112344445555443211
Q ss_pred ccccCCccEEecccccCCchHHHHHHHHHHHHHhccCCCCcc-c---cCCcccccCCCCCEEEcc-----------CCHH
Q 000053 1440 QEKRQLSDIFNLRQNFRTHVGVLNLAQSIIELLYRFFPHSVD-I---LKPETSLIYGEPPILLES-----------GDEE 1504 (2576)
Q Consensus 1440 ~~~~~~~~~~~L~~NYRS~~~Il~lAn~vi~~~~~~~p~~~~-~---l~~~~~~~~G~~P~l~~~-----------~~~~ 1504 (2576)
....+.|+..||.||+|..+-+.-+-...-.+.+.+. . .........|+-+.+... ....
T Consensus 600 -----~~~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~~~vs~~~~~~~~~~~~~~~~y~f~~v~~g~e~~~~~~s~~n~ 674 (827)
T KOG1801|consen 600 -----GHKTLLLTVQYRMHPEISRFPSKEFYGGRLKDVNNVSESNTVKLWHSGETFGPYPFFNVHYGKERAGGGKSPVNN 674 (827)
T ss_pred -----cCccceecceeecCCccccCccccccccccccCcccchhhccccCcCCCccCceEEEEecccccccCCCCCcccH
Confidence 1233479999999999988887654322101111111 0 000111112333332211 1122
Q ss_pred HHHHHHHHhhh---hhcCCcccCCccEEEEEechhhHHHHHHHhC----------CCeEEEeeeccCCccccEEEEeecc
Q 000053 1505 NAILKIFGNTG---EVGGNMVGFGAEQVILVRDDCVRKEISNYVG----------KQALVLTIVESKGLEFQDVLLYKFF 1571 (2576)
Q Consensus 1505 ~~i~~i~~~i~---~~~~~~i~~~~~~aILvr~~~~~~~l~~~L~----------~~V~V~TIH~aKGLEFd~ViL~n~f 1571 (2576)
.++......+. ..-.........+-|+.+.+.+...+.+..+ ..+.+.|+-.++|+|-|+.++..+-
T Consensus 675 ~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~~~~i~v~tvD~fqg~e~diii~s~vr 754 (827)
T KOG1801|consen 675 EEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLANNVDLSVSTVDSFQGGERDIIIISTVR 754 (827)
T ss_pred HHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcccceeEEEecccccCCCCceeEEEEEE
Confidence 22332222222 1111111112334477888777766666543 2588999999999999555554211
Q ss_pred cCCCCchhhHHHHhhhccccccCCCCCCCCCCchhhhccchhHHHhhHhhhhccccceeEEEEecCC
Q 000053 1572 SASPLKNQWRVVYEYMKEQDLLDSTSPGSFPSFNEVKHNILCSELKQLYVAITRTRQRLWIWENKEE 1638 (2576)
Q Consensus 1572 ~~~p~~~~w~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~eErRlLYVAiTRAr~~L~I~~s~~~ 1638 (2576)
+. ..+. -.....+|.+-||+||||.-||++++...
T Consensus 755 s~-----------------------~~g~---------igf~~~~~RlnvALtra~~~l~v~Gne~~ 789 (827)
T KOG1801|consen 755 SI-----------------------DEGS---------IGFECNLRRLNVALTRARTCFWLVGNEIT 789 (827)
T ss_pred ec-----------------------ccCc---------cchhhhHHHHHHhhcccccceEEecCccc
Confidence 10 0000 01123578899999999999999988754
No 176
>PRK08116 hypothetical protein; Validated
Probab=95.43 E-value=0.025 Score=70.04 Aligned_cols=36 Identities=25% Similarity=0.414 Sum_probs=31.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+.-.++|||||||||+++.++...|+..+.+++..+
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 345799999999999999999999998888887765
No 177
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.43 E-value=0.015 Score=73.81 Aligned_cols=37 Identities=27% Similarity=0.259 Sum_probs=33.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.--+++||||||||+++.++...++..|.+|+..+.
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~ 219 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA 219 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence 3568999999999999999999999999999887764
No 178
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.41 E-value=0.099 Score=69.04 Aligned_cols=174 Identities=16% Similarity=0.151 Sum_probs=101.8
Q ss_pred HHhhhcccccccccChHHHHHHhhcCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChh--H--HH
Q 000053 1645 DYWKKRFLVQVRRLDDSLAQAMQVASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTY--W--EG 1720 (2576)
Q Consensus 1645 ~~w~~~~lvev~~~~~~~~~~~~~~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~--~--~~ 1720 (2576)
-+|.-++-+++..+..++.. ..-.+|+-|.+.|.- +--|++++.|++||+||-... . +.
T Consensus 396 ~LWHLq~~v~Ls~Laq~Li~--~~~~sPesWca~GNc---------------fSLQkdh~~Aik~f~RAiQldp~faYay 458 (638)
T KOG1126|consen 396 TLWHLQDEVALSYLAQDLID--TDPNSPESWCALGNC---------------FSLQKDHDTAIKCFKRAIQLDPRFAYAY 458 (638)
T ss_pred HHHHHHhhHHHHHHHHHHHh--hCCCCcHHHHHhcch---------------hhhhhHHHHHHHHHHHhhccCCccchhh
Confidence 47777766666555444422 235799999999976 556899999999999987521 1 11
Q ss_pred HHHHHHHHH-----HH-hH---hhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHH
Q 000053 1721 RSKASGLKA-----AA-DR---ISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKA 1791 (2576)
Q Consensus 1721 l~~A~~l~~-----~a-~~---l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~a 1791 (2576)
-...+++.. .| .. -...+|.-+. .|.-.+-.|.+.++++.|.-. |++|+++=.. ....+--+
T Consensus 459 TLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYn-AwYGlG~vy~Kqek~e~Ae~~------fqkA~~INP~--nsvi~~~~ 529 (638)
T KOG1126|consen 459 TLLGHESIATEEFDKAMKSFRKALGVDPRHYN-AWYGLGTVYLKQEKLEFAEFH------FQKAVEINPS--NSVILCHI 529 (638)
T ss_pred hhcCChhhhhHHHHhHHHHHHhhhcCCchhhH-HHHhhhhheeccchhhHHHHH------HHhhhcCCcc--chhHHhhh
Confidence 111111110 00 00 0111222222 345556666677777776633 3445555111 11345678
Q ss_pred HHHHHHcCCHHHHHHHHHHcCCHH--------HHHHHHHcCCCHHHHHHHHHhhhhcCCcc
Q 000053 1792 GECFSLAGCYKLAADVYARGSFLA--------ECLDVCSKGKLFDIGLQYISYWKQHADTD 1844 (2576)
Q Consensus 1792 Ae~~e~~g~~~eAAelY~kagd~~--------kAi~~y~k~k~fd~A~~l~r~~~~~~~~~ 1844 (2576)
+..+.+.|..++|.++|++|=..+ +...++...+.+++|++.+++.+.-.+.+
T Consensus 530 g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~e 590 (638)
T KOG1126|consen 530 GRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQE 590 (638)
T ss_pred hHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcch
Confidence 888888999999999999864321 22334445566788888888666554433
No 179
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.40 E-value=0.016 Score=63.36 Aligned_cols=53 Identities=25% Similarity=0.368 Sum_probs=37.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHh------CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQ------MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~------~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.++.+|+||||+|||+++..++..+.. ...-+.+.+|.......+...+...+
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l 62 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEAL 62 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHh
Confidence 467899999999999999999998876 34445555665555777777777654
No 180
>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=95.37 E-value=0.023 Score=69.18 Aligned_cols=51 Identities=24% Similarity=0.202 Sum_probs=42.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVK 277 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~ 277 (2576)
..++.+|.||||||||..+..++...++.|.+++.++.- .-.+++.+++..
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~e-e~~~~i~~~~~~ 70 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALE-EHPVQVRRNMAQ 70 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEee-CCHHHHHHHHHH
Confidence 378999999999999999999999888999999999954 455567666543
No 181
>PRK06851 hypothetical protein; Provisional
Probab=95.36 E-value=0.016 Score=73.84 Aligned_cols=57 Identities=16% Similarity=0.331 Sum_probs=47.1
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCe--EEEEecChHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFR--TLVCTPTIVAIKELA 272 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~r--VLv~ApTN~AVd~V~ 272 (2576)
.+..+.++. ..+.+-+|.||||||||+++..++..+...|.. .+.|++.|.++|-|.
T Consensus 19 ~s~~~~~~~--~~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~~slDgvi 77 (367)
T PRK06851 19 YSLYDSIID--GANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDNDSLDGVI 77 (367)
T ss_pred hhhhhhhcc--ccceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCCCceeeEE
Confidence 445555553 347899999999999999999999999998887 789999999998653
No 182
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.30 E-value=0.033 Score=67.77 Aligned_cols=39 Identities=13% Similarity=0.123 Sum_probs=33.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
...-+|||||||||||++..+...+...|.+++..+...
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~ 83 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK 83 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence 457899999999999999999988888899988877643
No 183
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=95.30 E-value=1.4 Score=64.00 Aligned_cols=15 Identities=13% Similarity=0.095 Sum_probs=10.6
Q ss_pred hhcHHHHHHHHHHcC
Q 000053 1700 EQNYEMATICFEKAK 1714 (2576)
Q Consensus 1700 ~~~ye~A~k~f~rag 1714 (2576)
.+++++|+.+|.++-
T Consensus 489 ~~~~~eAi~a~~~Al 503 (987)
T PRK09782 489 DTLPGVALYAWLQAE 503 (987)
T ss_pred hCCcHHHHHHHHHHH
Confidence 367878888777643
No 184
>PRK08727 hypothetical protein; Validated
Probab=95.26 E-value=0.03 Score=67.97 Aligned_cols=37 Identities=24% Similarity=0.179 Sum_probs=32.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
...-+|+||||||||+++.++...+...|.++..++.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~ 77 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPL 77 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeH
Confidence 4568999999999999999999999999998887764
No 185
>COG5290 IkappaB kinase complex, IKAP component [Transcription]
Probab=95.26 E-value=2.3 Score=56.92 Aligned_cols=96 Identities=10% Similarity=-0.068 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHHHHcC-CHHHHHHHHHHcCCHHHHHHHHHHhCC--chHHHHHHHHHHHcCCHHHHHHHHHHcCCHHH
Q 000053 1740 LEARIILREAAKIFEAIG-KVDSAAKCFFDMGEYERAGTIYLERCE--EPELEKAGECFSLAGCYKLAADVYARGSFLAE 1816 (2576)
Q Consensus 1740 ~~a~~~~~eAA~~fe~~G-~~~~Aa~~y~kag~~~~A~ely~~~~~--~~~~~~aAe~~e~~g~~~eAAelY~kagd~~k 1816 (2576)
+.+.+.|..|-.++-+.- -+++-+.+-++-..|+.+..+|+-..+ +..+.--|..+..++.+.+||.+|+-.|.+.+
T Consensus 874 d~yl~~ye~ALghl~E~~n~~~Ev~~yi~~hdly~~~l~lyrYd~e~Qk~~~nifa~~l~~n~~~~~aa~aye~~gK~~E 953 (1243)
T COG5290 874 DNYLSIYESALGHLNEDLNVIREVMKYICRHDLYDFLLLLYRYDGELQKFKINIFAGNLVDNLYHISAAKAYEVEGKYIE 953 (1243)
T ss_pred hhhHHHHHHHHHhhHhHHHHHHHHHHHHHhccchHHHHHHHHhhhhhhhhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence 334556677766665543 355666666778888889888885322 23466778888889999999999999999999
Q ss_pred HHHHHHcCCCHHHHHHHHH
Q 000053 1817 CLDVCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1817 Ai~~y~k~k~fd~A~~l~r 1835 (2576)
|+.+|..+++|.+|.-+..
T Consensus 954 a~gay~sA~mwrec~si~~ 972 (1243)
T COG5290 954 AHGAYDSALMWRECGSIST 972 (1243)
T ss_pred HHHHHHHHHHHHHHhhHHh
Confidence 9999999999999998877
No 186
>PRK14974 cell division protein FtsY; Provisional
Probab=95.24 E-value=0.033 Score=70.72 Aligned_cols=45 Identities=31% Similarity=0.403 Sum_probs=37.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC---hHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT---IVAIKEL 271 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT---N~AVd~V 271 (2576)
+.+-++.||||+|||||++.+...|...|.+|++++.. ..|++++
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL 187 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQL 187 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHH
Confidence 67999999999999999999999988889998776643 4555544
No 187
>KOG2247 consensus WD40 repeat-containing protein [General function prediction only]
Probab=95.23 E-value=0.00096 Score=83.52 Aligned_cols=182 Identities=12% Similarity=0.024 Sum_probs=139.0
Q ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHH
Q 000053 1743 RIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCS 1822 (2576)
Q Consensus 1743 ~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~ 1822 (2576)
...+-+||.+|+..|.|+.|.-.|.++++|.+|+++...+-..+.....|.+-+..+ +++-.|+.+++.+.++++|.
T Consensus 185 ~~qegeta~ltevggepdnm~~~y~k~n~w~kage~m~sVvsgKkhl~yak~nE~D~---pval~fq~~~gni~cyrwyl 261 (615)
T KOG2247|consen 185 TTQEGETASLTEVGGEPDNMDFFYGKVNGWGKAGETMVSVVSGKKHLMYAKYNELDE---PVALQFQEKYGNIHCYRWYL 261 (615)
T ss_pred hhhccceeeeeeccCccchhhhheeeeeccccccceeeeeeecHHHHHHHhhcCCCC---ccceEeeecCCceeEEEEec
Confidence 556789999999999999999999999999999988776544566667777777666 44449999999999999998
Q ss_pred cCCCHH--HHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHhcCC
Q 000053 1823 KGKLFD--IGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNSKGC 1900 (2576)
Q Consensus 1823 k~k~fd--~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~~~~ 1900 (2576)
.+...+ .|.+++ ..|.+.+++ .++.|.++ |++.|.++.-..+..+++++....++.
T Consensus 262 Dg~i~igf~ag~iV--------------~iS~h~aeL-------gaeffqkl-dy~~aLqsiavsqcvnkaftlgdn~nk 319 (615)
T KOG2247|consen 262 DGYILIGFDAGYIV--------------SISAHNAEL-------GAEFFQKL-DYRGALQSIAVSQCVNKAFTLGDNMNK 319 (615)
T ss_pred cccccccccceeEE--------------EEeccchHH-------HHHHHHHh-hHHhhhHHHHHHHHHHHHHHHHhhhHH
Confidence 866422 222222 233333344 67788888 999999999999999999888877777
Q ss_pred HHHHHHHHHhccCHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1901 FDELLVLEEESESFMDAANIARLRGDILRTVDLLQKVGNFKEACNLTLN 1949 (2576)
Q Consensus 1901 ~dea~ell~~~g~feeAa~ia~~~G~~~eA~kly~~aG~~~eA~klll~ 1949 (2576)
..+..++....++-.+-++-......+-+|+++|..++++-.|...+.+
T Consensus 320 vRdl~el~e~y~n~L~eaek~lge~~~t~dgqlyals~Q~g~l~~fLtK 368 (615)
T KOG2247|consen 320 VRDLDELTEVYMNTLIEAEKNLGEIEVTEDGQLYALSSQSGVLSIFLTK 368 (615)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCceeeeeccceeeehhccchHHHHHHh
Confidence 7776666665555544455556667778999999999999999987777
No 188
>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=95.21 E-value=0.032 Score=65.89 Aligned_cols=45 Identities=27% Similarity=0.349 Sum_probs=34.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC-h--HHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT-I--VAIKEL 271 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT-N--~AVd~V 271 (2576)
+.+-++-||+|.|||||++-|.+.+...+++|.+++.- . .|++++
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL 48 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQL 48 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHH
T ss_pred CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHH
Confidence 35778999999999999999999999889988777653 2 466554
No 189
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=95.18 E-value=0.5 Score=63.05 Aligned_cols=23 Identities=22% Similarity=0.182 Sum_probs=19.0
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
.|.++...++|.+|...|++|-.
T Consensus 247 ~a~~y~~~~k~~eAv~ly~~AL~ 269 (508)
T KOG1840|consen 247 LALVYRSLGKYDEAVNLYEEALT 269 (508)
T ss_pred HHHHHHHhccHHHHHHHHHHHHH
Confidence 45568889999999999998755
No 190
>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=95.14 E-value=0.028 Score=63.33 Aligned_cols=41 Identities=20% Similarity=0.250 Sum_probs=35.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIK 269 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd 269 (2576)
+.+|.||||||||+++..++..+...+.+|+..+......+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~ 41 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE 41 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHH
Confidence 46899999999999999999999988999999888655443
No 191
>PRK09183 transposase/IS protein; Provisional
Probab=95.12 E-value=0.024 Score=69.90 Aligned_cols=36 Identities=22% Similarity=0.275 Sum_probs=31.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
....+|+||||||||+++.++...+...|.+|+.+.
T Consensus 102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 556889999999999999999888888899998775
No 192
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.12 E-value=0.025 Score=68.25 Aligned_cols=51 Identities=29% Similarity=0.406 Sum_probs=41.2
Q ss_pred HHHHHHHHh-cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 214 LKIIKELLC-TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 214 ~~~i~~vl~-~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
.+-++.+|. --...++.+|.||||||||+++..++...+..+.+++.++--
T Consensus 9 i~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 9 CKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred cHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 344566664 224478999999999999999999999999999998888765
No 193
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=95.11 E-value=0.0031 Score=80.44 Aligned_cols=59 Identities=25% Similarity=0.311 Sum_probs=43.9
Q ss_pred CCceEEccCCCCCCccCCEEEEEcccCCCCCc---c----ccCCCCCceEEecccccccEEEEech
Q 000053 767 GFAVKVMSVDGFQGGEEDIIIISTVRSNNGGS---I----GFISNPRRVNVALTRARHCLWILGNE 825 (2576)
Q Consensus 767 ~~~v~V~TVd~fQG~E~DiVIlS~Vrs~~~~~---~----gFl~d~~RlNVAlTRAR~~LiIVGn~ 825 (2576)
...|.|.|||+.-|.|+|+||+.....+.... + .+-...|.++||+||||+.|+|++..
T Consensus 285 ~~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~~ 350 (351)
T PF13361_consen 285 DDGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYPK 350 (351)
T ss_dssp CGSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEEC
T ss_pred ccCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEec
Confidence 34799999999999999999998875542211 1 12235688999999999999999864
No 194
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=95.11 E-value=0.059 Score=61.47 Aligned_cols=65 Identities=18% Similarity=0.181 Sum_probs=49.0
Q ss_pred CHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEc
Q 000053 1071 TDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTV 1147 (2576)
Q Consensus 1071 t~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTf 1147 (2576)
||.|++++.. ..+++|.|+.|||||++...-+++.... ....++++++.
T Consensus 1 t~~Q~~~~~~i~~~~~~li~aptGsGKT~~~~~~~l~~~~~----------------------------~~~~~~lii~P 52 (169)
T PF00270_consen 1 TPLQQEAIEAIISGKNVLISAPTGSGKTLAYILPALNRLQE----------------------------GKDARVLIIVP 52 (169)
T ss_dssp -HHHHHHHHHHHTTSEEEEECSTTSSHHHHHHHHHHHHHHT----------------------------TSSSEEEEEES
T ss_pred CHHHHHHHHHHHcCCCEEEECCCCCccHHHHHHHHHhhhcc----------------------------CCCceEEEEee
Confidence 6889998843 4589999999999999988877532110 01248999999
Q ss_pred CHHHHHHHHHHHHhhh
Q 000053 1148 SPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1148 S~~la~eik~ri~~l~ 1163 (2576)
++.++.++.+++....
T Consensus 53 ~~~l~~q~~~~~~~~~ 68 (169)
T PF00270_consen 53 TRALAEQQFERLRKFF 68 (169)
T ss_dssp SHHHHHHHHHHHHHHT
T ss_pred cccccccccccccccc
Confidence 9999999988777663
No 195
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.08 E-value=0.04 Score=64.61 Aligned_cols=52 Identities=31% Similarity=0.365 Sum_probs=40.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHh----------CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQ----------MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~----------~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
..+.+|.||||+|||+++..++.+++. .+.+||.++.-+. ..++..|+..+.
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 679999999999999999999999997 5779999988777 556778887664
No 196
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=95.07 E-value=0.34 Score=61.61 Aligned_cols=140 Identities=16% Similarity=0.129 Sum_probs=93.9
Q ss_pred CChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHH------HHH----------HHHHHHhH
Q 000053 1670 SSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRS------KAS----------GLKAAADR 1733 (2576)
Q Consensus 1670 ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~------~A~----------~l~~~a~~ 1733 (2576)
++...|---|.+ +..-++-.-|..+|++|-|..-.... ++| ...+.|..
T Consensus 362 ~~~~aWTLmGHE---------------yvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~ 426 (559)
T KOG1155|consen 362 KYLSAWTLMGHE---------------YVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE 426 (559)
T ss_pred chhHHHHHhhHH---------------HHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh
Confidence 345678888988 77789999999999999874332222 222 23345555
Q ss_pred hhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCC
Q 000053 1734 ISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSF 1813 (2576)
Q Consensus 1734 l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd 1813 (2576)
+...++. .+.-.|+.|++.++.++|++||.++=....+ +...+-+.|..|++.+.+.+||.+|++.=+
T Consensus 427 ~kPnDsR----lw~aLG~CY~kl~~~~eAiKCykrai~~~dt--------e~~~l~~LakLye~l~d~~eAa~~yek~v~ 494 (559)
T KOG1155|consen 427 LKPNDSR----LWVALGECYEKLNRLEEAIKCYKRAILLGDT--------EGSALVRLAKLYEELKDLNEAAQYYEKYVE 494 (559)
T ss_pred cCCCchH----HHHHHHHHHHHhccHHHHHHHHHHHHhcccc--------chHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 5555544 4577899999999999999999763222111 124466788888999999999988887322
Q ss_pred -----------HHHHHH----HHHcCCCHHHHHHHHHh
Q 000053 1814 -----------LAECLD----VCSKGKLFDIGLQYISY 1836 (2576)
Q Consensus 1814 -----------~~kAi~----~y~k~k~fd~A~~l~r~ 1836 (2576)
..+|.. .+.+.++|++|..++-+
T Consensus 495 ~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~ 532 (559)
T KOG1155|consen 495 VSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATL 532 (559)
T ss_pred HHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence 223332 23467888888887763
No 197
>PRK06921 hypothetical protein; Provisional
Probab=95.06 E-value=0.021 Score=70.52 Aligned_cols=37 Identities=22% Similarity=0.276 Sum_probs=32.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~Ap 263 (2576)
..-.+++||||||||+++.+++..++.. |.+|+.++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence 5568999999999999999999999988 888887764
No 198
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=95.03 E-value=0.037 Score=67.01 Aligned_cols=49 Identities=20% Similarity=0.255 Sum_probs=40.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
..++.+|.||||||||+++..++..++..|.+++.++..... .++...+
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~-~~~~~~~ 71 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTT-TEFIKQM 71 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHH
Confidence 367999999999999999999999999999999998865544 4444444
No 199
>KOG2247 consensus WD40 repeat-containing protein [General function prediction only]
Probab=95.01 E-value=0.0016 Score=81.50 Aligned_cols=145 Identities=10% Similarity=-0.029 Sum_probs=93.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHHHHHHHHHh---------hhhcCCcccccccchHHHHHHh
Q 000053 1788 LEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFDIGLQYISY---------WKQHADTDVGRVKSSKEMKKIE 1858 (2576)
Q Consensus 1788 ~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd~A~~l~r~---------~~~~~~~~~~~~~~s~~~~~~e 1858 (2576)
...++..+...+++.+||.+|+.+|.+++|--.|.+.+.|.+|-+.+-. |.+....+. +.+. .++..
T Consensus 175 l~dcd~~L~v~~qegeta~ltevggepdnm~~~y~k~n~w~kage~m~sVvsgKkhl~yak~nE~D~---pval-~fq~~ 250 (615)
T KOG2247|consen 175 LCDCDNTLSVTTQEGETASLTEVGGEPDNMDFFYGKVNGWGKAGETMVSVVSGKKHLMYAKYNELDE---PVAL-QFQEK 250 (615)
T ss_pred ecCcHHHHHHhhhccceeeeeeccCccchhhhheeeeeccccccceeeeeeecHHHHHHHhhcCCCC---ccce-Eeeec
Confidence 4678899999999999999999999999999999999999988776551 111111110 0000 00000
Q ss_pred HHhHHHHHHHHH--HcCChHHHHHHHHH-hCcHHHHHHHHHhcCCHHHHHHHHHhccCHHHHHHHHHHcCCHHHHHHHHH
Q 000053 1859 QDFLQSCALHFH--KLNDNKSMMKFVRA-FHSMDLIRNFLNSKGCFDELLVLEEESESFMDAANIARLRGDILRTVDLLQ 1935 (2576)
Q Consensus 1859 ~~~le~~a~~f~--klgd~~~A~~~~k~-~~~~e~a~~~l~~~~~~dea~ell~~~g~feeAa~ia~~~G~~~eA~kly~ 1935 (2576)
.+ ...|...|. ...++.+|-.+++. .+..+-.++|+... ++..+++.++-.+.+++|+.++.+..+..+-.++..
T Consensus 251 ~g-ni~cyrwylDg~i~igf~ag~iV~iS~h~aeLgaeffqkl-dy~~aLqsiavsqcvnkaftlgdn~nkvRdl~el~e 328 (615)
T KOG2247|consen 251 YG-NIHCYRWYLDGYILIGFDAGYIVSISAHNAELGAEFFQKL-DYRGALQSIAVSQCVNKAFTLGDNMNKVRDLDELTE 328 (615)
T ss_pred CC-ceeEEEEeccccccccccceeEEEEeccchHHHHHHHHHh-hHHhhhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 00 111222221 23334444333331 33344458888887 999999999999999999999988887776666554
Q ss_pred HcC
Q 000053 1936 KVG 1938 (2576)
Q Consensus 1936 ~aG 1938 (2576)
+.+
T Consensus 329 ~y~ 331 (615)
T KOG2247|consen 329 VYM 331 (615)
T ss_pred HHH
Confidence 433
No 200
>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=95.00 E-value=0.029 Score=64.82 Aligned_cols=34 Identities=32% Similarity=0.410 Sum_probs=30.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+.+|.||||+|||+++..+...+...|.+|+++.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 6789999999999999999999999999988766
No 201
>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=94.97 E-value=0.022 Score=67.32 Aligned_cols=32 Identities=31% Similarity=0.587 Sum_probs=18.4
Q ss_pred CCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCC
Q 000053 224 DSGATVQLIWGPPGTGKTKTVSMLLVILLQMKF 256 (2576)
Q Consensus 224 ~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~ 256 (2576)
+..-+-.|.|||||||||+++. +++.-+..+.
T Consensus 47 ~~~l~h~lf~GPPG~GKTTLA~-IIA~e~~~~~ 78 (233)
T PF05496_consen 47 GEALDHMLFYGPPGLGKTTLAR-IIANELGVNF 78 (233)
T ss_dssp TS---EEEEESSTTSSHHHHHH-HHHHHCT--E
T ss_pred CCCcceEEEECCCccchhHHHH-HHHhccCCCe
Confidence 3334457999999999987654 4444444443
No 202
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=94.90 E-value=0.027 Score=69.11 Aligned_cols=39 Identities=28% Similarity=0.386 Sum_probs=33.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
.+.=.++-||||||||++++++...+++.|.+|+.+.-+
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~ 142 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP 142 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence 355678999999999999999999999889999887643
No 203
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=94.89 E-value=1.7 Score=57.44 Aligned_cols=119 Identities=18% Similarity=0.108 Sum_probs=76.9
Q ss_pred HHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCC-HHH-HHHHHH
Q 000053 1690 IIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGK-VDS-AAKCFF 1767 (2576)
Q Consensus 1690 ~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~-~~~-Aa~~y~ 1767 (2576)
.+..|...+..|+|+.|.+...++.+..-.........++.+ ....+++.+...+.+|.+.+-..+- .+. +++.+.
T Consensus 87 ~~~~glla~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa--~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l 164 (409)
T TIGR00540 87 QTEEALLKLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAA--QQRGDEARANQHLEEAAELAGNDNILVEIARTRILL 164 (409)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHH
Confidence 578899999999999999999987653211111111111222 2335666777777777765544442 333 488888
Q ss_pred HcCCHHHHHHHHHHhC-----CchHHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1768 DMGEYERAGTIYLERC-----EEPELEKAGECFSLAGCYKLAADVYAR 1810 (2576)
Q Consensus 1768 kag~~~~A~ely~~~~-----~~~~~~~aAe~~e~~g~~~eAAelY~k 1810 (2576)
..|+++.|.+.+...- +...+.-.+..+.+.|+|++|.+++.+
T Consensus 165 ~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~ 212 (409)
T TIGR00540 165 AQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDN 212 (409)
T ss_pred HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 8999998887766531 223466777777788888877777665
No 204
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=94.84 E-value=0.93 Score=53.36 Aligned_cols=139 Identities=20% Similarity=0.179 Sum_probs=62.9
Q ss_pred HHHHHhhcHHHHHHHHHHcCChhHHHHHHHH-HHHHHHhHhhcCChHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHcCCH
Q 000053 1695 LWLFYEQNYEMATICFEKAKDTYWEGRSKAS-GLKAAADRISSSNPLEARIILREAAKIFEAIG-KVDSAAKCFFDMGEY 1772 (2576)
Q Consensus 1695 ~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~-~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G-~~~~Aa~~y~kag~~ 1772 (2576)
..++..++|++|...|+++-...-... .++ .+... .....+.+++...|.+|.+...... -+..-+.+|...|++
T Consensus 39 ~~~~~~~~~~~A~~~~~~~l~~~p~~~-~~~~~la~~--~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~ 115 (234)
T TIGR02521 39 LGYLEQGDLEVAKENLDKALEHDPDDY-LAYLALALY--YQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKY 115 (234)
T ss_pred HHHHHCCCHHHHHHHHHHHHHhCcccH-HHHHHHHHH--HHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccH
Confidence 337889999999999998633211000 000 00000 0111223333333333333211111 011223444455555
Q ss_pred HHHHHHHHHhCC-------chHHHHHHHHHHHcCCHHHHHHHHHHcCC--------HHHHHHHHHcCCCHHHHHHHHHh
Q 000053 1773 ERAGTIYLERCE-------EPELEKAGECFSLAGCYKLAADVYARGSF--------LAECLDVCSKGKLFDIGLQYISY 1836 (2576)
Q Consensus 1773 ~~A~ely~~~~~-------~~~~~~aAe~~e~~g~~~eAAelY~kagd--------~~kAi~~y~k~k~fd~A~~l~r~ 1836 (2576)
++|.+.+.+... ...+...|.++...|++.+|.+.|.++-. +.....++.+.+.+++|.+++++
T Consensus 116 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~ 194 (234)
T TIGR02521 116 EQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLER 194 (234)
T ss_pred HHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 555555554311 12344456666666777777666655321 11222344455566666665553
No 205
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=94.78 E-value=4.2 Score=51.84 Aligned_cols=80 Identities=20% Similarity=0.230 Sum_probs=54.0
Q ss_pred HHHHcCChHHHHHHHHHhCcHHHH-----HHHHHhcCCHHHHHHHH----------------HhccCHHHHHHHHHHcCC
Q 000053 1868 HFHKLNDNKSMMKFVRAFHSMDLI-----RNFLNSKGCFDELLVLE----------------EESESFMDAANIARLRGD 1926 (2576)
Q Consensus 1868 ~f~klgd~~~A~~~~k~~~~~e~a-----~~~l~~~~~~dea~ell----------------~~~g~feeAa~ia~~~G~ 1926 (2576)
.+...|..+.|.++.+.|...|.- .+-|.+.+.|++..++. ...|+..+|.....+-..
T Consensus 186 ~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~skKsPIGyepFv~~~~~~~~~~eA~~yI~k~~~ 265 (319)
T PF04840_consen 186 KLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKSKKSPIGYEPFVEACLKYGNKKEASKYIPKIPD 265 (319)
T ss_pred HHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhCCCCCCChHHHHHHHHHCCCHHHHHHHHHhCCh
Confidence 345677778887777777766663 33345666777665444 467777777766666555
Q ss_pred HHHHHHHHHHcCCHHHHHHHHH
Q 000053 1927 ILRTVDLLQKVGNFKEACNLTL 1948 (2576)
Q Consensus 1927 ~~eA~kly~~aG~~~eA~klll 1948 (2576)
++-+++|.+.|.+.+|...+.
T Consensus 266 -~~rv~~y~~~~~~~~A~~~A~ 286 (319)
T PF04840_consen 266 -EERVEMYLKCGDYKEAAQEAF 286 (319)
T ss_pred -HHHHHHHHHCCCHHHHHHHHH
Confidence 777788888888888877543
No 206
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=94.76 E-value=0.98 Score=60.90 Aligned_cols=27 Identities=22% Similarity=0.256 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1689 FIIFVCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1689 ~~~~~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
..+|.++++...|.|++|.+..+....
T Consensus 6 ~lLY~~~il~e~g~~~~AL~~L~~~~~ 32 (517)
T PF12569_consen 6 LLLYKNSILEEAGDYEEALEHLEKNEK 32 (517)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhhhh
Confidence 357888999999999999999876544
No 207
>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=94.74 E-value=0.033 Score=61.85 Aligned_cols=29 Identities=38% Similarity=0.539 Sum_probs=23.2
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
-+++||||||||+++..+...+ +.++..+
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~---~~~~~~i 30 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALL---GRPVIRI 30 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHH---TCEEEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHh---hcceEEE
Confidence 3799999999999999988877 5554443
No 208
>PRK05642 DNA replication initiation factor; Validated
Probab=94.73 E-value=0.036 Score=67.35 Aligned_cols=38 Identities=13% Similarity=0.273 Sum_probs=32.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
...-+||||||||||+.+.++...+...+++++..+..
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~ 82 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLA 82 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHH
Confidence 35679999999999999999988888888888877653
No 209
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.72 E-value=0.03 Score=70.49 Aligned_cols=37 Identities=14% Similarity=0.144 Sum_probs=32.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
..--+++||||||||+++.++...+...|.+|..+..
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~ 192 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHF 192 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEH
Confidence 4468899999999999999999999999998876644
No 210
>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=94.71 E-value=0.038 Score=65.85 Aligned_cols=39 Identities=28% Similarity=0.437 Sum_probs=35.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
.++.+|.||||||||+....++......+.+++.++..+
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 689999999999999999999999988899988888865
No 211
>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=94.58 E-value=0.057 Score=65.14 Aligned_cols=50 Identities=18% Similarity=0.111 Sum_probs=42.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
..++.+|.||||||||+....++...++.|.+++.++... ..+++.+++.
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~-~~~~l~~~~~ 64 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE-REERILGYAK 64 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CHHHHHHHHH
Confidence 3789999999999999999999999999999999998866 4666766654
No 212
>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=94.54 E-value=0.043 Score=65.89 Aligned_cols=47 Identities=32% Similarity=0.390 Sum_probs=38.1
Q ss_pred HHHHHh-cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 217 IKELLC-TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 217 i~~vl~-~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
++.+|. --...++.+|.||||||||+++..++..+...|.+++..+-
T Consensus 8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~ 55 (218)
T cd01394 8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT 55 (218)
T ss_pred HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 444553 22347899999999999999999999999999999988753
No 213
>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=94.46 E-value=0.072 Score=64.17 Aligned_cols=43 Identities=16% Similarity=0.288 Sum_probs=35.0
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHH
Q 000053 225 SGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVA 267 (2576)
Q Consensus 225 ~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~A 267 (2576)
..+..-+|+||||||||+++..+...+...+.+++.+..++..
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~ 78 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELA 78 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHH
Confidence 3467899999999999999999998888778787776655443
No 214
>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=94.44 E-value=0.064 Score=66.59 Aligned_cols=51 Identities=16% Similarity=0.156 Sum_probs=43.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecChHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
..+.+|.||||+|||+++..++..++.. |.+|+..+.-. ..++++.|+...
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~-~~~~~~~r~~~~ 81 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE-PVVRTARRLLGQ 81 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc-CHHHHHHHHHHH
Confidence 7799999999999999999999999887 99999998765 446677887654
No 215
>PLN03025 replication factor C subunit; Provisional
Probab=94.44 E-value=0.049 Score=69.34 Aligned_cols=26 Identities=42% Similarity=0.632 Sum_probs=23.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
-|++||||||||+++..+...+...+
T Consensus 37 lll~Gp~G~GKTtla~~la~~l~~~~ 62 (319)
T PLN03025 37 LILSGPPGTGKTTSILALAHELLGPN 62 (319)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhccc
Confidence 68999999999999999998887654
No 216
>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=94.41 E-value=0.076 Score=64.75 Aligned_cols=49 Identities=16% Similarity=0.160 Sum_probs=42.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecChHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
..+.+|.||||||||+.+..++..++.. +.+++.++.=..+- +++.|+.
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~-~~~~r~~ 62 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKE-QLLQRLL 62 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHH-HHHHHHH
Confidence 5699999999999999999999999988 99999999876555 4556665
No 217
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=94.40 E-value=0.088 Score=60.68 Aligned_cols=62 Identities=16% Similarity=0.234 Sum_probs=47.4
Q ss_pred CCCCHHHHHhhc--------C--CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhc
Q 000053 1068 FEVTDEQLDMIL--------F--PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTER 1137 (2576)
Q Consensus 1068 f~Lt~EQ~~iI~--------~--~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~ 1137 (2576)
++|.+.|.+++. . .+..+|.|+.|||||.+++.-+.++ .
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l---------------------------~---- 50 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILEL---------------------------A---- 50 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHH---------------------------H----
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcc---------------------------c----
Confidence 578899999982 1 3578999999999999999766321 0
Q ss_pred ccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1138 VILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1138 ~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
.++++++.+..++.+..+.+...
T Consensus 51 --~~~l~~~p~~~l~~Q~~~~~~~~ 73 (184)
T PF04851_consen 51 --RKVLIVAPNISLLEQWYDEFDDF 73 (184)
T ss_dssp --CEEEEEESSHHHHHHHHHHHHHH
T ss_pred --cceeEecCHHHHHHHHHHHHHHh
Confidence 28999999999999988877443
No 218
>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=94.40 E-value=0.046 Score=67.82 Aligned_cols=37 Identities=30% Similarity=0.312 Sum_probs=31.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.+-++.||||+|||||++.+...+...|++|++++-
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~ 108 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAG 108 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeC
Confidence 4566667999999999999999999888999987763
No 219
>PRK04328 hypothetical protein; Provisional
Probab=94.40 E-value=0.065 Score=65.79 Aligned_cols=58 Identities=24% Similarity=0.244 Sum_probs=44.0
Q ss_pred HHHHHhc-CCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 217 IKELLCT-DSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 217 i~~vl~~-~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
+..+|.- -...++.+|.||||||||+....++..-++.|.+++.++.....- ++.+++
T Consensus 12 LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~-~i~~~~ 70 (249)
T PRK04328 12 MDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPV-QVRRNM 70 (249)
T ss_pred HHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHH-HHHHHH
Confidence 4445543 234889999999999999999999999889999999998655443 344443
No 220
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.34 E-value=0.071 Score=64.77 Aligned_cols=49 Identities=22% Similarity=0.198 Sum_probs=40.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
..++.+|.||||||||+.+..++...++.|.+++.++.-... +++..++
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~-~~~~~~~ 72 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTS-KSYLKQM 72 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCH-HHHHHHH
Confidence 488999999999999999999999988899999999886543 4454444
No 221
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=94.34 E-value=0.048 Score=67.37 Aligned_cols=43 Identities=30% Similarity=0.248 Sum_probs=39.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAI 268 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AV 268 (2576)
..++.+|.||||||||..+...+...+..|.+++.+|..-.+-
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~ 64 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPE 64 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHH
Confidence 3789999999999999999999999999999999998765554
No 222
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=94.33 E-value=0.076 Score=64.20 Aligned_cols=40 Identities=13% Similarity=0.209 Sum_probs=33.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
....-+|+||||||||+.+..+...+...+.++..+....
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~ 80 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAAS 80 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHH
Confidence 3567899999999999999999998888888777776543
No 223
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=94.31 E-value=1.5 Score=48.86 Aligned_cols=119 Identities=12% Similarity=0.197 Sum_probs=80.2
Q ss_pred CHHHHHHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH---HhCcHH
Q 000053 1813 FLAECLDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR---AFHSMD 1889 (2576)
Q Consensus 1813 d~~kAi~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k---~~~~~e 1889 (2576)
+.++.|..+.+.+....++.+++..-....++. ......++.. .+. +....+++++ ..-+.+
T Consensus 9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~----------~~~~~li~ly----~~~-~~~~ll~~l~~~~~~yd~~ 73 (140)
T smart00299 9 DVSEVVELFEKRNLLEELIPYLESALKLNSENP----------ALQTKLIELY----AKY-DPQKEIERLDNKSNHYDIE 73 (140)
T ss_pred CHHHHHHHHHhCCcHHHHHHHHHHHHccCccch----------hHHHHHHHHH----HHH-CHHHHHHHHHhccccCCHH
Confidence 355666666666677777777774332221110 1111222332 222 3455667766 344677
Q ss_pred HHHHHHHhcCCHHHHHHHHHhccCHHHHHHHHHHc-CCHHHHHHHHHHcCCHHHHHHH
Q 000053 1890 LIRNFLNSKGCFDELLVLEEESESFMDAANIARLR-GDILRTVDLLQKVGNFKEACNL 1946 (2576)
Q Consensus 1890 ~a~~~l~~~~~~dea~ell~~~g~feeAa~ia~~~-G~~~eA~kly~~aG~~~eA~kl 1946 (2576)
.+.+++.+++.+++++-++...|++.+|.+++..+ ++++.|.+...+.++++-..++
T Consensus 74 ~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~ 131 (140)
T smart00299 74 KVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEV 131 (140)
T ss_pred HHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHH
Confidence 78899999999999999999999999999999887 8899999999988887655543
No 224
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=94.29 E-value=1.3 Score=60.62 Aligned_cols=88 Identities=17% Similarity=0.190 Sum_probs=56.9
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCH
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEY 1772 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~ 1772 (2576)
+|+.++-+|++++|.+.+...= ..+|. +-..|...|.+||..|+.++|..++..
T Consensus 145 eAN~lfarg~~eeA~~i~~EvI---------------------kqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~ll---- 198 (895)
T KOG2076|consen 145 EANNLFARGDLEEAEEILMEVI---------------------KQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLL---- 198 (895)
T ss_pred HHHHHHHhCCHHHHHHHHHHHH---------------------HhCcc-chhhHHHHHHHHHHcccHHHHHHHHHH----
Confidence 4666888899999988877311 11111 122467788888888888888766653
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1773 ERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYAR 1810 (2576)
Q Consensus 1773 ~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~k 1810 (2576)
|+-+ +..+.+.|..+|+..++.|++..|.-+|.+
T Consensus 199 --AAHL--~p~d~e~W~~ladls~~~~~i~qA~~cy~r 232 (895)
T KOG2076|consen 199 --AAHL--NPKDYELWKRLADLSEQLGNINQARYCYSR 232 (895)
T ss_pred --HHhc--CCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence 3322 112346777788888888877777777665
No 225
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=94.28 E-value=0.085 Score=57.17 Aligned_cols=52 Identities=13% Similarity=0.223 Sum_probs=41.0
Q ss_pred CEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1083 STFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1083 ~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
.++|.|++|||||++++.-+...... ....++++++.++.++.+..+.+...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~----------------------------~~~~~~lv~~p~~~l~~~~~~~~~~~ 53 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS----------------------------LKGGQVLVLAPTRELANQVAERLKEL 53 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc----------------------------ccCCCEEEEcCcHHHHHHHHHHHHHH
Confidence 47899999999999999988532110 12379999999999999998877765
No 226
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=94.27 E-value=2.1 Score=57.75 Aligned_cols=21 Identities=14% Similarity=-0.039 Sum_probs=19.2
Q ss_pred HHHHHHHHhhcHHHHHHHHHH
Q 000053 1692 FVCLWLFYEQNYEMATICFEK 1712 (2576)
Q Consensus 1692 ~~~~~l~~~~~ye~A~k~f~r 1712 (2576)
..|++++..|++++|.+.|+.
T Consensus 43 ~rA~ll~kLg~~~eA~~~y~~ 63 (517)
T PF12569_consen 43 KRAELLLKLGRKEEAEKIYRE 63 (517)
T ss_pred HHHHHHHHcCCHHHHHHHHHH
Confidence 568889999999999999997
No 227
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=94.23 E-value=0.049 Score=71.52 Aligned_cols=37 Identities=19% Similarity=0.275 Sum_probs=33.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.+-++.||||+|||||++.+...|...|++|++++.
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~ 131 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA 131 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC
Confidence 6788999999999999999999999888999887765
No 228
>PRK10867 signal recognition particle protein; Provisional
Probab=94.20 E-value=0.048 Score=71.40 Aligned_cols=37 Identities=32% Similarity=0.398 Sum_probs=33.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~Ap 263 (2576)
+.+-++.||||+|||||++.+...|... |++|++++.
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~ 137 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA 137 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc
Confidence 6788999999999999999999999888 898877665
No 229
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=94.17 E-value=2 Score=61.38 Aligned_cols=25 Identities=8% Similarity=0.178 Sum_probs=19.3
Q ss_pred hhhh--HHHHHHHhhhccccCcccccc
Q 000053 2342 HASH--VWKFYRALCDTYEANWRRVDY 2366 (2576)
Q Consensus 2342 ~~~~--~~~~~~~~~~~~~~~~~~~~~ 2366 (2576)
.+++ .|++.+.+..+|.+.|.+.=|
T Consensus 721 ~~~y~~~~~~~~~~~~~~~~~~~~~~Y 747 (765)
T PRK10049 721 QLGYGQRISWNDVIDAGATLRWDKRPY 747 (765)
T ss_pred eeeeeeEEEEccceeeeeeeeecCCCC
Confidence 4555 788888999999999987533
No 230
>PRK13342 recombination factor protein RarA; Reviewed
Probab=94.16 E-value=0.091 Score=69.36 Aligned_cols=53 Identities=21% Similarity=0.431 Sum_probs=35.5
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHH
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELAS 273 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~ 273 (2576)
+..++.....+ --+++||||||||+++..+...+ +.+...++++...++.+..
T Consensus 27 L~~~i~~~~~~-~ilL~GppGtGKTtLA~~ia~~~---~~~~~~l~a~~~~~~~ir~ 79 (413)
T PRK13342 27 LRRMIEAGRLS-SMILWGPPGTGKTTLARIIAGAT---DAPFEALSAVTSGVKDLRE 79 (413)
T ss_pred HHHHHHcCCCc-eEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccccHHHHHH
Confidence 44555544434 46789999999999998775543 5666666666666655543
No 231
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.034 Score=67.49 Aligned_cols=58 Identities=29% Similarity=0.491 Sum_probs=37.1
Q ss_pred EeecccchhhHhhhcccCCCHH--HHHHHH-----h---cCC----CCCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 194 FLINRTSNRRIWNSLHMKGNLK--IIKELL-----C---TDS----GATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 194 ~L~N~~t~~ri~~~l~~~~~~~--~i~~vl-----~---~~~----~~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
.+..-+++--+|..|=.+.|.. +..-+. . -++ -+.+-|+.||||||||+.-.+|.-.|
T Consensus 130 w~LPa~eF~glWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkL 201 (423)
T KOG0744|consen 130 WYLPAAEFDGLWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKL 201 (423)
T ss_pred eeccchhhhhhHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhh
Confidence 3456678889999986554421 111111 1 011 18999999999999999877764443
No 232
>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=94.09 E-value=0.037 Score=68.42 Aligned_cols=28 Identities=32% Similarity=0.484 Sum_probs=22.3
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
.--+++||||||||+++..+...+...+
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHhcC
Confidence 3458999999999999988877765443
No 233
>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=94.00 E-value=0.077 Score=69.13 Aligned_cols=45 Identities=27% Similarity=0.359 Sum_probs=36.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec-Ch--HHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP-TI--VAIKEL 271 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap-TN--~AVd~V 271 (2576)
+.+-++.||||+|||||++.|...|...|++|++++. |. .|++++
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQL 147 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQL 147 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHH
Confidence 5788999999999999999999988888999887765 32 455544
No 234
>PHA00729 NTP-binding motif containing protein
Probab=93.94 E-value=0.06 Score=64.28 Aligned_cols=24 Identities=25% Similarity=0.387 Sum_probs=21.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
--+|.||||||||+++..+...+.
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHH
Confidence 478999999999999999988764
No 235
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=93.93 E-value=0.094 Score=65.07 Aligned_cols=45 Identities=33% Similarity=0.352 Sum_probs=39.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec---ChHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP---TIVAIKEL 271 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap---TN~AVd~V 271 (2576)
+.|-|+-|..||||||||+-|...|...|++||+.|- .-.|++++
T Consensus 139 p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL 186 (340)
T COG0552 139 PFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQL 186 (340)
T ss_pred cEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHH
Confidence 7899999999999999999999999999999999876 33455544
No 236
>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=93.91 E-value=0.088 Score=66.38 Aligned_cols=52 Identities=13% Similarity=0.045 Sum_probs=41.3
Q ss_pred HHHHHHHHh--cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 214 LKIIKELLC--TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 214 ~~~i~~vl~--~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
..-++.+|. --...++++|.||||||||++...++....+.|.+++.+..-+
T Consensus 40 i~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~ 93 (321)
T TIGR02012 40 SLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH 93 (321)
T ss_pred CHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence 344555554 2334789999999999999999999999999999988776654
No 237
>PRK13768 GTPase; Provisional
Probab=93.89 E-value=0.061 Score=66.13 Aligned_cols=35 Identities=20% Similarity=0.314 Sum_probs=31.9
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
-+.+|+||||+||||++..+...+...|++|+++.
T Consensus 3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 3 YIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 36789999999999999999999999999999875
No 238
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.86 E-value=0.22 Score=67.01 Aligned_cols=34 Identities=26% Similarity=0.320 Sum_probs=26.5
Q ss_pred HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 221 LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 221 l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
+..+..+..-|++||||||||+++-.+...|...
T Consensus 30 i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 30 LRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred HHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 4444445556999999999999999888888743
No 239
>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=93.81 E-value=0.067 Score=71.93 Aligned_cols=62 Identities=23% Similarity=0.176 Sum_probs=47.1
Q ss_pred HHHHHHHHhcC-CCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 214 LKIIKELLCTD-SGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 214 ~~~i~~vl~~~-~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
.+-++.+|.-. ...++.||-||||||||++....+...++.|.+++.++.= -...++..|..
T Consensus 249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~e-Es~~~i~~~~~ 311 (484)
T TIGR02655 249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYE-ESRAQLLRNAY 311 (484)
T ss_pred hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEee-CCHHHHHHHHH
Confidence 34455556542 2389999999999999999999999999999999999853 34445555543
No 240
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=93.77 E-value=0.072 Score=67.47 Aligned_cols=37 Identities=27% Similarity=0.277 Sum_probs=32.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.+.++-||||.|||||++.+...+...|.+|++++.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~ 150 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAG 150 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence 5688889999999999999999999888889887763
No 241
>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=93.76 E-value=0.079 Score=65.58 Aligned_cols=44 Identities=18% Similarity=0.151 Sum_probs=29.8
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+++.++.....+.--+++||||||||+++..+...+ |.+++.+.
T Consensus 10 l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l---g~~~~~i~ 53 (262)
T TIGR02640 10 VTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR---DRPVMLIN 53 (262)
T ss_pred HHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh---CCCEEEEe
Confidence 444455544455567899999999999998886533 55544443
No 242
>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=93.75 E-value=0.12 Score=62.68 Aligned_cols=48 Identities=19% Similarity=0.097 Sum_probs=37.9
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASR 274 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~R 274 (2576)
..++.+|.||||||||+++..++...+..|.+++.++.--. .+++..+
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~-~~~i~~~ 66 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES-RESIIRQ 66 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC-HHHHHHH
Confidence 47899999999999999999998888888989888876333 2444444
No 243
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=93.74 E-value=0.049 Score=68.13 Aligned_cols=28 Identities=32% Similarity=0.453 Sum_probs=22.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCC
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKF 256 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~ 256 (2576)
--+++||||||||+++..+...+...+.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~ 87 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLGY 87 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence 4789999999999999888777766543
No 244
>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=93.73 E-value=0.13 Score=61.89 Aligned_cols=50 Identities=16% Similarity=0.212 Sum_probs=34.9
Q ss_pred HHHHHHHHhcCCC-CCeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEec
Q 000053 214 LKIIKELLCTDSG-ATVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 263 (2576)
Q Consensus 214 ~~~i~~vl~~~~~-~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~Ap 263 (2576)
+..++.+...... .+.-+||||+|||||+++.++...+.+. +.+|+.+..
T Consensus 20 ~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~ 72 (219)
T PF00308_consen 20 YAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA 72 (219)
T ss_dssp HHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred HHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence 3445555444332 3456999999999999999999888864 677776654
No 245
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=93.69 E-value=3 Score=60.60 Aligned_cols=172 Identities=10% Similarity=-0.006 Sum_probs=91.0
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHc---
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDM--- 1769 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~ka--- 1769 (2576)
+|..+...|+|++|..+|+++....... ...+.+... .+...+.+++...|.+|.+.- -........+....
T Consensus 515 lA~al~~~Gr~eeAi~~~rka~~~~p~~-~a~~~la~a--ll~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~ 589 (987)
T PRK09782 515 VAYQAYQVEDYATALAAWQKISLHDMSN-EDLLAAANT--AQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIP 589 (987)
T ss_pred HHHHHHHCCCHHHHHHHHHHHhccCCCc-HHHHHHHHH--HHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhC
Confidence 3444678999999999999865421110 001111111 122334455555555554421 11122222222233
Q ss_pred CCHHHHHHHHHHhC----CchHHHHHHHHHHHcCCHHHHHHHHHHcCCHH--------HHHHHHHcCCCHHHHHHHHHhh
Q 000053 1770 GEYERAGTIYLERC----EEPELEKAGECFSLAGCYKLAADVYARGSFLA--------ECLDVCSKGKLFDIGLQYISYW 1837 (2576)
Q Consensus 1770 g~~~~A~ely~~~~----~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~--------kAi~~y~k~k~fd~A~~l~r~~ 1837 (2576)
|+++.|...|.+.. +...+...|..+.+.|++++|.+.|.++=..+ ..-.++.+.+.+++|+..+++.
T Consensus 590 Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~A 669 (987)
T PRK09782 590 GQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERA 669 (987)
T ss_pred CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 77777777666541 23456677788888888888888887733211 1112455667778887777732
Q ss_pred hhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1838 KQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1838 ~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
-+..+.+ ......-+..+.+.|++..|.+.++
T Consensus 670 L~l~P~~--------------~~a~~nLA~al~~lGd~~eA~~~l~ 701 (987)
T PRK09782 670 HKGLPDD--------------PALIRQLAYVNQRLDDMAATQHYAR 701 (987)
T ss_pred HHhCCCC--------------HHHHHHHHHHHHHCCCHHHHHHHHH
Confidence 2222222 1123334455677777777776554
No 246
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=93.68 E-value=0.089 Score=68.23 Aligned_cols=34 Identities=24% Similarity=0.353 Sum_probs=27.0
Q ss_pred CCCHHHHHhhc---------CCCCEEEEecCCccHHHHHHHHH
Q 000053 1069 EVTDEQLDMIL---------FPRSTFILGRSGTGKTTVLIMKL 1102 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~---------~~~~~lVlG~AGTGKTtvLl~Ri 1102 (2576)
.||+||+.+.+ .+..++|.|+||||||+++-.-.
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~ 43 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAII 43 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHH
Confidence 48999999863 24478999999999999875544
No 247
>PRK06851 hypothetical protein; Provisional
Probab=93.67 E-value=0.1 Score=66.80 Aligned_cols=59 Identities=20% Similarity=0.286 Sum_probs=44.9
Q ss_pred CCCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE--EecChHHHHHH
Q 000053 211 KGNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV--CTPTIVAIKEL 271 (2576)
Q Consensus 211 ~~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv--~ApTN~AVd~V 271 (2576)
.|-.+.+..++. ....+-+|.||||||||+++..+...+..+|.+|.+ |+.-+..+|-|
T Consensus 200 ~G~~s~~~~l~~--~~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dPdslD~v 260 (367)
T PRK06851 200 KGAVDFVPSLTE--GVKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDPDSLDMV 260 (367)
T ss_pred CcHHhhHHhHhc--ccceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCcceE
Confidence 344666667763 337899999999999999999999999999998765 45555555533
No 248
>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=93.64 E-value=0.097 Score=66.07 Aligned_cols=47 Identities=21% Similarity=0.292 Sum_probs=37.4
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+++.+........+-.|.||||+|||+++..+...+...|.+|.+++
T Consensus 23 ~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 23 LLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred HHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 33333333344778888899999999999999999999999998876
No 249
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=93.62 E-value=0.098 Score=60.62 Aligned_cols=36 Identities=25% Similarity=0.244 Sum_probs=23.1
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE
Q 000053 225 SGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 260 (2576)
Q Consensus 225 ~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv 260 (2576)
..+++.+|.||||||||+++..++..+...+.-++.
T Consensus 22 ~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~ 57 (185)
T PF13191_consen 22 GSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVIS 57 (185)
T ss_dssp -----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEE
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEE
Confidence 448899999999999999999988888877443433
No 250
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.59 E-value=4.7 Score=54.59 Aligned_cols=85 Identities=19% Similarity=0.153 Sum_probs=58.2
Q ss_pred HHHHHHcCChHHHHHHHHHhCcHHHH-----HHHHHhcCCHHHHHH----------------HHHhccCHHHHHHHHHHc
Q 000053 1866 ALHFHKLNDNKSMMKFVRAFHSMDLI-----RNFLNSKGCFDELLV----------------LEEESESFMDAANIARLR 1924 (2576)
Q Consensus 1866 a~~f~klgd~~~A~~~~k~~~~~e~a-----~~~l~~~~~~dea~e----------------ll~~~g~feeAa~ia~~~ 1924 (2576)
...+...|..+.|.+..+.|...|.- ..-|.+.+.|+|..+ ...+.|+.+||.+-.-+-
T Consensus 691 v~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskksPIGy~PFVe~c~~~~n~~EA~KYiprv 770 (829)
T KOG2280|consen 691 VTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKSPIGYLPFVEACLKQGNKDEAKKYIPRV 770 (829)
T ss_pred HHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCCCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence 33456678888887777777665553 222334455555554 445778888888877776
Q ss_pred CCHHHHHHHHHHcCCHHHHHHHHHHH
Q 000053 1925 GDILRTVDLLQKVGNFKEACNLTLNY 1950 (2576)
Q Consensus 1925 G~~~eA~kly~~aG~~~eA~klll~~ 1950 (2576)
+...+=+++|.+.|++.+|..++.++
T Consensus 771 ~~l~ekv~ay~~~~~~~eAad~A~~~ 796 (829)
T KOG2280|consen 771 GGLQEKVKAYLRVGDVKEAADLAAEH 796 (829)
T ss_pred CChHHHHHHHHHhccHHHHHHHHHHh
Confidence 66668888888999999998877664
No 251
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.55 E-value=2.2 Score=58.16 Aligned_cols=117 Identities=12% Similarity=0.125 Sum_probs=74.3
Q ss_pred HHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAG 1776 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ 1776 (2576)
++....|+.|....+..+.. ++.-++.+.++|.++-+-|+++.|...|.+.=.+-+-.
T Consensus 344 L~kK~ly~~Ai~LAk~~~~d----------------------~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s 401 (933)
T KOG2114|consen 344 LFKKNLYKVAINLAKSQHLD----------------------EDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPS 401 (933)
T ss_pred HHHhhhHHHHHHHHHhcCCC----------------------HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChH
Confidence 55577888888887765553 33334566888898899999999999998754443333
Q ss_pred HHHHHhCCchHHHHHHHHHHH--------cCCHHHHHHHHHHcCCHHHHHHHHHcCC------CHHHHHHHHH
Q 000053 1777 TIYLERCEEPELEKAGECFSL--------AGCYKLAADVYARGSFLAECLDVCSKGK------LFDIGLQYIS 1835 (2576)
Q Consensus 1777 ely~~~~~~~~~~~aAe~~e~--------~g~~~eAAelY~kagd~~kAi~~y~k~k------~fd~A~~l~r 1835 (2576)
++..+--+.+.+++.+.+++. ..+-.--..+|.|.+|.++.-+...+.. .++.|+++++
T Consensus 402 ~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr 474 (933)
T KOG2114|consen 402 EVIKKFLDAQRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILR 474 (933)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHH
Confidence 333332346777777777776 2223333466777777666655544433 3566666666
No 252
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=93.52 E-value=0.11 Score=72.18 Aligned_cols=52 Identities=19% Similarity=0.462 Sum_probs=31.5
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHH
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKEL 271 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V 271 (2576)
.+..++.....+++ ++|||||||||+++..+...+ +.+.+.+..+...++.+
T Consensus 42 ~L~~~i~~~~~~sl-LL~GPpGtGKTTLA~aIA~~~---~~~f~~lna~~~~i~di 93 (725)
T PRK13341 42 LLRRAIKADRVGSL-ILYGPPGVGKTTLARIIANHT---RAHFSSLNAVLAGVKDL 93 (725)
T ss_pred HHHHHHhcCCCceE-EEECCCCCCHHHHHHHHHHHh---cCcceeehhhhhhhHHH
Confidence 34444555544555 999999999999888776543 33444443333444433
No 253
>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=93.51 E-value=0.11 Score=65.53 Aligned_cols=52 Identities=13% Similarity=0.086 Sum_probs=41.7
Q ss_pred HHHHHHHh--cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 215 KIIKELLC--TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 215 ~~i~~vl~--~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
.-++.+|. --...+++.|.||||||||++...++....+.|.+++.+.+-+.
T Consensus 41 ~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~ 94 (325)
T cd00983 41 LSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHA 94 (325)
T ss_pred HHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECcccc
Confidence 44555554 22347899999999999999999999999999999998886554
No 254
>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=93.51 E-value=0.081 Score=69.34 Aligned_cols=37 Identities=32% Similarity=0.355 Sum_probs=32.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH-hCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll-~~~~rVLv~Ap 263 (2576)
+.+.++.||||+|||||++.+...|. +.|.+|++++.
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~ 136 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVAC 136 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEec
Confidence 67999999999999999999999987 57888877665
No 255
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.49 E-value=0.21 Score=63.55 Aligned_cols=57 Identities=21% Similarity=0.201 Sum_probs=36.2
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHH
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
++..+.....+.+-+++||||||||+++..+...+ +..++.+.++..-++.+-+.+.
T Consensus 33 l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~~~~i~~~~~~~~~i~~~l~ 89 (316)
T PHA02544 33 FKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAEVLFVNGSDCRIDFVRNRLT 89 (316)
T ss_pred HHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---CccceEeccCcccHHHHHHHHH
Confidence 33334445557788889999999999998886654 4555555554422444433343
No 256
>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=93.49 E-value=0.096 Score=61.93 Aligned_cols=37 Identities=27% Similarity=0.424 Sum_probs=23.3
Q ss_pred CEEEEEcCCCCChhHHhhhcccc-CcceEEEecCCCCC
Q 000053 580 NFLVIDEAAQLKESESTIPLQLS-GIKHAVLFGDECQL 616 (2576)
Q Consensus 580 D~VIIDEAsQ~~e~e~lipL~l~-~~k~vILVGD~~QL 616 (2576)
.+||||||+.++..++-..+... ...++|+.||+.|.
T Consensus 121 ~~iIvDEaQN~t~~~~k~ilTR~g~~skii~~GD~~Q~ 158 (205)
T PF02562_consen 121 AFIIVDEAQNLTPEELKMILTRIGEGSKIIITGDPSQI 158 (205)
T ss_dssp EEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE-----
T ss_pred eEEEEecccCCCHHHHHHHHcccCCCcEEEEecCceee
Confidence 69999999999988877777643 35799999999995
No 257
>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=93.48 E-value=0.11 Score=53.14 Aligned_cols=34 Identities=29% Similarity=0.332 Sum_probs=31.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+.+|.|.+|+|||+++..+...|.+.|.+|+++.
T Consensus 1 ~~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 1 VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 3578999999999999999999999999999988
No 258
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=93.48 E-value=0.22 Score=69.20 Aligned_cols=53 Identities=17% Similarity=0.343 Sum_probs=46.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
-.||+||.|||||.+....+...+..|.+++++|||..-+.++.+++.+++..
T Consensus 258 ~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~ 310 (630)
T TIGR00643 258 NRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAP 310 (630)
T ss_pred cEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcc
Confidence 47999999999999988777777788999999999999999999999887643
No 259
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=93.36 E-value=0.16 Score=70.71 Aligned_cols=68 Identities=18% Similarity=0.276 Sum_probs=52.3
Q ss_pred CCCCCCCHHHHHhhcC-------C--CCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhh
Q 000053 1065 DLPFEVTDEQLDMILF-------P--RSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKT 1135 (2576)
Q Consensus 1065 d~~f~Lt~EQ~~iI~~-------~--~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~ 1135 (2576)
..||+||+.|+++|.. + -+.+|.|+.|||||.+...-++.. + .
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~-----~-~---------------------- 282 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAA-----I-E---------------------- 282 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHH-----H-H----------------------
Confidence 3789999999999931 1 257999999999999987665321 1 0
Q ss_pred hcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1136 ERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1136 ~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
...++++++.|+.||.++.+.+.++
T Consensus 283 --~g~qvlilaPT~~LA~Q~~~~~~~l 307 (630)
T TIGR00643 283 --AGYQVALMAPTEILAEQHYNSLRNL 307 (630)
T ss_pred --cCCcEEEECCHHHHHHHHHHHHHHH
Confidence 1157899999999999998877765
No 260
>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=93.31 E-value=0.1 Score=70.21 Aligned_cols=48 Identities=25% Similarity=0.362 Sum_probs=43.7
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
|++||.|+|||.+...++...+..|+++|+++|+..=+.++.+++.+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~ 48 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYR 48 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 689999999999999888888999999999999999889998888754
No 261
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=93.30 E-value=0.15 Score=64.73 Aligned_cols=49 Identities=24% Similarity=0.303 Sum_probs=39.4
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
.+++.+......+-+--|.||||+||||++..++..+...|.+|.+++-
T Consensus 44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 4555554444456788899999999999999999999988999887764
No 262
>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=93.28 E-value=0.1 Score=56.27 Aligned_cols=28 Identities=39% Similarity=0.637 Sum_probs=22.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEE
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTL 259 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVL 259 (2576)
+-+|.||||+||||++..|...+ |..++
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~---~~~~i 28 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL---GFPVI 28 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH---TCEEE
T ss_pred CEEEECCCCCCHHHHHHHHHHHH---CCeEE
Confidence 35799999999999999887766 55554
No 263
>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=93.28 E-value=0.14 Score=66.26 Aligned_cols=50 Identities=24% Similarity=0.355 Sum_probs=42.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.+|+||+|+|||.+....+...+. .+.++++++||...+.++.+++.++.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f 53 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELF 53 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHh
Confidence 589999999999998766665553 36799999999999999999998764
No 264
>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=93.28 E-value=0.15 Score=61.63 Aligned_cols=49 Identities=31% Similarity=0.378 Sum_probs=36.8
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
..+++.+........+-=|.||||.||||++..++..+...|+||-|.|
T Consensus 16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA 64 (266)
T PF03308_consen 16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA 64 (266)
T ss_dssp HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence 4666777665544556668999999999999999999999999987775
No 265
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.24 E-value=0.77 Score=61.10 Aligned_cols=77 Identities=19% Similarity=0.165 Sum_probs=46.4
Q ss_pred HHHhhcHHHHHHHHHHcCChhH------HHHH-------HHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTYW------EGRS-------KASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAA 1763 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~~------~~l~-------~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa 1763 (2576)
+|...+|++|.++|+.+.+..- ...+ +-..|..-++.|...+|.. ...|=-+|..|--.++++.|+
T Consensus 363 yFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~s-PesWca~GNcfSLQkdh~~Ai 441 (638)
T KOG1126|consen 363 YFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNS-PESWCALGNCFSLQKDHDTAI 441 (638)
T ss_pred HHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCC-cHHHHHhcchhhhhhHHHHHH
Confidence 7889999999999999876211 1111 1112223344444433321 123356777777778888888
Q ss_pred HHHHHcCCHHH
Q 000053 1764 KCFFDMGEYER 1774 (2576)
Q Consensus 1764 ~~y~kag~~~~ 1774 (2576)
+||.++-+.+.
T Consensus 442 k~f~RAiQldp 452 (638)
T KOG1126|consen 442 KCFKRAIQLDP 452 (638)
T ss_pred HHHHHhhccCC
Confidence 88877665554
No 266
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.19 E-value=0.091 Score=69.96 Aligned_cols=33 Identities=33% Similarity=0.362 Sum_probs=25.1
Q ss_pred HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 221 LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 221 l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
+.....++.-|+|||||||||+++..+...+..
T Consensus 30 i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 30 LKKNSISHAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred HHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 333333455699999999999999988777764
No 267
>PHA02624 large T antigen; Provisional
Probab=93.18 E-value=0.12 Score=69.00 Aligned_cols=46 Identities=24% Similarity=0.193 Sum_probs=33.5
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
.+.+++..+...+-+++||||||||+.+.+|+..|- |.-+=|-+||
T Consensus 421 lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~--G~vlsVNsPt 466 (647)
T PHA02624 421 LKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCG--GKSLNVNCPP 466 (647)
T ss_pred HHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcC--CeEEEeeCCc
Confidence 444455556688999999999999999999877662 4444455566
No 268
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.18 E-value=0.17 Score=66.35 Aligned_cols=29 Identities=45% Similarity=0.684 Sum_probs=24.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
++..+|+||||||||+++..++..+-..+
T Consensus 55 ~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 55 PLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 45579999999999999999998886654
No 269
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=93.14 E-value=0.19 Score=70.35 Aligned_cols=68 Identities=21% Similarity=0.325 Sum_probs=53.4
Q ss_pred CCCCCCHHHHHhhcC---------CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhh
Q 000053 1066 LPFEVTDEQLDMILF---------PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTE 1136 (2576)
Q Consensus 1066 ~~f~Lt~EQ~~iI~~---------~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~ 1136 (2576)
+||+||+.|+++|.. +.+.++.|+.|||||.+...-++.. + .
T Consensus 258 l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~-----~-~----------------------- 308 (681)
T PRK10917 258 LPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAA-----I-E----------------------- 308 (681)
T ss_pred CCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHH-----H-H-----------------------
Confidence 789999999999931 2368999999999999988766421 1 0
Q ss_pred cccccEEEEEcCHHHHHHHHHHHHhhh
Q 000053 1137 RVILRQLFVTVSPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1137 ~~~~riL~vTfS~~la~eik~ri~~l~ 1163 (2576)
...++++++.|+.||.++.+.+.++.
T Consensus 309 -~g~q~lilaPT~~LA~Q~~~~l~~l~ 334 (681)
T PRK10917 309 -AGYQAALMAPTEILAEQHYENLKKLL 334 (681)
T ss_pred -cCCeEEEEeccHHHHHHHHHHHHHHH
Confidence 12578999999999999988777653
No 270
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=93.14 E-value=10 Score=48.37 Aligned_cols=55 Identities=13% Similarity=0.115 Sum_probs=38.6
Q ss_pred HhCcHHHHHHHHHhcCCHHHHHHHHHhccCHHHHHHHHHHcCCHHHHHHHHHHcCC
Q 000053 1884 AFHSMDLIRNFLNSKGCFDELLVLEEESESFMDAANIARLRGDILRTVDLLQKVGN 1939 (2576)
Q Consensus 1884 ~~~~~e~a~~~l~~~~~~dea~ell~~~g~feeAa~ia~~~G~~~eA~kly~~aG~ 1939 (2576)
..+...+|..|..+... ++-+++++..|.|.+|++.|.++++.+.=..++.+++.
T Consensus 249 ~~~~~~eA~~yI~k~~~-~~rv~~y~~~~~~~~A~~~A~~~kd~~~L~~i~~~~~~ 303 (319)
T PF04840_consen 249 KYGNKKEASKYIPKIPD-EERVEMYLKCGDYKEAAQEAFKEKDIDLLKQILKRCPG 303 (319)
T ss_pred HCCCHHHHHHHHHhCCh-HHHHHHHHHCCCHHHHHHHHHHcCCHHHHHHHHHHCCC
Confidence 34445555556666555 66777778888888888888888888777777777643
No 271
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=93.14 E-value=0.16 Score=71.09 Aligned_cols=53 Identities=19% Similarity=0.350 Sum_probs=47.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
-.|++||.|||||-+....+...+..|.++++.|||-.-+.++.+++.++...
T Consensus 284 ~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~ 336 (681)
T PRK10917 284 NRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEP 336 (681)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhh
Confidence 47999999999999998777777888999999999999999999999988644
No 272
>CHL00181 cbbX CbbX; Provisional
Probab=93.13 E-value=0.08 Score=66.26 Aligned_cols=35 Identities=31% Similarity=0.449 Sum_probs=26.6
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCC----eEEEEecC
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKF----RTLVCTPT 264 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~----rVLv~ApT 264 (2576)
-++.||||||||+++..+...+...|. .++.+..+
T Consensus 62 ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~ 100 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD 100 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH
Confidence 688999999999999999877765433 35655544
No 273
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=93.13 E-value=0.32 Score=65.18 Aligned_cols=90 Identities=22% Similarity=0.245 Sum_probs=60.9
Q ss_pred cccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1045 YSLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1045 ~~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
+.+++.++..+... +. -.+|+-|.++|.. ..++++.|+.|||||.+.+.-++........
T Consensus 6 l~l~~~l~~~l~~~--g~-----~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~~lpil~~l~~~~~---------- 68 (456)
T PRK10590 6 LGLSPDILRAVAEQ--GY-----REPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQP---------- 68 (456)
T ss_pred cCCCHHHHHHHHHC--CC-----CCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHHHHHHHhhhccc----------
Confidence 45677777776542 21 4689999999943 3489999999999999876665432110000
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
......+.+.|+++.|+.||.++.+.+..+
T Consensus 69 -----------~~~~~~~~~aLil~PtreLa~Qi~~~~~~~ 98 (456)
T PRK10590 69 -----------HAKGRRPVRALILTPTRELAAQIGENVRDY 98 (456)
T ss_pred -----------ccccCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 001122358999999999999998877765
No 274
>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=93.12 E-value=0.19 Score=59.36 Aligned_cols=60 Identities=25% Similarity=0.213 Sum_probs=44.3
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHH-HHHHHHHHhC----CCeEEEEecChHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTV-SMLLVILLQM----KFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktI-s~Ll~~Ll~~----~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
..++.+++ +.-.+|.+|+|+|||.+. ..++..+... +.++++++||..-+.++...+...
T Consensus 28 ~~~~~~~~----~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~ 92 (203)
T cd00268 28 RAIPPLLS----GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKL 92 (203)
T ss_pred HHHHHHhc----CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHH
Confidence 34444444 345899999999999884 4556666554 568999999999888887777654
No 275
>PRK11823 DNA repair protein RadA; Provisional
Probab=93.12 E-value=0.13 Score=68.19 Aligned_cols=61 Identities=20% Similarity=0.202 Sum_probs=45.3
Q ss_pred HHHHHHHHhc-CCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 214 LKIIKELLCT-DSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 214 ~~~i~~vl~~-~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
.+-++.+|.- -...++.+|.||||||||+++..++..+.+.+.+++.++.-.. ..++..|.
T Consensus 66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees-~~qi~~ra 127 (446)
T PRK11823 66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES-ASQIKLRA 127 (446)
T ss_pred cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc-HHHHHHHH
Confidence 3445555542 2337799999999999999999999999888999999886443 34555443
No 276
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.11 E-value=0.15 Score=65.16 Aligned_cols=46 Identities=22% Similarity=0.245 Sum_probs=37.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec-ChH--HHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP-TIV--AIKELA 272 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap-TN~--AVd~V~ 272 (2576)
+.+-.|-||+|+|||||++.|...+...|++|++++. |.. |++++.
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk 289 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQ 289 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHH
Confidence 4678999999999999999999999888999887765 443 555543
No 277
>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=93.03 E-value=0.08 Score=56.26 Aligned_cols=23 Identities=43% Similarity=0.729 Sum_probs=20.3
Q ss_pred EEEcCCCCChhHHHHHHHHHHHh
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.|+||||+|||+++..|+..++.
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l~~ 24 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDLLK 24 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH
Confidence 58999999999999998877774
No 278
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=93.00 E-value=0.091 Score=69.56 Aligned_cols=37 Identities=22% Similarity=0.329 Sum_probs=32.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
+--+|+||||||||+++.++...+...+.+++.++..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~ 178 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSE 178 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHH
Confidence 4568999999999999999999999889999877753
No 279
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=92.99 E-value=1.3 Score=56.55 Aligned_cols=134 Identities=16% Similarity=0.105 Sum_probs=76.6
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCChhH---HHHH-HHHHHHHH---------HhHhhcCChHHHHHHHHHHHHHHHHcCCH
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDTYW---EGRS-KASGLKAA---------ADRISSSNPLEARIILREAAKIFEAIGKV 1759 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~~~---~~l~-~A~~l~~~---------a~~l~~~~~~~a~~~~~eAA~~fe~~G~~ 1759 (2576)
+|+|.--.++-|.|...|+||=...- ..|. ..++..+- -+.-...+|...++ +.-.|+.|+-.+++
T Consensus 336 IaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRA-WYGLGQaYeim~Mh 414 (559)
T KOG1155|consen 336 IANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRA-WYGLGQAYEIMKMH 414 (559)
T ss_pred ehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHH-HhhhhHHHHHhcch
Confidence 45666678889999999999764221 1111 12222211 11112234444433 34567777777777
Q ss_pred HHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHH---cCCHH-----HHHHHHHcCCCHHHHH
Q 000053 1760 DSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYAR---GSFLA-----ECLDVCSKGKLFDIGL 1831 (2576)
Q Consensus 1760 ~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~k---agd~~-----kAi~~y~k~k~fd~A~ 1831 (2576)
--|.-.|.+ |.++-. .+...|...|+||++.++.++|..+|.+ +||.+ +...+|.+-+...+|+
T Consensus 415 ~YaLyYfqk------A~~~kP--nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa 486 (559)
T KOG1155|consen 415 FYALYYFQK------ALELKP--NDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAA 486 (559)
T ss_pred HHHHHHHHH------HHhcCC--CchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHH
Confidence 666654443 332200 2456799999999999999999999988 45542 2223344444444444
Q ss_pred HHHH
Q 000053 1832 QYIS 1835 (2576)
Q Consensus 1832 ~l~r 1835 (2576)
....
T Consensus 487 ~~ye 490 (559)
T KOG1155|consen 487 QYYE 490 (559)
T ss_pred HHHH
Confidence 4444
No 280
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=92.97 E-value=3.5 Score=48.49 Aligned_cols=174 Identities=13% Similarity=0.053 Sum_probs=78.6
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCCH--------HHH
Q 000053 1746 LREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSFL--------AEC 1817 (2576)
Q Consensus 1746 ~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~--------~kA 1817 (2576)
+...|..|...|++++|.++|.++ .+... .....+...|..+...|++++|.+.|.++-.. -..
T Consensus 34 ~~~la~~~~~~~~~~~A~~~~~~~------l~~~p--~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~ 105 (234)
T TIGR02521 34 RVQLALGYLEQGDLEVAKENLDKA------LEHDP--DDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNY 105 (234)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHH------HHhCc--ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHH
Confidence 344455555566666665555432 11100 01123344566666666666666666553211 112
Q ss_pred HHHHHcCCCHHHHHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHhCcHHHHHHHHHh
Q 000053 1818 LDVCSKGKLFDIGLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAFHSMDLIRNFLNS 1897 (2576)
Q Consensus 1818 i~~y~k~k~fd~A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~~~~e~a~~~l~~ 1897 (2576)
..+|...|.+++|.+.+++.-...... .. .......+..+.+.|++..|.+.+...-... ..
T Consensus 106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~ 167 (234)
T TIGR02521 106 GTFLCQQGKYEQAMQQFEQAIEDPLYP-----QP-------ARSLENAGLCALKAGDFDKAEKYLTRALQID------PQ 167 (234)
T ss_pred HHHHHHcccHHHHHHHHHHHHhccccc-----cc-------hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC------cC
Confidence 234455666666666666422210000 00 0111122344566777777766654321110 00
Q ss_pred c-CCHHHHHHHHHhccCHHHHHHHHHH-----cCC---HHHHHHHHHHcCCHHHHHH
Q 000053 1898 K-GCFDELLVLEEESESFMDAANIARL-----RGD---ILRTVDLLQKVGNFKEACN 1945 (2576)
Q Consensus 1898 ~-~~~dea~ell~~~g~feeAa~ia~~-----~G~---~~eA~kly~~aG~~~eA~k 1945 (2576)
. .-+.....++...|++++|..++.+ ... +...+.++...|++++|..
T Consensus 168 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 224 (234)
T TIGR02521 168 RPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQR 224 (234)
T ss_pred ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHH
Confidence 0 0111233444455555555444432 111 1245566667778777755
No 281
>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=92.94 E-value=0.16 Score=65.71 Aligned_cols=60 Identities=20% Similarity=0.201 Sum_probs=44.3
Q ss_pred HHHHHHHhc-CCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 215 KIIKELLCT-DSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 215 ~~i~~vl~~-~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
+-++.+|.- -...++.+|.||||+|||+++..++..+...+.+|+.++.... ..++..|.
T Consensus 69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs-~~qi~~Ra 129 (372)
T cd01121 69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES-PEQIKLRA 129 (372)
T ss_pred HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC-HHHHHHHH
Confidence 444555542 2236799999999999999999999999988899998876543 34454443
No 282
>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=92.91 E-value=0.12 Score=61.19 Aligned_cols=35 Identities=23% Similarity=0.432 Sum_probs=27.4
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEe
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCT 262 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~A 262 (2576)
++-+|.||+|+||||++..++..+... +.+|++.-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 578999999999999999988777654 44555543
No 283
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.87 E-value=0.12 Score=66.85 Aligned_cols=37 Identities=30% Similarity=0.437 Sum_probs=31.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH-HhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVIL-LQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~L-l~~~~rVLv~Ap 263 (2576)
+.+.+|.||||+|||||++.+...+ ...|.+|++++-
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~ 260 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT 260 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc
Confidence 4678899999999999999999765 577888877764
No 284
>PRK05580 primosome assembly protein PriA; Validated
Probab=92.84 E-value=0.27 Score=68.71 Aligned_cols=64 Identities=20% Similarity=0.260 Sum_probs=52.4
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
...++.++... .....+++||+|+|||.+...++...+..|+++|+++||..=+.++.+++.+.
T Consensus 150 ~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 150 AAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred HHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH
Confidence 34555555432 34569999999999999999888888889999999999999999999888754
No 285
>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=92.83 E-value=0.046 Score=59.34 Aligned_cols=23 Identities=39% Similarity=0.424 Sum_probs=16.1
Q ss_pred EEEEcCCCCChhHHHHHHHHHHH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
-|||||||+|||+++.++...+=
T Consensus 2 vLleg~PG~GKT~la~~lA~~~~ 24 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSLG 24 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHTT
T ss_pred EeeECCCccHHHHHHHHHHHHcC
Confidence 38999999999999997765543
No 286
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.83 E-value=0.14 Score=65.83 Aligned_cols=37 Identities=27% Similarity=0.316 Sum_probs=30.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-C-CeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-K-FRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~-~rVLv~Ap 263 (2576)
+.+.++-||||+|||||+..|...+... | .+|.+++.
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 6799999999999999999999887644 5 57766654
No 287
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=92.82 E-value=4.4 Score=48.99 Aligned_cols=64 Identities=19% Similarity=0.169 Sum_probs=38.4
Q ss_pred ChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHH
Q 000053 1671 SPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAA 1750 (2576)
Q Consensus 1671 s~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA 1750 (2576)
+++.+...|.. ++..|+|++|...|+++-... ..++. ....+...|
T Consensus 32 ~~~~~~~~g~~---------------~~~~~~~~~A~~~~~~~~~~~------------------p~~~~-~~~a~~~la 77 (235)
T TIGR03302 32 PAEELYEEAKE---------------ALDSGDYTEAIKYFEALESRY------------------PFSPY-AEQAQLDLA 77 (235)
T ss_pred CHHHHHHHHHH---------------HHHcCCHHHHHHHHHHHHHhC------------------CCchh-HHHHHHHHH
Confidence 45566667766 888999999999998642210 00111 111234446
Q ss_pred HHHHHcCCHHHHHHHHHH
Q 000053 1751 KIFEAIGKVDSAAKCFFD 1768 (2576)
Q Consensus 1751 ~~fe~~G~~~~Aa~~y~k 1768 (2576)
..|...|++++|...|.+
T Consensus 78 ~~~~~~~~~~~A~~~~~~ 95 (235)
T TIGR03302 78 YAYYKSGDYAEAIAAADR 95 (235)
T ss_pred HHHHhcCCHHHHHHHHHH
Confidence 667777777777755544
No 288
>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=92.77 E-value=0.22 Score=64.64 Aligned_cols=29 Identities=31% Similarity=0.455 Sum_probs=24.4
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 225 SGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 225 ~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
..++..+|+||||||||+++..++..+..
T Consensus 38 ~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 38 SRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 33567899999999999999999887764
No 289
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.73 E-value=0.18 Score=61.46 Aligned_cols=67 Identities=21% Similarity=0.296 Sum_probs=43.6
Q ss_pred eEEEEeecccchhhHhhhcccCCCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEE
Q 000053 190 LFVIFLINRTSNRRIWNSLHMKGNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVC 261 (2576)
Q Consensus 190 ~~~~~L~N~~t~~ri~~~l~~~~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ 261 (2576)
-++.-+=.+-.-+.-.+.|..+ +++.+++... .++-||.||.|+|||||+++++-.+-+. .+.||+.
T Consensus 93 ~~a~vlR~Ip~~i~~~e~LglP---~i~~~~~~~~--~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI 160 (353)
T COG2805 93 GYALVLRLIPSKIPTLEELGLP---PIVRELAESP--RGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI 160 (353)
T ss_pred CcEEEEeccCccCCCHHHcCCC---HHHHHHHhCC--CceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe
Confidence 3444333333333333333333 5666644433 8899999999999999999999988876 4556654
No 290
>PF13173 AAA_14: AAA domain
Probab=92.67 E-value=0.23 Score=54.49 Aligned_cols=52 Identities=23% Similarity=0.228 Sum_probs=40.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHH-HHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASR-VVKLV 279 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~R-L~~lv 279 (2576)
+.+.+|.||.|+|||+++..++..+. .+.+++.+...+......... +.+.+
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~~~~~~~~~ 54 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLADPDLLEYF 54 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHhhhhhHHHH
Confidence 46899999999999999999988888 778888888877776554432 44444
No 291
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=92.66 E-value=0.13 Score=64.29 Aligned_cols=38 Identities=26% Similarity=0.337 Sum_probs=31.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC-C-CeEEEEecC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM-K-FRTLVCTPT 264 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~-~rVLv~ApT 264 (2576)
+.+-+|-||+|+|||||++.+...+... | ++|.+++--
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D 233 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTD 233 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECC
Confidence 5588889999999999999999988876 4 788777653
No 292
>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=92.59 E-value=0.28 Score=57.48 Aligned_cols=39 Identities=31% Similarity=0.255 Sum_probs=31.1
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
.+...+..+..+..-|++||||||||+++-.+...++..
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 344555566667789999999999999999998888753
No 293
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.57 E-value=0.32 Score=65.81 Aligned_cols=42 Identities=24% Similarity=0.256 Sum_probs=31.8
Q ss_pred CCHHHHH---HHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIK---ELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~---~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++ ..+..+..+..-|++||||||||+++-.+...|+.
T Consensus 20 GQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 20 GQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4544443 33445555777899999999999999999988875
No 294
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=92.57 E-value=0.084 Score=64.06 Aligned_cols=33 Identities=33% Similarity=0.504 Sum_probs=23.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+..-+||||||||||-..-.+.. .+|..-|.++
T Consensus 166 Pkg~ll~GppGtGKTlla~~Vaa---~mg~nfl~v~ 198 (388)
T KOG0651|consen 166 PKGLLLYGPPGTGKTLLARAVAA---TMGVNFLKVV 198 (388)
T ss_pred CceeEEeCCCCCchhHHHHHHHH---hcCCceEEee
Confidence 77899999999999987655433 3355444443
No 295
>PHA02558 uvsW UvsW helicase; Provisional
Probab=92.56 E-value=0.2 Score=67.88 Aligned_cols=60 Identities=20% Similarity=0.238 Sum_probs=47.4
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCC-eEEEEecChHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKF-RTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~-rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
..+..++... -.+++.|+|+|||.++..++..++..+. ++|+++||..-+++..+++.+.
T Consensus 121 ~av~~~l~~~----~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 121 DAVYEGLKNN----RRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred HHHHHHHhcC----ceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHh
Confidence 3345555432 3599999999999998877666666666 9999999999999999998764
No 296
>PRK07667 uridine kinase; Provisional
Probab=92.56 E-value=0.22 Score=58.69 Aligned_cols=50 Identities=18% Similarity=0.026 Sum_probs=38.5
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
+++.+......+-+--|.||||+||||++..+...|-..|.++.++.--+
T Consensus 6 ~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 6 LINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred HHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 34444444445668889999999999999999998888888877776554
No 297
>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=92.54 E-value=0.21 Score=60.87 Aligned_cols=52 Identities=19% Similarity=0.258 Sum_probs=40.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHh------------CCCeEEEEecChHHHHHHHHHHHHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQ------------MKFRTLVCTPTIVAIKELASRVVKLVK 280 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~------------~~~rVLv~ApTN~AVd~V~~RL~~lv~ 280 (2576)
.+.+|.||||||||+++..+..++.. .+.+||+.+-=+.+ +++..|+..+..
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~-~~i~~Rl~~i~~ 65 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR-EEIHRRLEAILQ 65 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH-HHHHHHHHHHHh
Confidence 58999999999999999999887652 35678888855544 477888887753
No 298
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=92.53 E-value=0.4 Score=63.89 Aligned_cols=88 Identities=19% Similarity=0.169 Sum_probs=58.8
Q ss_pred ccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCC
Q 000053 1046 SLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNS 1122 (2576)
Q Consensus 1046 ~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~ 1122 (2576)
.+++.+...+... +. .++++-|.++|.. ..++++.|+.|||||.+.+.-+++....+..
T Consensus 7 ~l~~~l~~~l~~~--g~-----~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~----------- 68 (434)
T PRK11192 7 ELDESLLEALQDK--GY-----TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPR----------- 68 (434)
T ss_pred CCCHHHHHHHHHC--CC-----CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHHHhhccc-----------
Confidence 4555555555332 22 3478999999933 3489999999999999977666432111100
Q ss_pred cchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhhh
Q 000053 1123 SQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1123 ~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l~ 1163 (2576)
......++|+++.|+.||.++.+.+..+.
T Consensus 69 ------------~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 69 ------------RKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred ------------cCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 01123689999999999999988776653
No 299
>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=92.45 E-value=0.11 Score=59.94 Aligned_cols=28 Identities=32% Similarity=0.530 Sum_probs=21.8
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCCeE
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKFRT 258 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~rV 258 (2576)
+|.||||+||||++..++..|-..+.++
T Consensus 3 ~iTG~pG~GKTTll~k~i~~l~~~~~~v 30 (168)
T PF03266_consen 3 FITGPPGVGKTTLLKKVIEELKKKGLPV 30 (168)
T ss_dssp EEES-TTSSHHHHHHHHHHHHHHTCGGE
T ss_pred EEECcCCCCHHHHHHHHHHHhhccCCcc
Confidence 7999999999999998887776555443
No 300
>PRK09354 recA recombinase A; Provisional
Probab=92.36 E-value=0.2 Score=63.79 Aligned_cols=53 Identities=13% Similarity=0.055 Sum_probs=41.9
Q ss_pred HHHHHHHHh--cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 214 LKIIKELLC--TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 214 ~~~i~~vl~--~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
..-++.+|. --...+++.|.||||||||++...++....+.|.+++.+..-+.
T Consensus 45 i~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s 99 (349)
T PRK09354 45 SLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA 99 (349)
T ss_pred cHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccc
Confidence 344555565 22347899999999999999999999999999988887776543
No 301
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.36 E-value=0.42 Score=63.67 Aligned_cols=42 Identities=21% Similarity=0.313 Sum_probs=29.1
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +..+..+.--|++||||||||+++-.+...|..
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 454444433 333444567899999999999998888776653
No 302
>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=92.36 E-value=0.84 Score=57.61 Aligned_cols=32 Identities=31% Similarity=0.428 Sum_probs=27.6
Q ss_pred cCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCC
Q 000053 1669 ASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1669 ~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd 1715 (2576)
-...+.|+.+|++ ++.+|+|..|.+||..|=.
T Consensus 246 ~k~le~~k~~gN~---------------~fk~G~y~~A~E~Yteal~ 277 (486)
T KOG0550|consen 246 PKKLEVKKERGND---------------AFKNGNYRKAYECYTEALN 277 (486)
T ss_pred HHHHHHHHhhhhh---------------HhhccchhHHHHHHHHhhc
Confidence 4456789999988 9999999999999998654
No 303
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.36 E-value=2.4 Score=58.35 Aligned_cols=178 Identities=21% Similarity=0.189 Sum_probs=93.1
Q ss_pred HHHHHHcCCHHHHHHHHHHh--CCchHHHHHHHHHHHcCCHHHHHHHHHH-cCCHHHHHHHHHcCCCHHHHHHHHH--hh
Q 000053 1763 AKCFFDMGEYERAGTIYLER--CEEPELEKAGECFSLAGCYKLAADVYAR-GSFLAECLDVCSKGKLFDIGLQYIS--YW 1837 (2576)
Q Consensus 1763 a~~y~kag~~~~A~ely~~~--~~~~~~~~aAe~~e~~g~~~eAAelY~k-agd~~kAi~~y~k~k~fd~A~~l~r--~~ 1837 (2576)
-+.|.+.|+|++|.++.+.. +-+..+.+.|+.+.+.+.|..||++|++ ..-|++..--....+..+ +++..- +.
T Consensus 365 Wk~yLd~g~y~kAL~~ar~~p~~le~Vl~~qAdf~f~~k~y~~AA~~yA~t~~~FEEVaLKFl~~~~~~-~L~~~L~KKL 443 (911)
T KOG2034|consen 365 WKTYLDKGEFDKALEIARTRPDALETVLLKQADFLFQDKEYLRAAEIYAETLSSFEEVALKFLEINQER-ALRTFLDKKL 443 (911)
T ss_pred HHHHHhcchHHHHHHhccCCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhhHHHHHHHHHhcCCHH-HHHHHHHHHH
Confidence 33444444444444443331 0023467889999999999999999999 455666666666666555 443332 11
Q ss_pred hhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChH----HHHHHHHH-hCcHH-HHHHHH---HhcCCHHHHHHHH
Q 000053 1838 KQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNK----SMMKFVRA-FHSMD-LIRNFL---NSKGCFDELLVLE 1908 (2576)
Q Consensus 1838 ~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~----~A~~~~k~-~~~~e-~a~~~l---~~~~~~dea~ell 1908 (2576)
..-.+++ ..+...+..+.++ .+..++++.+ ++.+-++. .+... +-..++ .+.-..+.+.+++
T Consensus 444 ~~lt~~d------k~q~~~Lv~WLle---l~L~~Ln~l~~~de~~~en~~~~~~~~~re~~~~~~~~~~~~nretv~~l~ 514 (911)
T KOG2034|consen 444 DRLTPED------KTQRDALVTWLLE---LYLEQLNDLDSTDEEALENWRLEYDEVQREFSKFLVLHKDELNRETVYQLL 514 (911)
T ss_pred hhCChHH------HHHHHHHHHHHHH---HHHHHHhcccccChhHHHHHHHHHHHHHHHHHHHHHhhHHhhhHHHHHHHH
Confidence 1111111 1111112222222 2445555444 12111110 00000 001111 1122334455777
Q ss_pred HhccCHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHH
Q 000053 1909 EESESFMDAANIARLRGDILRTVDLLQKVGNFKEACNLTLNY 1950 (2576)
Q Consensus 1909 ~~~g~feeAa~ia~~~G~~~eA~kly~~aG~~~eA~klll~~ 1950 (2576)
...|+.++++..+.-.++++.-...+.+.|.+++|.+.++..
T Consensus 515 ~~~~~~e~ll~fA~l~~d~~~vv~~~~q~e~yeeaLevL~~~ 556 (911)
T KOG2034|consen 515 ASHGRQEELLQFANLIKDYEFVVSYWIQQENYEEALEVLLNQ 556 (911)
T ss_pred HHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 788888888888877778887777788888888887755443
No 304
>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=92.35 E-value=0.21 Score=65.78 Aligned_cols=37 Identities=19% Similarity=0.268 Sum_probs=30.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~Ap 263 (2576)
...-+|+||||||||+++.++...+... +.+++.++.
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 3457899999999999999999888876 677777754
No 305
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=92.34 E-value=0.072 Score=68.16 Aligned_cols=48 Identities=23% Similarity=0.368 Sum_probs=29.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVK 277 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~ 277 (2576)
..==|.-||||||||+.|+++.-.| +..|....-|.+-.+-=+.+|+-
T Consensus 235 KRGYLLYGPPGTGKSS~IaAmAn~L---~ydIydLeLt~v~~n~dLr~LL~ 282 (457)
T KOG0743|consen 235 KRGYLLYGPPGTGKSSFIAAMANYL---NYDIYDLELTEVKLDSDLRHLLL 282 (457)
T ss_pred hccceeeCCCCCCHHHHHHHHHhhc---CCceEEeeeccccCcHHHHHHHH
Confidence 4445889999999999999886554 44444444433333322555553
No 306
>PRK12370 invasion protein regulator; Provisional
Probab=92.31 E-value=13 Score=51.35 Aligned_cols=107 Identities=9% Similarity=-0.036 Sum_probs=62.3
Q ss_pred HHHHcCCHHHHHHHHHHh---C--CchHHHHHHHHHHHcCCHHHHHHHHHHcCC---------HHHHHHHHHcCCCHHHH
Q 000053 1765 CFFDMGEYERAGTIYLER---C--EEPELEKAGECFSLAGCYKLAADVYARGSF---------LAECLDVCSKGKLFDIG 1830 (2576)
Q Consensus 1765 ~y~kag~~~~A~ely~~~---~--~~~~~~~aAe~~e~~g~~~eAAelY~kagd---------~~kAi~~y~k~k~fd~A 1830 (2576)
++...|++++|...|.+. . ....+...|..+...|++++|.+.|+++-. +..+.. +...+.+++|
T Consensus 347 ~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~-~~~~g~~eeA 425 (553)
T PRK12370 347 INTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWI-TYYHTGIDDA 425 (553)
T ss_pred HHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHH-HHhccCHHHH
Confidence 344445555555555443 1 123566778899999999999999998511 122322 3335568999
Q ss_pred HHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHHHh
Q 000053 1831 LQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVRAF 1885 (2576)
Q Consensus 1831 ~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k~~ 1885 (2576)
+..+++.-...+++. .......+..+...|+.++|.+.++.+
T Consensus 426 ~~~~~~~l~~~~p~~-------------~~~~~~la~~l~~~G~~~eA~~~~~~~ 467 (553)
T PRK12370 426 IRLGDELRSQHLQDN-------------PILLSMQVMFLSLKGKHELARKLTKEI 467 (553)
T ss_pred HHHHHHHHHhccccC-------------HHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence 988874322111110 011222345567789998888876643
No 307
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.30 E-value=0.13 Score=67.51 Aligned_cols=50 Identities=20% Similarity=0.296 Sum_probs=40.7
Q ss_pred hHhhhcc--cCCCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 203 RIWNSLH--MKGNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 203 ri~~~l~--~~~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
++-..|+ ..+.-++|+.++....++.--||.||||||||+++..+-..+-
T Consensus 13 ~l~~~l~~~i~gre~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~ 64 (498)
T PRK13531 13 RLSSALEKGLYERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ 64 (498)
T ss_pred HHHHHHhhhccCcHHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence 4444454 3588999999999999999999999999999999988766554
No 308
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.30 E-value=0.17 Score=67.57 Aligned_cols=37 Identities=22% Similarity=0.321 Sum_probs=30.8
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEecC
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPT 264 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~ApT 264 (2576)
+--+|+||||||||+++.++...+... +.+++.+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~ 187 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE 187 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 457999999999999999999998877 6777766553
No 309
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=92.23 E-value=0.12 Score=60.59 Aligned_cols=39 Identities=26% Similarity=0.420 Sum_probs=31.6
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE--ecChHHH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC--TPTIVAI 268 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~--ApTN~AV 268 (2576)
.+|.||||+||||-...+...|-..|+++.|+ -|-|-++
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~ 45 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNL 45 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCC
Confidence 47999999999999999988888889976665 4555443
No 310
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=92.22 E-value=0.16 Score=69.43 Aligned_cols=27 Identities=41% Similarity=0.568 Sum_probs=22.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
.+.+-+|.||||||||.|+..++..|-
T Consensus 780 pnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 780 SNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 345678999999999999999887765
No 311
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.20 E-value=0.17 Score=64.46 Aligned_cols=37 Identities=27% Similarity=0.224 Sum_probs=33.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.+.+|-||+|+|||||++.+...+...|++|.+++-
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIta 242 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITT 242 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 7788999999999999999999988888999876655
No 312
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.18 E-value=0.4 Score=63.04 Aligned_cols=37 Identities=19% Similarity=0.155 Sum_probs=28.3
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
++..+..+..+.--|++||||||||+++-.+...|..
T Consensus 28 L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 28 IQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred HHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3344445555666789999999999999998888875
No 313
>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=92.18 E-value=0.16 Score=59.18 Aligned_cols=35 Identities=31% Similarity=0.276 Sum_probs=29.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+|.+|.|++|+|||+++..++. ....+.|+.++..
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~n 35 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVN 35 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEEC
T ss_pred CEEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEc
Confidence 5889999999999999999998 7778899888864
No 314
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=92.12 E-value=0.31 Score=61.18 Aligned_cols=64 Identities=19% Similarity=0.248 Sum_probs=46.5
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHH-HHHHhCCC-----eEEEEecChHHHHHHHHHHH
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLL-VILLQMKF-----RTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll-~~Ll~~~~-----rVLv~ApTN~AVd~V~~RL~ 276 (2576)
...+++.|..........+|..|+|||||-.+.... ..+...+. +|+++++|+.-..++...+.
T Consensus 13 Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00489 13 QYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred HHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 456666777666667789999999999997766444 44444454 89999999997666654443
No 315
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=92.12 E-value=0.31 Score=61.18 Aligned_cols=64 Identities=19% Similarity=0.248 Sum_probs=46.5
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHH-HHHHhCCC-----eEEEEecChHHHHHHHHHHH
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLL-VILLQMKF-----RTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll-~~Ll~~~~-----rVLv~ApTN~AVd~V~~RL~ 276 (2576)
...+++.|..........+|..|+|||||-.+.... ..+...+. +|+++++|+.-..++...+.
T Consensus 13 Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~ 82 (289)
T smart00488 13 QYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELR 82 (289)
T ss_pred HHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHH
Confidence 456666777666667789999999999997766444 44444454 89999999997666654443
No 316
>PHA02774 E1; Provisional
Probab=92.11 E-value=0.23 Score=66.07 Aligned_cols=44 Identities=25% Similarity=0.326 Sum_probs=31.6
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
.++.+|.......-.+|+||||||||+...+|+..| .|+.+..+
T Consensus 423 ~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L--~G~vi~fv 466 (613)
T PHA02774 423 ALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL--KGKVISFV 466 (613)
T ss_pred HHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh--CCCEEEEE
Confidence 344445554446789999999999999999998887 34444433
No 317
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=92.10 E-value=0.15 Score=65.29 Aligned_cols=43 Identities=30% Similarity=0.414 Sum_probs=28.8
Q ss_pred CCHHHHHHHHhcCCC--CCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 212 GNLKIIKELLCTDSG--ATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 212 ~~~~~i~~vl~~~~~--~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
++-.+++.+.+.... .+.-++.||||||||+++..+...+...
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~ 63 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD 63 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 344444444332222 2357999999999999999988777644
No 318
>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=92.10 E-value=0.15 Score=68.51 Aligned_cols=39 Identities=23% Similarity=0.100 Sum_probs=34.2
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecC
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPT 264 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApT 264 (2576)
..++.||.||||||||+.....+..-++. |.++|.++.-
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e 59 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE 59 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence 37899999999999999999998886666 8999888874
No 319
>PRK01172 ski2-like helicase; Provisional
Probab=92.09 E-value=0.4 Score=67.47 Aligned_cols=66 Identities=17% Similarity=0.267 Sum_probs=50.8
Q ss_pred CCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEE
Q 000053 1067 PFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQL 1143 (2576)
Q Consensus 1067 ~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL 1143 (2576)
+|+|++-|.+++.. ..+++|.|+.|||||.+...-+++. +. ...+++
T Consensus 20 ~~~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a~lail~~-----l~-------------------------~~~k~v 69 (674)
T PRK01172 20 DFELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIAYSAIYET-----FL-------------------------AGLKSI 69 (674)
T ss_pred CCCCCHHHHHHHHHHhcCCcEEEECCCCchHHHHHHHHHHHH-----HH-------------------------hCCcEE
Confidence 47899999999953 4589999999999999877655321 10 115889
Q ss_pred EEEcCHHHHHHHHHHHHhh
Q 000053 1144 FVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1144 ~vTfS~~la~eik~ri~~l 1162 (2576)
+++.++.+|.+.-+.+.++
T Consensus 70 ~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 70 YIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred EEechHHHHHHHHHHHHHH
Confidence 9999999999887766654
No 320
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.08 E-value=0.22 Score=66.09 Aligned_cols=36 Identities=25% Similarity=0.350 Sum_probs=30.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEecC
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPT 264 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~ApT 264 (2576)
--+|+||||||||+++.++...+... +.+|+.++..
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~ 169 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE 169 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence 48999999999999999999888865 5678877653
No 321
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.04 E-value=0.5 Score=63.90 Aligned_cols=42 Identities=26% Similarity=0.236 Sum_probs=30.3
Q ss_pred CCHHHHHH---HHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKE---LLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~---vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++. .+.....+..-|++||||||||+++..+...|..
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 44444433 3444444566799999999999999999888874
No 322
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=92.02 E-value=0.53 Score=63.24 Aligned_cols=42 Identities=26% Similarity=0.295 Sum_probs=30.5
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +..+..+.--|++||||||||+++-.+...|..
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455554443 233444567899999999999999999888865
No 323
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=92.02 E-value=0.16 Score=60.97 Aligned_cols=40 Identities=30% Similarity=0.451 Sum_probs=34.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
..=.|+||++|||||.+|-+++..+...|.|++=+.....
T Consensus 52 annvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L 91 (249)
T PF05673_consen 52 ANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDL 91 (249)
T ss_pred CcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHh
Confidence 3356779999999999999999999999999888877653
No 324
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.00 E-value=0.22 Score=67.57 Aligned_cols=61 Identities=21% Similarity=0.151 Sum_probs=48.0
Q ss_pred HHHHHHHHh-cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 214 LKIIKELLC-TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 214 ~~~i~~vl~-~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
.+-++.+|. --...++.+|.||||||||..+..++...+..|.+++.++.... .+++..++
T Consensus 259 i~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~-~~~i~~~~ 320 (509)
T PRK09302 259 VPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES-RAQLIRNA 320 (509)
T ss_pred cHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC-HHHHHHHH
Confidence 444566664 23348899999999999999999999999999999999998765 45555544
No 325
>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=91.99 E-value=0.21 Score=72.61 Aligned_cols=63 Identities=19% Similarity=0.207 Sum_probs=48.4
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh-CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~-~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.++++..-..+.+.+|+||||+||||-+-.++...-. ...+|+++-|.-.|+..++.|+.+.+
T Consensus 72 ~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~el 135 (1283)
T TIGR01967 72 REDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEEL 135 (1283)
T ss_pred HHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHh
Confidence 3455555556789999999999999988766543321 23478888999999999999999765
No 326
>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=91.98 E-value=0.2 Score=56.50 Aligned_cols=35 Identities=29% Similarity=0.303 Sum_probs=30.9
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
-.+.||+|+|||+++..+...+...+.|++++..-
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D 36 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAID 36 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 35779999999999999999999999999888743
No 327
>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=91.95 E-value=0.1 Score=57.90 Aligned_cols=22 Identities=32% Similarity=0.632 Sum_probs=18.3
Q ss_pred eEEEEcCCCCChhHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVI 250 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~ 250 (2576)
|-++.||||+||||++..+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5689999999999998877533
No 328
>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=91.94 E-value=0.21 Score=55.18 Aligned_cols=46 Identities=35% Similarity=0.270 Sum_probs=34.4
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
+.+.+.+.-..+.+-++.||+|+|||+.+..++..| +..--|.|||
T Consensus 11 l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l---g~~~~v~SPT 56 (133)
T TIGR00150 11 FGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL---GIQGNVTSPT 56 (133)
T ss_pred HHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc---CCCCcccCCC
Confidence 344444444456799999999999999999998876 3334588888
No 329
>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=91.91 E-value=0.71 Score=54.55 Aligned_cols=70 Identities=16% Similarity=0.239 Sum_probs=49.7
Q ss_pred CCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEEEE
Q 000053 1069 EVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQLFV 1145 (2576)
Q Consensus 1069 ~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL~v 1145 (2576)
.+++-|++++.. ..+++|.|+.|+|||.+.+.-++.. +... ......+++++
T Consensus 21 ~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~~~~~l~~-----~~~~--------------------~~~~~~~viii 75 (203)
T cd00268 21 KPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAFLIPILEK-----LDPS--------------------PKKDGPQALIL 75 (203)
T ss_pred CCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHHHHHHHHH-----HHhh--------------------cccCCceEEEE
Confidence 478899999943 4589999999999998855444321 1000 00123689999
Q ss_pred EcCHHHHHHHHHHHHhhh
Q 000053 1146 TVSPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1146 TfS~~la~eik~ri~~l~ 1163 (2576)
+.++.++.++.+.+..+.
T Consensus 76 ~p~~~L~~q~~~~~~~~~ 93 (203)
T cd00268 76 APTRELALQIAEVARKLG 93 (203)
T ss_pred cCCHHHHHHHHHHHHHHh
Confidence 999999999888776653
No 330
>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=91.91 E-value=0.37 Score=69.02 Aligned_cols=67 Identities=25% Similarity=0.327 Sum_probs=51.9
Q ss_pred CCCCCCHHHHHhhcC---------CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhh
Q 000053 1066 LPFEVTDEQLDMILF---------PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTE 1136 (2576)
Q Consensus 1066 ~~f~Lt~EQ~~iI~~---------~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~ 1136 (2576)
+||++|+.|.++|.. +.+.+|.|+.|||||.+++.-+++. + ..
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~a-----l-~~---------------------- 499 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKA-----V-LD---------------------- 499 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHH-----H-Hh----------------------
Confidence 689999999999931 2368999999999999987766421 1 01
Q ss_pred cccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1137 RVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1137 ~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
..++++++.|+.||.+.-+.+.++
T Consensus 500 --g~qvlvLvPT~~LA~Q~~~~f~~~ 523 (926)
T TIGR00580 500 --GKQVAVLVPTTLLAQQHFETFKER 523 (926)
T ss_pred --CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 157899999999999987766654
No 331
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=91.88 E-value=0.15 Score=68.41 Aligned_cols=29 Identities=41% Similarity=0.544 Sum_probs=23.3
Q ss_pred cCCCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 223 TDSGATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 223 ~~~~~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
......+-|+.||||||||+||..|...|
T Consensus 41 ~~~~~~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 41 GSSPKRILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred cCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence 33446699999999999999998876554
No 332
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=91.87 E-value=0.18 Score=62.51 Aligned_cols=26 Identities=38% Similarity=0.371 Sum_probs=21.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
+++-+|+||||+|||+++..++..+-
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 56889999999999999998765554
No 333
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=91.86 E-value=0.16 Score=56.77 Aligned_cols=28 Identities=32% Similarity=0.475 Sum_probs=24.2
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCCeE
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKFRT 258 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~rV 258 (2576)
.|.||||.||||++.-+.-.|-..|.+|
T Consensus 9 ~ITG~PGvGKtTl~~ki~e~L~~~g~kv 36 (179)
T COG1618 9 FITGRPGVGKTTLVLKIAEKLREKGYKV 36 (179)
T ss_pred EEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence 6999999999999998888887777665
No 334
>PRK10689 transcription-repair coupling factor; Provisional
Probab=91.79 E-value=0.37 Score=70.54 Aligned_cols=68 Identities=21% Similarity=0.229 Sum_probs=52.2
Q ss_pred CCCCCCCHHHHHhhcC---------CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhh
Q 000053 1065 DLPFEVTDEQLDMILF---------PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKT 1135 (2576)
Q Consensus 1065 d~~f~Lt~EQ~~iI~~---------~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~ 1135 (2576)
.+||++|+.|.++|.. +.+.+|.|+.|||||.+++.-++.. + .
T Consensus 596 ~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~-----~-~---------------------- 647 (1147)
T PRK10689 596 SFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA-----V-E---------------------- 647 (1147)
T ss_pred hCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHH-----H-H----------------------
Confidence 5899999999999942 2478999999999999876554311 0 1
Q ss_pred hcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1136 ERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1136 ~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
...++++++.|+.||.++.+.+.+.
T Consensus 648 --~g~qvlvLvPT~eLA~Q~~~~f~~~ 672 (1147)
T PRK10689 648 --NHKQVAVLVPTTLLAQQHYDNFRDR 672 (1147)
T ss_pred --cCCeEEEEeCcHHHHHHHHHHHHHh
Confidence 1258999999999999987766653
No 335
>PRK06620 hypothetical protein; Validated
Probab=91.78 E-value=0.11 Score=62.12 Aligned_cols=20 Identities=35% Similarity=0.468 Sum_probs=17.5
Q ss_pred CeEEEEcCCCCChhHHHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSML 247 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~L 247 (2576)
+.-+|||||||||||++..+
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~ 64 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIW 64 (214)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 45799999999999999863
No 336
>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=91.73 E-value=0.22 Score=60.04 Aligned_cols=51 Identities=22% Similarity=0.151 Sum_probs=38.8
Q ss_pred HHHHHHh-cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCC------CeEEEEecChH
Q 000053 216 IIKELLC-TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMK------FRTLVCTPTIV 266 (2576)
Q Consensus 216 ~i~~vl~-~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~------~rVLv~ApTN~ 266 (2576)
.++.+|. --....+..|.||||||||+++..++...+..+ .+++..+.-+.
T Consensus 7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 3455553 223478999999999999999999998887776 77777776553
No 337
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=91.73 E-value=0.17 Score=64.68 Aligned_cols=27 Identities=30% Similarity=0.594 Sum_probs=21.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 225 SGATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 225 ~~~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
......+|+||||||||+++..+...+
T Consensus 49 ~~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 49 EALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CCCCcEEEECCCCccHHHHHHHHHHHh
Confidence 335567999999999999999776554
No 338
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=91.71 E-value=0.43 Score=64.67 Aligned_cols=43 Identities=23% Similarity=0.301 Sum_probs=31.0
Q ss_pred CCHHHHHHHHh---cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 212 GNLKIIKELLC---TDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 212 ~~~~~i~~vl~---~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
|+-.+++.+.+ .+..+.--|++||||||||+++-.+...|...
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 55555544433 33335567899999999999999998888753
No 339
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=91.69 E-value=0.33 Score=59.35 Aligned_cols=49 Identities=27% Similarity=0.289 Sum_probs=40.1
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
.+++..+........+-=|.||||.||||++-.+...|...|+||-|.|
T Consensus 38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 3555555555555668889999999999999999999999999988875
No 340
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=91.66 E-value=0.26 Score=61.41 Aligned_cols=21 Identities=43% Similarity=0.756 Sum_probs=17.2
Q ss_pred CCeEEEEcCCCCChhHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSML 247 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~L 247 (2576)
+.=-|..||||||||-++-+.
T Consensus 185 PKGVLLYGPPGTGKTLLAkAV 205 (406)
T COG1222 185 PKGVLLYGPPGTGKTLLAKAV 205 (406)
T ss_pred CCceEeeCCCCCcHHHHHHHH
Confidence 556789999999999877654
No 341
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=91.66 E-value=0.33 Score=61.68 Aligned_cols=26 Identities=42% Similarity=0.521 Sum_probs=22.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
.+|+||||||||+++..+...+...+
T Consensus 41 ~ll~G~~G~GKt~~~~~l~~~l~~~~ 66 (319)
T PRK00440 41 LLFAGPPGTGKTTAALALARELYGED 66 (319)
T ss_pred EEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 59999999999999999988887654
No 342
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=91.65 E-value=0.26 Score=56.92 Aligned_cols=48 Identities=17% Similarity=0.156 Sum_probs=38.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
+.+|.||||+|||+.+..++.. .+.+++.+|.....=+++..|+.+..
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~ 48 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHR 48 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHH
Confidence 4799999999999999988654 67788888776666667888888764
No 343
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=91.65 E-value=0.13 Score=64.98 Aligned_cols=34 Identities=21% Similarity=0.458 Sum_probs=26.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.+-+||||||||||..+-++...+ |...+.++.
T Consensus 148 PlgllL~GPPGcGKTllAraiA~el---g~~~i~vsa 181 (413)
T PLN00020 148 PLILGIWGGKGQGKSFQCELVFKKM---GIEPIVMSA 181 (413)
T ss_pred CeEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEEH
Confidence 7889999999999999887775553 666666654
No 344
>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=91.64 E-value=0.26 Score=65.50 Aligned_cols=61 Identities=18% Similarity=0.274 Sum_probs=45.2
Q ss_pred HHHHHHHHhc-CCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHH
Q 000053 214 LKIIKELLCT-DSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRV 275 (2576)
Q Consensus 214 ~~~i~~vl~~-~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL 275 (2576)
.+-++.+|.- -...++.+|-||||+|||+++..++..+...+.+||.++.-.. ..++..|.
T Consensus 80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra 141 (454)
T TIGR00416 80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRA 141 (454)
T ss_pred cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHH
Confidence 3445556542 2347899999999999999999999999888889988886543 34454443
No 345
>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=91.61 E-value=0.2 Score=63.41 Aligned_cols=25 Identities=32% Similarity=0.616 Sum_probs=20.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
...-+++||||||||+++..+...+
T Consensus 30 ~~~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 30 LDHLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 3457999999999999998775544
No 346
>PF05729 NACHT: NACHT domain
Probab=91.52 E-value=0.17 Score=57.23 Aligned_cols=27 Identities=33% Similarity=0.458 Sum_probs=23.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
+-+|.|+||+|||+++..++..+....
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 678999999999999999988887664
No 347
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.51 E-value=0.21 Score=64.74 Aligned_cols=37 Identities=30% Similarity=0.385 Sum_probs=30.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHh----CCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQ----MKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~----~~~rVLv~Ap 263 (2576)
+.+-++-||+|+|||||++.+...+.. .|++|.+++-
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~ 214 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITI 214 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEec
Confidence 678999999999999999999887763 4677766554
No 348
>PRK06696 uridine kinase; Validated
Probab=91.49 E-value=0.34 Score=58.55 Aligned_cols=48 Identities=15% Similarity=0.119 Sum_probs=36.6
Q ss_pred HHHHHHHhcC-CCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 215 KIIKELLCTD-SGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 215 ~~i~~vl~~~-~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
.+.+.+++.. ..+-+-.|-||||+||||++..|...|-..|..+++++
T Consensus 9 ~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 9 ELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred HHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 3455555533 33778899999999999999999888877777776655
No 349
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=91.44 E-value=29 Score=43.41 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=13.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHcCC
Q 000053 1746 LREAAKIFEAIGKVDSAAKCFFDMGE 1771 (2576)
Q Consensus 1746 ~~eAA~~fe~~G~~~~Aa~~y~kag~ 1771 (2576)
..+.|+=|...|-+++|.++|..+-+
T Consensus 110 l~qL~~Dym~aGl~DRAE~~f~~L~d 135 (389)
T COG2956 110 LQQLGRDYMAAGLLDRAEDIFNQLVD 135 (389)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHhc
Confidence 34555555555555555555554433
No 350
>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=91.43 E-value=0.27 Score=47.92 Aligned_cols=32 Identities=25% Similarity=0.203 Sum_probs=24.2
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
-.|.||||+|||++...+...| .+.++.+...
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i~~ 33 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVLDE 33 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEEeE
Confidence 3678999999999988888777 5555555543
No 351
>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=91.43 E-value=0.36 Score=68.16 Aligned_cols=93 Identities=17% Similarity=0.146 Sum_probs=62.5
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHH-HHHHHHHHHhCC--CeEEEEecChHHHHHHHHHHHHHHHhhhhhcccc
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKT-VSMLLVILLQMK--FRTLVCTPTIVAIKELASRVVKLVKESVERDCRD 289 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTkt-Is~Ll~~Ll~~~--~rVLv~ApTN~AVd~V~~RL~~lv~es~~~~~~~ 289 (2576)
...+++.|..+-......++..|.|||||-. ++..|..+...+ .+|+.|+.||.=+.++++-|-++........
T Consensus 15 Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~~~~~~~~~~--- 91 (705)
T TIGR00604 15 QRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRKLMSYRTPRI--- 91 (705)
T ss_pred HHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHhhhhcccccc---
Confidence 4566677777777778899999999999954 445555445455 7999999999999999988876531100000
Q ss_pred ccccccccEEEccCcccccc
Q 000053 290 ALFFPLGEILLLGNNERLKV 309 (2576)
Q Consensus 290 ~~~~~lgdillfGn~~rm~i 309 (2576)
.....-..+.+|.+..|.+
T Consensus 92 -~~~~~i~~v~L~SR~~lCi 110 (705)
T TIGR00604 92 -GEESPVSGLSLASRKNLCL 110 (705)
T ss_pred -ccCCceeEEEechHhhccc
Confidence 0001124566788877755
No 352
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.42 E-value=0.22 Score=65.60 Aligned_cols=37 Identities=30% Similarity=0.308 Sum_probs=30.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHH--hCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILL--QMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll--~~~~rVLv~Ap 263 (2576)
..+.++-||+|+|||||++.|...+. ..+.+|.+++.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 45788889999999999999988876 45778776654
No 353
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=91.41 E-value=0.35 Score=66.75 Aligned_cols=51 Identities=24% Similarity=0.393 Sum_probs=47.2
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
-|-.|+|+||||..+.+-..+...|+|++++-||-+=|.|+.+||.++...
T Consensus 101 aiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~ 151 (1187)
T COG1110 101 AIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAED 151 (1187)
T ss_pred EEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhh
Confidence 456899999999999999999999999999999999999999999998654
No 354
>PTZ00424 helicase 45; Provisional
Probab=91.37 E-value=0.41 Score=62.96 Aligned_cols=83 Identities=18% Similarity=0.196 Sum_probs=57.8
Q ss_pred ccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCC
Q 000053 1046 SLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNS 1122 (2576)
Q Consensus 1046 ~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~ 1122 (2576)
.+++.+...+... + + -.+|+-|.++|.. ..++++.|+.|||||.+...-++.. +..
T Consensus 34 ~l~~~~~~~l~~~--~----~-~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~~l~~l~~-----~~~--------- 92 (401)
T PTZ00424 34 KLNEDLLRGIYSY--G----F-EKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVIAALQL-----IDY--------- 92 (401)
T ss_pred CCCHHHHHHHHHc--C----C-CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHHHHHHH-----hcC---------
Confidence 4666666666442 1 1 2589999999943 4589999999999999877666421 100
Q ss_pred cchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1123 SQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1123 ~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
.....++|+++.++.||.++.+.+..+
T Consensus 93 -------------~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 93 -------------DLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred -------------CCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 011257999999999999987766554
No 355
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=91.36 E-value=0.46 Score=63.75 Aligned_cols=85 Identities=20% Similarity=0.274 Sum_probs=58.2
Q ss_pred cccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1045 YSLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1045 ~~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
+.+++.+...+..- +. -.+||=|.++|.. ..+++|.|+.|||||++...-++.. +...
T Consensus 9 l~l~~~l~~~l~~~--g~-----~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~~lpil~~-----l~~~------- 69 (460)
T PRK11776 9 LPLPPALLANLNEL--GY-----TEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLGLLQK-----LDVK------- 69 (460)
T ss_pred cCCCHHHHHHHHHC--CC-----CCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHH-----hhhc-------
Confidence 34667666665432 11 2489999999943 4589999999999998866655421 1100
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l~ 1163 (2576)
....+.|+++.|+.||.++.+.+..+.
T Consensus 70 ---------------~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 70 ---------------RFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred ---------------cCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 012478999999999999988776653
No 356
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=91.29 E-value=0.65 Score=64.36 Aligned_cols=85 Identities=16% Similarity=0.226 Sum_probs=59.7
Q ss_pred cccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1045 YSLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1045 ~~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
+.+++.+++.+.. .+. -++||-|.++|.. ..++++.|+.|||||.+...-++.. +..
T Consensus 11 l~L~~~ll~al~~--~G~-----~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af~lpll~~-----l~~-------- 70 (629)
T PRK11634 11 LGLKAPILEALND--LGY-----EKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPLLHN-----LDP-------- 70 (629)
T ss_pred cCCCHHHHHHHHH--CCC-----CCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHHHH-----hhh--------
Confidence 3577877777743 222 4589999999943 4589999999999999865544311 100
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHMK 1163 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l~ 1163 (2576)
.....++|+++.|+.||.++.+.+..+.
T Consensus 71 --------------~~~~~~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 71 --------------ELKAPQILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred --------------ccCCCeEEEEeCcHHHHHHHHHHHHHHH
Confidence 0112578999999999999988776653
No 357
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=91.27 E-value=12 Score=52.25 Aligned_cols=22 Identities=18% Similarity=0.341 Sum_probs=15.9
Q ss_pred HHHHHHHHhhcHHHHHHHHHHc
Q 000053 1692 FVCLWLFYEQNYEMATICFEKA 1713 (2576)
Q Consensus 1692 ~~~~~l~~~~~ye~A~k~f~ra 1713 (2576)
.+|.+++..|+|+-+...+.-|
T Consensus 275 ~LAn~fyfK~dy~~v~~la~~a 296 (1018)
T KOG2002|consen 275 HLANHFYFKKDYERVWHLAEHA 296 (1018)
T ss_pred HHHHHHhhcccHHHHHHHHHHH
Confidence 4567788888888877777643
No 358
>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=91.25 E-value=0.3 Score=60.55 Aligned_cols=35 Identities=29% Similarity=0.352 Sum_probs=29.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
..+.+|.||+|+|||||+.+++..+...+.+++++
T Consensus 80 ~GlilisG~tGSGKTT~l~all~~i~~~~~~iiti 114 (264)
T cd01129 80 HGIILVTGPTGSGKTTTLYSALSELNTPEKNIITV 114 (264)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEE
Confidence 67999999999999999999988876656677664
No 359
>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=91.22 E-value=0.28 Score=55.79 Aligned_cols=37 Identities=24% Similarity=0.280 Sum_probs=32.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
-.|.||+|+|||+++..++..|-..|.||.++-+...
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~~ 38 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHDHH 38 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccc
Confidence 4678999999999999999999988999999887644
No 360
>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=91.08 E-value=0.16 Score=54.99 Aligned_cols=21 Identities=43% Similarity=0.453 Sum_probs=19.3
Q ss_pred EEEcCCCCChhHHHHHHHHHH
Q 000053 231 LIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~L 251 (2576)
+|.|+|||||||++..|...+
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 689999999999999998777
No 361
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=91.07 E-value=0.26 Score=55.11 Aligned_cols=39 Identities=28% Similarity=0.327 Sum_probs=32.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
++-.|.||.|||||+++..|+..|..+|.++.+.-.+++
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEccC
Confidence 366899999999999999999999999999998777665
No 362
>PRK04195 replication factor C large subunit; Provisional
Probab=91.04 E-value=0.4 Score=64.64 Aligned_cols=35 Identities=26% Similarity=0.470 Sum_probs=27.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPT 264 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApT 264 (2576)
...-||+||||||||+++..+...+ +..++.+.++
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el---~~~~ielnas 73 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDY---GWEVIELNAS 73 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEccc
Confidence 6789999999999999998886655 5666655443
No 363
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.98 E-value=0.65 Score=63.15 Aligned_cols=34 Identities=26% Similarity=0.189 Sum_probs=26.8
Q ss_pred HHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 220 LLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 220 vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.+..+..+..-|+.||||||||+++..+...|..
T Consensus 30 aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 30 ALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred HHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 3444444667799999999999999988888764
No 364
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.97 E-value=0.19 Score=66.21 Aligned_cols=54 Identities=22% Similarity=0.239 Sum_probs=33.4
Q ss_pred cchhhHhhhccc---CCCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 199 TSNRRIWNSLHM---KGNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 199 ~t~~ri~~~l~~---~~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
..-.+.|..-.. .|+-.+++.+ +..+..+..-|++||||||||+++-.+...|.
T Consensus 6 ~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 6 EVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred chhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence 334445544432 3454454443 33333344569999999999999988866554
No 365
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=90.93 E-value=0.81 Score=62.88 Aligned_cols=42 Identities=24% Similarity=0.269 Sum_probs=30.8
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
++-.+++.+ +..+..+..-|+.||||||||+++..+...|..
T Consensus 20 GQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 20 GQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455554443 444444667799999999999999988888764
No 366
>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=90.92 E-value=0.23 Score=62.61 Aligned_cols=37 Identities=19% Similarity=0.179 Sum_probs=26.7
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
..+.++..-..+.--+|.||||||||+++..+...|-
T Consensus 53 ~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l~ 89 (327)
T TIGR01650 53 TTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARLN 89 (327)
T ss_pred HHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHHC
Confidence 3344444444455689999999999999988877663
No 367
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.80 E-value=0.77 Score=62.36 Aligned_cols=52 Identities=25% Similarity=0.345 Sum_probs=34.5
Q ss_pred hhHhhhcc---cCCCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 202 RRIWNSLH---MKGNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 202 ~ri~~~l~---~~~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.|-|+.-. +-|+-.+++.+ +..+..+..-|++||||||||+++..+...|..
T Consensus 7 ~~k~rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 7 ARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred HHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34454443 23555555444 344444556699999999999999888888764
No 368
>PHA02653 RNA helicase NPH-II; Provisional
Probab=90.78 E-value=0.46 Score=65.85 Aligned_cols=85 Identities=16% Similarity=0.177 Sum_probs=55.9
Q ss_pred EEEEeecccchhhHhhhcccC-CCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHH---------HHHh------C
Q 000053 191 FVIFLINRTSNRRIWNSLHMK-GNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLV---------ILLQ------M 254 (2576)
Q Consensus 191 ~~~~L~N~~t~~ri~~~l~~~-~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~---------~Ll~------~ 254 (2576)
.+=.+-|..++.+| .+. ....+-++++..-..+...+++||+|||||+.+-..+. ..+. .
T Consensus 146 ~~~~~~n~~~~~~~----~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~ 221 (675)
T PHA02653 146 TIGILGNPEPFSKI----PLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFI 221 (675)
T ss_pred cccccCCCCccccc----cCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccC
Confidence 34445566666665 222 23344445555555577889999999999988654332 1111 2
Q ss_pred CCeEEEEecChHHHHHHHHHHHHHH
Q 000053 255 KFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 255 ~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
+.++++++||-.++.++..++.+.+
T Consensus 222 ~~~ilvt~PrreLa~qi~~~i~~~v 246 (675)
T PHA02653 222 ERPIVLSLPRVALVRLHSITLLKSL 246 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHHHHh
Confidence 4689999999888888888877554
No 369
>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=90.77 E-value=0.24 Score=59.89 Aligned_cols=34 Identities=32% Similarity=0.425 Sum_probs=30.0
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
.+|-||+|||||+++..++..+-..-..|.+++|
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 4599999999999999999888777778888888
No 370
>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=90.75 E-value=0.4 Score=52.15 Aligned_cols=30 Identities=23% Similarity=0.228 Sum_probs=25.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKF 256 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~ 256 (2576)
+=|-...||||||||.+...|..+|.+.|.
T Consensus 53 pLVlSfHG~tGtGKn~v~~liA~~ly~~G~ 82 (127)
T PF06309_consen 53 PLVLSFHGWTGTGKNFVSRLIAEHLYKSGM 82 (127)
T ss_pred CEEEEeecCCCCcHHHHHHHHHHHHHhccc
Confidence 445568999999999999999999998764
No 371
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.74 E-value=0.78 Score=61.96 Aligned_cols=44 Identities=25% Similarity=0.249 Sum_probs=31.7
Q ss_pred CCCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 211 KGNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 211 ~~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
-|+-.+++.+ +..+..+..-|++||||||||+++-.+...|...
T Consensus 19 vGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 19 IGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred cCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 3555554444 3344446677999999999999999988888753
No 372
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=90.70 E-value=0.15 Score=66.34 Aligned_cols=25 Identities=36% Similarity=0.539 Sum_probs=20.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
+.--+++||||||||+++.++...+
T Consensus 156 p~gvLL~GppGtGKT~lakaia~~l 180 (364)
T TIGR01242 156 PKGVLLYGPPGTGKTLLAKAVAHET 180 (364)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhC
Confidence 3447999999999999998886544
No 373
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=90.69 E-value=0.23 Score=64.82 Aligned_cols=39 Identities=28% Similarity=0.342 Sum_probs=28.7
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
-..++.++..-.....-++.||||||||+++..+...+.
T Consensus 181 e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~ 219 (459)
T PRK11331 181 ETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLT 219 (459)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence 445555555555677889999999999999877665553
No 374
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=90.63 E-value=31 Score=45.70 Aligned_cols=77 Identities=13% Similarity=0.074 Sum_probs=41.4
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHcC----ChhH-HHHHHHHH------H---HHHHhHhhcCChHHHHHHHHHHHHHHHHc
Q 000053 1691 IFVCLWLFYEQNYEMATICFEKAK----DTYW-EGRSKASG------L---KAAADRISSSNPLEARIILREAAKIFEAI 1756 (2576)
Q Consensus 1691 ~~~~~~l~~~~~ye~A~k~f~rag----d~~~-~~l~~A~~------l---~~~a~~l~~~~~~~a~~~~~eAA~~fe~~ 1756 (2576)
++.|+.+..+|+++.|.+.|.++. +... .....+.- . .+..+.+....|+.. ..+.-++.+|...
T Consensus 122 llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~-~~l~ll~~~~~~~ 200 (409)
T TIGR00540 122 IKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHK-EVLKLAEEAYIRS 200 (409)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH-HHHHHHHHHHHHH
Confidence 566777888999999999999853 2221 11111110 0 011222333334333 2345666666666
Q ss_pred CCHHHHHHHHHH
Q 000053 1757 GKVDSAAKCFFD 1768 (2576)
Q Consensus 1757 G~~~~Aa~~y~k 1768 (2576)
|+++.|.+.+..
T Consensus 201 ~d~~~a~~~l~~ 212 (409)
T TIGR00540 201 GAWQALDDIIDN 212 (409)
T ss_pred hhHHHHHHHHHH
Confidence 666666655543
No 375
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.52 E-value=0.87 Score=62.19 Aligned_cols=42 Identities=29% Similarity=0.334 Sum_probs=30.7
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +..+..+..-|+.||||||||+++..+...|..
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 555554443 344444667799999999999999998888874
No 376
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=90.50 E-value=2.2 Score=47.79 Aligned_cols=93 Identities=18% Similarity=0.227 Sum_probs=54.6
Q ss_pred HHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcC
Q 000053 1691 IFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMG 1770 (2576)
Q Consensus 1691 ~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag 1770 (2576)
+.+|+.++..|+|++|...|+++-... .++..........|.++...|++++|...+....
T Consensus 52 l~lA~~~~~~g~~~~A~~~l~~~~~~~-------------------~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~ 112 (145)
T PF09976_consen 52 LQLAKAAYEQGDYDEAKAALEKALANA-------------------PDPELKPLARLRLARILLQQGQYDEALATLQQIP 112 (145)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHhhC-------------------CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc
Confidence 457777888999999999998754421 0111111223455667777777777776664321
Q ss_pred CHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHc
Q 000053 1771 EYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARG 1811 (2576)
Q Consensus 1771 ~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~ka 1811 (2576)
.-.-. .....-.|+++.+.|++++|...|.++
T Consensus 113 ~~~~~---------~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 113 DEAFK---------ALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred CcchH---------HHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 11100 122345667777777777777777654
No 377
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=90.46 E-value=0.27 Score=46.85 Aligned_cols=28 Identities=32% Similarity=0.551 Sum_probs=24.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCC
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMK 255 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~ 255 (2576)
.+++|.||.|+|||+++-++...|....
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L~~~~ 51 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVLYGNT 51 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHcCCc
Confidence 4899999999999999999988887554
No 378
>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=90.44 E-value=0.47 Score=68.02 Aligned_cols=66 Identities=20% Similarity=0.167 Sum_probs=50.3
Q ss_pred HHHHHHHHhcCCC--CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSG--ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 214 ~~~i~~vl~~~~~--~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
...|..+++...+ +.=.||+||.|||||.+....+...+..|.++++++||..=+.+..+.+.++.
T Consensus 457 ~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~ 524 (926)
T TIGR00580 457 LKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERF 524 (926)
T ss_pred HHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 3344444443222 12369999999999999887777777789999999999999999988888765
No 379
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.37 E-value=0.23 Score=58.89 Aligned_cols=36 Identities=36% Similarity=0.561 Sum_probs=28.2
Q ss_pred CCHHHHHHHHhcCCC-----CCeEEEEcCCCCChhHHHHHH
Q 000053 212 GNLKIIKELLCTDSG-----ATVQLIWGPPGTGKTKTVSML 247 (2576)
Q Consensus 212 ~~~~~i~~vl~~~~~-----~~v~LIwGPPGTGKTktIs~L 247 (2576)
..|.+|-..|....- +.--|..||||||||.++.++
T Consensus 131 ~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akal 171 (368)
T COG1223 131 RKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKAL 171 (368)
T ss_pred HHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHH
Confidence 357788877765442 778899999999999987765
No 380
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.26 E-value=0.85 Score=62.68 Aligned_cols=35 Identities=20% Similarity=0.155 Sum_probs=27.4
Q ss_pred HHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 219 ELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 219 ~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
..+..+..+.--|++||||||||+++-.+...|..
T Consensus 30 ~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 30 NSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred HHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 33444444666889999999999999998888875
No 381
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.25 E-value=0.69 Score=63.37 Aligned_cols=37 Identities=24% Similarity=0.195 Sum_probs=29.0
Q ss_pred HHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 218 KELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 218 ~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
+..+..+..+..-|++||||||||+++..+...|...
T Consensus 29 ~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~ 65 (618)
T PRK14951 29 TNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQ 65 (618)
T ss_pred HHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 3334455556778999999999999999998888753
No 382
>PRK02362 ski2-like helicase; Provisional
Probab=90.21 E-value=0.77 Score=65.25 Aligned_cols=80 Identities=14% Similarity=0.158 Sum_probs=58.5
Q ss_pred ccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC----CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1046 SLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF----PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1046 ~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~----~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
.+++.+.+.+... +. .+|+|-|.+++.. ..+++|.++.|||||.+...-+++. +.
T Consensus 7 ~lp~~~~~~l~~~--g~-----~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~-----l~--------- 65 (737)
T PRK02362 7 PLPEGVIEFYEAE--GI-----EELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKA-----IA--------- 65 (737)
T ss_pred CCCHHHHHHHHhC--CC-----CcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHH-----Hh---------
Confidence 4666666665442 21 4689999999843 4599999999999999987766421 10
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
...++|+++.++.||.+.-+.+.++
T Consensus 66 ----------------~~~kal~i~P~raLa~q~~~~~~~~ 90 (737)
T PRK02362 66 ----------------RGGKALYIVPLRALASEKFEEFERF 90 (737)
T ss_pred ----------------cCCcEEEEeChHHHHHHHHHHHHHh
Confidence 1268999999999999987766654
No 383
>PRK13764 ATPase; Provisional
Probab=90.18 E-value=0.28 Score=66.60 Aligned_cols=34 Identities=29% Similarity=0.286 Sum_probs=27.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 260 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv 260 (2576)
+..-||.||||+||||++.+++..+...++.|++
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 3457999999999999999998888766665555
No 384
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=90.14 E-value=0.93 Score=62.31 Aligned_cols=38 Identities=24% Similarity=0.144 Sum_probs=29.1
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
+...+..+..+..-|++||||||||+++-.+...|...
T Consensus 28 L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 28 LANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 33444455556668999999999999999998888763
No 385
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=90.11 E-value=94 Score=44.19 Aligned_cols=220 Identities=17% Similarity=0.194 Sum_probs=105.3
Q ss_pred cCCHHHHHHHHHHh------CCchHHHHHHHHHHHcCCHHHHHHHHHHcCCHH-HHHHHHHc----------CCCHHHHH
Q 000053 1769 MGEYERAGTIYLER------CEEPELEKAGECFSLAGCYKLAADVYARGSFLA-ECLDVCSK----------GKLFDIGL 1831 (2576)
Q Consensus 1769 ag~~~~A~ely~~~------~~~~~~~~aAe~~e~~g~~~eAAelY~kagd~~-kAi~~y~k----------~k~fd~A~ 1831 (2576)
-|+|..|..+|..+ |....-.-.+-||-+.|..+.|.-.++++-..+ .++..++- ...+..|+
T Consensus 177 kkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~ 256 (1018)
T KOG2002|consen 177 KKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGV 256 (1018)
T ss_pred cccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHH
Confidence 45666666666652 222222334566666777777776666654332 22222211 22344455
Q ss_pred HHHHhhhhcCCcccccccchHHHHHHh---HHhHHHHHHHHHHcCChHHHHHHHH-HhC----------cHHHHHHHHHh
Q 000053 1832 QYISYWKQHADTDVGRVKSSKEMKKIE---QDFLQSCALHFHKLNDNKSMMKFVR-AFH----------SMDLIRNFLNS 1897 (2576)
Q Consensus 1832 ~l~r~~~~~~~~~~~~~~~s~~~~~~e---~~~le~~a~~f~klgd~~~A~~~~k-~~~----------~~e~a~~~l~~ 1897 (2576)
.++. .++++. +..+...|+||.-.||+..+.++.- ++. +.-..++-.-.
T Consensus 257 ~ll~-----------------~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha 319 (1018)
T KOG2002|consen 257 QLLQ-----------------RAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHA 319 (1018)
T ss_pred HHHH-----------------HHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHh
Confidence 4444 223322 2356778899998999987655432 111 11112223334
Q ss_pred cCCHHHHHHHHHhccCHHH-----H----HHHHHHcCCHHHHHHHHHH----cCCHHHHHHHHHHHHHHHhhcCCCCCCC
Q 000053 1898 KGCFDELLVLEEESESFMD-----A----ANIARLRGDILRTVDLLQK----VGNFKEACNLTLNYVLSNSLWSSGSKGW 1964 (2576)
Q Consensus 1898 ~~~~dea~ell~~~g~fee-----A----a~ia~~~G~~~eA~kly~~----aG~~~eA~klll~~~~~~~lw~~~~~g~ 1964 (2576)
.|+|++|..++.++-..+. + .+++.+.|....|...|.+ .-+--+.|+ ++-+|.+... --
T Consensus 320 ~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~------iLG~Lya~~~-~~ 392 (1018)
T KOG2002|consen 320 QGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMK------ILGCLYAHSA-KK 392 (1018)
T ss_pred hccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHH------HHHhHHHhhh-hh
Confidence 4666666655543222211 1 3455566666666555432 233335555 5556666554 00
Q ss_pred CccccccHHHHHHHHHHHHhhhhccchhhhhhhhhccccccccHHHHHHHH
Q 000053 1965 PLKQFTQKKELLEKAKLLAKNESNKFYNFVCTEADILSNDQSDLLIMNQQL 2015 (2576)
Q Consensus 1965 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2015 (2576)
|- +-=.-.++|.|+.+..-.++..+...+ ++-...|-+.+|.-+..-+
T Consensus 393 ~~-~~d~a~~~l~K~~~~~~~d~~a~l~la--ql~e~~d~~~sL~~~~~A~ 440 (1018)
T KOG2002|consen 393 QE-KRDKASNVLGKVLEQTPVDSEAWLELA--QLLEQTDPWASLDAYGNAL 440 (1018)
T ss_pred hH-HHHHHHHHHHHHHhcccccHHHHHHHH--HHHHhcChHHHHHHHHHHH
Confidence 00 001113455555555545555554332 4444566666644444443
No 386
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.10 E-value=0.87 Score=62.55 Aligned_cols=43 Identities=30% Similarity=0.325 Sum_probs=30.8
Q ss_pred CCCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 211 KGNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 211 ~~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.|+-.+++.+ +..+..+..-|++||||||||+++-.+...|..
T Consensus 19 iGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 19 TGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 3555444443 334444666799999999999999998888874
No 387
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=90.09 E-value=0.18 Score=67.23 Aligned_cols=25 Identities=36% Similarity=0.589 Sum_probs=20.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
+.=-|++||||||||+++.++...|
T Consensus 216 p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CcceEEECCCCCcHHHHHHHHHHhh
Confidence 4457999999999999988876655
No 388
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.07 E-value=0.33 Score=62.97 Aligned_cols=41 Identities=27% Similarity=0.335 Sum_probs=29.2
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
|+-.+++.+ +..+..+..-|+.||||||||+++-.+...+.
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 454444433 33444455669999999999999999887776
No 389
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=90.07 E-value=0.75 Score=61.09 Aligned_cols=91 Identities=20% Similarity=0.204 Sum_probs=60.0
Q ss_pred cccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1045 YSLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1045 ~~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
+.+++.++..+-.. +- -.+|+=|.++|.. ..++++.|+.|||||.+.+.-++.........
T Consensus 13 ~~l~~~l~~~l~~~--g~-----~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~--------- 76 (423)
T PRK04837 13 FALHPQVVEALEKK--GF-----HNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAP--------- 76 (423)
T ss_pred CCCCHHHHHHHHHC--CC-----CCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHHHHHHHHHHHhcccc---------
Confidence 45677777766432 21 3579999999942 35899999999999998765554221100000
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
........+.|+++.|+.||.++.+.+..+
T Consensus 77 -----------~~~~~~~~~~lil~PtreLa~Qi~~~~~~l 106 (423)
T PRK04837 77 -----------EDRKVNQPRALIMAPTRELAVQIHADAEPL 106 (423)
T ss_pred -----------cccccCCceEEEECCcHHHHHHHHHHHHHH
Confidence 000112368999999999999998876665
No 390
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=90.05 E-value=0.38 Score=51.98 Aligned_cols=36 Identities=25% Similarity=0.213 Sum_probs=30.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
-+++|.||+|||++...+...|...+.+|+++---.
T Consensus 2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~ 37 (116)
T cd02034 2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP 37 (116)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc
Confidence 368999999999999999999988899988766443
No 391
>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=90.05 E-value=0.24 Score=63.02 Aligned_cols=27 Identities=30% Similarity=0.366 Sum_probs=22.8
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILL 252 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll 252 (2576)
.+.+-++.||||||||+++..|...|-
T Consensus 77 ~r~il~L~GPPGsGKStla~~La~~l~ 103 (361)
T smart00763 77 RKQILYLLGPVGGGKSSLVECLKRGLE 103 (361)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence 368999999999999999888766553
No 392
>PTZ00424 helicase 45; Provisional
Probab=90.03 E-value=0.71 Score=60.74 Aligned_cols=61 Identities=25% Similarity=0.264 Sum_probs=41.8
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh---CCCeEEEEecChHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ---MKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~---~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
...++.++... =.+|.+|+|||||.+....+...+. .+.++|+++||..-+.++...+..+
T Consensus 56 ~~ai~~i~~~~----d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~ 119 (401)
T PTZ00424 56 QRGIKPILDGY----DTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLAL 119 (401)
T ss_pred HHHHHHHhCCC----CEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHH
Confidence 33444444433 2579999999999887655445443 4678999999988777766655443
No 393
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=90.03 E-value=0.48 Score=63.09 Aligned_cols=36 Identities=17% Similarity=0.243 Sum_probs=29.0
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEec
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTP 263 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~Ap 263 (2576)
+--+|+||||||||+++.++...+.. .+.+|+.++.
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 45689999999999999888887764 3678876665
No 394
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=89.98 E-value=0.88 Score=57.20 Aligned_cols=41 Identities=22% Similarity=0.276 Sum_probs=33.9
Q ss_pred ccCCCCCCCHHHHHhh-------cCCCCEEEEecCCccHHHHHHHHHH
Q 000053 1063 ELDLPFEVTDEQLDMI-------LFPRSTFILGRSGTGKTTVLIMKLF 1103 (2576)
Q Consensus 1063 ~~d~~f~Lt~EQ~~iI-------~~~~~~lVlG~AGTGKTtvLl~Ri~ 1103 (2576)
++.+||+..|.|.+.+ ...++.+|.+|.|||||.+++.-++
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHH
Confidence 3568999999999955 3356899999999999998887764
No 395
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=89.98 E-value=0.88 Score=57.20 Aligned_cols=41 Identities=22% Similarity=0.276 Sum_probs=33.9
Q ss_pred ccCCCCCCCHHHHHhh-------cCCCCEEEEecCCccHHHHHHHHHH
Q 000053 1063 ELDLPFEVTDEQLDMI-------LFPRSTFILGRSGTGKTTVLIMKLF 1103 (2576)
Q Consensus 1063 ~~d~~f~Lt~EQ~~iI-------~~~~~~lVlG~AGTGKTtvLl~Ri~ 1103 (2576)
++.+||+..|.|.+.+ ...++.+|.+|.|||||.+++.-++
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHH
Confidence 3568999999999955 3356899999999999998887764
No 396
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=89.86 E-value=0.47 Score=69.26 Aligned_cols=51 Identities=24% Similarity=0.163 Sum_probs=43.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEecChHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCTPTIVAIKELASRVVK 277 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~ApTN~AVd~V~~RL~~ 277 (2576)
+.=.|||.|.|||||.|+..++..|++. ..|||++++++.=+++..+.+..
T Consensus 433 ~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 433 QREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred cCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHh
Confidence 3458999999999999999999999875 47999999999999988876653
No 397
>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=89.79 E-value=0.32 Score=62.59 Aligned_cols=45 Identities=20% Similarity=0.352 Sum_probs=33.1
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEE
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVC 261 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ 261 (2576)
+.+..++... ..+-+|.||+|+|||||+..++..+... +.+|+++
T Consensus 112 ~~l~~~~~~~--~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti 157 (343)
T TIGR01420 112 PVLRELAERP--RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI 157 (343)
T ss_pred HHHHHHHhhc--CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence 3555555433 6799999999999999999988776543 4566654
No 398
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=89.77 E-value=0.61 Score=63.25 Aligned_cols=37 Identities=19% Similarity=0.207 Sum_probs=30.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEecC
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPT 264 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~ApT 264 (2576)
+.-+|+||+|||||+++.++...+.. .+.+|+.++..
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitae 353 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSE 353 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence 34699999999999999999998876 37888777653
No 399
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=89.73 E-value=0.22 Score=65.26 Aligned_cols=34 Identities=26% Similarity=0.351 Sum_probs=24.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+.--|+.||||||||+++.++...+ +...+.++.
T Consensus 165 p~gvLL~GppGtGKT~lAkaia~~~---~~~~i~v~~ 198 (389)
T PRK03992 165 PKGVLLYGPPGTGKTLLAKAVAHET---NATFIRVVG 198 (389)
T ss_pred CCceEEECCCCCChHHHHHHHHHHh---CCCEEEeeh
Confidence 4457899999999999988875543 444444443
No 400
>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=89.72 E-value=0.25 Score=60.21 Aligned_cols=30 Identities=27% Similarity=0.297 Sum_probs=23.2
Q ss_pred EEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 232 IWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 232 IwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
|-||||+||||.+..+-..+-..++++.++
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~v 30 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIV 30 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEE
Confidence 679999999999999988887777666554
No 401
>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=89.67 E-value=0.44 Score=55.52 Aligned_cols=19 Identities=47% Similarity=0.641 Sum_probs=17.2
Q ss_pred EEEEecCCccHHHHHHHHH
Q 000053 1084 TFILGRSGTGKTTVLIMKL 1102 (2576)
Q Consensus 1084 ~lVlG~AGTGKTtvLl~Ri 1102 (2576)
++|.|+||||||+.+..-+
T Consensus 2 ~li~G~~G~GKT~l~~~~~ 20 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFL 20 (187)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 6899999999999988876
No 402
>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=89.65 E-value=0.49 Score=59.08 Aligned_cols=63 Identities=19% Similarity=0.126 Sum_probs=41.4
Q ss_pred HHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCC---CeEEEEecChHHHHHHHHHHHHHH
Q 000053 217 IKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMK---FRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 217 i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~---~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.+.+........+-.|+|+||+|||+++..+.......+ ..+.+...++.-...+...+...+
T Consensus 9 ~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l 74 (287)
T PF00931_consen 9 KDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQL 74 (287)
T ss_dssp HHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred HHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccc
Confidence 344444445688999999999999999998886644332 345555555544466666666554
No 403
>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=89.65 E-value=0.4 Score=61.98 Aligned_cols=44 Identities=20% Similarity=0.297 Sum_probs=33.6
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEE
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVC 261 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~ 261 (2576)
.+++.++. .+.+.+|.||+|+|||||+.+++..+... +.+|+++
T Consensus 140 ~~~~~l~~---~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~Ivti 185 (372)
T TIGR02525 140 DLFNSLLP---AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTY 185 (372)
T ss_pred HHHHHHHh---cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEE
Confidence 45555554 35689999999999999999998888753 4566664
No 404
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=89.63 E-value=1.2 Score=61.02 Aligned_cols=43 Identities=26% Similarity=0.254 Sum_probs=30.9
Q ss_pred CCHHHHHH---HHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 212 GNLKIIKE---LLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 212 ~~~~~i~~---vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
|+-.+++. .+..+..+..-|++||||||||+++..+...|...
T Consensus 20 GQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 20 GQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 44444443 34444446677999999999999999988887653
No 405
>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=89.61 E-value=0.31 Score=60.57 Aligned_cols=38 Identities=32% Similarity=0.381 Sum_probs=31.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
.+..-+|.||||+||||++.+++..+-....+++++-.
T Consensus 126 ~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd 163 (270)
T PF00437_consen 126 GRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIED 163 (270)
T ss_dssp TTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEES
T ss_pred cceEEEEECCCccccchHHHHHhhhccccccceEEecc
Confidence 46799999999999999999998766666588877654
No 406
>PRK10436 hypothetical protein; Provisional
Probab=89.59 E-value=0.45 Score=63.23 Aligned_cols=45 Identities=27% Similarity=0.319 Sum_probs=33.6
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 260 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv 260 (2576)
...++.++.. .+++-||.||+|+|||||+.+++..+...+.+|++
T Consensus 207 ~~~l~~~~~~--~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~T 251 (462)
T PRK10436 207 LAQFRQALQQ--PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICS 251 (462)
T ss_pred HHHHHHHHHh--cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEE
Confidence 3445554433 37899999999999999999888877666666655
No 407
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=89.57 E-value=0.49 Score=60.30 Aligned_cols=40 Identities=18% Similarity=0.185 Sum_probs=31.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhC------CCeEEEEecCh
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQM------KFRTLVCTPTI 265 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~------~~rVLv~ApTN 265 (2576)
..++++|.||||||||++...++...... +.+++.++.-+
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~ 146 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG 146 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence 48899999999999999999998876543 33666665433
No 408
>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=89.53 E-value=0.098 Score=60.35 Aligned_cols=47 Identities=23% Similarity=0.314 Sum_probs=31.2
Q ss_pred EEEcCCCCChhHHHHHHHHHHHhCCC-eEEEEecChHHHHHHHHHHHH
Q 000053 231 LIWGPPGTGKTKTVSMLLVILLQMKF-RTLVCTPTIVAIKELASRVVK 277 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~Ll~~~~-rVLv~ApTN~AVd~V~~RL~~ 277 (2576)
+|.|+.|.|||.++..++..++..+. +|+||||+-.++..+.+.+.+
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~ 48 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEK 48 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHh
Confidence 58999999999999999999998876 999999999999876554443
No 409
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.52 E-value=17 Score=43.55 Aligned_cols=105 Identities=17% Similarity=0.203 Sum_probs=64.4
Q ss_pred HHHHcCCHHHHHHHHHHhC-----CchHHHHHHHHHHHcCCHHHHHHHHHHc----------CCHHHHHHHHHcCCCHHH
Q 000053 1765 CFFDMGEYERAGTIYLERC-----EEPELEKAGECFSLAGCYKLAADVYARG----------SFLAECLDVCSKGKLFDI 1829 (2576)
Q Consensus 1765 ~y~kag~~~~A~ely~~~~-----~~~~~~~aAe~~e~~g~~~eAAelY~ka----------gd~~kAi~~y~k~k~fd~ 1829 (2576)
.|.+.|+.+.|.+.|+++. .-..+..-+.+++..|.|++|-..+.++ +-|+++.-|-.+.|.++.
T Consensus 78 ~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~ 157 (250)
T COG3063 78 YYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQ 157 (250)
T ss_pred HHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchh
Confidence 3444444444444444431 1245788888999999998888776663 336677777778888888
Q ss_pred HHHHHHhhhhcCCcccccccchHHHHHHhHHhHHHHHHHHHHcCChHHHHHHHH
Q 000053 1830 GLQYISYWKQHADTDVGRVKSSKEMKKIEQDFLQSCALHFHKLNDNKSMMKFVR 1883 (2576)
Q Consensus 1830 A~~l~r~~~~~~~~~~~~~~~s~~~~~~e~~~le~~a~~f~klgd~~~A~~~~k 1883 (2576)
|-.+.++--.+++.. ....++.+..||. .|++..|+.++.
T Consensus 158 A~~~l~raL~~dp~~-------------~~~~l~~a~~~~~-~~~y~~Ar~~~~ 197 (250)
T COG3063 158 AEEYLKRALELDPQF-------------PPALLELARLHYK-AGDYAPARLYLE 197 (250)
T ss_pred HHHHHHHHHHhCcCC-------------ChHHHHHHHHHHh-cccchHHHHHHH
Confidence 888888433222211 1124555666665 667776766554
No 410
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=89.48 E-value=6.1 Score=55.44 Aligned_cols=100 Identities=15% Similarity=0.125 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCC----HH
Q 000053 1740 LEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSF----LA 1815 (2576)
Q Consensus 1740 ~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd----~~ 1815 (2576)
+..+...++|-+..+..|....++.-.-++-+|- +=|.+ ....+.-.|+.....|.+++|..++..+=. +.
T Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~--~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~ 120 (694)
T PRK15179 46 EAGRELLQQARQVLERHAAVHKPAAALPELLDYV---RRYPH--TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSS 120 (694)
T ss_pred hHHHHHHHHHHHHHHHhhhhcchHhhHHHHHHHH---Hhccc--cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcH
Confidence 3447778889999999998877775444332221 11211 245677889999999999999999888433 33
Q ss_pred HH----HHHHHcCCCHHHHHHHHHhhhhcCCcc
Q 000053 1816 EC----LDVCSKGKLFDIGLQYISYWKQHADTD 1844 (2576)
Q Consensus 1816 kA----i~~y~k~k~fd~A~~l~r~~~~~~~~~ 1844 (2576)
.| ..++.+.+.+++|+..++++-++.+.+
T Consensus 121 ~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~ 153 (694)
T PRK15179 121 EAFILMLRGVKRQQGIEAGRAEIELYFSGGSSS 153 (694)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCC
Confidence 33 345567888999999888655554433
No 411
>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=89.47 E-value=0.6 Score=68.67 Aligned_cols=54 Identities=22% Similarity=0.317 Sum_probs=44.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVK 280 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~ 280 (2576)
+.--++++|+|||||..+..++..+...+.++|+++||..=+.++.+++.++..
T Consensus 93 G~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~ 146 (1171)
T TIGR01054 93 GDSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAE 146 (1171)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHH
Confidence 334568999999999876655555666789999999999999999999988764
No 412
>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=89.46 E-value=0.39 Score=64.40 Aligned_cols=44 Identities=27% Similarity=0.328 Sum_probs=32.4
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 260 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv 260 (2576)
..++.++... +++.+|.||+|+|||||+.+++..+...+.+|++
T Consensus 232 ~~l~~~~~~~--~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiT 275 (486)
T TIGR02533 232 SRFERLIRRP--HGIILVTGPTGSGKTTTLYAALSRLNTPERNILT 275 (486)
T ss_pred HHHHHHHhcC--CCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEE
Confidence 3444444333 6799999999999999999888777655555655
No 413
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=89.45 E-value=0.22 Score=56.48 Aligned_cols=19 Identities=42% Similarity=0.692 Sum_probs=15.5
Q ss_pred eEEEEcCCCCChhHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSML 247 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~L 247 (2576)
.-+|.|+|||||||+...|
T Consensus 2 ~I~ITGTPGvGKTT~~~~L 20 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLL 20 (180)
T ss_pred eEEEeCCCCCchHHHHHHH
Confidence 3579999999999876554
No 414
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=89.42 E-value=0.48 Score=65.91 Aligned_cols=56 Identities=14% Similarity=0.003 Sum_probs=44.5
Q ss_pred HHHHHHHHh--cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHH
Q 000053 214 LKIIKELLC--TDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIK 269 (2576)
Q Consensus 214 ~~~i~~vl~--~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd 269 (2576)
..-++.+|. --...++++|.||||||||++...++......|.+++.+..-+..-.
T Consensus 45 i~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~ 102 (790)
T PRK09519 45 SIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDP 102 (790)
T ss_pred cHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhH
Confidence 445566665 23458899999999999999999999888899999988887665553
No 415
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=89.39 E-value=0.28 Score=54.94 Aligned_cols=22 Identities=41% Similarity=0.463 Sum_probs=17.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
-.|-|||||||||+...|...|
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHh
Confidence 4689999999999887665443
No 416
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.36 E-value=0.84 Score=63.00 Aligned_cols=42 Identities=36% Similarity=0.415 Sum_probs=29.3
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
++-.+++.+ +..+..+.--|++||||||||+++..+...|..
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence 444444433 333333445599999999999999999888875
No 417
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=89.24 E-value=0.42 Score=57.19 Aligned_cols=32 Identities=28% Similarity=0.388 Sum_probs=29.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
+.++ |..|.|||++.++|...|.+.|+|||++
T Consensus 3 iav~-gKGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 3 IAIY-GKGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEE-CCCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 4455 9999999999999999999999999987
No 418
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.18 E-value=0.4 Score=65.17 Aligned_cols=60 Identities=18% Similarity=0.117 Sum_probs=44.3
Q ss_pred HHHHHHh-cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecChHHHHHHHHHHH
Q 000053 216 IIKELLC-TDSGATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 216 ~i~~vl~-~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
-++.+|. --...++.||.||||||||+.....+..-+.. |.++|.++--.. .+++.+++.
T Consensus 19 ~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~-~~~i~~~~~ 80 (509)
T PRK09302 19 GFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEES-PEDIIRNVA 80 (509)
T ss_pred hHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCC-HHHHHHHHH
Confidence 3445553 23448899999999999999999999888877 999988877553 334444443
No 419
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=89.17 E-value=0.48 Score=54.81 Aligned_cols=50 Identities=18% Similarity=0.215 Sum_probs=38.4
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
+.+|.||||||||+.+..+... .+.+++.+|.....-+++..|+......
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~---~~~~~~~iat~~~~~~e~~~ri~~h~~~ 52 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQ---SGLQVLYIATAQPFDDEMAARIAHHRQR 52 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHH---cCCCcEeCcCCCCChHHHHHHHHHHHhc
Confidence 5799999999999998887654 3566777776666677888898876533
No 420
>PRK12370 invasion protein regulator; Provisional
Probab=89.11 E-value=9.2 Score=52.77 Aligned_cols=75 Identities=9% Similarity=-0.195 Sum_probs=41.4
Q ss_pred HHHHHcCCHHHHHHHHHHhC--Cc---hHHHHHHHHHHHcCCHHHHHHHHHHcC-----CHH----HHHHHHHcCCCHHH
Q 000053 1764 KCFFDMGEYERAGTIYLERC--EE---PELEKAGECFSLAGCYKLAADVYARGS-----FLA----ECLDVCSKGKLFDI 1829 (2576)
Q Consensus 1764 ~~y~kag~~~~A~ely~~~~--~~---~~~~~aAe~~e~~g~~~eAAelY~kag-----d~~----kAi~~y~k~k~fd~ 1829 (2576)
.+|...|++++|...+.+.. +. ......+..+...|.+++|.+.|.++- +.. ..-.+|...|.+++
T Consensus 380 ~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~e 459 (553)
T PRK12370 380 WNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHEL 459 (553)
T ss_pred HHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHH
Confidence 34455555555555555431 11 111122233445788888888887641 111 22335567888899
Q ss_pred HHHHHHhhh
Q 000053 1830 GLQYISYWK 1838 (2576)
Q Consensus 1830 A~~l~r~~~ 1838 (2576)
|...+++..
T Consensus 460 A~~~~~~~~ 468 (553)
T PRK12370 460 ARKLTKEIS 468 (553)
T ss_pred HHHHHHHhh
Confidence 988887543
No 421
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=89.09 E-value=0.99 Score=60.13 Aligned_cols=51 Identities=33% Similarity=0.311 Sum_probs=39.2
Q ss_pred eEEEEcCCCCChhHHHHHH-HHHHHh------CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSML-LVILLQ------MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~L-l~~Ll~------~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
=.++++|+|||||.+.... +..++. .+.++|+++||..-+.++.+.+..+.
T Consensus 40 d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 40 DVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred CEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 4899999999999876533 333332 14689999999999999988887664
No 422
>PHA02244 ATPase-like protein
Probab=89.09 E-value=0.27 Score=62.56 Aligned_cols=31 Identities=16% Similarity=0.255 Sum_probs=24.1
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
--+|+||||||||+++.++...+ +.+.+.++
T Consensus 121 PVLL~GppGtGKTtLA~aLA~~l---g~pfv~In 151 (383)
T PHA02244 121 PVFLKGGAGSGKNHIAEQIAEAL---DLDFYFMN 151 (383)
T ss_pred CEEEECCCCCCHHHHHHHHHHHh---CCCEEEEe
Confidence 46889999999999998887653 55655554
No 423
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=89.09 E-value=0.76 Score=60.98 Aligned_cols=64 Identities=16% Similarity=0.133 Sum_probs=50.1
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH-hCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll-~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
++-++.++.-.....+.+|-|+||+|||+.+..++..+. ..|.+|++++.=. ..++++.|+...
T Consensus 181 ~~~LD~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm-~~~~l~~Rl~~~ 245 (421)
T TIGR03600 181 LPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEM-SAEQLGERLLAS 245 (421)
T ss_pred ChhHHHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCC-CHHHHHHHHHHH
Confidence 455556655444478999999999999999999998886 6799999998654 556778888754
No 424
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=89.09 E-value=2.5 Score=47.55 Aligned_cols=97 Identities=18% Similarity=0.200 Sum_probs=64.6
Q ss_pred cCChHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHH
Q 000053 1669 ASSPEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILRE 1748 (2576)
Q Consensus 1669 ~ss~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~e 1748 (2576)
.-.|..|...|.. +...|+|++|..+|.++=.. +|... ..+..
T Consensus 21 ~~~p~~~~~~g~~---------------~~~~g~~~~A~~~~~~al~~---------------------~P~~~-~a~~~ 63 (144)
T PRK15359 21 SVDPETVYASGYA---------------SWQEGDYSRAVIDFSWLVMA---------------------QPWSW-RAHIA 63 (144)
T ss_pred HcCHHHHHHHHHH---------------HHHcCCHHHHHHHHHHHHHc---------------------CCCcH-HHHHH
Confidence 3446667777766 88899999999999974332 22211 23466
Q ss_pred HHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHH
Q 000053 1749 AAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYAR 1810 (2576)
Q Consensus 1749 AA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~k 1810 (2576)
-|..+...|++++|+.+|.+ |.++-. .....+...|.++...|++++|.+.|.+
T Consensus 64 lg~~~~~~g~~~~A~~~y~~------Al~l~p--~~~~a~~~lg~~l~~~g~~~eAi~~~~~ 117 (144)
T PRK15359 64 LAGTWMMLKEYTTAINFYGH------ALMLDA--SHPEPVYQTGVCLKMMGEPGLAREAFQT 117 (144)
T ss_pred HHHHHHHHhhHHHHHHHHHH------HHhcCC--CCcHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 67778888888888877654 333311 1234566778888888888888887755
No 425
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=88.99 E-value=0.43 Score=61.01 Aligned_cols=25 Identities=32% Similarity=0.627 Sum_probs=21.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
+.-|-|||||||||+|..|+..+-+
T Consensus 71 IvavvGPpGtGKsTLirSlVrr~tk 95 (1077)
T COG5192 71 IVAVVGPPGTGKSTLIRSLVRRFTK 95 (1077)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHH
Confidence 4448999999999999999988875
No 426
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.98 E-value=1.1 Score=61.93 Aligned_cols=43 Identities=28% Similarity=0.343 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHhc---CCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 211 KGNLKIIKELLCT---DSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 211 ~~~~~~i~~vl~~---~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.|+-.+++.+... +..+..-|+.||||||||+++-.+...|..
T Consensus 19 iGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 19 VGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred cCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4666666555433 333445599999999999999998887763
No 427
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=88.95 E-value=1.5 Score=60.45 Aligned_cols=91 Identities=15% Similarity=0.157 Sum_probs=60.4
Q ss_pred cccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCC
Q 000053 1045 YSLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNN 1121 (2576)
Q Consensus 1045 ~~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~ 1121 (2576)
+.+++.++..|... +. -.+|+=|.++|.. ..++++.|+.|||||.+.+.-++........
T Consensus 14 l~l~~~l~~~L~~~--g~-----~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~---------- 76 (572)
T PRK04537 14 FDLHPALLAGLESA--GF-----TRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPA---------- 76 (572)
T ss_pred cCCCHHHHHHHHHC--CC-----CCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHHHHHHHHHHHhccc----------
Confidence 45677777776432 21 3589999999943 3489999999999999876666432110000
Q ss_pred CcchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1122 SSQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1122 ~~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
.........++|+++.|+.||.++.+.+.++
T Consensus 77 ----------~~~~~~~~~raLIl~PTreLa~Qi~~~~~~l 107 (572)
T PRK04537 77 ----------LADRKPEDPRALILAPTRELAIQIHKDAVKF 107 (572)
T ss_pred ----------ccccccCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 0000111368999999999999998876655
No 428
>PRK05580 primosome assembly protein PriA; Validated
Probab=88.94 E-value=0.86 Score=63.89 Aligned_cols=68 Identities=18% Similarity=0.136 Sum_probs=51.7
Q ss_pred CCCCCCCHHHHHhhcC------CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcc
Q 000053 1065 DLPFEVTDEQLDMILF------PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERV 1138 (2576)
Q Consensus 1065 d~~f~Lt~EQ~~iI~~------~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~ 1138 (2576)
+.++.||++|++++.. ..+.++.|+.|||||.+.+.-+... +. .
T Consensus 140 ~~~~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~-----l~-~------------------------ 189 (679)
T PRK05580 140 FEPPTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEV-----LA-Q------------------------ 189 (679)
T ss_pred cCCCCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHH-----HH-c------------------------
Confidence 3568899999999832 3578999999999999987655211 10 1
Q ss_pred cccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1139 ILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1139 ~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
..++|+++.+..++.++-+++.+.
T Consensus 190 g~~vLvLvPt~~L~~Q~~~~l~~~ 213 (679)
T PRK05580 190 GKQALVLVPEIALTPQMLARFRAR 213 (679)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHH
Confidence 157899999999999998877653
No 429
>PRK05541 adenylylsulfate kinase; Provisional
Probab=88.87 E-value=0.54 Score=54.47 Aligned_cols=35 Identities=26% Similarity=0.174 Sum_probs=28.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
+.+-+|.||||+|||+++..+...|-..+..+.++
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 56889999999999999988888887666666555
No 430
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=88.86 E-value=1.3 Score=61.45 Aligned_cols=43 Identities=28% Similarity=0.382 Sum_probs=30.4
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
|+-.+++.+ +..+..+..-|+.||||||||+++-.+...|...
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 444444433 4444446667999999999999999888777653
No 431
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=88.85 E-value=1.4 Score=59.47 Aligned_cols=42 Identities=29% Similarity=0.345 Sum_probs=30.7
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +..+..+..-|++||||||||+++-.+...|+.
T Consensus 18 Gqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 18 GQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 454444443 444444666699999999999999999988874
No 432
>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=88.80 E-value=1.5 Score=60.22 Aligned_cols=65 Identities=18% Similarity=0.269 Sum_probs=48.4
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.+++.|...-.....-+|..|+|||||-.-..-+...+. .+.+|+|++||..=.+++...+..+.
T Consensus 4 ~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 4 LFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred HHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHH
Confidence 455666666666789999999999999665543333322 58999999999999999998655443
No 433
>PRK06762 hypothetical protein; Provisional
Probab=88.77 E-value=0.46 Score=54.41 Aligned_cols=33 Identities=33% Similarity=0.405 Sum_probs=24.9
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
+.+-+|.||||+||||++..+...+ +..+.+++
T Consensus 2 ~~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~ 34 (166)
T PRK06762 2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS 34 (166)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEec
Confidence 3577899999999999998887666 33454444
No 434
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=88.71 E-value=0.68 Score=67.49 Aligned_cols=68 Identities=19% Similarity=0.210 Sum_probs=50.0
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC-CCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM-KFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~-~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
....++|+..-..+.|.+|.|++||||||.+-.++..+-.. ..+|.++-|.-.|.-+++.|+.+-...
T Consensus 76 ~~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~ 144 (1294)
T PRK11131 76 SQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET 144 (1294)
T ss_pred HHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh
Confidence 34445566665668899999999999999776554433211 236777789999999999999977643
No 435
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=88.68 E-value=0.46 Score=60.88 Aligned_cols=60 Identities=28% Similarity=0.410 Sum_probs=44.5
Q ss_pred CHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHH
Q 000053 213 NLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELAS 273 (2576)
Q Consensus 213 ~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~ 273 (2576)
.-..+..++.......-.++.||||||||+.+.++...+- .+...+-|.|...+-|-+-.
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~-~~~~~i~~t~~l~p~d~~G~ 88 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALG-LPFVRIQCTPDLLPSDLLGT 88 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhC-CCeEEEecCCCCCHHHhcCc
Confidence 4455666666666677899999999999999988876665 66777778877777764433
No 436
>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=88.65 E-value=0.5 Score=60.99 Aligned_cols=34 Identities=21% Similarity=0.380 Sum_probs=27.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC---CCeEEE
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM---KFRTLV 260 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~---~~rVLv 260 (2576)
..+.+|.||+|+|||||+.+++..+... +.+|++
T Consensus 134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt 170 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILT 170 (358)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEE
Confidence 6899999999999999999988877643 345554
No 437
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=88.64 E-value=1.1 Score=61.42 Aligned_cols=32 Identities=31% Similarity=0.262 Sum_probs=26.1
Q ss_pred cCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 223 TDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 223 ~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
.+..+.--|++||||||||+++-.+...|...
T Consensus 42 ~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 42 TGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 33445567999999999999999999888754
No 438
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=88.64 E-value=0.76 Score=54.02 Aligned_cols=47 Identities=26% Similarity=0.323 Sum_probs=34.6
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh-----CCCeEEEEecC
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ-----MKFRTLVCTPT 264 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~-----~~~rVLv~ApT 264 (2576)
+|+.+.++.-+ -+||-||||+||||.+-.+...+.. .++||.++-..
T Consensus 128 li~~ly~~g~l--ntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDer 179 (308)
T COG3854 128 LIKDLYQNGWL--NTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDER 179 (308)
T ss_pred HHHHHHhcCce--eeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEecc
Confidence 77777776642 3899999999999999888766653 36677776443
No 439
>PRK12608 transcription termination factor Rho; Provisional
Probab=88.62 E-value=0.58 Score=59.90 Aligned_cols=50 Identities=18% Similarity=0.251 Sum_probs=36.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCC----CeEEEEecChHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMK----FRTLVCTPTIVAIKELASRVV 276 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~----~rVLv~ApTN~AVd~V~~RL~ 276 (2576)
..=.+|.||||||||+++..++..+.... +.++++.....-+.++...+.
T Consensus 133 GQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~ 186 (380)
T PRK12608 133 GQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVK 186 (380)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHh
Confidence 34459999999999999999988887753 345556666666666655554
No 440
>PRK00889 adenylylsulfate kinase; Provisional
Probab=88.58 E-value=0.58 Score=54.17 Aligned_cols=35 Identities=23% Similarity=0.216 Sum_probs=29.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
..+-+|.|+||+|||+++..+...+-..+.++.+.
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 34778899999999999999988887777777666
No 441
>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=88.58 E-value=0.5 Score=57.37 Aligned_cols=51 Identities=20% Similarity=0.242 Sum_probs=36.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhC------CCeEEEEecChHHHHHHHHHHHHHH
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQM------KFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~------~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
...+..|.||||||||+.+..++...... +.+++..+.-+.+- ..|+.+..
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~---~~rl~~~~ 74 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFR---PERLVQIA 74 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcC---HHHHHHHH
Confidence 47899999999999999999998775543 36777776655321 34555543
No 442
>PF12846 AAA_10: AAA-like domain
Probab=88.58 E-value=0.51 Score=59.13 Aligned_cols=42 Identities=29% Similarity=0.325 Sum_probs=36.7
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIK 269 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd 269 (2576)
+=.+|-|++|+|||+++..++..++..|.++++.=|+..-..
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGDYSP 43 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCchHHH
Confidence 347899999999999999999999999999999988754443
No 443
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=88.56 E-value=0.29 Score=64.50 Aligned_cols=25 Identities=32% Similarity=0.521 Sum_probs=20.2
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
+.--|+.||||||||+++.++...+
T Consensus 217 p~gVLL~GPPGTGKT~LAraIA~el 241 (438)
T PTZ00361 217 PKGVILYGPPGTGKTLLAKAVANET 241 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhh
Confidence 4457889999999999998876543
No 444
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=88.56 E-value=1.2 Score=54.67 Aligned_cols=111 Identities=22% Similarity=0.361 Sum_probs=72.6
Q ss_pred hHHHHHHhHHHHHHhhhhHHHHHHHHHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHH
Q 000053 1672 PEEWKSRGIKVCEIFKKFIIFVCLWLFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAK 1751 (2576)
Q Consensus 1672 ~~eW~~~g~~~~~~y~~~~~~~~~~l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~ 1751 (2576)
.+.-|.+|.+ ++..++|++|..+|.+|=.. +|..+. .|..-|.
T Consensus 81 AE~LK~eGN~---------------~m~~~~Y~eAv~kY~~AI~l---------------------~P~nAV-yycNRAA 123 (304)
T KOG0553|consen 81 AESLKNEGNK---------------LMKNKDYQEAVDKYTEAIEL---------------------DPTNAV-YYCNRAA 123 (304)
T ss_pred HHHHHHHHHH---------------HHHhhhHHHHHHHHHHHHhc---------------------CCCcch-HHHHHHH
Confidence 3456788888 89999999999999965321 222221 2333344
Q ss_pred HHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCc---hHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHcCCCHH
Q 000053 1752 IFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEE---PELEKAGECFSLAGCYKLAADVYARGSFLAECLDVCSKGKLFD 1828 (2576)
Q Consensus 1752 ~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~---~~~~~aAe~~e~~g~~~eAAelY~kagd~~kAi~~y~k~k~fd 1828 (2576)
.|.+.|+++.|++ +-+.|+.+ +. +.|-+.+-.|...|.|.+|++.|.|+ +++.-...-|.
T Consensus 124 Ay~~Lg~~~~AVk------Dce~Al~i-----Dp~yskay~RLG~A~~~~gk~~~A~~aykKa------LeldP~Ne~~K 186 (304)
T KOG0553|consen 124 AYSKLGEYEDAVK------DCESALSI-----DPHYSKAYGRLGLAYLALGKYEEAIEAYKKA------LELDPDNESYK 186 (304)
T ss_pred HHHHhcchHHHHH------HHHHHHhc-----ChHHHHHHHHHHHHHHccCcHHHHHHHHHhh------hccCCCcHHHH
Confidence 5666666666662 22333333 12 45778888999999999999997764 44555555677
Q ss_pred HHHHHHHh
Q 000053 1829 IGLQYISY 1836 (2576)
Q Consensus 1829 ~A~~l~r~ 1836 (2576)
..++++++
T Consensus 187 ~nL~~Ae~ 194 (304)
T KOG0553|consen 187 SNLKIAEQ 194 (304)
T ss_pred HHHHHHHH
Confidence 77777773
No 445
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=88.54 E-value=0.48 Score=58.43 Aligned_cols=35 Identities=23% Similarity=0.248 Sum_probs=32.6
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+-++.|.||+|||++.+++...+...|+|||+++-
T Consensus 2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~ 36 (254)
T cd00550 2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVST 36 (254)
T ss_pred EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeC
Confidence 67899999999999999999999999999999974
No 446
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=88.52 E-value=1.2 Score=57.22 Aligned_cols=39 Identities=23% Similarity=0.314 Sum_probs=31.6
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
.++..+..+..+..-|++||||+|||+++-.+...++..
T Consensus 17 ~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 17 MLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred HHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 445555566668889999999999999999998888754
No 447
>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=88.46 E-value=0.32 Score=65.85 Aligned_cols=34 Identities=26% Similarity=0.257 Sum_probs=25.5
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecCh
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTI 265 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN 265 (2576)
=-|+.||||||||+++.++... .+..++.++.+.
T Consensus 90 giLL~GppGtGKT~la~alA~~---~~~~~~~i~~~~ 123 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAGE---AGVPFFSISGSD 123 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHHH---cCCCeeeccHHH
Confidence 4789999999999999888543 356666665543
No 448
>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=88.46 E-value=0.56 Score=54.71 Aligned_cols=33 Identities=30% Similarity=0.271 Sum_probs=27.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
-.|.||||+|||+++..+...|-..|.++.+++
T Consensus 2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~ 34 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVIS 34 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEe
Confidence 478999999999999988888877777766654
No 449
>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=88.45 E-value=1.3 Score=50.73 Aligned_cols=39 Identities=26% Similarity=0.380 Sum_probs=30.4
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
.++..++.+..+..-|++||+|+||++++..++..++..
T Consensus 8 ~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~ 46 (162)
T PF13177_consen 8 LLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCS 46 (162)
T ss_dssp HHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-T
T ss_pred HHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 445556667778888999999999999999999999864
No 450
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=88.45 E-value=0.28 Score=64.09 Aligned_cols=24 Identities=38% Similarity=0.592 Sum_probs=19.6
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVI 250 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~ 250 (2576)
+.--|+.||||||||+++.++...
T Consensus 179 pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CceEEEECCCCCCHHHHHHHHHHh
Confidence 556788999999999998776543
No 451
>PHA02558 uvsW UvsW helicase; Provisional
Probab=88.39 E-value=1.2 Score=60.60 Aligned_cols=67 Identities=10% Similarity=0.022 Sum_probs=49.6
Q ss_pred CCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCCcchhhhhhhhhhhhcccccEE
Q 000053 1067 PFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNSSQETEAEKDLEKTERVILRQL 1143 (2576)
Q Consensus 1067 ~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~~~~~~~~~~~~~~~~~~~riL 1143 (2576)
.+.+++.|++++.. ....++.++.|||||.++..-+. +.++. ...++|
T Consensus 112 ~~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i~~~l~~-----~~~~~------------------------~~~~vL 162 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLIQYLLSR-----YYLEN------------------------YEGKVL 162 (501)
T ss_pred cCCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHH-----HHHhc------------------------CCCeEE
Confidence 47899999998832 45689999999999998654221 11110 113899
Q ss_pred EEEcCHHHHHHHHHHHHhh
Q 000053 1144 FVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1144 ~vTfS~~la~eik~ri~~l 1162 (2576)
+++.|+.|+.++.+++.++
T Consensus 163 ilvpt~eL~~Q~~~~l~~~ 181 (501)
T PHA02558 163 IIVPTTSLVTQMIDDFVDY 181 (501)
T ss_pred EEECcHHHHHHHHHHHHHh
Confidence 9999999999998877764
No 452
>PRK10689 transcription-repair coupling factor; Provisional
Probab=88.39 E-value=0.79 Score=67.24 Aligned_cols=52 Identities=17% Similarity=0.187 Sum_probs=44.1
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.=.||+||.|||||.++...++..+..|.++++++||..=+.++...+.+..
T Consensus 622 ~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~ 673 (1147)
T PRK10689 622 MDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRF 673 (1147)
T ss_pred CCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhh
Confidence 3479999999999999876666667789999999999998888888877653
No 453
>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=88.39 E-value=0.47 Score=60.31 Aligned_cols=40 Identities=18% Similarity=0.229 Sum_probs=30.0
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHh------CCCeEEEEecCh
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQ------MKFRTLVCTPTI 265 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~------~~~rVLv~ApTN 265 (2576)
..++++|.||||||||+....++..... .+.+++.++.-.
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~ 139 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN 139 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence 3789999999999999999999777653 123666665443
No 454
>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=88.33 E-value=0.62 Score=58.78 Aligned_cols=36 Identities=25% Similarity=0.324 Sum_probs=28.8
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC--CCeEEEEe
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM--KFRTLVCT 262 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~rVLv~A 262 (2576)
+..-+|.||+|+||||++.+++..+-.. +.|++++-
T Consensus 132 ~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiE 169 (299)
T TIGR02782 132 RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIE 169 (299)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEEC
Confidence 4567999999999999999988776653 67877654
No 455
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.31 E-value=1.1 Score=58.38 Aligned_cols=42 Identities=31% Similarity=0.415 Sum_probs=30.2
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
++-.+++.+ ++.+..++.-|++||||||||+++-.+...+..
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 454454444 344445678899999999999999888666654
No 456
>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=88.30 E-value=0.35 Score=56.30 Aligned_cols=23 Identities=26% Similarity=0.543 Sum_probs=18.9
Q ss_pred eEEEEcCCCCChhHHHHHHHHHH
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
|-+|.||||+||||....|...+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHc
Confidence 45899999999999988875544
No 457
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=88.17 E-value=1.3 Score=59.51 Aligned_cols=53 Identities=23% Similarity=0.330 Sum_probs=39.3
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC---CCeEEEEecChHHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM---KFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~---~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
+.-.++++|+|||||.+..-.+...+.. +.++|+++||-.-+.++.+.+..+.
T Consensus 41 g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 41 GKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred CCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHH
Confidence 3458999999999997754333333332 4479999999998888888776654
No 458
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.15 E-value=0.5 Score=66.02 Aligned_cols=52 Identities=21% Similarity=0.292 Sum_probs=34.1
Q ss_pred hhHhhhccc---CCCHHHHH---HHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 202 RRIWNSLHM---KGNLKIIK---ELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 202 ~ri~~~l~~---~~~~~~i~---~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
.+-|+.... -|+-.+++ ..+..+..+..-|++||||||||+++..+...|..
T Consensus 7 aeKyRP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 7 ARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred HHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC
Confidence 344544432 35544443 33445555667799999999999999888776654
No 459
>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=88.13 E-value=0.61 Score=52.70 Aligned_cols=33 Identities=27% Similarity=0.242 Sum_probs=26.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEE
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVC 261 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ 261 (2576)
+-+|.|+||+|||+++..+...+...+.+++..
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 457899999999999999988887777665543
No 460
>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=88.11 E-value=1.4 Score=57.24 Aligned_cols=60 Identities=25% Similarity=0.299 Sum_probs=44.7
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHHH
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLVK 280 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv~ 280 (2576)
..+.+...+ +.+.+|.+|||+|||.+.... ++..+.++++++||+.-+.+..+++.+...
T Consensus 5 ~~~~~~~~~--~~~~~i~apTGsGKT~~~~~~---~l~~~~~~~~~~P~~aL~~~~~~~~~~~~~ 64 (357)
T TIGR03158 5 TFEALQSKD--ADIIFNTAPTGAGKTLAWLTP---LLHGENDTIALYPTNALIEDQTEAIKEFVD 64 (357)
T ss_pred HHHHHHcCC--CCEEEEECCCCCCHHHHHHHH---HHHcCCCEEEEeChHHHHHHHHHHHHHHHH
Confidence 344444443 468899999999999876432 224566899999999999999999887763
No 461
>PRK11189 lipoprotein NlpI; Provisional
Probab=88.10 E-value=14 Score=46.79 Aligned_cols=89 Identities=12% Similarity=0.113 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHHHHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcCC----HHHH--
Q 000053 1744 IILREAAKIFEAIGKVDSAAKCFFDMGEYERAGTIYLERCEEPELEKAGECFSLAGCYKLAADVYARGSF----LAEC-- 1817 (2576)
Q Consensus 1744 ~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kagd----~~kA-- 1817 (2576)
..+..-|..|.+.|++++|..+| ++|.++... ....+...|..+...|+|++|.+.|.++=. +..+
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~------~~Al~l~P~--~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~ 136 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDF------SQALALRPD--MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYL 136 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHH------HHHHHcCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence 34566677888888888887554 444444211 124567778888888899998888887522 2222
Q ss_pred --HHHHHcCCCHHHHHHHHHhhhhc
Q 000053 1818 --LDVCSKGKLFDIGLQYISYWKQH 1840 (2576)
Q Consensus 1818 --i~~y~k~k~fd~A~~l~r~~~~~ 1840 (2576)
-.++...|.+++|++.+++.-+.
T Consensus 137 ~lg~~l~~~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 137 NRGIALYYGGRYELAQDDLLAFYQD 161 (296)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 12455677888888888854443
No 462
>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=88.09 E-value=0.69 Score=64.74 Aligned_cols=52 Identities=21% Similarity=0.210 Sum_probs=45.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEEEecChHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
..-.+||-|+|||||.|++.++..|+. .+.+||+++|++.=+++..+.+.+.
T Consensus 263 ~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 263 ERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred CceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 467999999999999999999988875 3679999999999999988877644
No 463
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=88.08 E-value=0.37 Score=55.08 Aligned_cols=20 Identities=40% Similarity=0.534 Sum_probs=15.8
Q ss_pred EEEcCCCCChhHHHHHHHHH
Q 000053 231 LIWGPPGTGKTKTVSMLLVI 250 (2576)
Q Consensus 231 LIwGPPGTGKTktIs~Ll~~ 250 (2576)
.|.|+|||||||++..|-..
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 68999999999999888765
No 464
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=88.04 E-value=0.65 Score=58.90 Aligned_cols=33 Identities=21% Similarity=0.311 Sum_probs=26.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHh--CCCeEEE
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQ--MKFRTLV 260 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~--~~~rVLv 260 (2576)
.--+|.||||+||||++.+|+..+.. .+.|+++
T Consensus 145 ~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivt 179 (323)
T PRK13833 145 LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVI 179 (323)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEE
Confidence 34699999999999999998887763 3567665
No 465
>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=88.02 E-value=0.56 Score=57.63 Aligned_cols=34 Identities=21% Similarity=0.306 Sum_probs=28.8
Q ss_pred EEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 230 QLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
-++.|+||+||||.+..+...+-..+.++.++..
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~ 35 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGT 35 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEcc
Confidence 4789999999999999999888777887777643
No 466
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=87.99 E-value=41 Score=43.24 Aligned_cols=87 Identities=16% Similarity=0.219 Sum_probs=57.1
Q ss_pred HhHHHHHHHHHHcCChHHHHHHHHHh--CcHH--------------------HHHHHHHhcCC----HHHHHHHHHhccC
Q 000053 1860 DFLQSCALHFHKLNDNKSMMKFVRAF--HSMD--------------------LIRNFLNSKGC----FDELLVLEEESES 1913 (2576)
Q Consensus 1860 ~~le~~a~~f~klgd~~~A~~~~k~~--~~~e--------------------~a~~~l~~~~~----~dea~ell~~~g~ 1913 (2576)
...-..+.++.++|+..+|+++++.. ..++ .+.++++.++. +.-...++...+.
T Consensus 264 ~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~ 343 (400)
T COG3071 264 ELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKL 343 (400)
T ss_pred hHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhH
Confidence 34556888999999999998877631 1111 13445555443 2333366677778
Q ss_pred HHHHHHHHH-------HcCCHHHHHHHHHHcCCHHHHHHH
Q 000053 1914 FMDAANIAR-------LRGDILRTVDLLQKVGNFKEACNL 1946 (2576)
Q Consensus 1914 feeAa~ia~-------~~G~~~eA~kly~~aG~~~eA~kl 1946 (2576)
|..|...++ ....+.+.++.|.+.|++.+|..+
T Consensus 344 w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~ 383 (400)
T COG3071 344 WGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQV 383 (400)
T ss_pred HHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHH
Confidence 877755554 245567888888888999888873
No 467
>PRK09087 hypothetical protein; Validated
Probab=87.96 E-value=0.61 Score=56.46 Aligned_cols=23 Identities=35% Similarity=0.525 Sum_probs=19.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLV 249 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~ 249 (2576)
++.-+||||||+||||.+..+..
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~ 66 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWRE 66 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 56789999999999999986554
No 468
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=87.93 E-value=0.59 Score=56.26 Aligned_cols=35 Identities=26% Similarity=0.297 Sum_probs=31.8
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
+-++.|.||+|||++.+.+...+...|+||+++..
T Consensus 1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~ 35 (217)
T cd02035 1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVST 35 (217)
T ss_pred CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 35789999999999999999999999999999874
No 469
>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=87.91 E-value=0.42 Score=55.73 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=20.6
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
++-+|.||||+||||++..+...+
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 577899999999999998887654
No 470
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=87.89 E-value=0.98 Score=61.55 Aligned_cols=90 Identities=18% Similarity=0.221 Sum_probs=58.2
Q ss_pred ccCHHHHHhhcccccccccCCCCCCCHHHHHhhcC---CCCEEEEecCCccHHHHHHHHHHHHHHhhhhhhccccccCCC
Q 000053 1046 SLSLGVVRHLLSDRDARELDLPFEVTDEQLDMILF---PRSTFILGRSGTGKTTVLIMKLFQKEKLHNMALEGFFGVNNS 1122 (2576)
Q Consensus 1046 ~~s~~~~~~ll~~~~~~~~d~~f~Lt~EQ~~iI~~---~~~~lVlG~AGTGKTtvLl~Ri~~~~~~~~l~~eg~~~~~~~ 1122 (2576)
.+++.+...+... +. -.+||=|.++|.. ..++++.|+.|||||.+.+.=++..... ....
T Consensus 127 ~l~~~l~~~L~~~--g~-----~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayllPil~~l~~--~~~~-------- 189 (518)
T PLN00206 127 GLPPKLLLNLETA--GY-----EFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISRCCT--IRSG-------- 189 (518)
T ss_pred CCCHHHHHHHHHc--CC-----CCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHHHHHHHHHHh--hccc--------
Confidence 4666666666432 21 3589999999943 4599999999999998866554321100 0000
Q ss_pred cchhhhhhhhhhhhcccccEEEEEcCHHHHHHHHHHHHhh
Q 000053 1123 SQETEAEKDLEKTERVILRQLFVTVSPKLCFAVKQHISHM 1162 (2576)
Q Consensus 1123 ~~~~~~~~~~~~~~~~~~riL~vTfS~~la~eik~ri~~l 1162 (2576)
........+.|+++.|+.||.++.+.+..+
T Consensus 190 ----------~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l 219 (518)
T PLN00206 190 ----------HPSEQRNPLAMVLTPTRELCVQVEDQAKVL 219 (518)
T ss_pred ----------cccccCCceEEEEeCCHHHHHHHHHHHHHH
Confidence 000113368999999999999887766554
No 471
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=87.83 E-value=1.7 Score=56.91 Aligned_cols=28 Identities=25% Similarity=0.448 Sum_probs=24.0
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
+.--|++||||+|||+++-.+...++..
T Consensus 36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 36 THAWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 4567899999999999999998888764
No 472
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=87.79 E-value=1.6 Score=59.85 Aligned_cols=42 Identities=29% Similarity=0.358 Sum_probs=30.1
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +..+..+..-|++||||||||+++-.+...+..
T Consensus 20 Gq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c 64 (559)
T PRK05563 20 GQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNC 64 (559)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 454444433 344444667889999999999999988877764
No 473
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=87.79 E-value=2 Score=54.90 Aligned_cols=84 Identities=19% Similarity=0.309 Sum_probs=54.8
Q ss_pred HHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCC---------------------CeEEEEecC----hHHHHH
Q 000053 216 IIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMK---------------------FRTLVCTPT----IVAIKE 270 (2576)
Q Consensus 216 ~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~---------------------~rVLv~ApT----N~AVd~ 270 (2576)
.-+.+++.+..+.--|+.||||+|||+++-.+...|+..+ ..+..+.|. ..-||+
T Consensus 11 ~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~ 90 (328)
T PRK05707 11 LWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQ 90 (328)
T ss_pred HHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHH
Confidence 3445555555567788999999999999999999998632 146667763 356777
Q ss_pred HHHHHHHHHHhhhhhccccccccccccEEEccCccccc
Q 000053 271 LASRVVKLVKESVERDCRDALFFPLGEILLLGNNERLK 308 (2576)
Q Consensus 271 V~~RL~~lv~es~~~~~~~~~~~~lgdillfGn~~rm~ 308 (2576)
|.+ +.+.+..+ ...+...|+.+.+-.+|.
T Consensus 91 iR~-l~~~~~~~--------~~~~~~kv~iI~~a~~m~ 119 (328)
T PRK05707 91 VRE-LVSFVVQT--------AQLGGRKVVLIEPAEAMN 119 (328)
T ss_pred HHH-HHHHHhhc--------cccCCCeEEEECChhhCC
Confidence 766 33332221 123445677777777773
No 474
>PRK04841 transcriptional regulator MalT; Provisional
Probab=87.77 E-value=74 Score=46.69 Aligned_cols=143 Identities=12% Similarity=-0.020 Sum_probs=77.7
Q ss_pred HHHHHHHhhcHHHHHHHHHHcCCh--hHHH--HHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHH------
Q 000053 1693 VCLWLFYEQNYEMATICFEKAKDT--YWEG--RSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSA------ 1762 (2576)
Q Consensus 1693 ~~~~l~~~~~ye~A~k~f~ragd~--~~~~--l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~A------ 1762 (2576)
.|..+...|+|+.|..+++++-.. .... ...+..... .-.....+.+++...+.+|...+...|.....
T Consensus 458 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg-~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~ 536 (903)
T PRK04841 458 RAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLG-EVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQ 536 (903)
T ss_pred HHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHH-HHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHH
Confidence 455577899999999999886331 0000 011111000 01123456667777777777777776654322
Q ss_pred -HHHHHHcCCHHHHHHHHHHhC-------Cc------hHHHHHHHHHHHcCCHHHHHHHHHHcCCH-------HH-----
Q 000053 1763 -AKCFFDMGEYERAGTIYLERC-------EE------PELEKAGECFSLAGCYKLAADVYARGSFL-------AE----- 1816 (2576)
Q Consensus 1763 -a~~y~kag~~~~A~ely~~~~-------~~------~~~~~aAe~~e~~g~~~eAAelY~kagd~-------~k----- 1816 (2576)
+..+...|+++.|.+.+.+.- .. ....-.|..+...|++++|.+++.++-.. ..
T Consensus 537 la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~ 616 (903)
T PRK04841 537 QSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLA 616 (903)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHH
Confidence 344566788888877665420 00 01122345566678888887777664221 11
Q ss_pred -HHHHHHcCCCHHHHHHHHHh
Q 000053 1817 -CLDVCSKGKLFDIGLQYISY 1836 (2576)
Q Consensus 1817 -Ai~~y~k~k~fd~A~~l~r~ 1836 (2576)
...++...+.++.|.+...+
T Consensus 617 ~la~~~~~~G~~~~A~~~l~~ 637 (903)
T PRK04841 617 MLAKISLARGDLDNARRYLNR 637 (903)
T ss_pred HHHHHHHHcCCHHHHHHHHHH
Confidence 11133346667777666663
No 475
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=87.73 E-value=0.37 Score=60.09 Aligned_cols=37 Identities=32% Similarity=0.453 Sum_probs=31.7
Q ss_pred cEEEEecCCCCCHHHHHHHHHHhhcCCCcEEEEeCCCC
Q 000053 1369 HFVYIDEVQDLTMSQVALFKYVCKNIEEGFVFSGDTAQ 1406 (2576)
Q Consensus 1369 d~IlVDE~QD~~~~ql~LL~~L~~~~~~~l~~vGD~~Q 1406 (2576)
.+|+|||+|.++|.|+.-+..-+.. +..+++.||++|
T Consensus 353 ~FiIIDEaQNLTpheikTiltR~G~-GsKIVl~gd~aQ 389 (436)
T COG1875 353 SFIIIDEAQNLTPHELKTILTRAGE-GSKIVLTGDPAQ 389 (436)
T ss_pred ceEEEehhhccCHHHHHHHHHhccC-CCEEEEcCCHHH
Confidence 6899999999999999877655554 567999999999
No 476
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=87.69 E-value=1.1 Score=62.94 Aligned_cols=70 Identities=23% Similarity=0.243 Sum_probs=55.5
Q ss_pred CCHHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHH-hCCCeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 212 GNLKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILL-QMKFRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 212 ~~~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll-~~~~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
+-.....+++..-..+.+.+|.||||+||||-+-..+...- ..+.+|.++=|--.|+..++.|+.+.+.+
T Consensus 50 Pv~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel~~ 120 (845)
T COG1643 50 PVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEELGE 120 (845)
T ss_pred CcHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHhCC
Confidence 44455666666666788999999999999999987665554 44568888889999999999999977633
No 477
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=87.61 E-value=0.71 Score=53.36 Aligned_cols=40 Identities=25% Similarity=0.155 Sum_probs=34.5
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIV 266 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~ 266 (2576)
..+..|-||+|+||||++..++..|-..|.||-++-.+..
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~ 45 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH 45 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEcCC
Confidence 4588899999999999999999998888989888876555
No 478
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=87.60 E-value=1.5 Score=59.83 Aligned_cols=44 Identities=23% Similarity=0.337 Sum_probs=31.7
Q ss_pred CCCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhC
Q 000053 211 KGNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQM 254 (2576)
Q Consensus 211 ~~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~ 254 (2576)
-|+-.+++.+ +..+..+..-|++||||||||+++-.+...|...
T Consensus 19 iGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 19 EGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 3555554444 3344446667999999999999999998888753
No 479
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=87.55 E-value=1.6 Score=62.01 Aligned_cols=35 Identities=29% Similarity=0.280 Sum_probs=28.3
Q ss_pred HHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 219 ELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 219 ~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
..+..+..+..-|++||||||||+++..+...|+.
T Consensus 29 ~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 29 TALDSGRINHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred HHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 33555555667799999999999999999888874
No 480
>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=87.55 E-value=0.35 Score=57.98 Aligned_cols=21 Identities=52% Similarity=0.910 Sum_probs=18.5
Q ss_pred CCeEEEEcCCCCChhHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSML 247 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~L 247 (2576)
+...||.||||||||+++..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc
Confidence 567999999999999988765
No 481
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=87.54 E-value=0.66 Score=57.69 Aligned_cols=39 Identities=31% Similarity=0.378 Sum_probs=30.5
Q ss_pred CHHHHHHHHhcC-CCCCeEEEEcCCCCChhHHHHHHHHHH
Q 000053 213 NLKIIKELLCTD-SGATVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 213 ~~~~i~~vl~~~-~~~~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
.+.+|-++++.. -+..--||-||||||||-++..+...|
T Consensus 50 AaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 50 AAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred hhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHh
Confidence 356676777666 457788999999999999888876655
No 482
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=87.51 E-value=0.46 Score=56.05 Aligned_cols=32 Identities=25% Similarity=0.351 Sum_probs=22.3
Q ss_pred eEEEEcCCCCChhHHHHHH-HHHHHhCCCeEEE
Q 000053 229 VQLIWGPPGTGKTKTVSML-LVILLQMKFRTLV 260 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~L-l~~Ll~~~~rVLv 260 (2576)
|.+|.|.||+|||..++.. +...++.|++|.+
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 6899999999999999877 7777787777765
No 483
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=87.45 E-value=0.5 Score=54.67 Aligned_cols=35 Identities=29% Similarity=0.344 Sum_probs=28.9
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEe
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCT 262 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~A 262 (2576)
++-++.||||+|||+..-+|...|-..+.+|...+
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~ 36 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLE 36 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHHHHhhhhccccc
Confidence 36789999999999999999988888777765443
No 484
>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=87.36 E-value=1.2 Score=59.53 Aligned_cols=64 Identities=14% Similarity=0.080 Sum_probs=47.9
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh-CCCeEEEEecChHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ-MKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~-~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
++-++.++.-.....+.+|-|+||+|||+.+..++..+.. .|.+|+.+|.=..+ .+++.|+...
T Consensus 182 ~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~-~~i~~R~~~~ 246 (434)
T TIGR00665 182 FTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSA-EQLAMRMLSS 246 (434)
T ss_pred chhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCH-HHHHHHHHHH
Confidence 3344444432233679999999999999999999988775 68999999887654 4577787654
No 485
>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=87.35 E-value=0.72 Score=63.25 Aligned_cols=45 Identities=24% Similarity=0.300 Sum_probs=32.4
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEE
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLV 260 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv 260 (2576)
...++..+.. .+++-||.||+|+|||||+.+++..+.....+|++
T Consensus 305 ~~~l~~~~~~--~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~t 349 (564)
T TIGR02538 305 KALFLEAIHK--PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIST 349 (564)
T ss_pred HHHHHHHHHh--cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEE
Confidence 3344444433 36899999999999999998888776544555554
No 486
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=87.30 E-value=1.2 Score=59.45 Aligned_cols=63 Identities=24% Similarity=0.270 Sum_probs=49.8
Q ss_pred HHHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHHH
Q 000053 214 LKIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 214 ~~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
.+.++.+......++-.+|.-|||+|||.+.+.++..+-.. ||+++||..-+++-.+++.+..
T Consensus 42 ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~~---~Lvlv~~~~L~~Qw~~~~~~~~ 104 (442)
T COG1061 42 EEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKRS---TLVLVPTKELLDQWAEALKKFL 104 (442)
T ss_pred HHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcCC---EEEEECcHHHHHHHHHHHHHhc
Confidence 44555555543336788999999999999999887766554 9999999999999998877553
No 487
>PRK09694 helicase Cas3; Provisional
Probab=87.30 E-value=1.6 Score=62.19 Aligned_cols=56 Identities=21% Similarity=0.291 Sum_probs=49.5
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHHhCC--CeEEEEecChHHHHHHHHHHHHHHHh
Q 000053 226 GATVQLIWGPPGTGKTKTVSMLLVILLQMK--FRTLVCTPTIVAIKELASRVVKLVKE 281 (2576)
Q Consensus 226 ~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~--~rVLv~ApTN~AVd~V~~RL~~lv~e 281 (2576)
.+.+.+|++|.|+|||..+..+...|+..+ .+++++.||-..++++.+|+.+..+.
T Consensus 300 ~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~ 357 (878)
T PRK09694 300 QPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASK 357 (878)
T ss_pred CCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999988888777664 69999999999999999999886644
No 488
>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=87.19 E-value=0.37 Score=51.95 Aligned_cols=19 Identities=32% Similarity=0.413 Sum_probs=16.1
Q ss_pred EEEEecCCccHHHHHHHHH
Q 000053 1084 TFILGRSGTGKTTVLIMKL 1102 (2576)
Q Consensus 1084 ~lVlG~AGTGKTtvLl~Ri 1102 (2576)
++|.|+|||||||++-.-.
T Consensus 2 I~I~G~~gsGKST~a~~La 20 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELA 20 (121)
T ss_dssp EEEEESTTSSHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5799999999999976644
No 489
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=87.13 E-value=0.38 Score=52.01 Aligned_cols=21 Identities=33% Similarity=0.474 Sum_probs=18.0
Q ss_pred CCEEEEecCCccHHHHHHHHH
Q 000053 1082 RSTFILGRSGTGKTTVLIMKL 1102 (2576)
Q Consensus 1082 ~~~lVlG~AGTGKTtvLl~Ri 1102 (2576)
..++|.|+|||||||++..-+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~ 23 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALA 23 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHH
Confidence 467899999999999987765
No 490
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=87.13 E-value=1.3 Score=57.38 Aligned_cols=53 Identities=23% Similarity=0.376 Sum_probs=38.7
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhC--CC-eEEEEecChHHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQM--KF-RTLVCTPTIVAIKELASRVVKLV 279 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~--~~-rVLv~ApTN~AVd~V~~RL~~lv 279 (2576)
++--+|-||||||||.|+-.++..+-.. +. -+-|=+..+.-..++..++..-+
T Consensus 42 p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~ 97 (366)
T COG1474 42 PSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKL 97 (366)
T ss_pred CccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHc
Confidence 3338899999999999999999888865 22 35555666666667777776543
No 491
>PRK14574 hmsH outer membrane protein; Provisional
Probab=87.13 E-value=34 Score=49.20 Aligned_cols=21 Identities=0% Similarity=-0.130 Sum_probs=16.9
Q ss_pred HHHHHhhcHHHHHHHHHHcCC
Q 000053 1695 LWLFYEQNYEMATICFEKAKD 1715 (2576)
Q Consensus 1695 ~~l~~~~~ye~A~k~f~ragd 1715 (2576)
.+.+.+|+|+.|...|+++-.
T Consensus 42 ii~~r~Gd~~~Al~~L~qaL~ 62 (822)
T PRK14574 42 IIRARAGDTAPVLDYLQEESK 62 (822)
T ss_pred HHHHhCCCHHHHHHHHHHHHh
Confidence 338889999999999998653
No 492
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=87.12 E-value=1.7 Score=56.37 Aligned_cols=82 Identities=16% Similarity=0.182 Sum_probs=46.7
Q ss_pred HHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAG 1776 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ 1776 (2576)
++..++|+.|..+|.+|-.. +|... ..+...|..|...|+++.|+.++ ++|.
T Consensus 12 a~~~~~~~~Ai~~~~~Al~~---------------------~P~~~-~a~~~~a~~~~~~g~~~eAl~~~------~~Al 63 (356)
T PLN03088 12 AFVDDDFALAVDLYTQAIDL---------------------DPNNA-ELYADRAQANIKLGNFTEAVADA------NKAI 63 (356)
T ss_pred HHHcCCHHHHHHHHHHHHHh---------------------CCCCH-HHHHHHHHHHHHcCCHHHHHHHH------HHHH
Confidence 89999999999999965331 11111 23456667777788888887554 4455
Q ss_pred HHHHHhCCchHHHHHHHHHHHcCCHHHHHHHH
Q 000053 1777 TIYLERCEEPELEKAGECFSLAGCYKLAADVY 1808 (2576)
Q Consensus 1777 ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY 1808 (2576)
++... ....+...|.++...|+|.+|.+.|
T Consensus 64 ~l~P~--~~~a~~~lg~~~~~lg~~~eA~~~~ 93 (356)
T PLN03088 64 ELDPS--LAKAYLRKGTACMKLEEYQTAKAAL 93 (356)
T ss_pred HhCcC--CHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 44221 1122334444444444444444443
No 493
>PRK04040 adenylate kinase; Provisional
Probab=87.06 E-value=0.5 Score=55.59 Aligned_cols=24 Identities=38% Similarity=0.541 Sum_probs=20.5
Q ss_pred CeEEEEcCCCCChhHHHHHHHHHH
Q 000053 228 TVQLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 228 ~v~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
.+-+|.|+||+||||++..+...|
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 467899999999999998887665
No 494
>PRK11189 lipoprotein NlpI; Provisional
Probab=87.01 E-value=8.3 Score=48.75 Aligned_cols=109 Identities=14% Similarity=-0.039 Sum_probs=69.2
Q ss_pred HHHhhcHHHHHHHHHHcCChhHHHHHHHHHHHHHHhHhhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHcCCHHHHH
Q 000053 1697 LFYEQNYEMATICFEKAKDTYWEGRSKASGLKAAADRISSSNPLEARIILREAAKIFEAIGKVDSAAKCFFDMGEYERAG 1776 (2576)
Q Consensus 1697 l~~~~~ye~A~k~f~ragd~~~~~l~~A~~l~~~a~~l~~~~~~~a~~~~~eAA~~fe~~G~~~~Aa~~y~kag~~~~A~ 1776 (2576)
+...|++++|..+|.++-.. +|.. ...+...|..|...|+++.|.++|. +|.
T Consensus 74 ~~~~g~~~~A~~~~~~Al~l---------------------~P~~-~~a~~~lg~~~~~~g~~~~A~~~~~------~Al 125 (296)
T PRK11189 74 YDSLGLRALARNDFSQALAL---------------------RPDM-ADAYNYLGIYLTQAGNFDAAYEAFD------SVL 125 (296)
T ss_pred HHHCCCHHHHHHHHHHHHHc---------------------CCCC-HHHHHHHHHHHHHCCCHHHHHHHHH------HHH
Confidence 77789999999999875331 1211 1235677888899999999986654 445
Q ss_pred HHHHHhCCchHHHHHHHHHHHcCCHHHHHHHHHHcC-----CHHHHHH--HHHcCCCHHHHHHHHH
Q 000053 1777 TIYLERCEEPELEKAGECFSLAGCYKLAADVYARGS-----FLAECLD--VCSKGKLFDIGLQYIS 1835 (2576)
Q Consensus 1777 ely~~~~~~~~~~~aAe~~e~~g~~~eAAelY~kag-----d~~kAi~--~y~k~k~fd~A~~l~r 1835 (2576)
++-.. ....+...|.++...|++++|.+.|.++= +...++- ++...+.+++|...++
T Consensus 126 ~l~P~--~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~ 189 (296)
T PRK11189 126 ELDPT--YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLK 189 (296)
T ss_pred HhCCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHH
Confidence 44111 12345677888888999999998887732 2111221 2334556777777665
No 495
>PRK01172 ski2-like helicase; Provisional
Probab=87.01 E-value=1.3 Score=62.35 Aligned_cols=52 Identities=13% Similarity=0.130 Sum_probs=42.4
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
+.-.+|.+|.|+|||.+....+...+..+.++++++||..=+.+..+++.++
T Consensus 37 ~~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 37 GENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred CCcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHHHHHHHHHHHHH
Confidence 4458999999999999887666666677889999999998778877777643
No 496
>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=86.98 E-value=0.94 Score=62.83 Aligned_cols=60 Identities=18% Similarity=0.199 Sum_probs=46.5
Q ss_pred HHHHHHHhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHH
Q 000053 215 KIIKELLCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTPTIVAIKELASRVVKL 278 (2576)
Q Consensus 215 ~~i~~vl~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~ApTN~AVd~V~~RL~~l 278 (2576)
.-++..+..+ ...-.+|.-|+|+|||-+..+++..+ ++++||++||...|+|-.+.+.+.
T Consensus 262 eAl~~~~~~g-r~r~GIIvLPtGaGKTlvai~aa~~l---~k~tLILvps~~Lv~QW~~ef~~~ 321 (732)
T TIGR00603 262 KSLSKMFGNG-RARSGIIVLPCGAGKSLVGVTAACTV---KKSCLVLCTSAVSVEQWKQQFKMW 321 (732)
T ss_pred HHHHHHHhcC-CCCCcEEEeCCCCChHHHHHHHHHHh---CCCEEEEeCcHHHHHHHHHHHHHh
Confidence 3445555332 23467899999999999998776554 688999999999999999988864
No 497
>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=86.98 E-value=0.7 Score=59.71 Aligned_cols=42 Identities=31% Similarity=0.392 Sum_probs=29.6
Q ss_pred CCHHHHHHH---HhcCCCCCeEEEEcCCCCChhHHHHHHHHHHHh
Q 000053 212 GNLKIIKEL---LCTDSGATVQLIWGPPGTGKTKTVSMLLVILLQ 253 (2576)
Q Consensus 212 ~~~~~i~~v---l~~~~~~~v~LIwGPPGTGKTktIs~Ll~~Ll~ 253 (2576)
|+-.+++.+ +.....+..-|++||||||||+++-.+...|..
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~ 62 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNC 62 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 444444443 334434557799999999999999888888764
No 498
>PRK08118 topology modulation protein; Reviewed
Probab=86.93 E-value=0.47 Score=54.74 Aligned_cols=22 Identities=27% Similarity=0.365 Sum_probs=17.3
Q ss_pred EEEEcCCCCChhHHHHHHHHHH
Q 000053 230 QLIWGPPGTGKTKTVSMLLVIL 251 (2576)
Q Consensus 230 ~LIwGPPGTGKTktIs~Ll~~L 251 (2576)
-+|.||||+||||++..|...+
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999998777665443
No 499
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=86.92 E-value=0.63 Score=53.97 Aligned_cols=34 Identities=32% Similarity=0.424 Sum_probs=28.0
Q ss_pred eEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 229 VQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 229 v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
.--|-||||+|||+++-.++..|... .++-|++-
T Consensus 15 ~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~ 48 (202)
T COG0378 15 RIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITG 48 (202)
T ss_pred EEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEec
Confidence 34578999999999999999998777 77777654
No 500
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=86.86 E-value=0.94 Score=52.24 Aligned_cols=37 Identities=16% Similarity=0.078 Sum_probs=33.1
Q ss_pred CCeEEEEcCCCCChhHHHHHHHHHHHhCCCeEEEEec
Q 000053 227 ATVQLIWGPPGTGKTKTVSMLLVILLQMKFRTLVCTP 263 (2576)
Q Consensus 227 ~~v~LIwGPPGTGKTktIs~Ll~~Ll~~~~rVLv~Ap 263 (2576)
.++..|.+|||+|||+.+..+....+..|.+|+++=+
T Consensus 5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQF 41 (173)
T TIGR00708 5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQF 41 (173)
T ss_pred ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEE
Confidence 4678889999999999999999999999999998743
Done!