Query psy877
Match_columns 136
No_of_seqs 124 out of 1037
Neff 6.7
Searched_HMMs 46136
Date Fri Aug 16 18:46:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy877.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/877hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1133|consensus 100.0 6.7E-35 1.4E-39 253.1 10.8 121 2-135 621-741 (821)
2 TIGR00604 rad3 DNA repair heli 100.0 5.1E-33 1.1E-37 245.7 12.7 120 2-132 514-633 (705)
3 KOG1132|consensus 100.0 7.5E-33 1.6E-37 244.7 10.2 124 2-134 553-676 (945)
4 PF13307 Helicase_C_2: Helicas 100.0 5.4E-31 1.2E-35 196.6 8.7 113 2-135 1-113 (167)
5 smart00491 HELICc2 helicase su 99.9 1.3E-27 2.7E-32 175.1 10.7 99 20-133 1-99 (142)
6 KOG1131|consensus 99.9 6.4E-26 1.4E-30 193.3 11.0 122 2-134 522-643 (755)
7 smart00492 HELICc3 helicase su 99.9 5.9E-25 1.3E-29 160.9 10.5 98 20-133 1-98 (141)
8 COG1199 DinG Rad3-related DNA 99.9 9.1E-23 2E-27 178.4 10.8 109 2-134 471-579 (654)
9 PRK11747 dinG ATP-dependent DN 99.9 3.2E-22 7E-27 177.2 11.8 109 3-134 528-636 (697)
10 PRK08074 bifunctional ATP-depe 99.8 8.5E-21 1.8E-25 172.5 12.0 113 2-135 744-856 (928)
11 TIGR01407 dinG_rel DnaQ family 99.8 2.1E-19 4.6E-24 162.0 11.9 111 2-134 666-776 (850)
12 PRK07246 bifunctional ATP-depe 99.8 1.5E-18 3.3E-23 156.2 11.5 102 8-135 645-746 (820)
13 TIGR03117 cas_csf4 CRISPR-asso 99.6 1.5E-14 3.3E-19 127.3 10.5 108 3-134 463-578 (636)
14 cd00079 HELICc Helicase superf 97.7 0.00036 7.8E-09 47.8 8.9 80 11-116 29-109 (131)
15 PRK10590 ATP-dependent RNA hel 96.8 0.0079 1.7E-07 51.1 8.6 78 11-114 246-324 (456)
16 PRK11192 ATP-dependent RNA hel 96.8 0.011 2.4E-07 49.6 9.4 79 11-115 246-325 (434)
17 PRK04837 ATP-dependent RNA hel 96.7 0.013 2.7E-07 49.2 9.3 80 10-115 255-335 (423)
18 PRK11776 ATP-dependent RNA hel 96.7 0.014 3E-07 49.5 9.3 80 10-115 242-322 (460)
19 PTZ00424 helicase 45; Provisio 96.7 0.013 2.9E-07 48.2 8.8 79 11-115 268-347 (401)
20 PRK01297 ATP-dependent RNA hel 96.6 0.016 3.5E-07 49.4 9.2 78 12-114 337-414 (475)
21 PRK09401 reverse gyrase; Revie 96.5 0.011 2.4E-07 56.1 8.1 84 4-114 322-410 (1176)
22 TIGR01054 rgy reverse gyrase. 96.5 0.012 2.7E-07 55.8 8.3 86 5-116 321-411 (1171)
23 PTZ00110 helicase; Provisional 96.4 0.021 4.6E-07 49.9 8.8 78 11-114 378-456 (545)
24 TIGR00614 recQ_fam ATP-depende 96.4 0.025 5.4E-07 48.4 9.0 80 10-114 225-305 (470)
25 PRK04537 ATP-dependent RNA hel 96.4 0.026 5.6E-07 49.7 9.1 79 11-115 258-337 (572)
26 smart00490 HELICc helicase sup 96.0 0.04 8.6E-07 34.3 6.5 45 53-116 24-68 (82)
27 PLN00206 DEAD-box ATP-dependen 96.0 0.04 8.7E-07 47.8 8.2 79 11-114 368-447 (518)
28 PRK14701 reverse gyrase; Provi 95.7 0.032 6.9E-07 54.7 7.1 83 5-114 325-412 (1638)
29 PRK11057 ATP-dependent DNA hel 95.7 0.082 1.8E-06 46.8 9.1 78 11-114 237-315 (607)
30 TIGR01389 recQ ATP-dependent D 95.0 0.18 3.9E-06 44.3 9.0 79 11-114 225-303 (591)
31 COG1110 Reverse gyrase [DNA re 95.0 0.046 1E-06 51.3 5.4 83 4-113 329-416 (1187)
32 PF00271 Helicase_C: Helicase 95.0 0.046 9.9E-07 34.7 4.0 45 52-115 19-63 (78)
33 KOG0343|consensus 94.9 0.15 3.1E-06 45.5 8.0 79 11-114 314-394 (758)
34 PHA02558 uvsW UvsW helicase; P 94.7 0.12 2.7E-06 44.6 7.1 75 11-110 345-420 (501)
35 PRK11634 ATP-dependent RNA hel 94.5 0.29 6.3E-06 43.7 9.2 79 11-115 246-325 (629)
36 KOG0342|consensus 94.1 0.2 4.4E-06 43.7 7.0 76 12-114 332-409 (543)
37 PRK05298 excinuclease ABC subu 93.2 0.73 1.6E-05 41.4 9.2 75 13-113 449-524 (652)
38 PRK04914 ATP-dependent helicas 92.4 1.4 2.9E-05 41.6 10.0 82 11-115 494-576 (956)
39 PLN03137 ATP-dependent DNA hel 92.3 0.72 1.6E-05 44.2 8.2 77 12-114 682-759 (1195)
40 TIGR00631 uvrb excinuclease AB 92.2 0.89 1.9E-05 41.0 8.4 73 13-111 445-518 (655)
41 PRK13767 ATP-dependent helicas 91.8 1.1 2.3E-05 41.7 8.6 83 11-114 285-369 (876)
42 COG1061 SSL2 DNA or RNA helica 91.5 1.5 3.3E-05 37.4 8.8 75 11-111 284-358 (442)
43 KOG0345|consensus 91.3 0.97 2.1E-05 39.6 7.3 78 11-113 256-335 (567)
44 PRK01172 ski2-like helicase; P 90.6 1.4 2.9E-05 39.4 7.9 84 11-114 237-339 (674)
45 TIGR03817 DECH_helic helicase/ 90.3 0.97 2.1E-05 41.2 6.8 85 11-114 272-358 (742)
46 TIGR01970 DEAH_box_HrpB ATP-de 90.2 1.3 2.8E-05 41.0 7.6 88 10-121 209-298 (819)
47 PRK11664 ATP-dependent RNA hel 89.4 1.1 2.3E-05 41.4 6.4 81 10-114 212-294 (812)
48 PRK10917 ATP-dependent DNA hel 88.9 2.9 6.3E-05 37.7 8.7 78 12-113 473-559 (681)
49 KOG0344|consensus 88.8 2.4 5.2E-05 37.8 7.8 77 9-109 386-462 (593)
50 PRK13766 Hef nuclease; Provisi 88.7 2.9 6.2E-05 37.9 8.6 78 11-114 366-452 (773)
51 PF06862 DUF1253: Protein of u 87.3 3.8 8.3E-05 35.4 8.1 85 9-116 299-383 (442)
52 TIGR00580 mfd transcription-re 86.6 4.1 8.9E-05 38.3 8.5 80 12-115 662-742 (926)
53 TIGR00643 recG ATP-dependent D 86.6 4.6 0.0001 36.0 8.5 78 12-113 450-536 (630)
54 TIGR01587 cas3_core CRISPR-ass 85.9 1.9 4.1E-05 35.0 5.3 68 11-100 223-295 (358)
55 KOG0348|consensus 85.4 5.5 0.00012 35.8 8.1 85 12-116 427-528 (708)
56 PRK11448 hsdR type I restricti 85.3 4.5 9.9E-05 38.8 8.1 85 10-113 698-784 (1123)
57 PRK10689 transcription-repair 84.7 5.8 0.00013 38.2 8.5 74 13-110 812-886 (1147)
58 PHA02653 RNA helicase NPH-II; 84.4 6.9 0.00015 35.6 8.6 80 11-114 396-475 (675)
59 COG4098 comFA Superfamily II D 82.3 9 0.0002 32.7 7.8 81 12-118 307-387 (441)
60 PRK02362 ski2-like helicase; P 81.9 6.4 0.00014 35.7 7.4 22 11-32 244-265 (737)
61 COG0513 SrmB Superfamily II DN 81.8 12 0.00025 32.7 8.8 76 12-113 275-351 (513)
62 TIGR00603 rad25 DNA repair hel 81.8 9.5 0.00021 35.1 8.4 76 11-116 497-573 (732)
63 PRK12898 secA preprotein trans 77.8 14 0.00031 33.5 8.2 78 11-113 474-557 (656)
64 PRK09751 putative ATP-dependen 73.6 15 0.00032 36.5 7.6 85 12-115 246-357 (1490)
65 PLN03142 Probable chromatin-re 71.6 35 0.00076 32.7 9.4 81 13-116 490-571 (1033)
66 KOG0331|consensus 71.3 14 0.00031 32.6 6.4 75 13-113 344-419 (519)
67 TIGR03158 cas3_cyano CRISPR-as 69.6 23 0.00051 29.2 7.1 22 12-33 274-295 (357)
68 TIGR00963 secA preprotein tran 69.1 34 0.00073 31.7 8.4 79 12-115 407-488 (745)
69 PRK12900 secA preprotein trans 68.9 20 0.00043 34.3 7.0 82 11-117 599-684 (1025)
70 KOG0347|consensus 67.0 22 0.00048 32.2 6.6 69 8-101 461-531 (731)
71 KOG0341|consensus 65.0 22 0.00047 31.1 6.0 69 9-101 420-489 (610)
72 TIGR01967 DEAH_box_HrpA ATP-de 63.9 15 0.00033 35.9 5.5 83 9-117 278-362 (1283)
73 KOG0327|consensus 62.0 45 0.00098 28.6 7.3 78 11-113 264-341 (397)
74 PRK00254 ski2-like helicase; P 60.0 46 0.001 30.1 7.6 27 83-112 321-347 (720)
75 PRK09200 preprotein translocas 56.7 46 0.00099 31.0 7.0 64 12-100 430-493 (790)
76 KOG0333|consensus 55.5 63 0.0014 29.2 7.3 68 12-102 519-586 (673)
77 KOG0335|consensus 54.5 48 0.001 29.1 6.5 29 82-114 388-416 (482)
78 PRK11131 ATP-dependent RNA hel 52.6 41 0.00088 33.1 6.2 77 10-112 286-364 (1294)
79 KOG0332|consensus 52.5 58 0.0013 28.2 6.5 80 10-116 330-411 (477)
80 PF08331 DUF1730: Domain of un 43.5 16 0.00036 23.6 1.6 14 103-116 10-23 (78)
81 TIGR01446 DnaD_dom DnaD and ph 42.4 24 0.00052 22.0 2.2 18 18-35 48-65 (73)
82 TIGR02621 cas3_GSU0051 CRISPR- 41.6 80 0.0017 29.7 6.2 76 11-102 273-355 (844)
83 PF13759 2OG-FeII_Oxy_5: Putat 39.4 16 0.00034 24.4 1.0 10 11-20 72-81 (101)
84 TIGR03714 secA2 accessory Sec 38.7 1.5E+02 0.0033 27.6 7.4 64 12-100 426-489 (762)
85 KOG0328|consensus 36.1 1.3E+02 0.0029 25.2 6.0 65 12-101 268-334 (400)
86 KOG0339|consensus 33.2 1.2E+02 0.0027 27.4 5.7 75 11-110 469-543 (731)
87 PRK12904 preprotein translocas 32.9 1.6E+02 0.0035 27.8 6.7 66 12-102 432-497 (830)
88 PRK12906 secA preprotein trans 32.7 1.1E+02 0.0024 28.7 5.6 79 11-114 441-523 (796)
89 COG3623 SgaU Putative L-xylulo 32.6 1.4E+02 0.0031 24.2 5.5 59 19-88 94-153 (287)
90 COG2924 Uncharacterized protei 32.0 15 0.00032 24.8 -0.1 17 84-100 4-20 (90)
91 PRK13104 secA preprotein trans 30.4 76 0.0016 30.1 4.2 64 12-100 446-509 (896)
92 PRK05408 oxidative damage prot 29.3 27 0.00059 23.8 0.9 17 84-100 4-20 (90)
93 PF07261 DnaB_2: Replication i 28.9 52 0.0011 20.4 2.1 18 18-35 48-65 (77)
94 KOG0336|consensus 28.6 89 0.0019 27.6 4.0 25 82-108 514-538 (629)
95 PRK09854 cmtB putative PTS sys 25.9 76 0.0016 22.4 2.8 27 91-117 82-108 (147)
96 PF11823 DUF3343: Protein of u 25.2 1E+02 0.0022 19.3 3.0 28 12-39 3-30 (73)
97 PF04362 Iron_traffic: Bacteri 25.1 40 0.00087 22.9 1.1 17 84-100 4-20 (88)
98 KOG3801|consensus 24.6 56 0.0012 22.4 1.7 36 17-64 23-58 (94)
99 TIGR00595 priA primosomal prot 24.4 1.3E+02 0.0027 26.4 4.3 41 54-113 300-340 (505)
100 PRK09913 putative fructose-lik 24.2 1.3E+02 0.0027 21.1 3.7 26 91-116 78-106 (148)
101 PRK10372 PTS system L-ascorbat 23.2 71 0.0015 22.8 2.2 24 91-114 83-109 (154)
102 cd00211 PTS_IIA_fru PTS_IIA, P 23.1 90 0.002 21.1 2.7 24 91-114 73-99 (136)
103 PRK05580 primosome assembly pr 22.4 1.3E+02 0.0029 27.3 4.2 42 54-114 468-509 (679)
104 KOG2340|consensus 22.2 2.4E+02 0.0052 25.7 5.5 80 9-114 551-633 (698)
105 KOG0952|consensus 22.1 2.4E+02 0.0053 27.6 5.8 31 82-117 423-453 (1230)
106 KOG0920|consensus 21.7 90 0.002 29.7 3.0 24 10-33 413-436 (924)
107 PF05674 DUF816: Baculovirus p 20.6 1.8E+02 0.0038 22.1 3.8 40 16-69 91-131 (171)
No 1
>KOG1133|consensus
Probab=100.00 E-value=6.7e-35 Score=253.12 Aligned_cols=121 Identities=31% Similarity=0.579 Sum_probs=114.0
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|..++..+|||++||||||+|+.++++.|+..++..+|..+|+||.|+++. .+++++.|.++++.+ .
T Consensus 621 ~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~--~~dvl~~Ya~a~~~g-----------~ 687 (821)
T KOG1133|consen 621 ISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT--VEDVLEGYAEAAERG-----------R 687 (821)
T ss_pred HHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc--HHHHHHHHHHHhhcC-----------C
Confidence 456778899999999999999999999999999999999999999999987 599999999999885 5
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhccC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQK 135 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~~ 135 (136)
||+||||.|||+||||||.|++|||||+||+||||+.|.+++.|++|+|.+..+
T Consensus 688 GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~ 741 (821)
T KOG1133|consen 688 GAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYPNIQSVELQERMKHLDGKLPT 741 (821)
T ss_pred CeEEEEEeccccccccccccccccEEEEeecCCCCCCCHHHHHHHHHhhhccCC
Confidence 999999999999999999999999999999999999999999999999998754
No 2
>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=100.00 E-value=5.1e-33 Score=245.68 Aligned_cols=120 Identities=26% Similarity=0.472 Sum_probs=111.6
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|.+++..+|||+|||||||.+|+++++.|...+.++++...++||+|++++.+++.++++|++.++. ++
T Consensus 514 i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~-----------~~ 582 (705)
T TIGR00604 514 LVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYKQAVSE-----------GR 582 (705)
T ss_pred HHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHHhc-----------CC
Confidence 5567778999999999999999999999999999988888899999999877889999999998765 35
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhh
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTH 132 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~ 132 (136)
|+||||||||++||||||+|+.||+|||+|+|||++.||.++++++|++++
T Consensus 583 gavL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~ 633 (705)
T TIGR00604 583 GAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQ 633 (705)
T ss_pred ceEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhh
Confidence 899999999999999999999999999999999999999999999999876
No 3
>KOG1132|consensus
Probab=99.98 E-value=7.5e-33 Score=244.71 Aligned_cols=124 Identities=35% Similarity=0.649 Sum_probs=116.5
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|..+++.+|.|+|||||||.+|+++.++|+..+.|.+++..|++++|||...++.++|++|.+++..+. ..
T Consensus 553 i~~v~rvVp~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr~k~~f~e~m~~y~~~i~~pe---------s~ 623 (945)
T KOG1132|consen 553 ILNVARVVPYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPRSKSEFTEVMSRYYNAIADPE---------SS 623 (945)
T ss_pred HHHHHhhcccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccCCccchHHHHHHHHHHhhCcc---------cc
Confidence 445667899999999999999999999999999999999999999999988899999999999998654 57
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
|+++|||||||.|||+||+|+.+|+||++|||||+..||+|.+|+.|+|++.+
T Consensus 624 ga~~~aVcRGKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~V~lK~~y~D~~~~ 676 (945)
T KOG1132|consen 624 GAVFFAVCRGKVSEGLDFSDDNGRAVIITGLPYPPVMDPRVKLKKQYLDENSS 676 (945)
T ss_pred ceEEEEEecccccCCCCccccCCceeEEecCCCCCCCCHHHHHHHHhhhhhcc
Confidence 89999999999999999999999999999999999999999999999999875
No 4
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=99.97 E-value=5.4e-31 Score=196.58 Aligned_cols=113 Identities=27% Similarity=0.379 Sum_probs=91.1
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|.++++.+|||+|||||||.+|+.+.+.|+..... ...++|.|. ..+.+.++++|++ ++
T Consensus 1 i~~l~~~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~----~~~~v~~q~--~~~~~~~l~~~~~---------------~~ 59 (167)
T PF13307_consen 1 ILELISAVPGGVLVFFPSYRRLEKVYERLKERLEE----KGIPVFVQG--SKSRDELLEEFKR---------------GE 59 (167)
T ss_dssp HHHHHHCCSSEEEEEESSHHHHHHHHTT-TSS-E-----ETSCEEEST--CCHHHHHHHHHCC---------------SS
T ss_pred ChHHHhcCCCCEEEEeCCHHHHHHHHHHHHhhccc----ccceeeecC--cchHHHHHHHHHh---------------cc
Confidence 56788899999999999999999999999976432 234799995 4567999999986 46
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhccC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQK 135 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~~ 135 (136)
++|||||+||+++|||||+|+.||+|||+|+|||+++||.+++|++|++++..+
T Consensus 60 ~~il~~v~~g~~~EGiD~~~~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~ 113 (167)
T PF13307_consen 60 GAILLAVAGGSFSEGIDFPGDLLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKN 113 (167)
T ss_dssp SEEEEEETTSCCGSSS--ECESEEEEEEES-----TTCHHHHHHHHHHHHCCTT
T ss_pred CeEEEEEecccEEEeecCCCchhheeeecCCCCCCCCCHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999999999999999999999999987643
No 5
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=99.95 E-value=1.3e-27 Score=175.11 Aligned_cols=99 Identities=34% Similarity=0.591 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCcccccccc
Q psy877 20 KDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDF 99 (136)
Q Consensus 20 Y~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf 99 (136)
|.+|+++++.|++.+.+ +..++||+|++++.+.++++++|++.++. +|+|||||+|||+||||||
T Consensus 1 y~~m~~v~~~~~~~~~~---~~~~~i~~e~~~~~~~~~~l~~f~~~~~~------------~g~iL~~v~~G~~~EGiD~ 65 (142)
T smart00491 1 YRYLEQVVEYWKENGIL---EINKPVFIEGKDSGETEELLEKYSAACEA------------RGALLLAVARGKVSEGIDF 65 (142)
T ss_pred ChHHHHHHHHHHhcCcc---ccCceEEEECCCCchHHHHHHHHHHhcCC------------CCEEEEEEeCCeeecceec
Confidence 78999999999987654 34578999999887788999999986432 3899999999999999999
Q ss_pred CCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhc
Q psy877 100 ADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHA 133 (136)
Q Consensus 100 ~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~ 133 (136)
+|+.||+|||+|+|||+|+||.++++++|+++..
T Consensus 66 ~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~ 99 (142)
T smart00491 66 PDDLGRAVIIVGIPFPNPDSPILRARLEYLDEKG 99 (142)
T ss_pred CCCccEEEEEEecCCCCCCCHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999998775
No 6
>KOG1131|consensus
Probab=99.93 E-value=6.4e-26 Score=193.30 Aligned_cols=122 Identities=30% Similarity=0.443 Sum_probs=115.1
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
+.|.++.+|+|++||||||-||+.+...|...++++++.+.|.+|||+++..+..-.++.|..+|+++ +
T Consensus 522 lve~sk~vpdG~v~ff~sylYmesiv~~w~~~gil~ei~k~KL~fIetpD~~ETs~al~ny~~aC~~g-----------R 590 (755)
T KOG1131|consen 522 LVEMSKIVPDGIVCFFPSYLYMESIVSRWYEQGILDEIMKYKLLFIETPDFRETSLALANYRYACDNG-----------R 590 (755)
T ss_pred eeeecccCCCceEEEEehHHHHHHHHHHHHHHhHHHHHhhCceEEEeCCchhhhHHHHHHHHHHhcCC-----------C
Confidence 56889999999999999999999999999999999999999999999999989999999999999985 6
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
||+||+|+|||+||||||.++++|+||+.||||.-..+..+.++.+|+..+.+
T Consensus 591 Gavl~sVargkVsEgidF~hhyGR~ViM~gIP~qytesriLkarle~Lrd~~~ 643 (755)
T KOG1131|consen 591 GAVLLSVARGKVSEGIDFDHHYGREVIMEGIPYQYTESRILKARLEYLRDQFQ 643 (755)
T ss_pred CceEEEEecCccccCcccccccCceEEEEeccchhhHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999888888889999977653
No 7
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=99.92 E-value=5.9e-25 Score=160.87 Aligned_cols=98 Identities=23% Similarity=0.421 Sum_probs=90.3
Q ss_pred HHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCcccccccc
Q psy877 20 KDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDF 99 (136)
Q Consensus 20 Y~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf 99 (136)
|.+|+++++.|++.+.+.+|.+.++||+|+.++.+.++++++|++.+ .++|||||++ +||||||
T Consensus 1 y~~m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~--------------~~~iL~~~~~--~~EGiD~ 64 (141)
T smart00492 1 YQYMESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEAC--------------ENAILLATAR--FSEGVDF 64 (141)
T ss_pred CHHHHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcC--------------CCEEEEEccc--eecceec
Confidence 78999999999999999999999999999998778899999999741 2499999977 9999999
Q ss_pred CCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhc
Q psy877 100 ADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHA 133 (136)
Q Consensus 100 ~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~ 133 (136)
+|+.||+|||+|+|||+|+||.++++++|++++.
T Consensus 65 ~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~ 98 (141)
T smart00492 65 PGDYLRAVIIDGLPFPYPDSPILKARLELLRDKG 98 (141)
T ss_pred CCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999998765
No 8
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.88 E-value=9.1e-23 Score=178.38 Aligned_cols=109 Identities=21% Similarity=0.266 Sum_probs=92.4
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|.++++..|||+|||||||.+|+.+++.|.....+ ..++.+..+ +.+.++++|+... .
T Consensus 471 i~~~~~~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~------~~v~~q~~~--~~~~~l~~f~~~~--------------~ 528 (654)
T COG1199 471 LREILKASPGGVLVLFPSYEYLKRVAERLKDERST------LPVLTQGED--EREELLEKFKASG--------------E 528 (654)
T ss_pred HHHHHhhcCCCEEEEeccHHHHHHHHHHHhhcCcc------ceeeecCCC--cHHHHHHHHHHhc--------------C
Confidence 56788899999999999999999999999975432 345555544 4468999999742 2
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
+ +++|++|++||||||+|+.+|+|||+|||||+|+||.++++.+|.++.+.
T Consensus 529 ~--~~lv~~gsf~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~ 579 (654)
T COG1199 529 G--LILVGGGSFWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGG 579 (654)
T ss_pred C--eEEEeeccccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcC
Confidence 3 88899999999999999999999999999999999999999999987753
No 9
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.88 E-value=3.2e-22 Score=177.22 Aligned_cols=109 Identities=14% Similarity=0.179 Sum_probs=93.7
Q ss_pred ccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCC
Q psy877 3 GEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTG 82 (136)
Q Consensus 3 ~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~g 82 (136)
.+++. .+||+|||||||.+|+++++.|... ...+|++|+. .+...++++|++.++. +.+
T Consensus 528 ~~l~~-~~gg~LVlFtSy~~l~~v~~~l~~~-------~~~~ll~Q~~--~~~~~ll~~f~~~~~~-----------~~~ 586 (697)
T PRK11747 528 PELLE-KHKGSLVLFASRRQMQKVADLLPRD-------LRLMLLVQGD--QPRQRLLEKHKKRVDE-----------GEG 586 (697)
T ss_pred HHHHh-cCCCEEEEeCcHHHHHHHHHHHHHh-------cCCcEEEeCC--chHHHHHHHHHHHhcc-----------CCC
Confidence 34555 7789999999999999999999753 1256899875 3468899999988765 358
Q ss_pred eEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 83 ALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 83 ailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
+||||+ |+|||||||+|+.|++|||+|+|||+|+||.++++++|+++++.
T Consensus 587 ~VL~g~--~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~ 636 (697)
T PRK11747 587 SVLFGL--QSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGG 636 (697)
T ss_pred eEEEEe--ccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcC
Confidence 999999 99999999999999999999999999999999999999988754
No 10
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.84 E-value=8.5e-21 Score=172.49 Aligned_cols=113 Identities=11% Similarity=0.094 Sum_probs=93.2
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|.+++...+|++|||||||.+|+++++.|+.... .....++.++.+..+...++++|++ ..
T Consensus 744 i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~----~~~~~ll~Qg~~~~~r~~l~~~F~~---------------~~ 804 (928)
T PRK08074 744 IAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEE----LEGYVLLAQGVSSGSRARLTKQFQQ---------------FD 804 (928)
T ss_pred HHHHHHhCCCCEEEEECCHHHHHHHHHHHhhccc----ccCceEEecCCCCCCHHHHHHHHHh---------------cC
Confidence 3445566789999999999999999999985422 1123477776444567899999986 25
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhccC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQK 135 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~~ 135 (136)
++||||+ |+|||||||+|+.+++|||+|+|||+|+||.++++++|+++++.+
T Consensus 805 ~~iLlG~--~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~ 856 (928)
T PRK08074 805 KAILLGT--SSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGEN 856 (928)
T ss_pred CeEEEec--CcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCC
Confidence 7999998 999999999999999999999999999999999999999887643
No 11
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.81 E-value=2.1e-19 Score=162.03 Aligned_cols=111 Identities=13% Similarity=0.044 Sum_probs=92.0
Q ss_pred cccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 2 IGEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 2 i~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
|.+++...+|++|||||||.+|+++++.+..... ....+++.|..+ .+...++++|++ +.
T Consensus 666 i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~----~~~~~~l~q~~~-~~r~~ll~~F~~---------------~~ 725 (850)
T TIGR01407 666 IIEITAITSPKILVLFTSYEMLHMVYDMLNELPE----FEGYEVLAQGIN-GSRAKIKKRFNN---------------GE 725 (850)
T ss_pred HHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc----ccCceEEecCCC-ccHHHHHHHHHh---------------CC
Confidence 3455566778999999999999999999975321 112457877665 467889999985 35
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
+++|||+ |++||||||+|+.+++|||+|+|||+|+||.++++.+|+++.++
T Consensus 726 ~~iLlgt--~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~ 776 (850)
T TIGR01407 726 KAILLGT--SSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGK 776 (850)
T ss_pred CeEEEEc--ceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcC
Confidence 8999998 99999999999999999999999999999999999999986653
No 12
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.77 E-value=1.5e-18 Score=156.20 Aligned_cols=102 Identities=16% Similarity=0.142 Sum_probs=86.7
Q ss_pred cccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 8 WLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 8 ~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
..+|++||+||||..|+++++.+... ..++++|+.++ ....++++|++ ..++||||
T Consensus 645 ~~~g~~LVLFtS~~~l~~v~~~l~~~--------~~~~l~Qg~~~-~~~~l~~~F~~---------------~~~~vLlG 700 (820)
T PRK07246 645 QLQQPILVLFNSKKHLLAVSDLLDQW--------QVSHLAQEKNG-TAYNIKKRFDR---------------GEQQILLG 700 (820)
T ss_pred hcCCCEEEEECcHHHHHHHHHHHhhc--------CCcEEEeCCCc-cHHHHHHHHHc---------------CCCeEEEe
Confidence 56789999999999999999888643 24678888654 34678998875 25799999
Q ss_pred eecCccccccccCCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhccC
Q psy877 88 IFRGKISEGIDFADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQK 135 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~~ 135 (136)
+ |+|||||||+++.+..|||+|||||+|+||.++++.+|+++++++
T Consensus 701 ~--~sFwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~ 746 (820)
T PRK07246 701 L--GSFWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKN 746 (820)
T ss_pred c--chhhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCC
Confidence 9 999999999988888899999999999999999999999887543
No 13
>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=99.57 E-value=1.5e-14 Score=127.29 Aligned_cols=108 Identities=12% Similarity=0.077 Sum_probs=87.8
Q ss_pred ccccccccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCC
Q psy877 3 GEPSCWLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTG 82 (136)
Q Consensus 3 ~~~~~~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~g 82 (136)
.++++...||+||+|+||..|+.+.+.+... + .-++++|+.. .....++++|++.+++ +.+
T Consensus 463 ~~~~~~~~G~~lvLfTS~~~~~~~~~~l~~~-----l--~~~~l~qg~~-~~~~~l~~~f~~~~~~-----------~~~ 523 (636)
T TIGR03117 463 AAILRKAQGGTLVLTTAFSHISAIGQLVELG-----I--PAEIVIQSEK-NRLASAEQQFLALYAN-----------GIQ 523 (636)
T ss_pred HHHHHHcCCCEEEEechHHHHHHHHHHHHhh-----c--CCCEEEeCCC-ccHHHHHHHHHHhhcC-----------CCC
Confidence 3445566789999999999999999998753 1 2568999753 2457799999997755 348
Q ss_pred eEEEEeecCcccccccc--------CCCcceEEEEEcCCCCCCCcHHHHHHHHHHHhhcc
Q psy877 83 ALLFTIFRGKISEGIDF--------ADNYARSVISVGIPFPSIQDEKVKLKRSYNDTHAQ 134 (136)
Q Consensus 83 ailfaV~~Gk~SEGIDf--------~d~~~r~ViivGiPyp~~~d~~~~~k~~y~d~~~~ 134 (136)
+|||++ +.|+||||+ +|+.|++|||..+|||+ .||. ++.+++++++.
T Consensus 524 ~vL~gt--~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~--a~~~~~~~~g~ 578 (636)
T TIGR03117 524 PVLIAA--GGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGL-NRSL--SMLKRIRKTSV 578 (636)
T ss_pred cEEEeC--CccccccccCCccCCCCCCCcccEEEEEeCCCCc-CChH--HHHHHHHhcCC
Confidence 999999 999999999 79999999999999996 5785 77788877653
No 14
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=97.74 E-value=0.00036 Score=47.82 Aligned_cols=80 Identities=19% Similarity=0.260 Sum_probs=58.3
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
+.+|||+++...++.+.+.++... ....++-... ..+...++++|.+ +...++++.
T Consensus 29 ~~~lvf~~~~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~f~~---------------~~~~ili~t- 85 (131)
T cd00079 29 GKVLIFCPSKKMLDELAELLRKPG-------IKVAALHGDGSQEEREEVLKDFRE---------------GEIVVLVAT- 85 (131)
T ss_pred CcEEEEeCcHHHHHHHHHHHHhcC-------CcEEEEECCCCHHHHHHHHHHHHc---------------CCCcEEEEc-
Confidence 569999999999999999998632 1223333332 3456677777764 235677776
Q ss_pred cCccccccccCCCcceEEEEEcCCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
..++||+|+++ +..||+.+.|+..
T Consensus 86 -~~~~~G~d~~~--~~~vi~~~~~~~~ 109 (131)
T cd00079 86 -DVIARGIDLPN--VSVVINYDLPWSP 109 (131)
T ss_pred -ChhhcCcChhh--CCEEEEeCCCCCH
Confidence 89999999986 7889999998754
No 15
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=96.80 E-value=0.0079 Score=51.13 Aligned_cols=78 Identities=13% Similarity=0.184 Sum_probs=57.9
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
.-+|||+++....+.+.+.+...++ ....+-.. +..+...+++.|++ +.-.||+|.
T Consensus 246 ~~~lVF~~t~~~~~~l~~~L~~~g~-------~~~~lhg~~~~~~R~~~l~~F~~---------------g~~~iLVaT- 302 (456)
T PRK10590 246 QQVLVFTRTKHGANHLAEQLNKDGI-------RSAAIHGNKSQGARTRALADFKS---------------GDIRVLVAT- 302 (456)
T ss_pred CcEEEEcCcHHHHHHHHHHHHHCCC-------CEEEEECCCCHHHHHHHHHHHHc---------------CCCcEEEEc-
Confidence 3589999999999999999986543 22222222 23467889999874 245677777
Q ss_pred cCccccccccCCCcceEEEEEcCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
..+++|||+++ ++.||..++|.
T Consensus 303 -dv~~rGiDip~--v~~VI~~~~P~ 324 (456)
T PRK10590 303 -DIAARGLDIEE--LPHVVNYELPN 324 (456)
T ss_pred -cHHhcCCCccc--CCEEEEeCCCC
Confidence 89999999997 57899988875
No 16
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=96.80 E-value=0.011 Score=49.57 Aligned_cols=79 Identities=15% Similarity=0.207 Sum_probs=60.8
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc-hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN-DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
+.+|||++|-...+.+++.+...++ ...++.+... .+...+++.|++ +.--||+|.
T Consensus 246 ~~~lVF~~s~~~~~~l~~~L~~~~~-------~~~~l~g~~~~~~R~~~l~~f~~---------------G~~~vLVaT- 302 (434)
T PRK11192 246 TRSIVFVRTRERVHELAGWLRKAGI-------NCCYLEGEMVQAKRNEAIKRLTD---------------GRVNVLVAT- 302 (434)
T ss_pred CeEEEEeCChHHHHHHHHHHHhCCC-------CEEEecCCCCHHHHHHHHHHHhC---------------CCCcEEEEc-
Confidence 4589999999999999999987543 3455555443 467888898874 345677776
Q ss_pred cCccccccccCCCcceEEEEEcCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
..+++|||+++ ++.||..++|..
T Consensus 303 -d~~~~GiDip~--v~~VI~~d~p~s 325 (434)
T PRK11192 303 -DVAARGIDIDD--VSHVINFDMPRS 325 (434)
T ss_pred -cccccCccCCC--CCEEEEECCCCC
Confidence 89999999986 688999998874
No 17
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.74 E-value=0.013 Score=49.23 Aligned_cols=80 Identities=8% Similarity=0.048 Sum_probs=60.1
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
+..+|||+++-...+.+.+.+...++ +-.++-+. ...+...++++|+. +.-.+|+|.
T Consensus 255 ~~~~lVF~~t~~~~~~l~~~L~~~g~-------~v~~lhg~~~~~~R~~~l~~F~~---------------g~~~vLVaT 312 (423)
T PRK04837 255 PDRAIIFANTKHRCEEIWGHLAADGH-------RVGLLTGDVAQKKRLRILEEFTR---------------GDLDILVAT 312 (423)
T ss_pred CCeEEEEECCHHHHHHHHHHHHhCCC-------cEEEecCCCChhHHHHHHHHHHc---------------CCCcEEEEe
Confidence 35689999999999999998876543 22233222 23467889999974 346788877
Q ss_pred ecCccccccccCCCcceEEEEEcCCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
.-+++|||+++ ++.||..++|..
T Consensus 313 --dv~~rGiDip~--v~~VI~~d~P~s 335 (423)
T PRK04837 313 --DVAARGLHIPA--VTHVFNYDLPDD 335 (423)
T ss_pred --chhhcCCCccc--cCEEEEeCCCCc
Confidence 89999999997 789999999874
No 18
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.69 E-value=0.014 Score=49.50 Aligned_cols=80 Identities=10% Similarity=0.179 Sum_probs=60.6
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
++.+|||+++-...+.+++.+...++ .-..+-.. +..+.+.+++.|++ +.-.+|+|.
T Consensus 242 ~~~~lVF~~t~~~~~~l~~~L~~~~~-------~v~~~hg~~~~~eR~~~l~~F~~---------------g~~~vLVaT 299 (460)
T PRK11776 242 PESCVVFCNTKKECQEVADALNAQGF-------SALALHGDLEQRDRDQVLVRFAN---------------RSCSVLVAT 299 (460)
T ss_pred CCceEEEECCHHHHHHHHHHHHhCCC-------cEEEEeCCCCHHHHHHHHHHHHc---------------CCCcEEEEe
Confidence 35699999999999999999987653 12222222 23477889999874 345677777
Q ss_pred ecCccccccccCCCcceEEEEEcCCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
..+++|||+++ +..||..++|..
T Consensus 300 --dv~~rGiDi~~--v~~VI~~d~p~~ 322 (460)
T PRK11776 300 --DVAARGLDIKA--LEAVINYELARD 322 (460)
T ss_pred --cccccccchhc--CCeEEEecCCCC
Confidence 89999999997 679999999873
No 19
>PTZ00424 helicase 45; Provisional
Probab=96.67 E-value=0.013 Score=48.23 Aligned_cols=79 Identities=11% Similarity=0.175 Sum_probs=57.9
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
..++||+++-...+.+.+.++..++ ...++-.. ...+...+++.|+. +.--+|+|.
T Consensus 268 ~~~ivF~~t~~~~~~l~~~l~~~~~-------~~~~~h~~~~~~~R~~i~~~f~~---------------g~~~vLvaT- 324 (401)
T PTZ00424 268 TQAIIYCNTRRKVDYLTKKMHERDF-------TVSCMHGDMDQKDRDLIMREFRS---------------GSTRVLITT- 324 (401)
T ss_pred CeEEEEecCcHHHHHHHHHHHHCCC-------cEEEEeCCCCHHHHHHHHHHHHc---------------CCCCEEEEc-
Confidence 4689999999999999988876532 22223222 23467788888874 345677777
Q ss_pred cCccccccccCCCcceEEEEEcCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
..++||||+++ ++.||..++|..
T Consensus 325 -~~l~~GiDip~--v~~VI~~~~p~s 347 (401)
T PTZ00424 325 -DLLARGIDVQQ--VSLVINYDLPAS 347 (401)
T ss_pred -ccccCCcCccc--CCEEEEECCCCC
Confidence 89999999998 678899998863
No 20
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.62 E-value=0.016 Score=49.38 Aligned_cols=78 Identities=15% Similarity=0.156 Sum_probs=56.5
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||++|-...+.+++.+...++- ...+--.-...+...+++.|++ +.--+|+|. -
T Consensus 337 ~~IVF~~s~~~~~~l~~~L~~~~~~------~~~~~g~~~~~~R~~~~~~Fr~---------------G~~~vLvaT--~ 393 (475)
T PRK01297 337 RVMVFANRKDEVRRIEERLVKDGIN------AAQLSGDVPQHKRIKTLEGFRE---------------GKIRVLVAT--D 393 (475)
T ss_pred eEEEEeCCHHHHHHHHHHHHHcCCC------EEEEECCCCHHHHHHHHHHHhC---------------CCCcEEEEc--c
Confidence 5899999999999999888765431 1122111223466788888874 234566666 8
Q ss_pred ccccccccCCCcceEEEEEcCCC
Q psy877 92 KISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivGiPy 114 (136)
-+++|||+++ ++.||..++|.
T Consensus 394 ~l~~GIDi~~--v~~VI~~~~P~ 414 (475)
T PRK01297 394 VAGRGIHIDG--ISHVINFTLPE 414 (475)
T ss_pred ccccCCcccC--CCEEEEeCCCC
Confidence 9999999987 78999999987
No 21
>PRK09401 reverse gyrase; Reviewed
Probab=96.50 E-value=0.011 Score=56.13 Aligned_cols=84 Identities=20% Similarity=0.226 Sum_probs=59.9
Q ss_pred cccccccCcEEEEecC---HHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCC
Q psy877 4 EPSCWLIRGSTARIPN---KDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKN 80 (136)
Q Consensus 4 ~~~~~~~gg~lvFFpS---Y~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~ 80 (136)
++.+....|.|||+++ ..+.+.+.+.+...++- -..+-.. ....+++|++ +
T Consensus 322 ~ll~~l~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~-------v~~~hg~----l~~~l~~F~~---------------G 375 (1176)
T PRK09401 322 ELVKRLGDGGLIFVPSDKGKEYAEELAEYLEDLGIN-------AELAISG----FERKFEKFEE---------------G 375 (1176)
T ss_pred HHHHhcCCCEEEEEecccChHHHHHHHHHHHHCCCc-------EEEEeCc----HHHHHHHHHC---------------C
Confidence 3445556789999998 45599999998876641 1111111 1345577774 3
Q ss_pred CCeEEEEee--cCccccccccCCCcceEEEEEcCCC
Q psy877 81 TGALLFTIF--RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 81 ~gailfaV~--~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
.--||.|+. .+.++.|||+++ ..|.||-.|+|-
T Consensus 376 ~~~VLVatas~tdv~aRGIDiP~-~IryVI~y~vP~ 410 (1176)
T PRK09401 376 EVDVLVGVASYYGVLVRGIDLPE-RIRYAIFYGVPK 410 (1176)
T ss_pred CCCEEEEecCCCCceeecCCCCc-ceeEEEEeCCCC
Confidence 467888864 689999999998 689999999997
No 22
>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=96.48 E-value=0.012 Score=55.83 Aligned_cols=86 Identities=15% Similarity=0.193 Sum_probs=62.1
Q ss_pred ccccccCcEEEEecCH---HHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 5 PSCWLIRGSTARIPNK---DSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 5 ~~~~~~gg~lvFFpSY---~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
+......|.|||+++- ...+.+.+.++..++ +-..+-... . +..+++|++ +.
T Consensus 321 ll~~l~~~~IVFv~t~~~~~~a~~l~~~L~~~g~-------~a~~lhg~~-~--~~~l~~Fr~---------------G~ 375 (1171)
T TIGR01054 321 IVKKLGTGGIVYVSIDYGKEKAEEIAEFLENHGV-------KAVAYHATK-P--KEDYEKFAE---------------GE 375 (1171)
T ss_pred HHHHcCCCEEEEEeccccHHHHHHHHHHHHhCCc-------eEEEEeCCC-C--HHHHHHHHc---------------CC
Confidence 3444557899999998 899999999987654 212222211 1 468888875 34
Q ss_pred CeEEEEee--cCccccccccCCCcceEEEEEcCCCCC
Q psy877 82 GALLFTIF--RGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 82 gailfaV~--~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
--+|.|+. .+.++.|||+++ ..|.||-+|+|--.
T Consensus 376 ~~vLVata~~tdv~aRGIDip~-~V~~vI~~~~P~~~ 411 (1171)
T TIGR01054 376 IDVLIGVASYYGTLVRGLDLPE-RVRYAVFLGVPKFK 411 (1171)
T ss_pred CCEEEEeccccCcccccCCCCc-cccEEEEECCCCEE
Confidence 56888864 789999999998 57899999999543
No 23
>PTZ00110 helicase; Provisional
Probab=96.42 E-value=0.021 Score=49.91 Aligned_cols=78 Identities=17% Similarity=0.210 Sum_probs=58.4
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
+-+|||+++-...+.+...+...++ ..+.+-.. ...+.+.++++|++ +..-||+|.
T Consensus 378 ~k~LIF~~t~~~a~~l~~~L~~~g~-------~~~~ihg~~~~~eR~~il~~F~~---------------G~~~ILVaT- 434 (545)
T PTZ00110 378 DKILIFVETKKGADFLTKELRLDGW-------PALCIHGDKKQEERTWVLNEFKT---------------GKSPIMIAT- 434 (545)
T ss_pred CeEEEEecChHHHHHHHHHHHHcCC-------cEEEEECCCcHHHHHHHHHHHhc---------------CCCcEEEEc-
Confidence 3589999999999999998876543 22333322 23467889999975 235577766
Q ss_pred cCccccccccCCCcceEEEEEcCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
.-+++|||+++ ++.||..++|-
T Consensus 435 -dv~~rGIDi~~--v~~VI~~d~P~ 456 (545)
T PTZ00110 435 -DVASRGLDVKD--VKYVINFDFPN 456 (545)
T ss_pred -chhhcCCCccc--CCEEEEeCCCC
Confidence 89999999997 78899999885
No 24
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.39 E-value=0.025 Score=48.36 Aligned_cols=80 Identities=14% Similarity=0.182 Sum_probs=59.3
Q ss_pred cCc-EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 10 IRG-STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 10 ~gg-~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
++. .|||++|-...+.+.+.+...++- -..|=-.-...+...+++.|+. +.-.||+|.
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~g~~------~~~~H~~l~~~eR~~i~~~F~~---------------g~~~vLVaT 283 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNLGIA------AGAYHAGLEISARDDVHHKFQR---------------DEIQVVVAT 283 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhcCCC------eeEeeCCCCHHHHHHHHHHHHc---------------CCCcEEEEe
Confidence 344 499999999999999999875531 1112111223467888888874 346788877
Q ss_pred ecCccccccccCCCcceEEEEEcCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
-.+++|||+++ .+.||..++|.
T Consensus 284 --~~~~~GID~p~--V~~VI~~~~P~ 305 (470)
T TIGR00614 284 --VAFGMGINKPD--VRFVIHYSLPK 305 (470)
T ss_pred --chhhccCCccc--ceEEEEeCCCC
Confidence 79999999998 79999999996
No 25
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.37 E-value=0.026 Score=49.73 Aligned_cols=79 Identities=10% Similarity=0.149 Sum_probs=60.0
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
.-+|||+.+-...+.+++.+...++ .-.++-... ..+...+++.|++ +.-.||+|.
T Consensus 258 ~k~LVF~nt~~~ae~l~~~L~~~g~-------~v~~lhg~l~~~eR~~il~~Fr~---------------G~~~VLVaT- 314 (572)
T PRK04537 258 ARTMVFVNTKAFVERVARTLERHGY-------RVGVLSGDVPQKKRESLLNRFQK---------------GQLEILVAT- 314 (572)
T ss_pred CcEEEEeCCHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHHc---------------CCCeEEEEe-
Confidence 3589999999999999999987643 223333332 3467889999974 346777777
Q ss_pred cCccccccccCCCcceEEEEEcCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
.-+++|||+++ ++.||..++|+.
T Consensus 315 -dv~arGIDip~--V~~VInyd~P~s 337 (572)
T PRK04537 315 -DVAARGLHIDG--VKYVYNYDLPFD 337 (572)
T ss_pred -hhhhcCCCccC--CCEEEEcCCCCC
Confidence 89999999997 689999999874
No 26
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=96.03 E-value=0.04 Score=34.31 Aligned_cols=45 Identities=18% Similarity=0.345 Sum_probs=35.0
Q ss_pred hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCCCC
Q psy877 53 DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 53 ~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
.+...+++.|.+ +...++++. ..++||+|+++ +..||+.+.|+..
T Consensus 24 ~~r~~~~~~f~~---------------~~~~vli~t--~~~~~Gi~~~~--~~~vi~~~~~~~~ 68 (82)
T smart00490 24 EEREEILEKFNN---------------GKIKVLVAT--DVAERGLDLPG--VDLVIIYDLPWSP 68 (82)
T ss_pred HHHHHHHHHHHc---------------CCCeEEEEC--ChhhCCcChhc--CCEEEEeCCCCCH
Confidence 456778888864 235777766 89999999987 8999999998743
No 27
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=95.95 E-value=0.04 Score=47.77 Aligned_cols=79 Identities=15% Similarity=0.212 Sum_probs=56.3
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
+-+|||++|-...+.+.+.+.....+ +-..+-.. +..+...+++.|+. +.-.||+|.
T Consensus 368 ~~~iVFv~s~~~a~~l~~~L~~~~g~------~~~~~Hg~~~~~eR~~il~~Fr~---------------G~~~ILVaT- 425 (518)
T PLN00206 368 PPAVVFVSSRLGADLLANAITVVTGL------KALSIHGEKSMKERREVMKSFLV---------------GEVPVIVAT- 425 (518)
T ss_pred CCEEEEcCCchhHHHHHHHHhhccCc------ceEEeeCCCCHHHHHHHHHHHHC---------------CCCCEEEEe-
Confidence 34899999998888887777532111 22222222 23577889999974 345677777
Q ss_pred cCccccccccCCCcceEEEEEcCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
..+++|||+++ ++.||..++|.
T Consensus 426 -dvl~rGiDip~--v~~VI~~d~P~ 447 (518)
T PLN00206 426 -GVLGRGVDLLR--VRQVIIFDMPN 447 (518)
T ss_pred -cHhhccCCccc--CCEEEEeCCCC
Confidence 89999999987 89999999876
No 28
>PRK14701 reverse gyrase; Provisional
Probab=95.69 E-value=0.032 Score=54.72 Aligned_cols=83 Identities=16% Similarity=0.179 Sum_probs=60.5
Q ss_pred ccccccCcEEEEecCHHH---HHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 5 PSCWLIRGSTARIPNKDS---ANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 5 ~~~~~~gg~lvFFpSY~~---m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
+.+....+.|||++|-.- .+.+.+.+...++- -..+- +.....+++|++ +.
T Consensus 325 ll~~~g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~-------a~~~h----~~R~~~l~~F~~---------------G~ 378 (1638)
T PRK14701 325 LLKKLGKGGLIFVPIDEGAEKAEEIEKYLLEDGFK-------IELVS----AKNKKGFDLFEE---------------GE 378 (1638)
T ss_pred HHHhCCCCeEEEEeccccchHHHHHHHHHHHCCCe-------EEEec----chHHHHHHHHHc---------------CC
Confidence 344445688999998663 57788888876542 11111 125778899985 45
Q ss_pred CeEEEEe--ecCccccccccCCCcceEEEEEcCCC
Q psy877 82 GALLFTI--FRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 82 gailfaV--~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
.-||.|+ +.|.++.|||+++ ..|-||-.|+|=
T Consensus 379 ~~VLVaT~s~~gvaaRGIDiP~-~Vryvi~~~~Pk 412 (1638)
T PRK14701 379 IDYLIGVATYYGTLVRGLDLPE-RIRFAVFYGVPK 412 (1638)
T ss_pred CCEEEEecCCCCeeEecCccCC-ccCEEEEeCCCC
Confidence 7788888 3689999999998 689999999997
No 29
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=95.68 E-value=0.082 Score=46.81 Aligned_cols=78 Identities=15% Similarity=0.208 Sum_probs=58.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcC-CCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEP-RRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~-~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
..++||++|-...+.+.+.+...++- -...=. -+..+...+++.|.+ +.-.||+|.
T Consensus 237 ~~~IIFc~tr~~~e~la~~L~~~g~~-------v~~~Ha~l~~~~R~~i~~~F~~---------------g~~~VLVaT- 293 (607)
T PRK11057 237 KSGIIYCNSRAKVEDTAARLQSRGIS-------AAAYHAGLDNDVRADVQEAFQR---------------DDLQIVVAT- 293 (607)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCC-------EEEecCCCCHHHHHHHHHHHHC---------------CCCCEEEEe-
Confidence 35899999999999999999876531 112222 223467888888874 345678777
Q ss_pred cCccccccccCCCcceEEEEEcCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
-.+++|||+++ .+.||..++|.
T Consensus 294 -~a~~~GIDip~--V~~VI~~d~P~ 315 (607)
T PRK11057 294 -VAFGMGINKPN--VRFVVHFDIPR 315 (607)
T ss_pred -chhhccCCCCC--cCEEEEeCCCC
Confidence 78999999998 78999999987
No 30
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=95.00 E-value=0.18 Score=44.30 Aligned_cols=79 Identities=15% Similarity=0.188 Sum_probs=57.7
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
...+||++|-...+.+.+.+...++- ...|--.-+..+.+.+++.|.. +.-.+++|.
T Consensus 225 ~~~IIf~~sr~~~e~la~~L~~~g~~------~~~~H~~l~~~~R~~i~~~F~~---------------g~~~vlVaT-- 281 (591)
T TIGR01389 225 QSGIIYASSRKKVEELAERLESQGIS------ALAYHAGLSNKVRAENQEDFLY---------------DDVKVMVAT-- 281 (591)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCC------EEEEECCCCHHHHHHHHHHHHc---------------CCCcEEEEe--
Confidence 34799999999999999998865431 1122222233467888888864 235677776
Q ss_pred CccccccccCCCcceEEEEEcCCC
Q psy877 91 GKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
-.+++|||+++ .|.||..++|-
T Consensus 282 ~a~~~GID~p~--v~~VI~~~~p~ 303 (591)
T TIGR01389 282 NAFGMGIDKPN--VRFVIHYDMPG 303 (591)
T ss_pred chhhccCcCCC--CCEEEEcCCCC
Confidence 89999999998 68999999876
No 31
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=94.99 E-value=0.046 Score=51.29 Aligned_cols=83 Identities=19% Similarity=0.279 Sum_probs=62.4
Q ss_pred cccccccCcEEEEecC---HHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCC
Q psy877 4 EPSCWLIRGSTARIPN---KDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKN 80 (136)
Q Consensus 4 ~~~~~~~gg~lvFFpS---Y~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~ 80 (136)
|+.+.+..|.|||.|. -.+.+.+.++++..++-. ..+..+ ....++.|.+ +
T Consensus 329 elvk~lG~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a-----~~~~a~------~~~~le~F~~---------------G 382 (1187)
T COG1110 329 ELVKKLGDGGLIFVPIDYGREKAEELAEYLRSHGINA-----ELIHAE------KEEALEDFEE---------------G 382 (1187)
T ss_pred HHHHHhCCCeEEEEEcHHhHHHHHHHHHHHHhcCceE-----EEeecc------chhhhhhhcc---------------C
Confidence 4566677899999999 899999999999887632 222221 1557777765 3
Q ss_pred CCeEEEEe--ecCccccccccCCCcceEEEEEcCC
Q psy877 81 TGALLFTI--FRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 81 ~gailfaV--~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
.=.+|.+| .-|.+-.|||+|. ..|-+|-+|+|
T Consensus 383 eidvLVGvAsyYG~lVRGlDLP~-rirYaIF~GvP 416 (1187)
T COG1110 383 EVDVLVGVASYYGVLVRGLDLPH-RIRYAVFYGVP 416 (1187)
T ss_pred ceeEEEEecccccceeecCCchh-heeEEEEecCC
Confidence 34555555 5899999999995 69999999999
No 32
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=94.97 E-value=0.046 Score=34.68 Aligned_cols=45 Identities=24% Similarity=0.409 Sum_probs=36.6
Q ss_pred chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCCC
Q psy877 52 NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 52 ~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
..+.+.++++|.. +...+|+|. ..++||||+++ +..||..+.|..
T Consensus 19 ~~~r~~~~~~f~~---------------~~~~vli~t--~~~~~Gid~~~--~~~vi~~~~~~~ 63 (78)
T PF00271_consen 19 QKERQEILKKFNS---------------GEIRVLIAT--DILGEGIDLPD--ASHVIFYDPPWS 63 (78)
T ss_dssp HHHHHHHHHHHHT---------------TSSSEEEES--CGGTTSSTSTT--ESEEEESSSESS
T ss_pred HHHHHHHHHHhhc---------------cCceEEEee--ccccccccccc--cccccccccCCC
Confidence 3467888888875 356888887 88999999996 899999999773
No 33
>KOG0343|consensus
Probab=94.90 E-value=0.15 Score=45.54 Aligned_cols=79 Identities=15% Similarity=0.149 Sum_probs=56.0
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCch--hHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRND--ELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~--~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
--++|||+|-....-+++.+.. |+..-+++--....+ ..-++..+|-+ .+.+||||.
T Consensus 314 ~K~iVF~SscKqvkf~~e~F~r------lrpg~~l~~L~G~~~Q~~R~ev~~~F~~---------------~~~~vLF~T 372 (758)
T KOG0343|consen 314 KKSIVFLSSCKQVKFLYEAFCR------LRPGIPLLALHGTMSQKKRIEVYKKFVR---------------KRAVVLFCT 372 (758)
T ss_pred cceEEEEehhhHHHHHHHHHHh------cCCCCceeeeccchhHHHHHHHHHHHHH---------------hcceEEEee
Confidence 3579999999999988888764 344455665433333 23445555544 368999998
Q ss_pred ecCccccccccCCCcceEEEEEcCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
--.|.|+||+ ..-+||=+--|=
T Consensus 373 --Dv~aRGLDFp--aVdwViQ~DCPe 394 (758)
T KOG0343|consen 373 --DVAARGLDFP--AVDWVIQVDCPE 394 (758)
T ss_pred --hhhhccCCCc--ccceEEEecCch
Confidence 8999999999 678888776553
No 34
>PHA02558 uvsW UvsW helicase; Provisional
Probab=94.70 E-value=0.12 Score=44.59 Aligned_cols=75 Identities=12% Similarity=0.070 Sum_probs=50.4
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc-hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN-DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
..++|||.+=...+.+.+.+...+. +-.++-+..+ .+.+.+++.|+. +...+|+|-
T Consensus 345 ~~~lV~~~~~~h~~~L~~~L~~~g~-------~v~~i~G~~~~~eR~~i~~~~~~---------------~~~~vLvaT- 401 (501)
T PHA02558 345 ENTFVMFKYVEHGKPLYEMLKKVYD-------KVYYVSGEVDTEDRNEMKKIAEG---------------GKGIIIVAS- 401 (501)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHcCC-------CEEEEeCCCCHHHHHHHHHHHhC---------------CCCeEEEEE-
Confidence 5699999999999999998887543 3345555443 356666666652 123444432
Q ss_pred cCccccccccCCCcceEEEEE
Q psy877 90 RGKISEGIDFADNYARSVISV 110 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~Viiv 110 (136)
.+-++||+|+++ +.+||+.
T Consensus 402 ~~~l~eG~Dip~--ld~vIl~ 420 (501)
T PHA02558 402 YGVFSTGISIKN--LHHVIFA 420 (501)
T ss_pred cceecccccccc--ccEEEEe
Confidence 379999999997 5677754
No 35
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=94.52 E-value=0.29 Score=43.75 Aligned_cols=79 Identities=13% Similarity=0.125 Sum_probs=57.2
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
..+|||+++-...+.+.+.+...++- ...+-.. +..+.+.+++.|+. +.--||+|.
T Consensus 246 ~~~IVF~~tk~~a~~l~~~L~~~g~~-------~~~lhgd~~q~~R~~il~~Fr~---------------G~~~ILVAT- 302 (629)
T PRK11634 246 DAAIIFVRTKNATLEVAEALERNGYN-------SAALNGDMNQALREQTLERLKD---------------GRLDILIAT- 302 (629)
T ss_pred CCEEEEeccHHHHHHHHHHHHhCCCC-------EEEeeCCCCHHHHHHHHHHHhC---------------CCCCEEEEc-
Confidence 56999999999999999999876531 1122221 12356788888874 234566666
Q ss_pred cCccccccccCCCcceEEEEEcCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
--+++|||+++ ++.||...+|..
T Consensus 303 -dv~arGIDip~--V~~VI~~d~P~~ 325 (629)
T PRK11634 303 -DVAARGLDVER--ISLVVNYDIPMD 325 (629)
T ss_pred -chHhcCCCccc--CCEEEEeCCCCC
Confidence 89999999997 688998888873
No 36
>KOG0342|consensus
Probab=94.13 E-value=0.2 Score=43.74 Aligned_cols=76 Identities=13% Similarity=0.136 Sum_probs=51.9
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEE-cCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYC-EPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~-E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
-++||||+-..-.-+++.+....+ +++. -++ .......+..+|+++ ..+||+|.
T Consensus 332 KiiVF~sT~~~vk~~~~lL~~~dl--------pv~eiHgk~~Q~kRT~~~~~F~ka---------------esgIL~cT- 387 (543)
T KOG0342|consen 332 KIIVFFSTCMSVKFHAELLNYIDL--------PVLEIHGKQKQNKRTSTFFEFCKA---------------ESGILVCT- 387 (543)
T ss_pred eEEEEechhhHHHHHHHHHhhcCC--------chhhhhcCCcccccchHHHHHhhc---------------ccceEEec-
Confidence 478999988887777777764322 1111 111 112345677888763 57888887
Q ss_pred cCccccccccCCCcceEEEEEcCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
--.+.|+|||+ ..+||=+|+|=
T Consensus 388 -DVaARGlD~P~--V~~VvQ~~~P~ 409 (543)
T KOG0342|consen 388 -DVAARGLDIPD--VDWVVQYDPPS 409 (543)
T ss_pred -chhhccCCCCC--ceEEEEeCCCC
Confidence 88899999998 68898888764
No 37
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=93.19 E-value=0.73 Score=41.37 Aligned_cols=75 Identities=15% Similarity=0.082 Sum_probs=53.5
Q ss_pred EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEE-cCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 13 STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYC-EPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 13 ~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~-E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
++||+.+-...+.+.+.+...++ +-.++ ...+..+...++++|+. |.+-+.|+-|
T Consensus 449 viIf~~t~~~ae~L~~~L~~~gi-------~~~~~h~~~~~~~R~~~l~~f~~-----------------g~i~vlV~t~ 504 (652)
T PRK05298 449 VLVTTLTKRMAEDLTDYLKELGI-------KVRYLHSDIDTLERVEIIRDLRL-----------------GEFDVLVGIN 504 (652)
T ss_pred EEEEeCCHHHHHHHHHHHhhcce-------eEEEEECCCCHHHHHHHHHHHHc-----------------CCceEEEEeC
Confidence 79999999999999999987653 22333 22333467788888863 3333445559
Q ss_pred ccccccccCCCcceEEEEEcCC
Q psy877 92 KISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivGiP 113 (136)
.+++|+|+++- +.||+...+
T Consensus 505 ~L~rGfdlp~v--~lVii~d~e 524 (652)
T PRK05298 505 LLREGLDIPEV--SLVAILDAD 524 (652)
T ss_pred HHhCCccccCC--cEEEEeCCc
Confidence 99999999984 678887765
No 38
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=92.36 E-value=1.4 Score=41.58 Aligned_cols=82 Identities=17% Similarity=0.165 Sum_probs=57.9
Q ss_pred CcEEEEecCHHHHHHHHHHHhc-CCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSS-TGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~-~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
.-+|||+.+-..+..+.+.+.. .++ ..-+|-+..+..+.+.+++.|.+. . ++..||+|
T Consensus 494 ~KvLVF~~~~~t~~~L~~~L~~~~Gi------~~~~ihG~~s~~eR~~~~~~F~~~---~----------~~~~VLIs-- 552 (956)
T PRK04914 494 EKVLVICAKAATALQLEQALREREGI------RAAVFHEGMSIIERDRAAAYFADE---E----------DGAQVLLC-- 552 (956)
T ss_pred CeEEEEeCcHHHHHHHHHHHhhccCe------eEEEEECCCCHHHHHHHHHHHhcC---C----------CCccEEEe--
Confidence 3589999999999999999853 333 122454554456789999999851 0 12345554
Q ss_pred cCccccccccCCCcceEEEEEcCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
--..|||+||.. +..||..-+|.-
T Consensus 553 TdvgseGlNlq~--a~~VInfDlP~n 576 (956)
T PRK04914 553 SEIGSEGRNFQF--ASHLVLFDLPFN 576 (956)
T ss_pred chhhccCCCccc--ccEEEEecCCCC
Confidence 478899999966 578999999973
No 39
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=92.28 E-value=0.72 Score=44.18 Aligned_cols=77 Identities=14% Similarity=0.122 Sum_probs=55.6
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
-.+||+.|-.-.+.+.+.+...++ +-.+.-.. +..+...+++.|.. +.-.||+|.
T Consensus 682 sgIIYC~SRke~E~LAe~L~~~Gi-------ka~~YHAGLs~eeR~~vqe~F~~---------------Gei~VLVAT-- 737 (1195)
T PLN03137 682 CGIIYCLSRMDCEKVAERLQEFGH-------KAAFYHGSMDPAQRAFVQKQWSK---------------DEINIICAT-- 737 (1195)
T ss_pred CceeEeCchhHHHHHHHHHHHCCC-------CeeeeeCCCCHHHHHHHHHHHhc---------------CCCcEEEEe--
Confidence 368899999988888888876543 22222222 23467778888874 345677766
Q ss_pred CccccccccCCCcceEEEEEcCCC
Q psy877 91 GKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
--++.|||++| .|.||-.++|.
T Consensus 738 dAFGMGIDkPD--VR~VIHydlPk 759 (1195)
T PLN03137 738 VAFGMGINKPD--VRFVIHHSLPK 759 (1195)
T ss_pred chhhcCCCccC--CcEEEEcCCCC
Confidence 78999999999 68899999987
No 40
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=92.19 E-value=0.89 Score=40.98 Aligned_cols=73 Identities=15% Similarity=0.118 Sum_probs=50.5
Q ss_pred EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 13 STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 13 ~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
++||+++-...+.+.+.+...++ +-.++-.. +..+..+++++|+. |.+-+.|+-+
T Consensus 445 vLIf~~tk~~ae~L~~~L~~~gi-------~~~~lh~~~~~~eR~~~l~~fr~-----------------G~i~VLV~t~ 500 (655)
T TIGR00631 445 VLVTTLTKKMAEDLTDYLKELGI-------KVRYLHSEIDTLERVEIIRDLRL-----------------GEFDVLVGIN 500 (655)
T ss_pred EEEEECCHHHHHHHHHHHhhhcc-------ceeeeeCCCCHHHHHHHHHHHhc-----------------CCceEEEEcC
Confidence 89999999999999999887653 22333222 23467778888863 3344444559
Q ss_pred ccccccccCCCcceEEEEEc
Q psy877 92 KISEGIDFADNYARSVISVG 111 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivG 111 (136)
.++||+|+++- ..||+..
T Consensus 501 ~L~rGfDiP~v--~lVvi~D 518 (655)
T TIGR00631 501 LLREGLDLPEV--SLVAILD 518 (655)
T ss_pred hhcCCeeeCCC--cEEEEeC
Confidence 99999999984 5566654
No 41
>PRK13767 ATP-dependent helicase; Provisional
Probab=91.79 E-value=1.1 Score=41.69 Aligned_cols=83 Identities=11% Similarity=0.048 Sum_probs=53.7
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC--chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR--NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
..+|||.+|-...+.++..+..... +.. ....+..=..+ ..+...+++.|++ +.-.+++|.
T Consensus 285 ~~~LVF~nTr~~ae~la~~L~~~~~-~~~-~~~~i~~hHg~ls~~~R~~ve~~fk~---------------G~i~vLVaT 347 (876)
T PRK13767 285 RTTLIFTNTRSGAERVLYNLRKRFP-EEY-DEDNIGAHHSSLSREVRLEVEEKLKR---------------GELKVVVSS 347 (876)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHhch-hhc-cccceeeeeCCCCHHHHHHHHHHHHc---------------CCCeEEEEC
Confidence 4589999999999888887764210 000 01223332222 2356778888864 223455544
Q ss_pred ecCccccccccCCCcceEEEEEcCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
-.+++|||+++ ++.||.+|.|.
T Consensus 348 --s~Le~GIDip~--Vd~VI~~~~P~ 369 (876)
T PRK13767 348 --TSLELGIDIGY--IDLVVLLGSPK 369 (876)
T ss_pred --ChHHhcCCCCC--CcEEEEeCCCC
Confidence 89999999988 78999999886
No 42
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=91.52 E-value=1.5 Score=37.43 Aligned_cols=75 Identities=20% Similarity=0.282 Sum_probs=54.2
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
.++++|..+-...+.+...+...++ ...+.-+++ ..+.++++++|++ +.--+|+++
T Consensus 284 ~~~lif~~~~~~a~~i~~~~~~~~~------~~~it~~t~-~~eR~~il~~fr~---------------g~~~~lv~~-- 339 (442)
T COG1061 284 DKTLIFASDVEHAYEIAKLFLAPGI------VEAITGETP-KEEREAILERFRT---------------GGIKVLVTV-- 339 (442)
T ss_pred CcEEEEeccHHHHHHHHHHhcCCCc------eEEEECCCC-HHHHHHHHHHHHc---------------CCCCEEEEe--
Confidence 4789999999999999988886543 123333433 3578999999986 234566666
Q ss_pred CccccccccCCCcceEEEEEc
Q psy877 91 GKISEGIDFADNYARSVISVG 111 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivG 111 (136)
.-+.||+|.|+ +.++|++.
T Consensus 340 ~vl~EGvDiP~--~~~~i~~~ 358 (442)
T COG1061 340 KVLDEGVDIPD--ADVLIILR 358 (442)
T ss_pred eeccceecCCC--CcEEEEeC
Confidence 78999999999 45566665
No 43
>KOG0345|consensus
Probab=91.31 E-value=0.97 Score=39.62 Aligned_cols=78 Identities=13% Similarity=0.223 Sum_probs=52.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEE-cCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYC-EPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~-E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
.-.+||||+-+-.+.+...+... .....||- -++. ....+.++++|++. ..++|||.
T Consensus 256 kK~iVFF~TCasVeYf~~~~~~~------l~~~~i~~iHGK~~q~~R~k~~~~F~~~---------------~~~vl~~T 314 (567)
T KOG0345|consen 256 KKCIVFFPTCASVEYFGKLFSRL------LKKREIFSIHGKMSQKARAKVLEAFRKL---------------SNGVLFCT 314 (567)
T ss_pred ccEEEEecCcchHHHHHHHHHHH------hCCCcEEEecchhcchhHHHHHHHHHhc---------------cCceEEee
Confidence 45899999987777666665532 12233443 3332 23578899999972 47889988
Q ss_pred ecCccccccccCCCcceEEEEEcCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
--.+.|||++| ..+||=.-.|
T Consensus 315 --DVaARGlDip~--iD~VvQ~DpP 335 (567)
T KOG0345|consen 315 --DVAARGLDIPG--IDLVVQFDPP 335 (567)
T ss_pred --hhhhccCCCCC--ceEEEecCCC
Confidence 89999999998 4566554444
No 44
>PRK01172 ski2-like helicase; Provisional
Probab=90.61 E-value=1.4 Score=39.43 Aligned_cols=84 Identities=8% Similarity=0.042 Sum_probs=50.2
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCc-chhh-----------------ccceeEEE-cCCCchhHHHHHHHHHHHHhhhhh
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGL-MDRI-----------------REVKSVYC-EPRRNDELENVMLGYFTAIKQAEL 71 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~-~~~l-----------------~~~k~if~-E~~~~~~~~~~l~~f~~~~~~~~~ 71 (136)
+.+|||.||-...+.+...+..... ...+ ....-.|. ..-...+...+.+.|++
T Consensus 237 ~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~------- 309 (674)
T PRK01172 237 GQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRN------- 309 (674)
T ss_pred CcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHc-------
Confidence 4589999999999888877754210 0000 00000111 11112345556666653
Q ss_pred hcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCC
Q psy877 72 RSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 72 ~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
+.-.||+|. ..++.|||+++ +.|||-++|.
T Consensus 310 --------g~i~VLvaT--~~la~Gvnipa---~~VII~~~~~ 339 (674)
T PRK01172 310 --------RYIKVIVAT--PTLAAGVNLPA---RLVIVRDITR 339 (674)
T ss_pred --------CCCeEEEec--chhhccCCCcc---eEEEEcCceE
Confidence 235666666 99999999997 6888888764
No 45
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=90.26 E-value=0.97 Score=41.20 Aligned_cols=85 Identities=11% Similarity=0.021 Sum_probs=52.1
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCc--chhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGL--MDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~--~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
.-+|||+.|-...+.++..++.... ...+......|--.-...+...++++|++ +.-.+|+|
T Consensus 272 ~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~---------------G~i~vLVa- 335 (742)
T TIGR03817 272 ARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRD---------------GELLGVAT- 335 (742)
T ss_pred CCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHc---------------CCceEEEE-
Confidence 3589999999999988877653200 00000000011111112356778887764 22344444
Q ss_pred ecCccccccccCCCcceEEEEEcCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
--.++.|||+++ +..||..|+|.
T Consensus 336 -Td~lerGIDI~~--vd~VI~~~~P~ 358 (742)
T TIGR03817 336 -TNALELGVDISG--LDAVVIAGFPG 358 (742)
T ss_pred -CchHhccCCccc--ccEEEEeCCCC
Confidence 489999999997 78999999886
No 46
>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=90.19 E-value=1.3 Score=40.95 Aligned_cols=88 Identities=8% Similarity=0.013 Sum_probs=58.5
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEE-EcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVY-CEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if-~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
+|.+|||+|+...++.+++.+.+.. ...-.++ +-+.- ..+...+++.|.. +.--|++|
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~-----~~~~~v~pLHg~L~~~eq~~~~~~~~~---------------G~rkVlVA 268 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERL-----DSDVLICPLYGELSLAAQDRAIKPDPQ---------------GRRKVVLA 268 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhc-----CCCcEEEEecCCCCHHHHHHHHhhccc---------------CCeEEEEe
Confidence 4679999999999999999887521 0011122 22221 2344556666542 23567777
Q ss_pred eecCccccccccCCCcceEEEEEcCCCCCCCcHH
Q psy877 88 IFRGKISEGIDFADNYARSVISVGIPFPSIQDEK 121 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGiPyp~~~d~~ 121 (136)
. --.+-|||++| ++.||=.|+|--+..|+.
T Consensus 269 T--nIAErgItIp~--V~~VID~Gl~r~~~yd~~ 298 (819)
T TIGR01970 269 T--NIAETSLTIEG--IRVVIDSGLARVARFDPK 298 (819)
T ss_pred c--chHhhcccccC--ceEEEEcCcccccccccc
Confidence 6 88889999998 789999999965444443
No 47
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=89.44 E-value=1.1 Score=41.45 Aligned_cols=81 Identities=9% Similarity=0.032 Sum_probs=54.0
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEE-EcCCCc-hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVY-CEPRRN-DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if-~E~~~~-~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
.|.+|||+|+..-++.+++.+..... ..-.++ +-+..+ .+.+.+++.|.. +.-.|++|
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~~-----~~~~v~~Lhg~l~~~eq~~~~~~~~~---------------G~rkVlvA 271 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRVA-----SDVLLCPLYGALSLAEQQKAILPAPA---------------GRRKVVLA 271 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhcc-----CCceEEEeeCCCCHHHHHHHhccccC---------------CCeEEEEe
Confidence 46799999999999999999985210 011122 222211 234445555432 34567777
Q ss_pred eecCccccccccCCCcceEEEEEcCCC
Q psy877 88 IFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
. .-.+-|||++| ++.||-.|+|=
T Consensus 272 T--nIAErsLtIp~--V~~VID~Gl~r 294 (812)
T PRK11664 272 T--NIAETSLTIEG--IRLVVDSGLER 294 (812)
T ss_pred c--chHHhcccccC--ceEEEECCCcc
Confidence 7 78889999988 78999999984
No 48
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=88.95 E-value=2.9 Score=37.68 Aligned_cols=78 Identities=17% Similarity=0.124 Sum_probs=50.6
Q ss_pred cEEEEecC--------HHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCC
Q psy877 12 GSTARIPN--------KDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTG 82 (136)
Q Consensus 12 g~lvFFpS--------Y~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~g 82 (136)
-++||+|. ..-.+.+++.|...- ...+-.++-.+. ..+.+.++++|++ +.-
T Consensus 473 q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~-----~~~~v~~lHG~m~~~eR~~i~~~F~~---------------g~~ 532 (681)
T PRK10917 473 QAYVVCPLIEESEKLDLQSAEETYEELQEAF-----PELRVGLLHGRMKPAEKDAVMAAFKA---------------GEI 532 (681)
T ss_pred cEEEEEcccccccchhHHHHHHHHHHHHHHC-----CCCcEEEEeCCCCHHHHHHHHHHHHc---------------CCC
Confidence 37888884 344455666665421 011223344443 3478889999985 345
Q ss_pred eEEEEeecCccccccccCCCcceEEEEEcCC
Q psy877 83 ALLFTIFRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 83 ailfaV~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
.||+|. --+++|||+++ ++.||+.+.|
T Consensus 533 ~ILVaT--~vie~GiDip~--v~~VIi~~~~ 559 (681)
T PRK10917 533 DILVAT--TVIEVGVDVPN--ATVMVIENAE 559 (681)
T ss_pred CEEEEC--cceeeCcccCC--CcEEEEeCCC
Confidence 788777 89999999998 4668887766
No 49
>KOG0344|consensus
Probab=88.82 E-value=2.4 Score=37.80 Aligned_cols=77 Identities=21% Similarity=0.277 Sum_probs=54.3
Q ss_pred ccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 9 LIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 9 ~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
++.-+|||.-||.-..+++..+. ..++|. ..-|.-| +...+.+..+++|+. |-|-.-+
T Consensus 386 ~~PP~lIfVQs~eRak~L~~~L~---~~~~i~-v~vIh~e-~~~~qrde~~~~FR~-----------------g~IwvLi 443 (593)
T KOG0344|consen 386 FKPPVLIFVQSKERAKQLFEELE---IYDNIN-VDVIHGE-RSQKQRDETMERFRI-----------------GKIWVLI 443 (593)
T ss_pred CCCCeEEEEecHHHHHHHHHHhh---hccCcc-eeeEecc-cchhHHHHHHHHHhc-----------------cCeeEEE
Confidence 45568999999999999988884 122222 1223334 445678999999986 5555555
Q ss_pred ecCccccccccCCCcceEEEE
Q psy877 89 FRGKISEGIDFADNYARSVIS 109 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~Vii 109 (136)
|-+-++.||||.| ...||.
T Consensus 444 cTdll~RGiDf~g--vn~VIn 462 (593)
T KOG0344|consen 444 CTDLLARGIDFKG--VNLVIN 462 (593)
T ss_pred ehhhhhccccccC--cceEEe
Confidence 6699999999998 466666
No 50
>PRK13766 Hef nuclease; Provisional
Probab=88.72 E-value=2.9 Score=37.86 Aligned_cols=78 Identities=15% Similarity=0.082 Sum_probs=53.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC---------CchhHHHHHHHHHHHHhhhhhhcCCccCCCC
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR---------RNDELENVMLGYFTAIKQAELRSSNTSEKNT 81 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~---------~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~ 81 (136)
+-+|||..+-...+.+.+.+...++ +...+-+. ...+...++++|+. +.
T Consensus 366 ~kvlIF~~~~~t~~~L~~~L~~~~~-------~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~---------------g~ 423 (773)
T PRK13766 366 SRIIVFTQYRDTAEKIVDLLEKEGI-------KAVRFVGQASKDGDKGMSQKEQIEILDKFRA---------------GE 423 (773)
T ss_pred CeEEEEeCcHHHHHHHHHHHHhCCC-------ceEEEEccccccccCCCCHHHHHHHHHHHHc---------------CC
Confidence 3489999999999999998865443 11222221 11245668888764 23
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
..+|+|. --.+||+|++ .++.||....|.
T Consensus 424 ~~vLvaT--~~~~eGldi~--~~~~VI~yd~~~ 452 (773)
T PRK13766 424 FNVLVST--SVAEEGLDIP--SVDLVIFYEPVP 452 (773)
T ss_pred CCEEEEC--ChhhcCCCcc--cCCEEEEeCCCC
Confidence 5778777 5789999997 588999887643
No 51
>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ].; GO: 0005634 nucleus
Probab=87.30 E-value=3.8 Score=35.44 Aligned_cols=85 Identities=15% Similarity=0.096 Sum_probs=57.8
Q ss_pred ccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 9 LIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 9 ~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
..+|+|||.|||--.=++.+.++..++. --..-|-.+.++.....+.|.. ++..+|+-.
T Consensus 299 ~~~~~LIfIPSYfDfVRlRN~lk~~~~s------F~~i~EYts~~~isRAR~~F~~---------------G~~~iLL~T 357 (442)
T PF06862_consen 299 KMSGTLIFIPSYFDFVRLRNYLKKENIS------FVQISEYTSNSDISRARSQFFH---------------GRKPILLYT 357 (442)
T ss_pred CCCcEEEEecchhhhHHHHHHHHhcCCe------EEEecccCCHHHHHHHHHHHHc---------------CCceEEEEE
Confidence 3479999999999999999999865431 1123365555667777777775 457788765
Q ss_pred ecCccccccccCCCcceEEEEEcCCCCC
Q psy877 89 FRGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 89 ~~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
=|--+=.=..+.| ++.||..|+|--+
T Consensus 358 ER~HFfrRy~irG--i~~viFY~~P~~p 383 (442)
T PF06862_consen 358 ERFHFFRRYRIRG--IRHVIFYGPPENP 383 (442)
T ss_pred hHHhhhhhceecC--CcEEEEECCCCCh
Confidence 3333333333444 7899999999644
No 52
>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=86.64 E-value=4.1 Score=38.28 Aligned_cols=80 Identities=19% Similarity=0.172 Sum_probs=56.0
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
-++||+|+-.-++.+++.++..- ...+-..+-.+. ..+.+.++++|++ +.-.||+|.
T Consensus 662 qv~if~n~i~~~e~l~~~L~~~~-----p~~~v~~lHG~m~~~eRe~im~~F~~---------------Gk~~ILVaT-- 719 (926)
T TIGR00580 662 QVFYVHNRIESIEKLATQLRELV-----PEARIAIAHGQMTENELEEVMLEFYK---------------GEFQVLVCT-- 719 (926)
T ss_pred eEEEEECCcHHHHHHHHHHHHhC-----CCCeEEEecCCCCHHHHHHHHHHHHc---------------CCCCEEEEC--
Confidence 37899999888888888877520 011223334443 2468889999985 346777777
Q ss_pred CccccccccCCCcceEEEEEcCCCC
Q psy877 91 GKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
--++.|||+++ +..||+...|-.
T Consensus 720 ~iie~GIDIp~--v~~VIi~~a~~~ 742 (926)
T TIGR00580 720 TIIETGIDIPN--ANTIIIERADKF 742 (926)
T ss_pred Chhhccccccc--CCEEEEecCCCC
Confidence 89999999997 568888777653
No 53
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=86.60 E-value=4.6 Score=36.01 Aligned_cols=78 Identities=18% Similarity=0.164 Sum_probs=48.7
Q ss_pred cEEEEecCHH--------HHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCC
Q psy877 12 GSTARIPNKD--------SANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTG 82 (136)
Q Consensus 12 g~lvFFpSY~--------~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~g 82 (136)
-++||+|... -.+.+++.+... +...+-.++-++. ..+.+.++++|++ +..
T Consensus 450 q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~-----~~~~~v~~lHG~m~~~eR~~i~~~F~~---------------g~~ 509 (630)
T TIGR00643 450 QAYVVYPLIEESEKLDLKAAEALYERLKKA-----FPKYNVGLLHGRMKSDEKEAVMEEFRE---------------GEV 509 (630)
T ss_pred cEEEEEccccccccchHHHHHHHHHHHHhh-----CCCCcEEEEeCCCCHHHHHHHHHHHHc---------------CCC
Confidence 3778888652 233444444421 1111223344443 3467889999875 356
Q ss_pred eEEEEeecCccccccccCCCcceEEEEEcCC
Q psy877 83 ALLFTIFRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 83 ailfaV~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
.||+|. -.+++|||+++ ++.||+.+.|
T Consensus 510 ~ILVaT--~vie~GvDiP~--v~~VIi~~~~ 536 (630)
T TIGR00643 510 DILVAT--TVIEVGVDVPN--ATVMVIEDAE 536 (630)
T ss_pred CEEEEC--ceeecCcccCC--CcEEEEeCCC
Confidence 788887 79999999998 5677887766
No 54
>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=85.88 E-value=1.9 Score=34.98 Aligned_cols=68 Identities=9% Similarity=0.052 Sum_probs=43.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc-hhHH----HHHHHHHHHHhhhhhhcCCccCCCCCeEE
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN-DELE----NVMLGYFTAIKQAELRSSNTSEKNTGALL 85 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~----~~l~~f~~~~~~~~~~~~~~~~~~~gail 85 (136)
+.+|||+++-...+.+++.++..+.. ..-..+-++.. .+.. ++++.|++ +...+|
T Consensus 223 ~~~lVf~~t~~~~~~~~~~L~~~~~~-----~~~~~~h~~~~~~~r~~~~~~~~~~f~~---------------~~~~il 282 (358)
T TIGR01587 223 GKIAIIVNTVDRAQEFYQQLKENAPE-----EEIMLLHSRFTEKDRAKKEAELLEEMKK---------------NEKFVI 282 (358)
T ss_pred CeEEEEECCHHHHHHHHHHHHhhcCC-----CeEEEEECCCCHHHHHHHHHHHHHHhcC---------------CCCeEE
Confidence 46999999999999999998764321 01223333322 2332 24566653 235566
Q ss_pred EEeecCccccccccC
Q psy877 86 FTIFRGKISEGIDFA 100 (136)
Q Consensus 86 faV~~Gk~SEGIDf~ 100 (136)
.|. ..+++|||++
T Consensus 283 vaT--~~~~~GiDi~ 295 (358)
T TIGR01587 283 VAT--QVIEASLDIS 295 (358)
T ss_pred EEC--cchhceeccC
Confidence 666 8999999996
No 55
>KOG0348|consensus
Probab=85.37 E-value=5.5 Score=35.76 Aligned_cols=85 Identities=15% Similarity=0.138 Sum_probs=55.1
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcch---------------hhccceeEEEcCCCch--hHHHHHHHHHHHHhhhhhhcC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMD---------------RIREVKSVYCEPRRND--ELENVMLGYFTAIKQAELRSS 74 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~---------------~l~~~k~if~E~~~~~--~~~~~l~~f~~~~~~~~~~~~ 74 (136)
-++|||++-...+-=|+.+.... |. .+...-++|--..+++ +...+++.|..
T Consensus 427 k~iVF~S~~d~VeFHy~lf~~~l-~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~---------- 495 (708)
T KOG0348|consen 427 KMIVFFSCSDSVEFHYSLFSEAL-LSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSH---------- 495 (708)
T ss_pred eeEEEEechhHHHHHHHHHHhhh-hcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhcc----------
Confidence 57999999877776666655321 11 1111223443333332 56778888876
Q ss_pred CccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCCCC
Q psy877 75 NTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 75 ~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
.+.+||||. --.+.|+||++ .++||=.--|+..
T Consensus 496 -----~~~~VLLcT--DVAaRGLDlP~--V~~vVQYd~P~s~ 528 (708)
T KOG0348|consen 496 -----SRRAVLLCT--DVAARGLDLPH--VGLVVQYDPPFST 528 (708)
T ss_pred -----ccceEEEeh--hhhhccCCCCC--cCeEEEeCCCCCH
Confidence 356899988 89999999998 6778777766643
No 56
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=85.29 E-value=4.5 Score=38.79 Aligned_cols=85 Identities=8% Similarity=0.058 Sum_probs=54.1
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCC--cchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTG--LMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~--~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
++.++||+.|-...+.+.+.+...- .+..... ..+..=+.+..+.+.++++|+. + ....|+++
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~-~~v~~itg~~~~~~~li~~Fk~----~----------~~p~IlVs 762 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQVED-DAVIKITGSIDKPDQLIRRFKN----E----------RLPNIVVT 762 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCc-cceEEEeCCccchHHHHHHHhC----C----------CCCeEEEE
Confidence 3569999999999888777665320 0001111 1111111222345789999974 1 12468888
Q ss_pred eecCccccccccCCCcceEEEEEcCC
Q psy877 88 IFRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
| +.+++|+|.|. +.+||+.-.|
T Consensus 763 v--dmL~TG~DvP~--v~~vVf~rpv 784 (1123)
T PRK11448 763 V--DLLTTGIDVPS--ICNLVFLRRV 784 (1123)
T ss_pred e--cccccCCCccc--ccEEEEecCC
Confidence 8 99999999996 7888888765
No 57
>PRK10689 transcription-repair coupling factor; Provisional
Probab=84.67 E-value=5.8 Score=38.18 Aligned_cols=74 Identities=19% Similarity=0.176 Sum_probs=52.1
Q ss_pred EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 13 STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 13 ~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
++||+++-.-++.+.+.++... ...+-...-.+. ..+.+.++.+|++ +.--||+|. -
T Consensus 812 v~vf~n~i~~ie~la~~L~~~~-----p~~~v~~lHG~m~q~eRe~im~~Fr~---------------Gk~~VLVaT--d 869 (1147)
T PRK10689 812 VYYLYNDVENIQKAAERLAELV-----PEARIAIGHGQMRERELERVMNDFHH---------------QRFNVLVCT--T 869 (1147)
T ss_pred EEEEECCHHHHHHHHHHHHHhC-----CCCcEEEEeCCCCHHHHHHHHHHHHh---------------cCCCEEEEC--c
Confidence 8999999998888888887531 011222233333 2467889999985 346777777 8
Q ss_pred ccccccccCCCcceEEEEE
Q psy877 92 KISEGIDFADNYARSVISV 110 (136)
Q Consensus 92 k~SEGIDf~d~~~r~Viiv 110 (136)
-++.|||+++ +..||+.
T Consensus 870 IierGIDIP~--v~~VIi~ 886 (1147)
T PRK10689 870 IIETGIDIPT--ANTIIIE 886 (1147)
T ss_pred hhhccccccc--CCEEEEe
Confidence 9999999998 5777765
No 58
>PHA02653 RNA helicase NPH-II; Provisional
Probab=84.40 E-value=6.9 Score=35.57 Aligned_cols=80 Identities=4% Similarity=0.098 Sum_probs=52.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
+.+|||+|+-.-.+.+.+.+.... ...+-+-+-+. ....++.++++.+ + ++-.|++|.
T Consensus 396 g~iLVFlpg~~ei~~l~~~L~~~~-----~~~~v~~LHG~-Lsq~eq~l~~ff~---~-----------gk~kILVAT-- 453 (675)
T PHA02653 396 SSGIVFVASVSQCEEYKKYLEKRL-----PIYDFYIIHGK-VPNIDEILEKVYS---S-----------KNPSIIIST-- 453 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHhhc-----CCceEEeccCC-cCHHHHHHHHHhc---c-----------CceeEEecc--
Confidence 459999999999999998887541 00111112222 2223456666642 1 235677777
Q ss_pred CccccccccCCCcceEEEEEcCCC
Q psy877 91 GKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
.-.+.|||++| ++.||=.|...
T Consensus 454 dIAERGIDIp~--V~~VID~G~~k 475 (675)
T PHA02653 454 PYLESSVTIRN--ATHVYDTGRVY 475 (675)
T ss_pred ChhhccccccC--eeEEEECCCcc
Confidence 88999999999 69999999443
No 59
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=82.30 E-value=9 Score=32.69 Aligned_cols=81 Identities=10% Similarity=0.147 Sum_probs=54.1
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|+|||+-..|+++.+.++.. +-..+..++-..+. ...+-++.|++ +.-.+|++. -
T Consensus 307 P~liF~p~I~~~eq~a~~lk~~-----~~~~~i~~Vhs~d~-~R~EkV~~fR~---------------G~~~lLiTT--T 363 (441)
T COG4098 307 PVLIFFPEIETMEQVAAALKKK-----LPKETIASVHSEDQ-HRKEKVEAFRD---------------GKITLLITT--T 363 (441)
T ss_pred cEEEEecchHHHHHHHHHHHhh-----CCccceeeeeccCc-cHHHHHHHHHc---------------CceEEEEEe--e
Confidence 3899999999999999999643 11223234433322 24556677764 346777777 6
Q ss_pred ccccccccCCCcceEEEEEcCCCCCCC
Q psy877 92 KISEGIDFADNYARSVISVGIPFPSIQ 118 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivGiPyp~~~ 118 (136)
-+-.|+-|++ --|.++|--.+..+
T Consensus 364 ILERGVTfp~---vdV~Vlgaeh~vfT 387 (441)
T COG4098 364 ILERGVTFPN---VDVFVLGAEHRVFT 387 (441)
T ss_pred hhhccccccc---ceEEEecCCccccc
Confidence 7788999987 45777776665553
No 60
>PRK02362 ski2-like helicase; Provisional
Probab=81.90 E-value=6.4 Score=35.69 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=17.5
Q ss_pred CcEEEEecCHHHHHHHHHHHhc
Q psy877 11 RGSTARIPNKDSANGCEIRWSS 32 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~ 32 (136)
+-+|||+||-...+.+...+..
T Consensus 244 ~~~LVF~~sr~~~~~~a~~L~~ 265 (737)
T PRK02362 244 GQCLVFVSSRRNAEGFAKRAAS 265 (737)
T ss_pred CCeEEEEeCHHHHHHHHHHHHH
Confidence 4589999999988887776653
No 61
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=81.84 E-value=12 Score=32.72 Aligned_cols=76 Identities=14% Similarity=0.194 Sum_probs=55.1
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCC-CchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPR-RNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~-~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
-++||+.+-...+.+...|...++ +-..+-+. ...+....++.|++ +.-.||+|.
T Consensus 275 ~~IVF~~tk~~~~~l~~~l~~~g~-------~~~~lhG~l~q~~R~~~l~~F~~---------------g~~~vLVaT-- 330 (513)
T COG0513 275 RVIVFVRTKRLVEELAESLRKRGF-------KVAALHGDLPQEERDRALEKFKD---------------GELRVLVAT-- 330 (513)
T ss_pred eEEEEeCcHHHHHHHHHHHHHCCC-------eEEEecCCCCHHHHHHHHHHHHc---------------CCCCEEEEe--
Confidence 389999999999999999887653 22233322 23578889999984 356788877
Q ss_pred CccccccccCCCcceEEEEEcCC
Q psy877 91 GKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
.-.++|||+++ ...||=.-+|
T Consensus 331 DvaaRGiDi~~--v~~VinyD~p 351 (513)
T COG0513 331 DVAARGLDIPD--VSHVINYDLP 351 (513)
T ss_pred chhhccCCccc--cceeEEccCC
Confidence 99999999997 4555554444
No 62
>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=81.83 E-value=9.5 Score=35.08 Aligned_cols=76 Identities=13% Similarity=0.111 Sum_probs=49.7
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc-hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN-DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
.-+|||..+-..++.+...+. . -++-...+ .+...++++|+.. +.-.+|++.
T Consensus 497 ~kiLVF~~~~~~l~~~a~~L~-----------~-~~I~G~ts~~ER~~il~~Fr~~--------------~~i~vLv~S- 549 (732)
T TIGR00603 497 DKIIVFSDNVFALKEYAIKLG-----------K-PFIYGPTSQQERMQILQNFQHN--------------PKVNTIFLS- 549 (732)
T ss_pred CeEEEEeCCHHHHHHHHHHcC-----------C-ceEECCCCHHHHHHHHHHHHhC--------------CCccEEEEe-
Confidence 358898877777777766553 1 23334433 5789999999841 112344444
Q ss_pred cCccccccccCCCcceEEEEEcCCCCC
Q psy877 90 RGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 90 ~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
--..||||+++ +.+||++-.|+-+
T Consensus 550 -kVgdeGIDlP~--a~vvI~~s~~~gS 573 (732)
T TIGR00603 550 -KVGDTSIDLPE--ANVLIQISSHYGS 573 (732)
T ss_pred -cccccccCCCC--CCEEEEeCCCCCC
Confidence 44579999999 6888988877533
No 63
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=77.78 E-value=14 Score=33.52 Aligned_cols=78 Identities=13% Similarity=0.095 Sum_probs=47.3
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
.-+|||+.|-...+.+.+.+...++ +...+-.. ....+..+..+. + ..+.|+.|.
T Consensus 474 ~pvLIft~t~~~se~L~~~L~~~gi-------~~~~Lhg~-~~~rE~~ii~~a-----g----------~~g~VlVAT-- 528 (656)
T PRK12898 474 RPVLVGTRSVAASERLSALLREAGL-------PHQVLNAK-QDAEEAAIVARA-----G----------QRGRITVAT-- 528 (656)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCC-------CEEEeeCC-cHHHHHHHHHHc-----C----------CCCcEEEEc--
Confidence 3489999999999999999987654 22222222 222233333322 1 246777666
Q ss_pred CccccccccCC-Ccce-----EEEEEcCC
Q psy877 91 GKISEGIDFAD-NYAR-----SVISVGIP 113 (136)
Q Consensus 91 Gk~SEGIDf~d-~~~r-----~ViivGiP 113 (136)
.-.+.|+|++. ...+ .||..-+|
T Consensus 529 dmAgRGtDI~l~~~V~~~GGLhVI~~d~P 557 (656)
T PRK12898 529 NMAGRGTDIKLEPGVAARGGLHVILTERH 557 (656)
T ss_pred cchhcccCcCCccchhhcCCCEEEEcCCC
Confidence 89999999983 3333 55554444
No 64
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=73.62 E-value=15 Score=36.52 Aligned_cols=85 Identities=13% Similarity=0.110 Sum_probs=53.3
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcc------------hhhc-----------cc--eeEEE--cCCCchhHHHHHHHHHH
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLM------------DRIR-----------EV--KSVYC--EPRRNDELENVMLGYFT 64 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~------------~~l~-----------~~--k~if~--E~~~~~~~~~~l~~f~~ 64 (136)
-+|||..|-...+.+...+.+..-- ..+. .. ..++. .+-+..+...+.+.|++
T Consensus 246 stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~ 325 (1490)
T PRK09751 246 STIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKS 325 (1490)
T ss_pred CEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHHHh
Confidence 4899999999999988877642100 0000 00 00111 11122356777777764
Q ss_pred HHhhhhhhcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCCC
Q psy877 65 AIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPFP 115 (136)
Q Consensus 65 ~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp 115 (136)
|.+=.-||--.++-|||+.+ ...||.+|.|+.
T Consensus 326 -----------------G~LrvLVATssLELGIDIg~--VDlVIq~gsP~s 357 (1490)
T PRK09751 326 -----------------GELRCVVATSSLELGIDMGA--VDLVIQVATPLS 357 (1490)
T ss_pred -----------------CCceEEEeCcHHHccCCccc--CCEEEEeCCCCC
Confidence 44445555689999999876 688999999874
No 65
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=71.64 E-value=35 Score=32.72 Aligned_cols=81 Identities=11% Similarity=0.027 Sum_probs=49.5
Q ss_pred EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc-hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 13 STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN-DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 13 ~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~-~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
+|||.-.=.+|+.+.+.+...++ ..+.+.+..+ .+.+.++++|... .+ ..-.+|++. .
T Consensus 490 VLIFSQft~~LdiLed~L~~~g~-------~y~rIdGsts~~eRq~~Id~Fn~~--~s----------~~~VfLLST--r 548 (1033)
T PLN03142 490 VLIFSQMTRLLDILEDYLMYRGY-------QYCRIDGNTGGEDRDASIDAFNKP--GS----------EKFVFLLST--R 548 (1033)
T ss_pred EEeehhHHHHHHHHHHHHHHcCC-------cEEEECCCCCHHHHHHHHHHhccc--cC----------CceEEEEec--c
Confidence 66665544455555555543322 3455565554 4788899999641 00 111334444 7
Q ss_pred ccccccccCCCcceEEEEEcCCCCC
Q psy877 92 KISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
..++|||+.. +..||+.-.|+-|
T Consensus 549 AGGlGINLt~--Ad~VIiyD~dWNP 571 (1033)
T PLN03142 549 AGGLGINLAT--ADIVILYDSDWNP 571 (1033)
T ss_pred ccccCCchhh--CCEEEEeCCCCCh
Confidence 7889999977 7999999988733
No 66
>KOG0331|consensus
Probab=71.32 E-value=14 Score=32.62 Aligned_cols=75 Identities=17% Similarity=0.253 Sum_probs=47.5
Q ss_pred EEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEc-CCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 13 STARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCE-PRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 13 ~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E-~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
+|||.-.-.--+++...++..+ | .-+-+= .....+.+.+|++|++ ++-.||.|. .
T Consensus 344 vIIFc~tkr~~~~l~~~l~~~~-~------~a~~iHGd~sQ~eR~~~L~~Fre---------------G~~~vLVAT--d 399 (519)
T KOG0331|consen 344 VIIFCETKRTCDELARNLRRKG-W------PAVAIHGDKSQSERDWVLKGFRE---------------GKSPVLVAT--D 399 (519)
T ss_pred EEEEecchhhHHHHHHHHHhcC-c------ceeeecccccHHHHHHHHHhccc---------------CCcceEEEc--c
Confidence 7777777777777766666532 1 111111 1223467778888764 456777776 9
Q ss_pred ccccccccCCCcceEEEEEcCC
Q psy877 92 KISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 92 k~SEGIDf~d~~~r~ViivGiP 113 (136)
-.+.|+|++| .+.||-.-.|
T Consensus 400 VAaRGLDi~d--V~lVInydfP 419 (519)
T KOG0331|consen 400 VAARGLDVPD--VDLVINYDFP 419 (519)
T ss_pred cccccCCCcc--ccEEEeCCCC
Confidence 9999999998 5667655433
No 67
>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=69.58 E-value=23 Score=29.16 Aligned_cols=22 Identities=9% Similarity=-0.029 Sum_probs=19.6
Q ss_pred cEEEEecCHHHHHHHHHHHhcC
Q psy877 12 GSTARIPNKDSANGCEIRWSST 33 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~ 33 (136)
-+|||+++....+.++..++..
T Consensus 274 k~LIf~nt~~~~~~l~~~L~~~ 295 (357)
T TIGR03158 274 RGAIILDSLDEVNRLSDLLQQQ 295 (357)
T ss_pred eEEEEECCHHHHHHHHHHHhhh
Confidence 4899999999999999998864
No 68
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=69.08 E-value=34 Score=31.68 Aligned_cols=79 Identities=11% Similarity=0.106 Sum_probs=50.5
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||+.|-..-+.+.+.+...++-. ..+-.. ..+.+..+..+.. +.|+|+.|. .
T Consensus 407 pvLV~t~si~~se~ls~~L~~~gi~~-------~~Lna~-q~~rEa~ii~~ag---------------~~g~VtIAT--n 461 (745)
T TIGR00963 407 PVLVGTTSVEKSELLSNLLKERGIPH-------NVLNAK-NHEREAEIIAQAG---------------RKGAVTIAT--N 461 (745)
T ss_pred CEEEEeCcHHHHHHHHHHHHHcCCCe-------EEeeCC-hHHHHHHHHHhcC---------------CCceEEEEe--c
Confidence 58999999988888888888765421 111111 2334455554431 358888877 8
Q ss_pred ccccccccCCCcce---EEEEEcCCCC
Q psy877 92 KISEGIDFADNYAR---SVISVGIPFP 115 (136)
Q Consensus 92 k~SEGIDf~d~~~r---~ViivGiPyp 115 (136)
-.+.|+|++.+... +..|+|.=.|
T Consensus 462 mAgRGtDI~l~~V~~~GGl~VI~t~~p 488 (745)
T TIGR00963 462 MAGRGTDIKLEEVKELGGLYVIGTERH 488 (745)
T ss_pred cccCCcCCCccchhhcCCcEEEecCCC
Confidence 88999999995544 4445554443
No 69
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=68.94 E-value=20 Score=34.28 Aligned_cols=82 Identities=7% Similarity=0.064 Sum_probs=53.0
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
.-+|||+.|-...+.+...+...++--.... ....+.+..+-.|.. ..|+|++|.
T Consensus 599 rpVLIft~Sve~sE~Ls~~L~~~gI~h~vLn--------akq~~REa~Iia~AG---------------~~g~VtIAT-- 653 (1025)
T PRK12900 599 QPVLVGTASVEVSETLSRMLRAKRIAHNVLN--------AKQHDREAEIVAEAG---------------QKGAVTIAT-- 653 (1025)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHcCCCceeec--------CCHHHhHHHHHHhcC---------------CCCeEEEec--
Confidence 4589999998888888888876654211111 112334455554432 358888888
Q ss_pred CccccccccCCC----cceEEEEEcCCCCCC
Q psy877 91 GKISEGIDFADN----YARSVISVGIPFPSI 117 (136)
Q Consensus 91 Gk~SEGIDf~d~----~~r~ViivGiPyp~~ 117 (136)
.-.+.|+|++-. .+=+..++|.+.|..
T Consensus 654 NMAGRGtDIkl~~~V~~vGGL~VIgterhes 684 (1025)
T PRK12900 654 NMAGRGTDIKLGEGVRELGGLFILGSERHES 684 (1025)
T ss_pred cCcCCCCCcCCccchhhhCCceeeCCCCCch
Confidence 888999999832 233558889888764
No 70
>KOG0347|consensus
Probab=67.04 E-value=22 Score=32.17 Aligned_cols=69 Identities=6% Similarity=0.023 Sum_probs=48.7
Q ss_pred cccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc--hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEE
Q psy877 8 WLIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN--DELENVMLGYFTAIKQAELRSSNTSEKNTGALL 85 (136)
Q Consensus 8 ~~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gail 85 (136)
.-||-+|||.-|-+-..++...+...++.. +-+ ...+ ...-.-|++|++ ...+||
T Consensus 461 ryPGrTlVF~NsId~vKRLt~~L~~L~i~p-------~~L-HA~M~QKqRLknLEkF~~---------------~~~~VL 517 (731)
T KOG0347|consen 461 RYPGRTLVFCNSIDCVKRLTVLLNNLDIPP-------LPL-HASMIQKQRLKNLEKFKQ---------------SPSGVL 517 (731)
T ss_pred ecCCceEEEechHHHHHHHHHHHhhcCCCC-------chh-hHHHHHHHHHHhHHHHhc---------------CCCeEE
Confidence 457889999999999999999988765421 111 1111 123446777876 247899
Q ss_pred EEeecCccccccccCC
Q psy877 86 FTIFRGKISEGIDFAD 101 (136)
Q Consensus 86 faV~~Gk~SEGIDf~d 101 (136)
+|. --.+.|+|.++
T Consensus 518 iaT--DVAARGLDIp~ 531 (731)
T KOG0347|consen 518 IAT--DVAARGLDIPG 531 (731)
T ss_pred Eee--hhhhccCCCCC
Confidence 988 88899999975
No 71
>KOG0341|consensus
Probab=64.98 E-value=22 Score=31.05 Aligned_cols=69 Identities=13% Similarity=0.162 Sum_probs=46.8
Q ss_pred ccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEc-CCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 9 LIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCE-PRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 9 ~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E-~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
++.-+|+|.-.-.-.+.+++++--.++ .-+-+- .++.++....++.|+. +..-||.|
T Consensus 420 T~PpVLIFaEkK~DVD~IhEYLLlKGV-------EavaIHGGKDQedR~~ai~afr~---------------gkKDVLVA 477 (610)
T KOG0341|consen 420 TSPPVLIFAEKKADVDDIHEYLLLKGV-------EAVAIHGGKDQEDRHYAIEAFRA---------------GKKDVLVA 477 (610)
T ss_pred CCCceEEEeccccChHHHHHHHHHccc-------eeEEeecCcchhHHHHHHHHHhc---------------CCCceEEE
Confidence 445677777777777777777654433 122332 2344566777777775 46788888
Q ss_pred eecCccccccccCC
Q psy877 88 IFRGKISEGIDFAD 101 (136)
Q Consensus 88 V~~Gk~SEGIDf~d 101 (136)
. --.|.|+||+|
T Consensus 478 T--DVASKGLDFp~ 489 (610)
T KOG0341|consen 478 T--DVASKGLDFPD 489 (610)
T ss_pred e--cchhccCCCcc
Confidence 7 88999999998
No 72
>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=63.89 E-value=15 Score=35.85 Aligned_cols=83 Identities=12% Similarity=0.075 Sum_probs=52.1
Q ss_pred ccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEc-CCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEE
Q psy877 9 LIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCE-PRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLF 86 (136)
Q Consensus 9 ~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E-~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailf 86 (136)
-+|.+|||+|+...++.+.+.+...+.. ...|+-= +.- ..+.+.+ |+. . .+.-|++
T Consensus 278 ~~GdILVFLpg~~EI~~l~~~L~~~~~~-----~~~VlpLhg~Ls~~eQ~~v---f~~----~----------~~rkIVL 335 (1283)
T TIGR01967 278 GPGDILIFLPGEREIRDAAEILRKRNLR-----HTEILPLYARLSNKEQQRV---FQP----H----------SGRRIVL 335 (1283)
T ss_pred CCCCEEEeCCCHHHHHHHHHHHHhcCCC-----CcEEEeccCCCCHHHHHHH---hCC----C----------CCceEEE
Confidence 4577999999999999999999864321 0112111 111 1122222 221 0 1246777
Q ss_pred EeecCccccccccCCCcceEEEEEcCCCCCC
Q psy877 87 TIFRGKISEGIDFADNYARSVISVGIPFPSI 117 (136)
Q Consensus 87 aV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~ 117 (136)
|. .-..-|||++| ++.||=.|++--+.
T Consensus 336 AT--NIAEtSLTIpg--V~yVIDsGl~r~~~ 362 (1283)
T TIGR01967 336 AT--NVAETSLTVPG--IHYVIDTGTARISR 362 (1283)
T ss_pred ec--cHHHhccccCC--eeEEEeCCCccccc
Confidence 76 77888999998 78999999875433
No 73
>KOG0327|consensus
Probab=62.05 E-value=45 Score=28.55 Aligned_cols=78 Identities=14% Similarity=0.285 Sum_probs=55.8
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
.+.++|+-+-..+..+.+.+...+.- .--+-.+. ...+.+.++.+|+. +...+|..-
T Consensus 264 ~q~~if~nt~r~v~~l~~~L~~~~~~-----~s~~~~d~-~q~~R~~~~~ef~~---------------gssrvlItt-- 320 (397)
T KOG0327|consen 264 TQAVIFCNTRRKVDNLTDKLRAHGFT-----VSAIHGDM-EQNERDTLMREFRS---------------GSSRVLITT-- 320 (397)
T ss_pred hcceEEecchhhHHHHHHHHhhCCce-----EEEeeccc-chhhhhHHHHHhhc---------------CCceEEeec--
Confidence 57899999999999999888654421 01111111 12467889999985 457788877
Q ss_pred CccccccccCCCcceEEEEEcCC
Q psy877 91 GKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
..+|.|||... +..|+..-+|
T Consensus 321 dl~argidv~~--~slvinydlP 341 (397)
T KOG0327|consen 321 DLLARGIDVQQ--VSLVVNYDLP 341 (397)
T ss_pred cccccccchhh--cceeeeeccc
Confidence 99999999976 5677777777
No 74
>PRK00254 ski2-like helicase; Provisional
Probab=59.97 E-value=46 Score=30.14 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=18.4
Q ss_pred eEEEEeecCccccccccCCCcceEEEEEcC
Q psy877 83 ALLFTIFRGKISEGIDFADNYARSVISVGI 112 (136)
Q Consensus 83 ailfaV~~Gk~SEGIDf~d~~~r~ViivGi 112 (136)
.+-.-||--.++.|||++. +.|||.|.
T Consensus 321 ~i~VLvaT~tLa~Gvnipa---~~vVI~~~ 347 (720)
T PRK00254 321 LIKVITATPTLSAGINLPA---FRVIIRDT 347 (720)
T ss_pred CCeEEEeCcHHhhhcCCCc---eEEEECCc
Confidence 3344444499999999986 55677544
No 75
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=56.72 E-value=46 Score=31.02 Aligned_cols=64 Identities=9% Similarity=0.133 Sum_probs=38.1
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||+.|-...+.+...+...++- ...+-... .+.+..+.. ..+ ..|.|+.|. .
T Consensus 430 pvLIf~~t~~~se~l~~~L~~~gi~-------~~~L~~~~-~~~e~~~i~-----~ag----------~~g~VlIAT--d 484 (790)
T PRK09200 430 PVLIGTGSIEQSETFSKLLDEAGIP-------HNLLNAKN-AAKEAQIIA-----EAG----------QKGAVTVAT--N 484 (790)
T ss_pred CEEEEeCcHHHHHHHHHHHHHCCCC-------EEEecCCc-cHHHHHHHH-----HcC----------CCCeEEEEc--c
Confidence 4899999998888888888876542 12222221 111111111 011 246777666 8
Q ss_pred ccccccccC
Q psy877 92 KISEGIDFA 100 (136)
Q Consensus 92 k~SEGIDf~ 100 (136)
-.+.|+|++
T Consensus 485 mAgRG~DI~ 493 (790)
T PRK09200 485 MAGRGTDIK 493 (790)
T ss_pred chhcCcCCC
Confidence 999999995
No 76
>KOG0333|consensus
Probab=55.50 E-value=63 Score=29.21 Aligned_cols=68 Identities=16% Similarity=0.232 Sum_probs=47.3
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-++||.---.-.+.+.+.+...++- ..++==+....+.+..|+.|+. +.+.||.|. -
T Consensus 519 piIIFvN~kk~~d~lAk~LeK~g~~------~~tlHg~k~qeQRe~aL~~fr~---------------~t~dIlVaT--D 575 (673)
T KOG0333|consen 519 PIIIFVNTKKGADALAKILEKAGYK------VTTLHGGKSQEQRENALADFRE---------------GTGDILVAT--D 575 (673)
T ss_pred CEEEEEechhhHHHHHHHHhhccce------EEEeeCCccHHHHHHHHHHHHh---------------cCCCEEEEe--c
Confidence 4677777777778888887766531 1122223334577889999986 468888887 8
Q ss_pred ccccccccCCC
Q psy877 92 KISEGIDFADN 102 (136)
Q Consensus 92 k~SEGIDf~d~ 102 (136)
-...|||.++=
T Consensus 576 vAgRGIDIpnV 586 (673)
T KOG0333|consen 576 VAGRGIDIPNV 586 (673)
T ss_pred ccccCCCCCcc
Confidence 88899999873
No 77
>KOG0335|consensus
Probab=54.51 E-value=48 Score=29.14 Aligned_cols=29 Identities=21% Similarity=0.477 Sum_probs=22.3
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
--+|.|. .-.+.|+|+++ .+.||..-+|=
T Consensus 388 ~pvlVaT--~VaaRGlDi~~--V~hVInyDmP~ 416 (482)
T KOG0335|consen 388 APVLVAT--NVAARGLDIPN--VKHVINYDMPA 416 (482)
T ss_pred cceEEEe--hhhhcCCCCCC--CceeEEeecCc
Confidence 3455555 89999999997 67888877774
No 78
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=52.55 E-value=41 Score=33.12 Aligned_cols=77 Identities=10% Similarity=0.088 Sum_probs=48.9
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEE-cCCC-chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYC-EPRR-NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~-E~~~-~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
+|.+|||+|+...++.+.+.+...++- ...|+. -.+- ..+...+++. . +.--|++|
T Consensus 286 ~GdILVFLpg~~EIe~lae~L~~~~~~-----~~~VlpLhg~Ls~~eQ~~Vf~~------~-----------g~rkIIVA 343 (1294)
T PRK11131 286 PGDILIFMSGEREIRDTADALNKLNLR-----HTEILPLYARLSNSEQNRVFQS------H-----------SGRRIVLA 343 (1294)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHhcCCC-----cceEeecccCCCHHHHHHHhcc------c-----------CCeeEEEe
Confidence 466999999999999999999865421 011111 1111 1222333321 1 22457766
Q ss_pred eecCccccccccCCCcceEEEEEcC
Q psy877 88 IFRGKISEGIDFADNYARSVISVGI 112 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGi 112 (136)
. .-.+-|||.+| ++.||=.|+
T Consensus 344 T--NIAEtSITIpg--I~yVID~Gl 364 (1294)
T PRK11131 344 T--NVAETSLTVPG--IKYVIDPGT 364 (1294)
T ss_pred c--cHHhhccccCc--ceEEEECCC
Confidence 6 88889999998 789998885
No 79
>KOG0332|consensus
Probab=52.50 E-value=58 Score=28.20 Aligned_cols=80 Identities=18% Similarity=0.133 Sum_probs=56.9
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC--chhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEE
Q psy877 10 IRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR--NDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFT 87 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~--~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfa 87 (136)
.|-.++|..--+-.+.++..+...|.. |-+-..+ ..+++.++++|++ +..-||.+
T Consensus 330 igqsiIFc~tk~ta~~l~~~m~~~Gh~--------V~~l~G~l~~~~R~~ii~~Fr~---------------g~~kVLit 386 (477)
T KOG0332|consen 330 IGQSIIFCHTKATAMWLYEEMRAEGHQ--------VSLLHGDLTVEQRAAIIDRFRE---------------GKEKVLIT 386 (477)
T ss_pred hhheEEEEeehhhHHHHHHHHHhcCce--------eEEeeccchhHHHHHHHHHHhc---------------CcceEEEE
Confidence 466899999999999999999876542 1111111 2467889999996 45788988
Q ss_pred eecCccccccccCCCcceEEEEEcCCCCC
Q psy877 88 IFRGKISEGIDFADNYARSVISVGIPFPS 116 (136)
Q Consensus 88 V~~Gk~SEGIDf~d~~~r~ViivGiPyp~ 116 (136)
. .-++.|||-+. ...||=.-+|.-.
T Consensus 387 T--nV~ARGiDv~q--Vs~VvNydlP~~~ 411 (477)
T KOG0332|consen 387 T--NVCARGIDVAQ--VSVVVNYDLPVKY 411 (477)
T ss_pred e--chhhcccccce--EEEEEecCCcccc
Confidence 8 89999999764 4455555555543
No 80
>PF08331 DUF1730: Domain of unknown function (DUF1730); InterPro: IPR013542 This domain of unknown function occurs in iron-sulphur cluster-binding proteins together with the 4Fe-4S binding domain (IPR001450 from INTERPRO).
Probab=43.54 E-value=16 Score=23.56 Aligned_cols=14 Identities=43% Similarity=0.596 Sum_probs=12.8
Q ss_pred cceEEEEEcCCCCC
Q psy877 103 YARSVISVGIPFPS 116 (136)
Q Consensus 103 ~~r~ViivGiPyp~ 116 (136)
.+|.||++++||.+
T Consensus 10 ~arSvIv~a~~Y~~ 23 (78)
T PF08331_consen 10 GARSVIVLAFPYYP 23 (78)
T ss_pred CCcEEEEEEccCCC
Confidence 47999999999998
No 81
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=42.35 E-value=24 Score=22.05 Aligned_cols=18 Identities=17% Similarity=0.394 Sum_probs=16.2
Q ss_pred cCHHHHHHHHHHHhcCCc
Q psy877 18 PNKDSANGCEIRWSSTGL 35 (136)
Q Consensus 18 pSY~~m~~~~~~~~~~~~ 35 (136)
+|+.|++.++..|++.++
T Consensus 48 ~~~~Yi~~Il~~W~~~gi 65 (73)
T TIGR01446 48 ANYKYIDAILNNWKNNGI 65 (73)
T ss_pred CCHHHHHHHHHHHHHcCC
Confidence 789999999999998765
No 82
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=41.57 E-value=80 Score=29.72 Aligned_cols=76 Identities=4% Similarity=0.049 Sum_probs=45.7
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCC-chhHH-----HHHHHHHHHHhhhhhhcCCccCC-CCCe
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRR-NDELE-----NVMLGYFTAIKQAELRSSNTSEK-NTGA 83 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~-~~~~~-----~~l~~f~~~~~~~~~~~~~~~~~-~~ga 83 (136)
+-+|||+++-.-.+.+++.++..++ +.+-++. ..+.+ .++++|+.....+ +.+.. .+..
T Consensus 273 ~~vLVF~NTv~~Aq~L~~~L~~~g~---------~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g-----~~~~~~~g~~ 338 (844)
T TIGR02621 273 GAILVFCRTVKHVRKVFAKLPKEKF---------ELLTGTLRGAERDDLVKKEIFNRFLPQMLSG-----SRARPQQGTV 338 (844)
T ss_pred CcEEEEECCHHHHHHHHHHHHhcCC---------eEeeCCCCHHHHhhHHHHHHHHHHhcccccc-----ccccccccce
Confidence 3489999999999999999986542 3333332 23444 6678887511000 00000 1123
Q ss_pred EEEEeecCccccccccCCC
Q psy877 84 LLFTIFRGKISEGIDFADN 102 (136)
Q Consensus 84 ilfaV~~Gk~SEGIDf~d~ 102 (136)
|| |+---++.|||++.+
T Consensus 339 IL--VATdVaerGLDId~d 355 (844)
T TIGR02621 339 YL--VCTSAGEVGVNISAD 355 (844)
T ss_pred EE--eccchhhhcccCCcc
Confidence 44 555899999999753
No 83
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=39.36 E-value=16 Score=24.44 Aligned_cols=10 Identities=20% Similarity=0.338 Sum_probs=9.2
Q ss_pred CcEEEEecCH
Q psy877 11 RGSTARIPNK 20 (136)
Q Consensus 11 gg~lvFFpSY 20 (136)
.|.||+|||+
T Consensus 72 ~G~lvlFPs~ 81 (101)
T PF13759_consen 72 EGDLVLFPSW 81 (101)
T ss_dssp TTEEEEEETT
T ss_pred CCEEEEeCCC
Confidence 7999999996
No 84
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=38.74 E-value=1.5e+02 Score=27.61 Aligned_cols=64 Identities=11% Similarity=0.091 Sum_probs=38.7
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||+.|-...+.+...+...++- ...+-.. ..+.+..+-. ..+ ..|+|+.|. -
T Consensus 426 pvLIft~s~~~se~ls~~L~~~gi~-------~~~L~a~-~~~~E~~ii~-----~ag----------~~g~VlIAT--d 480 (762)
T TIGR03714 426 PVLLITGSVEMSEIYSELLLREGIP-------HNLLNAQ-NAAKEAQIIA-----EAG----------QKGAVTVAT--S 480 (762)
T ss_pred CEEEEECcHHHHHHHHHHHHHCCCC-------EEEecCC-ChHHHHHHHH-----HcC----------CCCeEEEEc--c
Confidence 4899999998888888888776542 2222222 2211111111 111 246888766 8
Q ss_pred ccccccccC
Q psy877 92 KISEGIDFA 100 (136)
Q Consensus 92 k~SEGIDf~ 100 (136)
-.+.|+|++
T Consensus 481 mAgRGtDI~ 489 (762)
T TIGR03714 481 MAGRGTDIK 489 (762)
T ss_pred ccccccCCC
Confidence 889999998
No 85
>KOG0328|consensus
Probab=36.08 E-value=1.3e+02 Score=25.24 Aligned_cols=65 Identities=14% Similarity=0.142 Sum_probs=44.6
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCc--hhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEee
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRN--DELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIF 89 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~--~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~ 89 (136)
-.++|+..-.-.+.+.+.+++..+. +-.-..+. .+.+.+|.+|+. +..-||++.
T Consensus 268 QavIFcnTk~kVdwLtekm~~~nft--------VssmHGDm~qkERd~im~dFRs---------------g~SrvLitT- 323 (400)
T KOG0328|consen 268 QAVIFCNTKRKVDWLTEKMREANFT--------VSSMHGDMEQKERDKIMNDFRS---------------GKSRVLITT- 323 (400)
T ss_pred eEEEEecccchhhHHHHHHHhhCce--------eeeccCCcchhHHHHHHHHhhc---------------CCceEEEEe-
Confidence 4577888887777777777654321 11111221 367899999985 457888888
Q ss_pred cCccccccccCC
Q psy877 90 RGKISEGIDFAD 101 (136)
Q Consensus 90 ~Gk~SEGIDf~d 101 (136)
--++.|||.+.
T Consensus 324 -DVwaRGiDv~q 334 (400)
T KOG0328|consen 324 -DVWARGIDVQQ 334 (400)
T ss_pred -chhhccCCcce
Confidence 88999999875
No 86
>KOG0339|consensus
Probab=33.17 E-value=1.2e+02 Score=27.42 Aligned_cols=75 Identities=13% Similarity=0.189 Sum_probs=50.3
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
|-+|+|.+--.-.+.+...++-.++- ..+.--..+..+..++|.+|++ ++.-||.|.
T Consensus 469 gkvlifVTKk~~~e~i~a~Lklk~~~------v~llhgdkdqa~rn~~ls~fKk---------------k~~~Vlvat-- 525 (731)
T KOG0339|consen 469 GKVLIFVTKKADAEEIAANLKLKGFN------VSLLHGDKDQAERNEVLSKFKK---------------KRKPVLVAT-- 525 (731)
T ss_pred CcEEEEEeccCCHHHHHHHhccccce------eeeecCchhhHHHHHHHHHHhh---------------cCCceEEEe--
Confidence 45788888777778888777755431 1111122233577889999987 356777777
Q ss_pred CccccccccCCCcceEEEEE
Q psy877 91 GKISEGIDFADNYARSVISV 110 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~Viiv 110 (136)
--.+.|+|.+ ..+.||.-
T Consensus 526 DvaargldI~--~ikTVvny 543 (731)
T KOG0339|consen 526 DVAARGLDIP--SIKTVVNY 543 (731)
T ss_pred eHhhcCCCcc--ccceeecc
Confidence 7778999998 57777753
No 87
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=32.91 E-value=1.6e+02 Score=27.76 Aligned_cols=66 Identities=12% Similarity=0.081 Sum_probs=43.8
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||+.|-..-+.+...+...++-- ..+ .....+.+..+..|.. +.++|+.|. .
T Consensus 432 pVLIft~Si~~se~Ls~~L~~~gi~~-------~vL-nakq~eREa~Iia~Ag---------------~~g~VtIAT--N 486 (830)
T PRK12904 432 PVLVGTVSIEKSELLSKLLKKAGIPH-------NVL-NAKNHEREAEIIAQAG---------------RPGAVTIAT--N 486 (830)
T ss_pred CEEEEeCcHHHHHHHHHHHHHCCCce-------Eec-cCchHHHHHHHHHhcC---------------CCceEEEec--c
Confidence 48999999999999998888765421 111 1112344555555432 358888887 8
Q ss_pred ccccccccCCC
Q psy877 92 KISEGIDFADN 102 (136)
Q Consensus 92 k~SEGIDf~d~ 102 (136)
-.+.|+|++=.
T Consensus 487 mAGRGtDI~Lg 497 (830)
T PRK12904 487 MAGRGTDIKLG 497 (830)
T ss_pred cccCCcCccCC
Confidence 89999999543
No 88
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=32.71 E-value=1.1e+02 Score=28.68 Aligned_cols=79 Identities=11% Similarity=0.129 Sum_probs=44.1
Q ss_pred CcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeec
Q psy877 11 RGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFR 90 (136)
Q Consensus 11 gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~ 90 (136)
..+|||+.|-..-+.+...+...++--. .+-.+ ..+.+..+-.. .+ ..|+|+.|.
T Consensus 441 ~pvLI~t~si~~se~ls~~L~~~gi~~~-------~Lna~-~~~~Ea~ii~~-----ag----------~~g~VtIAT-- 495 (796)
T PRK12906 441 QPVLVGTVAIESSERLSHLLDEAGIPHA-------VLNAK-NHAKEAEIIMN-----AG----------QRGAVTIAT-- 495 (796)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCCee-------EecCC-cHHHHHHHHHh-----cC----------CCceEEEEe--
Confidence 3588888888888888888877654211 11111 11111111111 11 247788877
Q ss_pred CccccccccC-CCcce---EEEEEcCCC
Q psy877 91 GKISEGIDFA-DNYAR---SVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~-d~~~r---~ViivGiPy 114 (136)
.-.+.|+|++ ++... ++.++|.=.
T Consensus 496 nmAGRGtDI~l~~~V~~~GGLhVI~te~ 523 (796)
T PRK12906 496 NMAGRGTDIKLGPGVKELGGLAVIGTER 523 (796)
T ss_pred ccccCCCCCCCCcchhhhCCcEEEeeec
Confidence 8889999995 33333 444444433
No 89
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=32.62 E-value=1.4e+02 Score=24.24 Aligned_cols=59 Identities=14% Similarity=0.144 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHHhcCCcchhh-ccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEe
Q psy877 19 NKDSANGCEIRWSSTGLMDRI-REVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTI 88 (136)
Q Consensus 19 SY~~m~~~~~~~~~~~~~~~l-~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV 88 (136)
++..|++++..-.+.|+- -| ...-.||-|+.+........+..+.+++-.. +..|.+||
T Consensus 94 aleiM~KaI~LA~dLGIR-tIQLAGYDVYYE~~d~eT~~rFi~g~~~a~~lA~----------~aqV~lAv 153 (287)
T COG3623 94 ALEIMEKAIQLAQDLGIR-TIQLAGYDVYYEEADEETRQRFIEGLKWAVELAA----------RAQVMLAV 153 (287)
T ss_pred HHHHHHHHHHHHHHhCce-eEeeccceeeeccCCHHHHHHHHHHHHHHHHHHH----------hhccEEEe
Confidence 577888888777765542 22 2345699999987655666666666555432 46677766
No 90
>COG2924 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.01 E-value=15 Score=24.82 Aligned_cols=17 Identities=35% Similarity=0.511 Sum_probs=14.4
Q ss_pred EEEEeecCccccccccC
Q psy877 84 LLFTIFRGKISEGIDFA 100 (136)
Q Consensus 84 ilfaV~~Gk~SEGIDf~ 100 (136)
+.||+.--+-+||.||+
T Consensus 4 ~vfC~~l~keaeGlDf~ 20 (90)
T COG2924 4 TVFCTKLQKEAEGLDFQ 20 (90)
T ss_pred eehhHHhhhcccCCCCC
Confidence 56788888999999995
No 91
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=30.38 E-value=76 Score=30.10 Aligned_cols=64 Identities=9% Similarity=0.051 Sum_probs=42.2
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecC
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRG 91 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~G 91 (136)
-+|||..|-..-+.+...++..++--.+...+ ....+.+-+.+.++ .|+|+.|. .
T Consensus 446 PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak------~~q~Ea~iia~Ag~-----------------~G~VtIAT--N 500 (896)
T PRK13104 446 PVLVGTVSIEASEFLSQLLKKENIKHQVLNAK------FHEKEAQIIAEAGR-----------------PGAVTIAT--N 500 (896)
T ss_pred CEEEEeCcHHHHHHHHHHHHHcCCCeEeecCC------CChHHHHHHHhCCC-----------------CCcEEEec--c
Confidence 38999999999999888888766532111111 11234455555543 37777777 8
Q ss_pred ccccccccC
Q psy877 92 KISEGIDFA 100 (136)
Q Consensus 92 k~SEGIDf~ 100 (136)
-.+.|+|+.
T Consensus 501 mAGRGtDI~ 509 (896)
T PRK13104 501 MAGRGTDIV 509 (896)
T ss_pred CccCCccee
Confidence 899999985
No 92
>PRK05408 oxidative damage protection protein; Provisional
Probab=29.26 E-value=27 Score=23.77 Aligned_cols=17 Identities=41% Similarity=0.741 Sum_probs=14.5
Q ss_pred EEEEeecCccccccccC
Q psy877 84 LLFTIFRGKISEGIDFA 100 (136)
Q Consensus 84 ilfaV~~Gk~SEGIDf~ 100 (136)
..||+-=|+-.||+||+
T Consensus 4 ~V~C~kl~ke~eGLd~p 20 (90)
T PRK05408 4 TVFCVKLGKEAEGLDFP 20 (90)
T ss_pred eeeeHhhCCccCCCCCC
Confidence 56888889999999985
No 93
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=28.86 E-value=52 Score=20.40 Aligned_cols=18 Identities=11% Similarity=0.254 Sum_probs=14.6
Q ss_pred cCHHHHHHHHHHHhcCCc
Q psy877 18 PNKDSANGCEIRWSSTGL 35 (136)
Q Consensus 18 pSY~~m~~~~~~~~~~~~ 35 (136)
+|+.|++.+++.|...++
T Consensus 48 ~~~~Yi~~Il~~W~~~gi 65 (77)
T PF07261_consen 48 RSFNYIEKILNNWKQKGI 65 (77)
T ss_dssp -SHHHHHHHHHHHHHCT-
T ss_pred CCHHHHHHHHHHHHHcCC
Confidence 469999999999998765
No 94
>KOG0336|consensus
Probab=28.64 E-value=89 Score=27.59 Aligned_cols=25 Identities=24% Similarity=0.361 Sum_probs=16.9
Q ss_pred CeEEEEeecCccccccccCCCcceEEE
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVI 108 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~Vi 108 (136)
|-|=+-|.---.|.|+|.+| ...|+
T Consensus 514 G~vrILvaTDlaSRGlDv~D--iTHV~ 538 (629)
T KOG0336|consen 514 GEVRILVATDLASRGLDVPD--ITHVY 538 (629)
T ss_pred CceEEEEEechhhcCCCchh--cceee
Confidence 44444455599999999988 34444
No 95
>PRK09854 cmtB putative PTS system mannitol-specific transporter subunit IIA; Provisional
Probab=25.85 E-value=76 Score=22.36 Aligned_cols=27 Identities=15% Similarity=0.294 Sum_probs=19.0
Q ss_pred CccccccccCCCcceEEEEEcCCCCCC
Q psy877 91 GKISEGIDFADNYARSVISVGIPFPSI 117 (136)
Q Consensus 91 Gk~SEGIDf~d~~~r~ViivGiPyp~~ 117 (136)
+.+.+||||.++.....+++.+|-...
T Consensus 82 ~~~~~~I~~~~~~~~V~lvf~l~~~~~ 108 (147)
T PRK09854 82 TLLEQGVYFPGNDEPIKLLIGLSAADA 108 (147)
T ss_pred EEeCCCEEcCCCCCcEEEEEEEecCCc
Confidence 568899999765556666777766444
No 96
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=25.17 E-value=1e+02 Score=19.34 Aligned_cols=28 Identities=18% Similarity=0.154 Sum_probs=22.6
Q ss_pred cEEEEecCHHHHHHHHHHHhcCCcchhh
Q psy877 12 GSTARIPNKDSANGCEIRWSSTGLMDRI 39 (136)
Q Consensus 12 g~lvFFpSY~~m~~~~~~~~~~~~~~~l 39 (136)
-+++.|+|-...-++.+.+++.++..++
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~~~l 30 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIPVRL 30 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCcEEE
Confidence 3688999999999999999987764443
No 97
>PF04362 Iron_traffic: Bacterial Fe(2+) trafficking; InterPro: IPR007457 The protein represented by this entry, YggX, serves to protect Fe-S clusters from oxidative damage []. The effect is two-fold: proteins that rely on Fe-S clusters do not become inactivated, and the release of free iron and hydrogen peroxide--a DNA damaging agent--is prevented. These observations are consistent with the hypothesis that YggX chelates free iron, and recent experiments show that YggX can indeed bind Fe(II) in vitro and in vivo []. Furthermore, YggX has a positive effect on the action of at least one Fe(II)-responsive protein. The combined actions of YggX is reminiscent of iron trafficking proteins [], and YggX is therefore proposed to play a role in Fe(II) trafficking []. In Escherichia coli, YggX was shown to be under the transcriptional control of the redox-sensing SoxRS system []. ; GO: 0005506 iron ion binding; PDB: 1YHD_A 1T07_A 1XS8_A.
Probab=25.09 E-value=40 Score=22.87 Aligned_cols=17 Identities=41% Similarity=0.741 Sum_probs=13.0
Q ss_pred EEEEeecCccccccccC
Q psy877 84 LLFTIFRGKISEGIDFA 100 (136)
Q Consensus 84 ilfaV~~Gk~SEGIDf~ 100 (136)
..+|+-=|+-.||+||+
T Consensus 4 ~V~C~kl~~e~eGLd~p 20 (88)
T PF04362_consen 4 TVFCVKLGKEAEGLDFP 20 (88)
T ss_dssp EEEETTTTSEEEB-SS-
T ss_pred eeehhhcCCcccCCCCC
Confidence 46888889999999985
No 98
>KOG3801|consensus
Probab=24.61 E-value=56 Score=22.39 Aligned_cols=36 Identities=8% Similarity=0.042 Sum_probs=22.4
Q ss_pred ecCHHHHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHH
Q psy877 17 IPNKDSANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFT 64 (136)
Q Consensus 17 FpSY~~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~ 64 (136)
||+|.|=+-+.....+ -|.+.++..+..++.+.|.+
T Consensus 23 fp~YNyReY~~RrtRD------------~Fr~Nkn~~Dp~e~~~l~~e 58 (94)
T KOG3801|consen 23 FPQYNYREYFQRRTRD------------TFRANKNVCDPAEIKKLYKE 58 (94)
T ss_pred CCcccHHHHHHHHHHH------------HHHHhcccCCHHHHHHHHHH
Confidence 7888887777666554 24455555555556555554
No 99
>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=24.36 E-value=1.3e+02 Score=26.36 Aligned_cols=41 Identities=15% Similarity=0.216 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCC
Q psy877 54 ELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIP 113 (136)
Q Consensus 54 ~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiP 113 (136)
..+.++++|.+ +.-.||++. ..++.|+||++ ...|+|+..-
T Consensus 300 ~~~~~l~~f~~---------------g~~~ILVgT--~~i~kG~d~~~--v~lV~vl~aD 340 (505)
T TIGR00595 300 AHEALLNQFAN---------------GKADILIGT--QMIAKGHHFPN--VTLVGVLDAD 340 (505)
T ss_pred HHHHHHHHHhc---------------CCCCEEEeC--cccccCCCCCc--ccEEEEEcCc
Confidence 34667777764 346788887 77999999997 4566666554
No 100
>PRK09913 putative fructose-like phosphotransferase system subunit EIIA; Provisional
Probab=24.21 E-value=1.3e+02 Score=21.11 Aligned_cols=26 Identities=19% Similarity=0.437 Sum_probs=20.0
Q ss_pred CccccccccC---CCcceEEEEEcCCCCC
Q psy877 91 GKISEGIDFA---DNYARSVISVGIPFPS 116 (136)
Q Consensus 91 Gk~SEGIDf~---d~~~r~ViivGiPyp~ 116 (136)
+++.++|+|. ++..+.++++.+|-..
T Consensus 78 ~~l~~pi~~~~~~~~~V~~i~~l~~~~~~ 106 (148)
T PRK09913 78 ARKAQAIDWQASDGEDVNCWICLGVPQSG 106 (148)
T ss_pred EEeCCCcCCCCCCCCcccEEEEEEeCCcC
Confidence 6789999995 3567888888888643
No 101
>PRK10372 PTS system L-ascorbate-specific transporter subunit IIA; Provisional
Probab=23.18 E-value=71 Score=22.84 Aligned_cols=24 Identities=8% Similarity=0.159 Sum_probs=18.8
Q ss_pred CccccccccCC---CcceEEEEEcCCC
Q psy877 91 GKISEGIDFAD---NYARSVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~d---~~~r~ViivGiPy 114 (136)
+++.+||||.+ +..+.|+++.+|-
T Consensus 83 ~~l~~pI~~~~~~~~~V~lvf~la~~~ 109 (154)
T PRK10372 83 VTLKKPLEFNHEDNDPVDILITMAAVD 109 (154)
T ss_pred EEeCCCEEeCCCCCCceEEEEEEEeCC
Confidence 67889999963 3588888888774
No 102
>cd00211 PTS_IIA_fru PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation.
Probab=23.14 E-value=90 Score=21.11 Aligned_cols=24 Identities=17% Similarity=0.304 Sum_probs=20.0
Q ss_pred CccccccccCC---CcceEEEEEcCCC
Q psy877 91 GKISEGIDFAD---NYARSVISVGIPF 114 (136)
Q Consensus 91 Gk~SEGIDf~d---~~~r~ViivGiPy 114 (136)
+++.+||.|.+ +-.+.|+++.+|-
T Consensus 73 ~~l~~~i~~~~~~~~~v~~v~~l~~~~ 99 (136)
T cd00211 73 LRLKEPVDFGSLDGQPVHLIFLLAAPD 99 (136)
T ss_pred EEeCCCccCCCCCCCceeEEEEEEcCC
Confidence 56889999976 6788889988886
No 103
>PRK05580 primosome assembly protein PriA; Validated
Probab=22.37 E-value=1.3e+02 Score=27.26 Aligned_cols=42 Identities=17% Similarity=0.295 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHhhhhhhcCCccCCCCCeEEEEeecCccccccccCCCcceEEEEEcCCC
Q psy877 54 ELENVMLGYFTAIKQAELRSSNTSEKNTGALLFTIFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 54 ~~~~~l~~f~~~~~~~~~~~~~~~~~~~gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
+.+.++++|.+ +.-.||+|. -.++.|+||++- ..|+|+....
T Consensus 468 ~~~~~l~~f~~---------------g~~~ILVgT--~~iakG~d~p~v--~lV~il~aD~ 509 (679)
T PRK05580 468 ALEQLLAQFAR---------------GEADILIGT--QMLAKGHDFPNV--TLVGVLDADL 509 (679)
T ss_pred hHHHHHHHHhc---------------CCCCEEEEC--hhhccCCCCCCc--CEEEEEcCch
Confidence 46777777764 346788877 679999999974 6666665543
No 104
>KOG2340|consensus
Probab=22.19 E-value=2.4e+02 Score=25.72 Aligned_cols=80 Identities=11% Similarity=0.083 Sum_probs=50.8
Q ss_pred ccCcEEEEecCHHHHHHHHHHHhcCCcchhhccceeEEE---cCCCchhHHHHHHHHHHHHhhhhhhcCCccCCCCCeEE
Q psy877 9 LIRGSTARIPNKDSANGCEIRWSSTGLMDRIREVKSVYC---EPRRNDELENVMLGYFTAIKQAELRSSNTSEKNTGALL 85 (136)
Q Consensus 9 ~~gg~lvFFpSY~~m~~~~~~~~~~~~~~~l~~~k~if~---E~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~~~gail 85 (136)
+-.|+||+.|||.-.=++.+.++...+ -|+ |=...+..+....-|.. ++..+|
T Consensus 551 t~s~~LiyIPSYfDFVRvRNy~K~e~i---------~F~~i~EYssk~~vsRAR~lF~q---------------gr~~vl 606 (698)
T KOG2340|consen 551 TESGILIYIPSYFDFVRVRNYMKKEEI---------SFVMINEYSSKSKVSRARELFFQ---------------GRKSVL 606 (698)
T ss_pred ccCceEEEecchhhHHHHHHHhhhhhc---------chHHHhhhhhHhhhhHHHHHHHh---------------cCceEE
Confidence 336899999999999999999986532 111 21111223334444433 467888
Q ss_pred EEeecCccccccccCCCcceEEEEEcCCC
Q psy877 86 FTIFRGKISEGIDFADNYARSVISVGIPF 114 (136)
Q Consensus 86 faV~~Gk~SEGIDf~d~~~r~ViivGiPy 114 (136)
+-.=|-.+=.--++.| .|.||.-++|-
T Consensus 607 LyTER~hffrR~~ikG--Vk~vVfYqpP~ 633 (698)
T KOG2340|consen 607 LYTERAHFFRRYHIKG--VKNVVFYQPPN 633 (698)
T ss_pred EEehhhhhhhhheecc--eeeEEEecCCC
Confidence 7665655555555555 68899988884
No 105
>KOG0952|consensus
Probab=22.07 E-value=2.4e+02 Score=27.64 Aligned_cols=31 Identities=16% Similarity=0.198 Sum_probs=24.6
Q ss_pred CeEEEEeecCccccccccCCCcceEEEEEcCCCCCC
Q psy877 82 GALLFTIFRGKISEGIDFADNYARSVISVGIPFPSI 117 (136)
Q Consensus 82 gailfaV~~Gk~SEGIDf~d~~~r~ViivGiPyp~~ 117 (136)
=.+|+|. ..++.|++++.+ +|||=|.+.-..
T Consensus 423 i~vL~cT--aTLAwGVNLPA~---aViIKGT~~yds 453 (1230)
T KOG0952|consen 423 IKVLCCT--ATLAWGVNLPAY---AVIIKGTQVYDS 453 (1230)
T ss_pred ceEEEec--ceeeeccCCcce---EEEecCCccccc
Confidence 3455555 999999999985 899999987554
No 106
>KOG0920|consensus
Probab=21.73 E-value=90 Score=29.73 Aligned_cols=24 Identities=4% Similarity=-0.138 Sum_probs=21.2
Q ss_pred cCcEEEEecCHHHHHHHHHHHhcC
Q psy877 10 IRGSTARIPNKDSANGCEIRWSST 33 (136)
Q Consensus 10 ~gg~lvFFpSY~~m~~~~~~~~~~ 33 (136)
+|.+|||.|.|.-++++++.+...
T Consensus 413 ~GaILVFLPG~~eI~~~~~~L~~~ 436 (924)
T KOG0920|consen 413 EGAILVFLPGWEEILQLKELLEVN 436 (924)
T ss_pred CceEEEEcCCHHHHHHHHHHhhhc
Confidence 477999999999999999999753
No 107
>PF05674 DUF816: Baculovirus protein of unknown function (DUF816); InterPro: IPR008534 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf106. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes proteins that are about 200 amino acids in length. The proteins are all from baculoviruses. This family includes ORF107 from Orgyia pseudotsugata multicapsid polyhedrosis virus (OpMNPV) and a variety of other numbered ORF proteins, such as ORF52 Q91F03 from SWISSPROT, ORF140 Q9YMI8 from SWISSPROT from other baculoviruses. The function of these proteins is unknown.
Probab=20.57 E-value=1.8e+02 Score=22.07 Aligned_cols=40 Identities=13% Similarity=0.165 Sum_probs=25.4
Q ss_pred EecCHH-HHHHHHHHHhcCCcchhhccceeEEEcCCCchhHHHHHHHHHHHHhhh
Q psy877 16 RIPNKD-SANGCEIRWSSTGLMDRIREVKSVYCEPRRNDELENVMLGYFTAIKQA 69 (136)
Q Consensus 16 FFpSY~-~m~~~~~~~~~~~~~~~l~~~k~if~E~~~~~~~~~~l~~f~~~~~~~ 69 (136)
+||||. +++....++.... |--.++..++|+.|.+++++-
T Consensus 91 ~f~~yk~~~e~alkrL~~in--------------pdlksSP~amLqhYnecle~l 131 (171)
T PF05674_consen 91 YFPNYKSFIETALKRLDKIN--------------PDLKSSPRAMLQHYNECLENL 131 (171)
T ss_pred hhhhhHHHHHHHHHHHhcCC--------------CccccCHHHHHHHHHHHHHhc
Confidence 689995 3455555555421 111245688999999988764
Done!