Query psy12660
Match_columns 294
No_of_seqs 233 out of 1341
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 16:17:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12660.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12660hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1806|consensus 100.0 3.2E-42 7E-47 353.1 11.9 218 1-219 1093-1310(1320)
2 KOG1802|consensus 100.0 1.6E-31 3.4E-36 266.3 13.0 144 31-178 692-838 (935)
3 TIGR00376 DNA helicase, putati 100.0 6.8E-29 1.5E-33 254.2 14.2 149 18-177 480-631 (637)
4 PF13087 AAA_12: AAA domain; P 100.0 2.1E-29 4.6E-34 220.0 7.9 134 13-151 59-199 (200)
5 KOG1803|consensus 100.0 8.3E-29 1.8E-33 245.8 11.7 148 17-174 474-626 (649)
6 KOG1807|consensus 99.9 7.1E-26 1.5E-30 228.7 11.9 156 15-184 825-983 (1025)
7 KOG1805|consensus 99.9 4.3E-25 9.3E-30 227.6 10.5 155 14-178 923-1081(1100)
8 COG1112 Superfamily I DNA and 99.9 8.7E-22 1.9E-26 203.4 12.8 142 19-175 603-748 (767)
9 KOG1801|consensus 99.7 1.2E-17 2.7E-22 175.7 12.5 151 20-176 652-809 (827)
10 KOG1804|consensus 99.6 1.2E-15 2.5E-20 157.8 7.8 145 29-183 572-726 (775)
11 PF13538 UvrD_C_2: UvrD-like h 98.2 7.4E-07 1.6E-11 70.0 2.8 50 98-148 55-104 (104)
12 PRK11054 helD DNA helicase IV; 98.2 5.6E-06 1.2E-10 86.4 9.8 109 47-169 545-675 (684)
13 PF01443 Viral_helicase1: Vira 97.4 8.6E-05 1.9E-09 66.0 1.8 49 100-148 184-233 (234)
14 TIGR01448 recD_rel helicase, p 97.3 0.00012 2.6E-09 77.0 2.9 54 101-156 650-703 (720)
15 PF13361 UvrD_C: UvrD-like hel 97.1 0.00011 2.5E-09 67.9 -0.0 54 97-150 286-349 (351)
16 TIGR01447 recD exodeoxyribonuc 97.1 0.00035 7.6E-09 71.9 3.1 53 101-155 523-575 (586)
17 COG0507 RecD ATP-dependent exo 97.1 0.00039 8.5E-09 72.6 3.4 54 100-156 623-676 (696)
18 TIGR02768 TraA_Ti Ti-type conj 96.9 0.00081 1.8E-08 71.1 3.9 59 101-165 666-724 (744)
19 PRK10875 recD exonuclease V su 96.8 0.00072 1.6E-08 70.0 3.2 54 101-156 541-594 (615)
20 PRK10919 ATP-dependent DNA hel 96.5 0.0022 4.7E-08 67.1 3.7 54 97-150 550-612 (672)
21 COG1074 RecB ATP-dependent exo 96.3 0.0023 5E-08 70.6 2.7 61 97-157 742-842 (1139)
22 COG3973 Superfamily I DNA and 96.3 0.0086 1.9E-07 61.5 6.4 107 41-150 633-745 (747)
23 TIGR02785 addA_Gpos recombinat 96.3 0.0031 6.6E-08 70.2 3.5 58 97-154 781-882 (1232)
24 TIGR01073 pcrA ATP-dependent D 96.2 0.0038 8.3E-08 65.6 3.6 54 97-150 548-611 (726)
25 TIGR01075 uvrD DNA helicase II 96.2 0.0039 8.5E-08 65.5 3.6 53 97-149 547-609 (715)
26 PRK11773 uvrD DNA-dependent he 96.0 0.0054 1.2E-07 64.5 3.9 53 97-149 552-614 (721)
27 PRK13909 putative recombinatio 95.8 0.005 1.1E-07 66.5 2.6 56 97-152 606-703 (910)
28 TIGR01074 rep ATP-dependent DN 95.5 0.0087 1.9E-07 62.1 2.7 55 97-151 550-613 (664)
29 TIGR02784 addA_alphas double-s 95.5 0.01 2.2E-07 65.6 3.3 54 98-151 775-874 (1141)
30 TIGR00609 recB exodeoxyribonuc 95.1 0.013 2.8E-07 64.6 2.6 53 98-150 652-736 (1087)
31 PRK13826 Dtr system oriT relax 94.5 0.03 6.6E-07 61.5 3.5 50 101-156 695-744 (1102)
32 PRK10876 recB exonuclease V su 94.3 0.026 5.6E-07 62.7 2.7 50 98-147 735-815 (1181)
33 PRK13889 conjugal transfer rel 92.6 0.07 1.5E-06 58.3 2.3 48 101-154 659-706 (988)
34 PF09848 DUF2075: Uncharacteri 92.1 0.095 2.1E-06 50.4 2.4 50 100-149 274-350 (352)
35 COG0210 UvrD Superfamily I DNA 91.4 0.082 1.8E-06 54.8 1.2 54 98-151 554-618 (655)
36 PRK13709 conjugal transfer nic 89.1 0.31 6.7E-06 56.2 3.4 52 100-151 1394-1445(1747)
37 COG3972 Superfamily I DNA and 89.0 2.4 5.2E-05 43.3 9.0 108 46-153 455-578 (660)
38 PRK14712 conjugal transfer nic 88.2 0.34 7.4E-06 55.4 2.8 52 100-151 1265-1316(1623)
39 KOG1804|consensus 82.0 0.97 2.1E-05 48.2 2.6 144 18-172 377-538 (775)
40 PF13361 UvrD_C: UvrD-like hel 79.9 3.7 7.9E-05 37.7 5.4 46 44-89 56-101 (351)
41 TIGR02760 TraI_TIGR conjugativ 76.4 1.5 3.3E-05 51.4 2.2 48 101-151 1449-1496(1960)
42 COG3410 Uncharacterized conser 71.6 3.3 7.2E-05 36.3 2.6 53 100-152 90-176 (191)
43 PF00580 UvrD-helicase: UvrD/R 68.6 5.5 0.00012 36.2 3.6 59 50-108 29-101 (315)
44 TIGR02773 addB_Gpos ATP-depend 67.5 3.9 8.4E-05 45.7 2.7 73 97-169 580-684 (1158)
45 PRK10919 ATP-dependent DNA hel 63.4 9.6 0.00021 40.1 4.5 56 50-107 31-87 (672)
46 PRK10481 hypothetical protein; 62.8 11 0.00024 34.4 4.3 25 64-88 128-152 (224)
47 PRK11773 uvrD DNA-dependent he 56.6 22 0.00048 37.7 5.8 45 45-89 327-371 (721)
48 TIGR01075 uvrD DNA helicase II 54.5 21 0.00046 37.7 5.3 44 45-88 322-365 (715)
49 KOG2108|consensus 53.6 4.8 0.0001 43.3 0.3 50 99-148 675-740 (853)
50 PF13245 AAA_19: Part of AAA d 52.7 36 0.00077 25.4 4.9 49 50-107 26-75 (76)
51 TIGR01073 pcrA ATP-dependent D 52.0 30 0.00065 36.6 6.0 45 45-89 323-368 (726)
52 PF11181 YflT: Heat induced st 48.8 36 0.00079 26.8 4.7 42 41-85 5-46 (103)
53 TIGR01074 rep ATP-dependent DN 45.4 32 0.00069 35.8 4.9 68 50-119 30-109 (664)
54 cd00899 b4GalT Beta-4-Galactos 44.2 33 0.00073 31.3 4.2 75 66-156 2-80 (219)
55 PRK13909 putative recombinatio 40.8 42 0.0009 36.7 5.0 44 45-88 451-494 (910)
56 TIGR02773 addB_Gpos ATP-depend 40.3 52 0.0011 36.9 5.8 44 45-88 315-360 (1158)
57 PF02689 Herpes_Helicase: Heli 36.4 20 0.00044 38.4 1.7 47 101-151 742-790 (818)
58 KOG4032|consensus 35.5 18 0.00038 32.2 0.9 24 266-289 123-146 (184)
59 PF04592 SelP_N: Selenoprotein 35.0 1E+02 0.0022 28.6 5.8 77 42-118 39-117 (238)
60 PF07302 AroM: AroM protein; 34.3 1.4E+02 0.0031 27.3 6.7 58 63-132 123-194 (221)
61 COG0210 UvrD Superfamily I DNA 34.1 1E+02 0.0022 31.9 6.5 83 8-108 5-88 (655)
62 PRK11054 helD DNA helicase IV; 31.6 64 0.0014 34.3 4.5 53 50-107 225-278 (684)
63 PF13604 AAA_30: AAA domain; P 29.9 1.6E+02 0.0035 25.7 6.2 100 52-172 36-150 (196)
64 TIGR02774 rexB_recomb ATP-depe 29.5 94 0.002 34.8 5.6 44 45-88 304-348 (1076)
65 PRK10875 recD exonuclease V su 28.7 1.8E+02 0.0039 30.6 7.2 113 50-169 183-318 (615)
66 PRK03958 tRNA 2'-O-methylase; 27.8 1.5E+02 0.0033 26.2 5.5 78 62-149 28-111 (176)
67 TIGR02990 ectoine_eutA ectoine 26.3 1.9E+02 0.0041 26.5 6.1 33 54-88 111-144 (239)
68 TIGR02760 TraI_TIGR conjugativ 25.1 60 0.0013 38.7 3.2 45 100-151 806-850 (1960)
69 PRK10876 recB exonuclease V su 25.0 1.3E+02 0.0027 34.2 5.6 45 45-89 516-575 (1181)
70 PHA03311 helicase-primase subu 25.0 42 0.00091 36.1 1.7 48 101-152 752-801 (828)
71 KOG2340|consensus 23.6 77 0.0017 33.0 3.2 82 62-145 290-379 (698)
72 PF13733 Glyco_transf_7N: N-te 23.5 40 0.00087 28.6 1.1 76 65-156 46-125 (136)
73 PRK14712 conjugal transfer nic 22.6 2.4E+02 0.0052 33.2 7.2 117 22-169 853-984 (1623)
74 PF11813 DUF3334: Protein of u 22.4 1.3E+02 0.0027 27.6 4.0 41 48-88 70-111 (229)
75 cd00133 PTS_IIB PTS_IIB: subun 22.1 1.2E+02 0.0026 21.5 3.3 51 67-118 1-53 (84)
76 cd05568 PTS_IIB_bgl_like PTS_I 20.5 1.2E+02 0.0025 22.1 3.0 52 67-120 2-54 (85)
77 PF13897 GOLD_2: Golgi-dynamic 20.1 45 0.00097 28.3 0.7 21 267-287 45-65 (136)
78 TIGR02785 addA_Gpos recombinat 20.1 1.7E+02 0.0038 33.2 5.5 45 45-89 543-600 (1232)
No 1
>KOG1806|consensus
Probab=100.00 E-value=3.2e-42 Score=353.08 Aligned_cols=218 Identities=63% Similarity=1.046 Sum_probs=212.9
Q ss_pred CCCCCcchhhhhhcCCCCCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHH
Q psy12660 1 MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHL 80 (294)
Q Consensus 1 lp~~~~~p~~~~~n~G~~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~l 80 (294)
|||++..|.|+.+|.||.|++|||||+|+.|.++++|++++|+|.+||+++++++.||+..|||.++|.|+|+|++|+.+
T Consensus 1093 l~~v~~lp~f~~aNagf~~~~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~l 1172 (1320)
T KOG1806|consen 1093 LPHVSPLPRFQYANAGFAYEFQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSL 1172 (1320)
T ss_pred CcCCccchhhhccccCceeeEEEecchhhccccccCCCcccccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhccccc
Q psy12660 81 IRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFEL 160 (294)
Q Consensus 81 I~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~ 160 (294)
|++++..+|..+|++|.|.+|+|||+|||+++|+||+|+|+++.+|+++|++|+.||+||||.||||+++.+++.+|.++
T Consensus 1173 irdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~tr~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eL 1252 (1320)
T KOG1806|consen 1173 IRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVRTREVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCREL 1252 (1320)
T ss_pred HHHHHHHhccCCCccCCcccCCccccccccccceEEeeehhhhhhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhcccccCcccCCCCCccccCCCCCCCceeecChhHHHHHHHHHHHHHHHHH
Q psy12660 161 TPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGM 219 (294)
Q Consensus 161 ~~~~~~l~~~~~~l~l~~~e~~~~~r~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~~~ 219 (294)
.+.|+.|.+++.++.+.+++.+|+.|.. ++..++++|+|+.||+++|++||+..+...
T Consensus 1253 tp~~~~l~k~p~~lll~~~ei~pt~r~~-~~~~~~~~I~nm~~m~~~v~e~~~~~~~t~ 1310 (1320)
T KOG1806|consen 1253 TPAFNELEKRPDKLLLTPGEIYPTSRKI-GSSVETFEIENLLHMANFVVEMYMKRLQTN 1310 (1320)
T ss_pred cHHHHHHhhCcchhccccCcccccccCC-CcccccHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999976 666778999999999999999999998865
No 2
>KOG1802|consensus
Probab=99.97 E-value=1.6e-31 Score=266.32 Aligned_cols=144 Identities=27% Similarity=0.480 Sum_probs=134.0
Q ss_pred CCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCC
Q psy12660 31 GVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQ 110 (294)
Q Consensus 31 G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~ 110 (294)
|.++...+++||.|..||..+..|++.|...|+.+++|||||||.+|+.+|-+.|.............++|.|||+|||+
T Consensus 692 g~eeisasGtSf~Nr~Ea~~~ekii~~l~~~gv~~~qIGVITpYegQr~~i~~ym~~~gsl~~~ly~~veVasVDaFQGr 771 (935)
T KOG1802|consen 692 GQEEISASGTSFLNRTEAANCEKIITKLLKSGVKPSQIGVITPYEGQRSYIVNYMQTNGSLHKDLYKEVEVASVDAFQGR 771 (935)
T ss_pred cceeeeccccceecHHHHHHHHHHHHHHHHcCCCHHHeeeecccchhHHHHHHHHHhcCccccchhheeEEEeeccccCc
Confidence 77888889999999999999999999999999999999999999999999999998888777777777899999999999
Q ss_pred CCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhcccccCccc
Q psy12660 111 QNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVP 178 (294)
Q Consensus 111 E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~~l~l~~ 178 (294)
|+|+|||||||++ .+|||+|+||||||+||||+||+||||...|.+ .++|..|+.++..-.++.
T Consensus 772 EKdfIIlSCVRsn~~qgIGFl~d~RRlNVaLTRaK~glvivGN~~~L~k----~~LW~~li~h~~eke~l~ 838 (935)
T KOG1802|consen 772 EKDFIILSCVRSNEHQGIGFLNDPRRLNVALTRAKYGLVIVGNPKVLRK----HPLWGHLITHYKEKEVLV 838 (935)
T ss_pred ccceEEEEEeecccccccccccCchhhhhhhhhcccceEEecCHHHhhh----chHHHHHHHHhhccccee
Confidence 9999999999999 599999999999999999999999999999987 899999999887655444
No 3
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=99.96 E-value=6.8e-29 Score=254.20 Aligned_cols=149 Identities=28% Similarity=0.425 Sum_probs=130.6
Q ss_pred CCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCC
Q psy12660 18 VYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGR 97 (294)
Q Consensus 18 ~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~ 97 (294)
..++.|||+.+..+.......+.|++|..||.+|+.+++.|...|+++++|||||||++|+.+|++.|.... .
T Consensus 480 ~~p~~fidt~g~~~~e~~~~~~~S~~N~~EA~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~~-------~ 552 (637)
T TIGR00376 480 EIPLLFIDTSGCELFELKEADSTSKYNPGEAELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRH-------I 552 (637)
T ss_pred CCCEEEEECCCccccccccCCCCCcCCHHHHHHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhhC-------C
Confidence 357899999865443334556789999999999999999999999999999999999999999999996532 3
Q ss_pred CceeccccCCCCCCCceEEEeeeecCC---CCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhccccc
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRTAS---VGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQL 174 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs~~---~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~~l 174 (294)
++.|+|||+|||+|+|+||+|+|+++. .||+.|.||||||+||||.+||||||..+|.+ .++|+.|++++...
T Consensus 553 ~i~v~TVd~fQG~E~DvIi~S~vrsn~~~~~gFl~d~rRLNVAlTRAK~~LiIvGn~~~l~~----~~~~~~li~~~~~~ 628 (637)
T TIGR00376 553 DIEVSSVDGFQGREKEVIIISFVRSNRKGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSN----HKFYKRLIEWCKQH 628 (637)
T ss_pred CeEEccccccCCccccEEEEEEEecCCCCCcccccCcceeeeehhhhhCceEEEECHHHhcc----ChHHHHHHHHHHHC
Confidence 589999999999999999999999984 89999999999999999999999999999986 67888888887765
Q ss_pred Ccc
Q psy12660 175 HIV 177 (294)
Q Consensus 175 ~l~ 177 (294)
.++
T Consensus 629 ~~~ 631 (637)
T TIGR00376 629 GEV 631 (637)
T ss_pred CCE
Confidence 544
No 4
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A.
Probab=99.96 E-value=2.1e-29 Score=220.01 Aligned_cols=134 Identities=34% Similarity=0.475 Sum_probs=100.3
Q ss_pred hcCCCCCCceEEecCCCCCCccccC-CCCcccCHHHHHHHHHHHHHHHHcCCCC---CceEEEeccHHHHHHHHHHHHhh
Q psy12660 13 ANAGLVYDFQLINVEDFNGVGESEP-NPYFYQNLAEAEYCVALFMYMRLLGYPA---HKITILSTYNGQKHLIRDVINTR 88 (294)
Q Consensus 13 ~n~G~~~~~q~Idv~~~~G~~e~~~-~~~s~~N~~EA~~vv~lv~~L~~~g~~~---~~IgIITpY~~Q~~lI~~~L~~~ 88 (294)
..++...+..|+|+.+ ...... ...|+.|..||++++.+++.|+..+... .+|+|||||++|+.+|++.|...
T Consensus 59 ~~~~~~~~~~~i~v~~---~~~~~~~~~~s~~N~~Ea~~i~~~~~~l~~~~~~~~~~~~I~Iitpy~~Q~~~i~~~l~~~ 135 (200)
T PF13087_consen 59 LLPSPQNPIVFIDVSG---SESSSESSQTSYYNPDEAEFIVELVRDLLDNGPDSNKPSSIGIITPYRAQVALIRKALRSR 135 (200)
T ss_dssp --SSTTSSEEEEE-------EEEETTC-SCEEEHHHHHHHHHHHHHHHHTT--G---GGEEEEES-HHHHHHHHHHHHHC
T ss_pred cccCCCCceEEEeccc---ccccccccccceechhhHHHHHHHHhhhhhccccccccCCceEEcCchHHHHHHHHHHhhh
Confidence 3455666789999984 233332 2389999999999999999999988776 89999999999999999999987
Q ss_pred cCCCCCCCCCceeccccCCCCCCCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEech
Q psy12660 89 CADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 89 ~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
........ +.|+|||+|||+|+|+||+|+|+++ ..||+.+++|+|||+||||.+||||||.
T Consensus 136 ~~~~~~~~--~~v~Tvd~~QG~E~diVi~s~v~~~~~~~~~f~~~~~r~nVA~SRAk~~liiig~~ 199 (200)
T PF13087_consen 136 YPSSPIKD--IKVSTVDSFQGQEADIVIVSLVRTNSSSNIGFLNDPNRLNVALSRAKSGLIIIGNP 199 (200)
T ss_dssp STCHHHHC--SEEEEHHHHTT--EEEEEEEE---STTS-SGGGC-HHHHHHHHTSEEEEEEEEE-H
T ss_pred ccccccce--EEEecHHHhccccceEEEEEeccCCccccccccCCcCeeeeeHHHHhcCEEEEecC
Confidence 65432111 7999999999999999999999995 6789999999999999999999999986
No 5
>KOG1803|consensus
Probab=99.96 E-value=8.3e-29 Score=245.76 Aligned_cols=148 Identities=25% Similarity=0.311 Sum_probs=120.5
Q ss_pred CCCCceEEecCCCCCCccccCCC--CcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCC
Q psy12660 17 LVYDFQLINVEDFNGVGESEPNP--YFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPL 94 (294)
Q Consensus 17 ~~~~~q~Idv~~~~G~~e~~~~~--~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~ 94 (294)
...++.|||+.+........... .||+|.+||+.|+..++.|+..|+++.+|||||||++|+.+||......
T Consensus 474 t~~PlvlvDT~~~~~~e~~~e~~~~~S~~N~gEa~Iv~~Hv~~L~~~gV~p~dIaVIsPY~aQv~llR~~~~~~------ 547 (649)
T KOG1803|consen 474 TKSPLVLVDTQGEKDEEKRGEEEELGSKYNEGEAKIVMEHVKRLLEAGVQPSDIAVISPYNAQVSLLREEDEED------ 547 (649)
T ss_pred cCCcEEEEecccchhhhhccchhhccccCCHHHHHHHHHHHHHHHHcCCChhHeEEeccchHHHHHHhhccccc------
Confidence 56789999999754432222222 4899999999999999999999999999999999999999999332222
Q ss_pred CCCCceeccccCCCCCCCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhcc
Q psy12660 95 IGRPHKVTTVDKYQGQQNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRP 171 (294)
Q Consensus 95 ~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~ 171 (294)
...+.|+|||+|||+|+|+||||+||++ .+|||.+.||||||+||||+++.||||..+++.. ..++..+..+.
T Consensus 548 -~~~veV~TVD~fQGrEkdvVIfsmVRSN~k~evGFL~e~RRLNVAiTRaRRh~~vIgds~tl~~~---~~~l~k~~~f~ 623 (649)
T KOG1803|consen 548 -FRDVEVGTVDGFQGREKDVVIFSLVRSNDKGEVGFLGETRRLNVAITRARRHFVVIGDSRTLKEG---NEFLKKLVEFL 623 (649)
T ss_pred -CccceeecccccccceeeEEEEEEEeecCcccccccCCcceeeEEEEeccceEEEEcCcHHHHhh---HHHHHHHHHHh
Confidence 2348999999999999999999999998 7899999999999999999999999999999842 34444444443
Q ss_pred ccc
Q psy12660 172 QQL 174 (294)
Q Consensus 172 ~~l 174 (294)
...
T Consensus 624 ~~~ 626 (649)
T KOG1803|consen 624 EEN 626 (649)
T ss_pred hhc
Confidence 333
No 6
>KOG1807|consensus
Probab=99.93 E-value=7.1e-26 Score=228.66 Aligned_cols=156 Identities=33% Similarity=0.548 Sum_probs=132.0
Q ss_pred CCCCCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCC
Q psy12660 15 AGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPL 94 (294)
Q Consensus 15 ~G~~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~ 94 (294)
+|+....-|+-... -+..+...|+.|..||..+|++++||+..+|.+.+|.|+|+|++|+.+|++++.+.+..
T Consensus 825 ~gms~nlfFv~hns----pee~~de~S~~NlhEa~mlv~l~kyli~q~y~psdIviLttY~gQk~ci~rllp~~~~s--- 897 (1025)
T KOG1807|consen 825 RGMSKNLFFVQHNS----PEECMDEMSIGNLHEAGMLVKLTKYLIQQQYKPSDIVILTTYNGQKECIKRLLPQNYRS--- 897 (1025)
T ss_pred ccccceeeEEecCC----cccCcchhhhhhHHHHHHHHHHHHHHHhcCCCccceEEEeechhHHHHHHHHhHHHhcC---
Confidence 46666666664432 45566678999999999999999999999999999999999999999999999987543
Q ss_pred CCCCceeccccCCCCCCCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhcc
Q psy12660 95 IGRPHKVTTVDKYQGQQNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRP 171 (294)
Q Consensus 95 ~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~ 171 (294)
.|.|.|||+|||.|+|+||+|+||++ .+|||+-.+|++||+||||.|||||||...+.+. .++|+.++...
T Consensus 898 ---tv~VatVDsfQGeEndIVLlSLVRsn~~griGFL~~anRvCVALSRAr~glyiiGN~q~la~~---~pLWnkivntL 971 (1025)
T KOG1807|consen 898 ---TVQVATVDSFQGEENDIVLLSLVRSNISGRIGFLRQANRVCVALSRARWGLYIIGNVQILADT---PPLWNKIVNTL 971 (1025)
T ss_pred ---cceEEEeccccCccccEEEEEEEeccCCceeeeeeccchhhhhhhhhhcceEEecceeecccC---chhHHHHHHHH
Confidence 49999999999999999999999998 7899999999999999999999999999999764 67777777655
Q ss_pred cccCcccCCCCCc
Q psy12660 172 QQLHIVPHETFPT 184 (294)
Q Consensus 172 ~~l~l~~~e~~~~ 184 (294)
.+...+ ++++|.
T Consensus 972 renn~I-g~~lpl 983 (1025)
T KOG1807|consen 972 RENNAI-GEALPL 983 (1025)
T ss_pred Hhcccc-cccccc
Confidence 544433 445554
No 7
>KOG1805|consensus
Probab=99.92 E-value=4.3e-25 Score=227.62 Aligned_cols=155 Identities=26% Similarity=0.331 Sum_probs=130.2
Q ss_pred cCCCCCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCC
Q psy12660 14 NAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNP 93 (294)
Q Consensus 14 n~G~~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~ 93 (294)
--+-..+..|+++++..+..+ +....-..|..||..++.++..|...|+++++|||||||++|+.+|++.+...
T Consensus 923 v~~p~~~v~f~~~D~~~~ie~-~~e~~~i~N~~EA~li~~~~~~fv~sGv~~~dIGIis~YraQv~Li~~~l~~~----- 996 (1100)
T KOG1805|consen 923 VLEPTRDVCFVNTDTCSTIES-QGEKGGITNHGEAKLISELVEDFVKSGVKPSDIGIISPYRAQVELIRKILSSA----- 996 (1100)
T ss_pred hhcCCccceEEecCcccchhh-hccccCcCchhHHHHHHHHHHHHHHcCCCHHHeeeeehHHHHHHHHHhhcccc-----
Confidence 334455677888887666544 33334456999999999999999999999999999999999999999999764
Q ss_pred CCCCCceeccccCCCCCCCceEEEeeeecCCC----CCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHh
Q psy12660 94 LIGRPHKVTTVDKYQGQQNDYILLSLVRTASV----GHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMI 169 (294)
Q Consensus 94 ~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~----gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~ 169 (294)
.++|.|||+|||+++|+||+|+||++.. ..|.|+||||||+||||..||+||+.+.|.+...++.+++.+..
T Consensus 997 ----~lEinTVD~yQGRDKd~IivSfvrsn~~~~~~eLLkD~rRlNVAlTRAK~KLIlvGs~s~l~~~~~~~~l~~~l~~ 1072 (1100)
T KOG1805|consen 997 ----VLEINTVDRYQGRDKDCIIVSFVRSNKKSKVGELLKDWRRLNVALTRAKKKLILVGSKSTLESYPPFRQLLKLLEN 1072 (1100)
T ss_pred ----ceeeeehhhhcCCCCCEEEEEEEecCCcccHHHHHHhhHHHHHHHHhhhceEEEEecccccccCchHHHHHhhhhh
Confidence 2799999999999999999999999854 47899999999999999999999999999988788888887766
Q ss_pred cccccCccc
Q psy12660 170 RPQQLHIVP 178 (294)
Q Consensus 170 ~~~~l~l~~ 178 (294)
+.+-+.+..
T Consensus 1073 ~~~l~~~l~ 1081 (1100)
T KOG1805|consen 1073 RIELLTLLM 1081 (1100)
T ss_pred hhhHHHHHH
Confidence 655444333
No 8
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.86 E-value=8.7e-22 Score=203.37 Aligned_cols=142 Identities=30% Similarity=0.386 Sum_probs=120.2
Q ss_pred CCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCC
Q psy12660 19 YDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRP 98 (294)
Q Consensus 19 ~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~ 98 (294)
.++.++++.+ ..+ .....++.|..||.++..++..+...++...+|||||||++|+.+|+..+.... ..
T Consensus 603 ~~~~~~~~~~---~~~-~~~~~~~~n~~e~~~~~~~~~~~~~~~~~~~~igvis~y~~q~~~i~~~~~~~~-------~~ 671 (767)
T COG1112 603 NPLEFYDTLG---AEE-FFESKSKLNELEAEIVKVIVDELLKDGLEENDIGVISPYRAQVSLIRRLLNEAG-------KG 671 (767)
T ss_pred CceEEEEecC---ccc-ccCccceecHHHHHHHHHHHHHHHHcCCcHHHcceecccHHHHHHHHHHHHhcC-------Cc
Confidence 3455666653 112 346788999999999999999999999999999999999999999999998764 34
Q ss_pred ceeccccCCCCCCCceEEEeeeecCC----CCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhccccc
Q psy12660 99 HKVTTVDKYQGQQNDYILLSLVRTAS----VGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQL 174 (294)
Q Consensus 99 i~V~TVd~fQG~E~DvVIlS~Vrs~~----~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~~l 174 (294)
+.|+|||.|||+|+|+||+|+|+++. +||+.|+||||||+||||.+|||||+...+.. .+.|..+...+...
T Consensus 672 v~v~tvd~fQG~EkdvIi~S~v~s~~~~~~i~~l~d~rRLNVAlTRAk~~livvg~~~~l~~----~~~~~~~~~~~~~~ 747 (767)
T COG1112 672 VEVGTVDGFQGREKDVIILSLVRSNDDKGEIGFLGDPRRLNVALTRAKRKLIVVGSSSTLES----DPLYKRLINDLKRK 747 (767)
T ss_pred eEEeeccccCCccCcEEEEEEEeecCCCccccccCchhhhhhhhhcccceEEEEcChhHhhh----chhHHHHHHHHHhc
Confidence 89999999999999999999999874 59999999999999999999999999988877 56666666555443
Q ss_pred C
Q psy12660 175 H 175 (294)
Q Consensus 175 ~ 175 (294)
.
T Consensus 748 ~ 748 (767)
T COG1112 748 G 748 (767)
T ss_pred C
Confidence 3
No 9
>KOG1801|consensus
Probab=99.74 E-value=1.2e-17 Score=175.65 Aligned_cols=151 Identities=22% Similarity=0.291 Sum_probs=120.5
Q ss_pred CceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHc----CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCC
Q psy12660 20 DFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLL----GYPAHKITILSTYNGQKHLIRDVINTRCADNPLI 95 (294)
Q Consensus 20 ~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~----g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~ 95 (294)
+|.|+|+.. |. +....+.|..|.+|+.++..++.+|... ...+..+|||+||+.|...+++........-...
T Consensus 652 ~y~f~~v~~--g~-e~~~~~~s~~n~~E~~~~~~~~~~l~~~~~~~~~~~~~vGvisPY~~q~~~l~~~~~~~~~~~~~~ 728 (827)
T KOG1801|consen 652 PYPFFNVHY--GK-ERAGGGKSPVNNEEVRFVGAIYSRLYKVSQPQVSVPGSVGVISPYKNQVKALRERFPEAYSLLLAN 728 (827)
T ss_pred ceEEEEecc--cc-cccCCCCCcccHHHHHHHHHHHHHHHhhccccCCCCcceeeECchHHHHHHHHHHHHHHhcchhcc
Confidence 455666663 33 3334458999999999999999998876 2335679999999999999999988876533222
Q ss_pred CCCceeccccCCCCCCCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhccc
Q psy12660 96 GRPHKVTTVDKYQGQQNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQ 172 (294)
Q Consensus 96 ~~~i~V~TVd~fQG~E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~ 172 (294)
...+.+.|||.|||.|.|++|+|+||+. .+||+.|.+|+|||+||||.++|++||...|... ...|..++....
T Consensus 729 ~~~i~v~tvD~fqg~e~diii~s~vrs~~~g~igf~~~~~RlnvALtra~~~l~v~Gne~~L~~~---~~~w~~li~da~ 805 (827)
T KOG1801|consen 729 NVDLSVSTVDSFQGGERDIIIISTVRSIDEGSIGFECNLRRLNVALTRARTCFWLVGNEITLAPS---CSIWASLILDAK 805 (827)
T ss_pred cceeEEEecccccCCCCceeEEEEEEecccCccchhhhHHHHHHhhcccccceEEecCccccccc---cchhhhhcchhc
Confidence 2358999999999999999999999987 5689999999999999999999999999998763 345777776655
Q ss_pred ccCc
Q psy12660 173 QLHI 176 (294)
Q Consensus 173 ~l~l 176 (294)
...+
T Consensus 806 ~r~~ 809 (827)
T KOG1801|consen 806 GRGC 809 (827)
T ss_pred cccc
Confidence 5543
No 10
>KOG1804|consensus
Probab=99.60 E-value=1.2e-15 Score=157.79 Aligned_cols=145 Identities=27% Similarity=0.296 Sum_probs=118.2
Q ss_pred CCCCccccCCCCcccCHHHHHHHHHHHHHHHHcC-CCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCC
Q psy12660 29 FNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLG-YPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKY 107 (294)
Q Consensus 29 ~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g-~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~f 107 (294)
..|..+.+.++.||.|..||..|+.++..+.... ....+|||||||++|...|+..+...... .+.|++|+.|
T Consensus 572 ~~G~~~r~~~s~S~~n~~Ea~~V~~~~k~l~~~~~~~~~DIgvitpy~aq~~~i~~~l~~~~~~------~~~vgsVe~f 645 (775)
T KOG1804|consen 572 APGFTERAGNSPSWLNLEEAAVVVRMTKALPLGEVAQPQDIGVITPYTAQVSEIRKALRRLGVP------GVKVGSVEEF 645 (775)
T ss_pred cccccccccCChhhccHHHHHHHHHHHhccCCCCccccccceeeCcHHHHHHHHHHHhcccCCC------CCcccceeee
Confidence 4477788889999999999999988877665443 33448999999999999999999886432 4899999999
Q ss_pred CCCCCceEEEeeeecC---------CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhcccccCccc
Q psy12660 108 QGQQNDYILLSLVRTA---------SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVP 178 (294)
Q Consensus 108 QG~E~DvVIlS~Vrs~---------~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~~l~l~~ 178 (294)
||+|+.+||+|+||+. ..+|+++++|+|||++||+.-++++|+...+.. .+.|..++-.+....-..
T Consensus 646 qGqE~~viiiStVrS~~~~~~~~~~~~~fls~pk~l~v~V~rp~~l~i~~~~~h~~~~----~~~~~~~l~~~~~n~~y~ 721 (775)
T KOG1804|consen 646 QGQEPWVILGSTVRSFALPLLDDRYFGLFLSRPKRLLVAVGRPRALLINLGNPHLLGG----DPPWGLLLLLRVENGRYP 721 (775)
T ss_pred ccccceeeEeecccccCCCcccccccceeecCcccceeeccCccccccccCCcccccC----CCChhhheeeeecCCccc
Confidence 9999999999999986 234899999999999999999999999998877 567777665555444444
Q ss_pred CCCCC
Q psy12660 179 HETFP 183 (294)
Q Consensus 179 ~e~~~ 183 (294)
+..++
T Consensus 722 ~c~~~ 726 (775)
T KOG1804|consen 722 GCDFP 726 (775)
T ss_pred CCCCC
Confidence 44444
No 11
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.22 E-value=7.4e-07 Score=70.00 Aligned_cols=50 Identities=24% Similarity=0.252 Sum_probs=40.0
Q ss_pred CceeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEE
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVF 148 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIV 148 (294)
.+.+.|++++||.|+|.||+...... ..-....+.|.||+||||..|+||
T Consensus 55 ~~~~~Tih~akGle~d~V~v~~~~~~-~~~~~~~~~lYva~TRA~~~L~iv 104 (104)
T PF13538_consen 55 HAYAMTIHKAKGLEFDAVIVVDPDSS-NFDELSRRLLYVAITRAKHELYIV 104 (104)
T ss_dssp CCSEEETGGCTT--EEEEEEEEGGGG-SGCGCHHHHHHHHHTTEEEEEEEE
T ss_pred cEEEEEhHHhcCccccEEEEEcCCcc-cCCchhhccEEeeHhHhhhhhCCC
Confidence 57899999999999999999887766 222335677999999999999997
No 12
>PRK11054 helD DNA helicase IV; Provisional
Probab=98.21 E-value=5.6e-06 Score=86.39 Aligned_cols=109 Identities=21% Similarity=0.304 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecCCCC
Q psy12660 47 EAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVG 126 (294)
Q Consensus 47 EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~g 126 (294)
+.+.++..+..+. -+.++|+||+.|+.++..+.+.+..+.. ...|.+.|++...|.|+|+|||--+.....|
T Consensus 545 ~~~~il~~l~~~~---~~~~~I~IL~R~~~~~~~~l~~~~~~~~-----~~~i~~~T~h~sKGLEfD~ViI~g~~~g~~g 616 (684)
T PRK11054 545 QLEALLDKLSGYA---KPDERILLLARYHHLRPALLDKAATRWP-----KLQIDFMTIHASKGQQADYVIILGLQEGQDG 616 (684)
T ss_pred HHHHHHHHHHHhh---cCCCcEEEEEechhhHHHHHHHHHhhcc-----cCCeEEEehhhhcCCcCCEEEEecCCcCccc
Confidence 4444444443332 3467999999999887654444443322 2258999999999999999999766544333
Q ss_pred Cc----------------------CcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHh
Q psy12660 127 HL----------------------RDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMI 169 (294)
Q Consensus 127 fL----------------------~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~ 169 (294)
|- ...|.+.||+||||+.|+|+.+.. ...++...|.+
T Consensus 617 fP~~~~~~~~~~~~~~~~~~~~~~eERRLlYVAlTRAr~~l~i~~~~~------~~S~fv~el~~ 675 (684)
T PRK11054 617 FPAPARESIMEEALLPPPEDFPDAEERRLLYVALTRAKHRVWLLFNKG------NPSPFVEELKN 675 (684)
T ss_pred CCcccccchhhhcccccccccccHHHHHHHHHHhhhhhcEEEEEEcCC------CCCHHHHHHhh
Confidence 32 235669999999999999998632 22566666654
No 13
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=97.35 E-value=8.6e-05 Score=66.03 Aligned_cols=49 Identities=27% Similarity=0.318 Sum_probs=40.1
Q ss_pred eeccccCCCCCCCceEEEeeeecCCCCCcC-cchhhhhhcccccceeEEE
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTASVGHLR-DVRRLIVAMSRARLGLYVF 148 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~-d~rRLNVAlSRAr~gLiIV 148 (294)
.+.|++++||.++|.|++-.........+. +.++++||+||||..|+|+
T Consensus 184 ~~~T~~e~qG~tf~~V~l~~~~~~~~~~~~~~~~~~~VALTR~~~~l~i~ 233 (234)
T PF01443_consen 184 RVFTVHESQGLTFDNVTLVLLSDTDNELYSESRNHLYVALTRHTKSLVIL 233 (234)
T ss_pred ceechHHcceEEeCCEEEEECCCcccccccCCcccEEEEccccccEEEEE
Confidence 488999999999999988665444434444 6899999999999999986
No 14
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=97.33 E-value=0.00012 Score=76.99 Aligned_cols=54 Identities=19% Similarity=0.243 Sum_probs=45.0
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhc
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRN 156 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~ 156 (294)
..|||+.||.|.|.||+-+..+. ..+-+.+.+.||+||||..++|||+...|..
T Consensus 650 AiTvHKsQGSe~~~Vii~l~~~~--~~~l~r~llYTAiTRAk~~l~lvg~~~a~~~ 703 (720)
T TIGR01448 650 ATSIHKSQGSEFPTVILPIHTAH--MRMLYRNLLYTALTRAKKRVILVGSAEAFDI 703 (720)
T ss_pred eeeehhccCccCCEEEEECCccc--chhhhhchheeeeeeeceEEEEEECHHHHHH
Confidence 57999999999999999875433 2344678899999999999999999988754
No 15
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=97.11 E-value=0.00011 Score=67.87 Aligned_cols=54 Identities=24% Similarity=0.346 Sum_probs=40.8
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCCC---------c-CcchhhhhhcccccceeEEEec
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVGH---------L-RDVRRLIVAMSRARLGLYVFAR 150 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gf---------L-~d~rRLNVAlSRAr~gLiIVGn 150 (294)
..|.|.|+|+..|.|+|+|||-.+....... + ...|.+.||+||||..|||++.
T Consensus 286 ~~V~i~TiH~sKGLEf~~V~v~~~~~~~~p~~~~~~~~~~~~Ee~rl~YVA~TRAk~~L~l~~~ 349 (351)
T PF13361_consen 286 DGVQIMTIHKSKGLEFDIVFVPGLNEGTFPSYRSIEDRQELEEERRLFYVAMTRAKERLYLSYP 349 (351)
T ss_dssp GSEEEEECGGGTT--EEEEEEETTBTBTTTCHHHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEE
T ss_pred cCcEEeeheeccccCCCeEEEecccCCcChHHHHHhhHhhhHHHHhHheEecchhhceEEEEEe
Confidence 4589999999999999999997765442111 1 2456699999999999999975
No 16
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=97.08 E-value=0.00035 Score=71.94 Aligned_cols=53 Identities=25% Similarity=0.278 Sum_probs=43.4
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhh
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFR 155 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~ 155 (294)
+.|||+.||.|+|.||+.+.... .-+-+.+.++||+||||..++|+|+...|.
T Consensus 523 A~TvHKSQGsef~~Vi~~l~~~~--~~~l~r~llYTaiTRAk~~l~i~~~~~~l~ 575 (586)
T TIGR01447 523 AMTVHKSQGSEFDHVILILPNGN--SPVLTRELLYTGITRAKDQLSVWSDKETLN 575 (586)
T ss_pred EEEeeHhcCCcCCeEEEECCCCC--CcccccceeEEEeeehhCeEEEEECHHHHH
Confidence 78999999999999999876432 223456779999999999999999987654
No 17
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.00039 Score=72.59 Aligned_cols=54 Identities=26% Similarity=0.309 Sum_probs=45.7
Q ss_pred eeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhc
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRN 156 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~ 156 (294)
-+.|||+.||.|.|.|||-+.+ ..-+| +.+.+.||+||||..|+++|+...|..
T Consensus 623 yA~TIHKsQGSef~~v~v~l~~--~~~~l-~r~l~YtAiTRar~~l~l~~~~~~~~~ 676 (696)
T COG0507 623 YAMTIHKSQGSEFDRVIVLLPS--HSPML-SRELLYTAITRARDRLILYGDEKAFAA 676 (696)
T ss_pred eeeeEecccCCCCCeEEEEcCC--Cchhh-hhhHHHHHhhhhheeEEEEcChHHHHH
Confidence 3789999999999999999987 22233 467799999999999999999887764
No 18
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=96.89 E-value=0.00081 Score=71.08 Aligned_cols=59 Identities=25% Similarity=0.249 Sum_probs=47.0
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHH
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFN 165 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~ 165 (294)
..|||+.||.+.|.||+.. ..+-+.+.++||+||||..++|+|+...|..-.+|...++
T Consensus 666 A~TvHKsQGst~~~viv~~------~~~l~r~llYvAiTRar~~~~l~~~~~~~~~~~~l~~~~~ 724 (744)
T TIGR02768 666 ATTIHKSQGVTVDRAFVLA------SKSMDRHLAYVAMTRHRESVQLYAGKEDFTDRGALVKTLS 724 (744)
T ss_pred EeccccccCCccCcEEEec------CCccccchhhhhhhcccceeEEEEchhhccChHHHHHHhh
Confidence 7799999999999999862 2234678899999999999999999988876444444443
No 19
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=96.85 E-value=0.00072 Score=69.98 Aligned_cols=54 Identities=26% Similarity=0.257 Sum_probs=42.9
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhc
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRN 156 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~ 156 (294)
+.|||+.||.|++.||+-+-... ..+-+.+.+.||+||||..++|+|+...|..
T Consensus 541 A~TVHKSQGsEf~~Vilvlp~~~--~~~l~R~LlYTaiTRAk~~l~l~~~~~~l~~ 594 (615)
T PRK10875 541 AMTVHKSQGSEFDHTALVLPNQF--TPVVTRELVYTAITRARRRLSLYADERVLSA 594 (615)
T ss_pred EEehhhhcCCCCCeEEEECCCcc--chhhhhhhHHhhhhhhhceEEEEeCHHHHHH
Confidence 68999999999999988754322 1233467799999999999999999887653
No 20
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.49 E-value=0.0022 Score=67.10 Aligned_cols=54 Identities=19% Similarity=0.230 Sum_probs=42.5
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCCC--------cCc-chhhhhhcccccceeEEEec
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVGH--------LRD-VRRLIVAMSRARLGLYVFAR 150 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gf--------L~d-~rRLNVAlSRAr~gLiIVGn 150 (294)
..|.+.|||+..|.|+|+|+|--+......+ +.. .|.+.|||||||..||+...
T Consensus 550 ~~V~L~TiH~sKGLEf~~Vfi~gl~eg~~P~~~~~~~~~leEERRLfYVA~TRAk~~L~Ls~~ 612 (672)
T PRK10919 550 DQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQSSIDEDNIDEERRLAYVGITRAQKELTFTLC 612 (672)
T ss_pred CcEEEEeeecccCcCCCEEEEeCCcCCCCCCcccCCcccHHHHHHHHHHhHhhhhhheEEeeh
Confidence 3589999999999999999998776653222 111 45599999999999999854
No 21
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=96.30 E-value=0.0023 Score=70.64 Aligned_cols=61 Identities=20% Similarity=0.293 Sum_probs=47.1
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCC--------------C--Cc------------------------Ccchhhhh
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASV--------------G--HL------------------------RDVRRLIV 136 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~--------------g--fL------------------------~d~rRLNV 136 (294)
..|+|.|||+..|.|+++|++....+... + ++ .+.|.|.|
T Consensus 742 ~~VrImTIHkSKGLEfPiVflp~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~k~~~~~e~~~E~~RLLYV 821 (1139)
T COG1074 742 DLVRIMTIHKSKGLEFPIVFLPFILSKRFNDSDVPLLVYYDGLRFELFDDLKSYPTPESQANKELAEEEALAEELRLLYV 821 (1139)
T ss_pred CeEEEEEEeccCCCCCCEEEecCCCCcccccccccceeecCCCceeeEeccccCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34899999999999999999998554311 0 00 13677999
Q ss_pred hcccccceeEEEechhhhhcc
Q psy12660 137 AMSRARLGLYVFARVSLFRNC 157 (294)
Q Consensus 137 AlSRAr~gLiIVGn~~~l~~~ 157 (294)
|+||||..|||+|....-.+.
T Consensus 822 AlTRAk~~L~l~g~~~~~~~~ 842 (1139)
T COG1074 822 ALTRAKEQLILIGAPSKREKS 842 (1139)
T ss_pred HHHHHHHheEEEeeccccccc
Confidence 999999999999987765443
No 22
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=96.27 E-value=0.0086 Score=61.55 Aligned_cols=107 Identities=19% Similarity=0.223 Sum_probs=77.3
Q ss_pred cccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCC------CCCCCCCceeccccCCCCCCCce
Q psy12660 41 FYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCAD------NPLIGRPHKVTTVDKYQGQQNDY 114 (294)
Q Consensus 41 s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~------~~~~~~~i~V~TVd~fQG~E~Dv 114 (294)
+-.|..=.+.+-.++-.|-..| .++|+||++-..|+..+.+.|+..-.. +..+-....|--|.--.|-|+|.
T Consensus 633 ~~~ne~l~qr~~~ii~~mkk~~--~etiaVi~kt~~d~~~~~d~lre~~~~r~I~k~nq~f~~~~~vipvy~aKGlEFD~ 710 (747)
T COG3973 633 SVANEELVQRNPDIIPRMKKRG--SETIAVICKTDHDCKAVMDSLREKDSQRTIAKENQRFHHGSDVIPVYDAKGLEFDH 710 (747)
T ss_pred ccchHHHHHhhHHHHHHHHhcC--CCceEEECCcHHHHHHHHHHHhhcchhhHHHhhcccccCCceEEEeeecccceeee
Confidence 3456655666667777776554 458999999999999999999864322 22233345566788889999999
Q ss_pred EEEeeeecCCCCCcCcchhhhhhcccccceeEEEec
Q psy12660 115 ILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFAR 150 (294)
Q Consensus 115 VIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn 150 (294)
||+--.. ....--.|.+.|.||+|||-+.|||||-
T Consensus 711 viv~d~s-~~e~te~~~r~LYva~TRAlh~l~if~~ 745 (747)
T COG3973 711 VIVVDPS-IVEETEQDLRDLYVAVTRALHSLYIFGE 745 (747)
T ss_pred EEEecch-hhcccccchhhHHHHHHHHHHHHHHhhc
Confidence 9986543 2112234778899999999999999874
No 23
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=96.27 E-value=0.0031 Score=70.20 Aligned_cols=58 Identities=21% Similarity=0.255 Sum_probs=44.1
Q ss_pred CCceeccccCCCCCCCceEEEeeeecC--------------CCCCc------------------------------Ccch
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTA--------------SVGHL------------------------------RDVR 132 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~--------------~~gfL------------------------------~d~r 132 (294)
..|+|.|||+..|.|+++|||.-+..+ ..|+- ...|
T Consensus 781 daV~IMTIHkSKGLEFPvVfl~~l~~~fn~~d~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~Ee~R 860 (1232)
T TIGR02785 781 NAVRLMTIHKSKGLEFPVVFVLGMGKQFNKQDLNSSYLLNRQLGLGITYIDPQERLSYPSLPKVAIKQKMKRELLSEEMR 860 (1232)
T ss_pred CeEEEEeeecccCCCCCEEEEeCCCCCCCccccccceEeccccCCCCceecchhccCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 348999999999999999999866421 11210 1356
Q ss_pred hhhhhcccccceeEEEechhhh
Q psy12660 133 RLIVAMSRARLGLYVFARVSLF 154 (294)
Q Consensus 133 RLNVAlSRAr~gLiIVGn~~~l 154 (294)
.|.|||||||..|||+|....+
T Consensus 861 lLYVAlTRAke~Lil~g~~~~~ 882 (1232)
T TIGR02785 861 VLYVALTRAKEKLILVGSVKDE 882 (1232)
T ss_pred HHHhhhhhhhheEEEEecHHHH
Confidence 6999999999999999986543
No 24
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=96.18 E-value=0.0038 Score=65.63 Aligned_cols=54 Identities=19% Similarity=0.216 Sum_probs=41.9
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCC---------CcC-cchhhhhhcccccceeEEEec
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVG---------HLR-DVRRLIVAMSRARLGLYVFAR 150 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~g---------fL~-d~rRLNVAlSRAr~gLiIVGn 150 (294)
..|.+.|||+..|.|+++|+|.-+...... -+. ..|.+.|||||||..||+...
T Consensus 548 ~~V~LmTiH~sKGLEf~vVfv~gl~eg~~P~~~~~~~~~~~eEERRL~YVAiTRAk~~L~ls~~ 611 (726)
T TIGR01073 548 GAVTLMTLHAAKGLEFPVVFLIGMEEGVFPHSRSLMDEKELEEERRLAYVGITRAEEELYLTHA 611 (726)
T ss_pred CceEEEeeeeccCccCCEEEEeCCcCCCCCcccccCCchhHHHHHhhHHhhhhhhhheEEEEeh
Confidence 459999999999999999999877544211 122 345599999999999999754
No 25
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=96.18 E-value=0.0039 Score=65.48 Aligned_cols=53 Identities=17% Similarity=0.182 Sum_probs=41.2
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCC---------CcCc-chhhhhhcccccceeEEEe
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVG---------HLRD-VRRLIVAMSRARLGLYVFA 149 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~g---------fL~d-~rRLNVAlSRAr~gLiIVG 149 (294)
..|.+.|||+..|.|+++|+|.-+...... -+.. .|.+.|||||||..||+..
T Consensus 547 ~~V~lmTiH~sKGLEf~~Vfl~gl~eg~~P~~~~~~~~~~leEERRL~YVAiTRAk~~L~ls~ 609 (715)
T TIGR01075 547 DAVQLMTLHSAKGLEFPLVFLVGMEEGMFPSQMSLDEGGRLEEERRLAYVGITRAMQKLTITY 609 (715)
T ss_pred CcEEEEEeeeccCCcCCEEEEeCCcCCCCCCccccCccccHHHHHhHHhhhhhhhhhheEEEe
Confidence 358999999999999999999877543211 1222 3559999999999999964
No 26
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=96.05 E-value=0.0054 Score=64.53 Aligned_cols=53 Identities=15% Similarity=0.162 Sum_probs=41.6
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCC---------CcCc-chhhhhhcccccceeEEEe
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVG---------HLRD-VRRLIVAMSRARLGLYVFA 149 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~g---------fL~d-~rRLNVAlSRAr~gLiIVG 149 (294)
..|.+.|||+..|.|+++|+|.-+...... -+.. .|.+.|||||||..||+..
T Consensus 552 ~~V~LmTiH~AKGLEf~~Vfl~gl~eg~~P~~~~~~~~~~leEERRL~YVAiTRAk~~L~ls~ 614 (721)
T PRK11773 552 DAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEGGRLEEERRLAYVGITRAMQKLTLTY 614 (721)
T ss_pred CceEEEechhccCCcCCEEEEeCCccCCCCCccccccchhhHHHHhHHHhhhhhhhheeEEEe
Confidence 348999999999999999999887654221 1222 3559999999999999975
No 27
>PRK13909 putative recombination protein RecB; Provisional
Probab=95.84 E-value=0.005 Score=66.49 Aligned_cols=56 Identities=20% Similarity=0.272 Sum_probs=41.6
Q ss_pred CCceeccccCCCCCCCceEEEeeeecC-------------CCCC----c-------------------------Ccchhh
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTA-------------SVGH----L-------------------------RDVRRL 134 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~-------------~~gf----L-------------------------~d~rRL 134 (294)
..|+|.|||+..|.|+++||+.-.... ..|. . ...|.|
T Consensus 606 daV~imTIHkSKGLEfpvVil~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~rlL 685 (910)
T PRK13909 606 KGVQIMTVHKSKGLEFEHVIVCDRLGKPNSDSSNLLFEYDGIELWQIYYRIKGRENFDKDYARALEKEKALKYEEEINVL 685 (910)
T ss_pred CceEEEEeeccCCCCCcEEEEccCccCCCCCCCcEEEccCCCCcceeccchhhhhcCcHHHHHHHHHHHHHHHHHHHhhH
Confidence 448899999999999999999654211 0010 0 124679
Q ss_pred hhhcccccceeEEEechh
Q psy12660 135 IVAMSRARLGLYVFARVS 152 (294)
Q Consensus 135 NVAlSRAr~gLiIVGn~~ 152 (294)
.||+||||..|||+|...
T Consensus 686 YVAlTRA~~~L~i~~~~~ 703 (910)
T PRK13909 686 YVAFTRAKNSLIVVKKDE 703 (910)
T ss_pred heeccchhhceEEEeccc
Confidence 999999999999999753
No 28
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=95.47 E-value=0.0087 Score=62.10 Aligned_cols=55 Identities=15% Similarity=0.144 Sum_probs=43.0
Q ss_pred CCceeccccCCCCCCCceEEEeeeecCCCC---------CcCcchhhhhhcccccceeEEEech
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTASVG---------HLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~g---------fL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
..|.+.|+|+..|.|+++|||.-+...... .-...|.+.|||||||..||+....
T Consensus 550 d~V~l~TiH~sKGLEf~~Vfv~gl~eg~~P~~~~~~~~~~~EErRlfYVA~TRAk~~L~Ls~~~ 613 (664)
T TIGR01074 550 DQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSSIEEDNVEEERRLAYVGITRAQKELTFTLCK 613 (664)
T ss_pred CeEEEEeeecccCccCCeEEEeCCcCCCCCCccccccchHHHHHHHHHHhhhhhhheeEEEehh
Confidence 348999999999999999999877654221 1124556999999999999998654
No 29
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=95.47 E-value=0.01 Score=65.60 Aligned_cols=54 Identities=30% Similarity=0.284 Sum_probs=40.9
Q ss_pred CceeccccCCCCCCCceEEEeeeec----C-C---------CCC-------c-------------------------Ccc
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRT----A-S---------VGH-------L-------------------------RDV 131 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs----~-~---------~gf-------L-------------------------~d~ 131 (294)
.|+|.|||+..|.|+++|||.-..+ . . .|. + ...
T Consensus 775 aV~ImTIH~SKGLEfpvV~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~ 854 (1141)
T TIGR02784 775 EVRVMTVHGAKGLEAPVVFLVDTGSAPFASQHAPKLLFTGGSGEASDGKAPLWRPPSAFDPALSAAARERLKERAEDEYR 854 (1141)
T ss_pred eEEEEeccccCCCCCCEEEEeCCCCCCCCccccccccccccCCCccccccccccccccCCCHHHHHHHHHHHHHHHHHHh
Confidence 4899999999999999999965521 1 0 010 0 124
Q ss_pred hhhhhhcccccceeEEEech
Q psy12660 132 RRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 132 rRLNVAlSRAr~gLiIVGn~ 151 (294)
|.|.||+||||..|||+|..
T Consensus 855 RLLYVAlTRA~~~L~l~g~~ 874 (1141)
T TIGR02784 855 RLLYVAMTRAEDRLIVCGYR 874 (1141)
T ss_pred hHHHHhhhhhhheeEEEeec
Confidence 66999999999999999875
No 30
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.09 E-value=0.013 Score=64.58 Aligned_cols=53 Identities=26% Similarity=0.386 Sum_probs=41.2
Q ss_pred CceeccccCCCCCCCceEEEeeeecCC-----------CC---C------------------cCcchhhhhhccccccee
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRTAS-----------VG---H------------------LRDVRRLIVAMSRARLGL 145 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs~~-----------~g---f------------------L~d~rRLNVAlSRAr~gL 145 (294)
-|+|.|||+..|.|++|||+....... .+ + -.+.|.|.||+||||..|
T Consensus 652 aV~ImTIHkSKGLEfPvVflp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~E~lRLLYVAlTRA~~~l 731 (1087)
T TIGR00609 652 LVKIVTIHKSKGLEYPIVFLPFITDAKKSNFASLHDQHSHEYQLYDFNQSEENQKLARVERLAEDLRLLYVALTRAKKQL 731 (1087)
T ss_pred cEEEEEEEccCCCCCCEEEEeccccccCCccceeeeccCCceeecCCcccHHHHHHHHHHHHhHHHHHHHHHHHHHhHee
Confidence 488999999999999999987774320 00 1 124677999999999999
Q ss_pred EEEec
Q psy12660 146 YVFAR 150 (294)
Q Consensus 146 iIVGn 150 (294)
||...
T Consensus 732 ~l~~~ 736 (1087)
T TIGR00609 732 FIGIA 736 (1087)
T ss_pred EEEec
Confidence 99754
No 31
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=94.49 E-value=0.03 Score=61.54 Aligned_cols=50 Identities=28% Similarity=0.235 Sum_probs=40.8
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhc
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRN 156 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~ 156 (294)
..|||+.||.+.|.|++-. +.+.+.+.++||+||||..+.|+.+...|..
T Consensus 695 A~TVHKSQGsT~d~V~vl~------s~~ldR~llYVA~TRaR~~~~ly~~~~~~~~ 744 (1102)
T PRK13826 695 ATTIHKSQGATVDRVKVLA------SLSLDRHLTYVAMTRHREDLQLYYGRRSFAF 744 (1102)
T ss_pred eeeeecccccccceEEEec------ccccccchhHHhhccccceEEEEEchhhhhh
Confidence 4689999999999988853 1234667899999999999999998876654
No 32
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=94.34 E-value=0.026 Score=62.73 Aligned_cols=50 Identities=20% Similarity=0.301 Sum_probs=38.8
Q ss_pred CceeccccCCCCCCCceEEEeeeec---CCC-------C---------------------CcCcchhhhhhcccccceeE
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRT---ASV-------G---------------------HLRDVRRLIVAMSRARLGLY 146 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs---~~~-------g---------------------fL~d~rRLNVAlSRAr~gLi 146 (294)
.|+|.|||+..|.|.++|++..+.. ... + .-.+.|.+.||+||||..||
T Consensus 735 ~V~ImTIH~SKGLEfPvVflp~l~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~E~l~Ee~RLlYVAlTRAk~~l~ 814 (1181)
T PRK10876 735 LVQIVTIHKSKGLEYPLVWLPFITNFRVQDQAFYHDRHSFEAVLDLNAAEESVALAEEERLAEDLRLLYVALTRSVWHCS 814 (1181)
T ss_pred cEEEEEEeccCCcCCCEEEecccccccCCccceeecCCCCeeEeecCCcHHHHHHHHHHHHHHHHHHHHHHhhhHhhhhe
Confidence 3889999999999999999877741 100 1 01246779999999999999
Q ss_pred E
Q psy12660 147 V 147 (294)
Q Consensus 147 I 147 (294)
|
T Consensus 815 l 815 (1181)
T PRK10876 815 L 815 (1181)
T ss_pred e
Confidence 8
No 33
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=92.55 E-value=0.07 Score=58.26 Aligned_cols=48 Identities=27% Similarity=0.204 Sum_probs=36.5
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhh
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLF 154 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l 154 (294)
..|||+.||.+.|-|++.... ..+.+.++||+||||..++|+.....|
T Consensus 659 A~TIHKSQGsT~d~V~vl~~~------~~~r~l~YVAiTRar~~v~l~~~~~~~ 706 (988)
T PRK13889 659 AATIHKAQGMTVDRTHVLATP------GMDAHSSYVALSRHRDGVDLHYGRDDF 706 (988)
T ss_pred hhhhHHhcCCCCCeEEEeccc------ccccchhHHhhhhhhheEEEEecCccc
Confidence 568999999999988775411 134567999999999999999754433
No 34
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=92.14 E-value=0.095 Score=50.38 Aligned_cols=50 Identities=22% Similarity=0.330 Sum_probs=38.8
Q ss_pred eeccccCCCCCCCceEEEeeeecC------------------CCCCcCc---------chhhhhhcccccceeEEEe
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTA------------------SVGHLRD---------VRRLIVAMSRARLGLYVFA 149 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~------------------~~gfL~d---------~rRLNVAlSRAr~gLiIVG 149 (294)
+|++|+..||-|.|++.|....+- ..++-.. .|.++|.|||++.|+||..
T Consensus 274 evgsi~t~QG~eldy~GVi~G~dl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~i~N~y~VLLTRG~~G~~iy~ 350 (352)
T PF09848_consen 274 EVGSIYTIQGFELDYVGVIIGPDLRYDPEDGRWVVDPEKYKDKKGKKKRSDEELDRYIKNIYRVLLTRGIKGTYIYA 350 (352)
T ss_pred cceeEEEecccccceeEEEECCCeEEECCCCeEEEchhhccccchhcccchHHHHHHHHHHHHHHHhcccceEEEEe
Confidence 699999999999999998776541 1122222 5779999999999999964
No 35
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=91.44 E-value=0.082 Score=54.77 Aligned_cols=54 Identities=24% Similarity=0.348 Sum_probs=41.7
Q ss_pred CceeccccCCCCCCCceEEEeeeecCCC---------CC-cCc-chhhhhhcccccceeEEEech
Q psy12660 98 PHKVTTVDKYQGQQNDYILLSLVRTASV---------GH-LRD-VRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 98 ~i~V~TVd~fQG~E~DvVIlS~Vrs~~~---------gf-L~d-~rRLNVAlSRAr~gLiIVGn~ 151 (294)
.+.+.|+|...|.|+++|++..+-.... +. +.. .|.+.||+|||+..|++....
T Consensus 554 ~V~lmT~H~aKGlEf~~Vfl~g~~eg~~P~~~~~~~~~~~~eEERRL~YVaiTRA~~~L~~t~~~ 618 (655)
T COG0210 554 QVNLMTIHAAKGLEFPYVFLVGLEEGLFPADRSLDEGDEPLEEERRLLYVAITRAKKKLYLTYAA 618 (655)
T ss_pred ceEEEechhccCCCCCeEEEecccCCCCCChhhcccCCCCccHHHHHHHHHHHHHHHhhhhhHHH
Confidence 4899999999999999999988754311 11 433 445999999999999997543
No 36
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=89.13 E-value=0.31 Score=56.17 Aligned_cols=52 Identities=17% Similarity=0.183 Sum_probs=41.5
Q ss_pred eeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEech
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
-+.|+++.||...|.||+.+-....-..+.+.+.++||+||||..+.|+-+.
T Consensus 1394 YA~T~h~AQG~T~~~vi~~~~~~~~~~~l~~~~~fYVaiSRar~~l~IyTDd 1445 (1747)
T PRK13709 1394 YAITAHGAQGASETYAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDN 1445 (1747)
T ss_pred hhhhhhhhcccccceEEEEeccccccccccchhhhhhcccccccceEEEEcC
Confidence 4679999999999999987542222335677888999999999999998654
No 37
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.01 E-value=2.4 Score=43.35 Aligned_cols=108 Identities=11% Similarity=0.078 Sum_probs=74.5
Q ss_pred HHHHHHHHHHHHHHHcCCCCCceEEEec--c--HHHHHHHHHHHHhhc----------CCCCCC--CCCceeccccCCCC
Q psy12660 46 AEAEYCVALFMYMRLLGYPAHKITILST--Y--NGQKHLIRDVINTRC----------ADNPLI--GRPHKVTTVDKYQG 109 (294)
Q Consensus 46 ~EA~~vv~lv~~L~~~g~~~~~IgIITp--Y--~~Q~~lI~~~L~~~~----------~~~~~~--~~~i~V~TVd~fQG 109 (294)
.|+..++.-++..+..+...++|.||-+ + ++=-..|.+.|..+. .....+ ...+.+++|-+-.|
T Consensus 455 deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvtis~IyrAKG 534 (660)
T COG3972 455 DEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVTISRIYRAKG 534 (660)
T ss_pred hhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEEeeeehhccC
Confidence 4788888666667777899999999877 2 222233333333322 111111 12477899999999
Q ss_pred CCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhh
Q psy12660 110 QQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSL 153 (294)
Q Consensus 110 ~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~ 153 (294)
.|+-+|+.--+..-+.|.-+..|.|-.||||.|.=+-|+|-...
T Consensus 535 nEapfV~aL~a~~ls~~la~~RN~LfTamTRSkawvrv~glgpq 578 (660)
T COG3972 535 NEAPFVYALGAAYLSTGLADWRNILFTAMTRSKAWVRVVGLGPQ 578 (660)
T ss_pred CCCcEEEEehhhhhCccchhHHhHHHHHHhhhhhhhhhhccChH
Confidence 99999998777666666565666899999999998888884433
No 38
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=88.15 E-value=0.34 Score=55.36 Aligned_cols=52 Identities=15% Similarity=0.149 Sum_probs=41.6
Q ss_pred eeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEech
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
-+.|++..||.-.++||+..-.....+.+.+.+.++|++||||..+.|+-+.
T Consensus 1265 YA~Tah~AQG~T~~~vI~~~~s~~~~~~lt~~rsfYVaiSRAr~~v~IYTDd 1316 (1623)
T PRK14712 1265 YAITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDN 1316 (1623)
T ss_pred hhhhhhhccCCccceEEEecccccchhhcccchhheeeeeeccceEEEEECC
Confidence 4779999999999999986443333455667889999999999999998543
No 39
>KOG1804|consensus
Probab=81.97 E-value=0.97 Score=48.20 Aligned_cols=144 Identities=15% Similarity=0.032 Sum_probs=96.3
Q ss_pred CCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcC-----CC-CCceEEEeccHHHHHHHHHHHHhhcCC
Q psy12660 18 VYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLG-----YP-AHKITILSTYNGQKHLIRDVINTRCAD 91 (294)
Q Consensus 18 ~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g-----~~-~~~IgIITpY~~Q~~lI~~~L~~~~~~ 91 (294)
.++..|-... |..-...++..+.|..|+..++.-++.++... +. -..+|++|+|..|+..++..|.+..+
T Consensus 377 ~~p~~~~~~~---~~~~~~~~~~~~~~~~~v~~~~~~~e~~~~~~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg- 452 (775)
T KOG1804|consen 377 HYPLTFSTAR---GEDVRAKSSTAWYNNAEVSEVVEKVEELRKVWPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAG- 452 (775)
T ss_pred cccccccccc---cccccccchhHHhhhHHHHHHHHHHHHHhhccceEEEEeeccceeeeecccccccceeeeeecccc-
Confidence 4444444443 33334455667888889888888888887542 22 23689999999999999999854322
Q ss_pred CCCCCCCceeccccCCCCCCCc---eEEEeeeecC---------CCCCcCcchhhhhhcccccceeEEEechhhhhcccc
Q psy12660 92 NPLIGRPHKVTTVDKYQGQQND---YILLSLVRTA---------SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFE 159 (294)
Q Consensus 92 ~~~~~~~i~V~TVd~fQG~E~D---vVIlS~Vrs~---------~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~ 159 (294)
..+.-.--.+|.+.- .|+||...+- ...+--+...+|-++|||....-++|+...+....-
T Consensus 453 -------~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~rsLler~l~r~~~~~~~~g~~~~l~~t~l 525 (775)
T KOG1804|consen 453 -------VSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLDRSLLERALTRAQSLVAVVGDYNALCSTGL 525 (775)
T ss_pred -------cccCcccccccccccceeEEEEccCcccccccccchhhhhhcccHHHHHHHHHHHhhccccCCCcccccchhh
Confidence 222223333444444 5666665543 111223567799999999999999999999988777
Q ss_pred chHHHHHHHhccc
Q psy12660 160 LTPAFNQLMIRPQ 172 (294)
Q Consensus 160 ~~~~~~~l~~~~~ 172 (294)
++.+|++....+.
T Consensus 526 ~rnyrshp~il~l 538 (775)
T KOG1804|consen 526 CRNYRSHPIILCL 538 (775)
T ss_pred HHHHhhhhHhhhc
Confidence 8888888765443
No 40
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=79.93 E-value=3.7 Score=37.72 Aligned_cols=46 Identities=26% Similarity=0.286 Sum_probs=40.4
Q ss_pred CHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhc
Q psy12660 44 NLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRC 89 (294)
Q Consensus 44 N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~ 89 (294)
...|++.|+..++.+...|++.++|+||+..+.|...|.+.|....
T Consensus 56 ~~~e~~~i~~~I~~l~~~~~~~~diAVL~R~~~~~~~i~~~L~~~g 101 (351)
T PF13361_consen 56 EEEEAEYIAEEIKELIRNGIPPSDIAVLVRTNSQIKEIEDALKEAG 101 (351)
T ss_dssp HHHHHHHHHHHHHHHHHTTS-GGGEEEEESSGGHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHhhcCCCcccEEEEEECchhHHHHHHHHhhhc
Confidence 4568999999999888789999999999999999999999999863
No 41
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=76.39 E-value=1.5 Score=51.41 Aligned_cols=48 Identities=17% Similarity=0.258 Sum_probs=39.1
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEech
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
..|++..||.-.|.||+..- +. .-+.+.+.++|++||||..+-|+-+.
T Consensus 1449 A~T~h~aQG~T~~~vi~~~~-s~--~~l~~~~~~YVaiSRar~~~~iyTd~ 1496 (1960)
T TIGR02760 1449 TRTADSAQGATYTFVIALIK-GR--LALTNYRSAYIDLTRASHHVELYTDN 1496 (1960)
T ss_pred hhhhhhhcccccceEEEEec-ch--hhhhhhhhHhhhhhhcccceEEEeCC
Confidence 57999999999999999732 21 23557888999999999999999654
No 42
>COG3410 Uncharacterized conserved protein [Function unknown]
Probab=71.63 E-value=3.3 Score=36.34 Aligned_cols=53 Identities=28% Similarity=0.360 Sum_probs=43.2
Q ss_pred eeccccCCCCCCCceEEEeeeecC------------------CCCCcC----------------cchhhhhhccccccee
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTA------------------SVGHLR----------------DVRRLIVAMSRARLGL 145 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~------------------~~gfL~----------------d~rRLNVAlSRAr~gL 145 (294)
.|++|=..||=+.|+|=+-+.|+- .+||.. -.|++||.|||.=+||
T Consensus 90 evgSVYtaQGFdlnYvGvVlGrs~~yd~d~d~i~~dp~~ytD~~gfr~slkk~~~k~~eik~kiIkNsinvlmtRGIrGl 169 (191)
T COG3410 90 EVGSVYTAQGFDLNYVGVVLGRSVIYDEDKDEIVIDPSKYTDTGGFRSSLKKTPEKNQEIKEKIIKNSINVLMTRGIRGL 169 (191)
T ss_pred HhhhhheecccccceeEEEeccceeeccCCCeEecCcceeeccccchhhhhhhhhhCHHHHHHHHHHHHHHHHhcccceE
Confidence 588999999999999998888862 456654 1688999999999999
Q ss_pred EEEechh
Q psy12660 146 YVFARVS 152 (294)
Q Consensus 146 iIVGn~~ 152 (294)
||+.-..
T Consensus 170 yiyaeDp 176 (191)
T COG3410 170 YIYAEDP 176 (191)
T ss_pred EEEEeCH
Confidence 9996543
No 43
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=68.62 E-value=5.5 Score=36.20 Aligned_cols=59 Identities=15% Similarity=0.204 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHc-CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCC-------------CCCCceeccccCCC
Q psy12660 50 YCVALFMYMRLL-GYPAHKITILSTYNGQKHLIRDVINTRCADNPL-------------IGRPHKVTTVDKYQ 108 (294)
Q Consensus 50 ~vv~lv~~L~~~-g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~-------------~~~~i~V~TVd~fQ 108 (294)
.++..+.+|+.. ++++++|.+||+-++=+..|++.|...+..... ....+.|+|+|+|-
T Consensus 29 ~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~T~hsf~ 101 (315)
T PF00580_consen 29 TLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLEEEQQESSDNERLRRQLSNIDRIYISTFHSFC 101 (315)
T ss_dssp HHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHHHCCHCCTT-HHHHHHHHHCTTSEEEEHHHHH
T ss_pred HHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcCcccccccccccccccccccchheeehhhhhh
Confidence 344445555555 499999999999998877777777775433210 02347888998773
No 44
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=67.50 E-value=3.9 Score=45.65 Aligned_cols=73 Identities=16% Similarity=0.104 Sum_probs=47.5
Q ss_pred CCceeccccCCCCCCCceEEEeeeecC-------CCCCcCc------------------------chhhhhhccccccee
Q psy12660 97 RPHKVTTVDKYQGQQNDYILLSLVRTA-------SVGHLRD------------------------VRRLIVAMSRARLGL 145 (294)
Q Consensus 97 ~~i~V~TVd~fQG~E~DvVIlS~Vrs~-------~~gfL~d------------------------~rRLNVAlSRAr~gL 145 (294)
..|.|+|++..+|.+.++|++.-+... ..||++| ...+.+|+|||+..|
T Consensus 580 d~V~v~~~~~~r~~~~k~v~vlG~ndg~~P~~~~~~~ll~d~er~~L~~~g~~l~~~~~~~~~~e~~~~y~alt~a~~~L 659 (1158)
T TIGR02773 580 DQVSVGTMDRAKSDNTKVIYLLGMNDGVMPARSKEEGILSDEERELLEQQGVELSPTSKIKIFDEQFLVYTAFTSASERL 659 (1158)
T ss_pred CEEEEeccccccccCcCEEEEeCCCCCcCCCCCCCCCCcCHHHHHHHHHCCCCCCCChHHHhhcCcHHHHHHhcCccceE
Confidence 458999999999999999999766543 2344331 223789999999999
Q ss_pred EEEechh-hhhccccchHHHHHHHh
Q psy12660 146 YVFARVS-LFRNCFELTPAFNQLMI 169 (294)
Q Consensus 146 iIVGn~~-~l~~~~~~~~~~~~l~~ 169 (294)
||--... .=......++++..|..
T Consensus 660 ~lSy~~~~~~g~~~~pS~~i~~l~~ 684 (1158)
T TIGR02773 660 KISYPLADAEGKSLRPSIIIHRLKG 684 (1158)
T ss_pred EEEEECCCCCCCccCcCHHHHHHHH
Confidence 9943211 00111223566666554
No 45
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=63.39 E-value=9.6 Score=40.11 Aligned_cols=56 Identities=13% Similarity=0.159 Sum_probs=43.5
Q ss_pred HHHHHHHHHHH-cCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCC
Q psy12660 50 YCVALFMYMRL-LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKY 107 (294)
Q Consensus 50 ~vv~lv~~L~~-~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~f 107 (294)
.++.-+.+|+. .|+++++|.+||+-+.-...+++.|...+.... ...+.|+|+|+|
T Consensus 31 vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~--~~~v~i~TfHS~ 87 (672)
T PRK10919 31 VITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRKE--ARGLMISTFHTL 87 (672)
T ss_pred HHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCccc--ccCcEEEcHHHH
Confidence 46677777776 589999999999999988889988887654321 234789999987
No 46
>PRK10481 hypothetical protein; Provisional
Probab=62.78 E-value=11 Score=34.45 Aligned_cols=25 Identities=8% Similarity=0.056 Sum_probs=20.5
Q ss_pred CCCceEEEeccHHHHHHHHHHHHhh
Q psy12660 64 PAHKITILSTYNGQKHLIRDVINTR 88 (294)
Q Consensus 64 ~~~~IgIITpY~~Q~~lI~~~L~~~ 88 (294)
...+|||||||..|.....+.....
T Consensus 128 ~g~riGVitP~~~qi~~~~~kw~~~ 152 (224)
T PRK10481 128 GGHQVGVIVPVEEQLAQQAQKWQVL 152 (224)
T ss_pred CCCeEEEEEeCHHHHHHHHHHHHhc
Confidence 5578999999999998877766554
No 47
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=56.57 E-value=22 Score=37.69 Aligned_cols=45 Identities=20% Similarity=0.193 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhc
Q psy12660 45 LAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRC 89 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~ 89 (294)
..||.+|+..+..|+..|++.++|+||+.-+.|...|...|....
T Consensus 327 ~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~g 371 (721)
T PRK11773 327 LDEARFVVERIKTWQDNGGALSDCAILYRSNAQSRVLEEALLQAG 371 (721)
T ss_pred HHHHHHHHHHHHHHHHcCCCcccEEEEEecchhHHHHHHHHHHCC
Confidence 578999999999998889999999999999999999999998753
No 48
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=54.50 E-value=21 Score=37.69 Aligned_cols=44 Identities=18% Similarity=0.237 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhh
Q psy12660 45 LAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTR 88 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~ 88 (294)
..||++|+..+..|+..|++.++|+||+.-+.|...|...|...
T Consensus 322 ~~Ea~~ia~~I~~l~~~g~~~~diAVL~R~~~~~~~le~~L~~~ 365 (715)
T TIGR01075 322 LDEARFVVSRIKTWQRNGGALDECAVLYRSNAQSRVLEEALLQA 365 (715)
T ss_pred HHHHHHHHHHHHHHHHcCCCccCEEEEEecCchHHHHHHHHHHc
Confidence 57899999999999888999999999999999999999999875
No 49
>KOG2108|consensus
Probab=53.60 E-value=4.8 Score=43.26 Aligned_cols=50 Identities=22% Similarity=0.225 Sum_probs=39.3
Q ss_pred ceeccccCCCCCCCceEEEeeeecCCCCCcC----------------cchhhhhhcccccceeEEE
Q psy12660 99 HKVTTVDKYQGQQNDYILLSLVRTASVGHLR----------------DVRRLIVAMSRARLGLYVF 148 (294)
Q Consensus 99 i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~----------------d~rRLNVAlSRAr~gLiIV 148 (294)
+..+|++.--|.|+|.|-+++.+....|-.. .++-+.||+||||.++|.-
T Consensus 675 ~~l~Tih~akglefd~v~~~n~~~~~~~s~~~~~r~~~~r~~t~~~~e~n~lyV~vtRakkrl~~~ 740 (853)
T KOG2108|consen 675 VILGTIHQAKGLEFDNVHLQNDFVKVFGSVSNFERLPSFRVETYNEDEWNFLYVAVTRAKKRLIMC 740 (853)
T ss_pred hhhHHHHhccCcccceeecccCcccccccccchhhcchhhhhhhhhhhhhheeeeecchhhhcccc
Confidence 5679999999999999999988865333221 3566899999999977763
No 50
>PF13245 AAA_19: Part of AAA domain
Probab=52.70 E-value=36 Score=25.45 Aligned_cols=49 Identities=10% Similarity=0.089 Sum_probs=33.3
Q ss_pred HHHHHHHHHHH-cCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCC
Q psy12660 50 YCVALFMYMRL-LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKY 107 (294)
Q Consensus 50 ~vv~lv~~L~~-~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~f 107 (294)
.++.++.++.. .+.+.+.|.+++|-+.....|++.| .. ....+.|+|+|
T Consensus 26 ~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl----~~-----~~~~~~T~h~~ 75 (76)
T PF13245_consen 26 TLAARIAELLAARADPGKRVLVLAPTRAAADELRERL----GL-----GVPFAMTIHSL 75 (76)
T ss_pred HHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH----cC-----CCcchhhHHHh
Confidence 45556655553 2333888999999999999998888 10 01247788776
No 51
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=52.00 E-value=30 Score=36.60 Aligned_cols=45 Identities=16% Similarity=0.132 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHcC-CCCCceEEEeccHHHHHHHHHHHHhhc
Q psy12660 45 LAEAEYCVALFMYMRLLG-YPAHKITILSTYNGQKHLIRDVINTRC 89 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g-~~~~~IgIITpY~~Q~~lI~~~L~~~~ 89 (294)
..||++|+..+..|+..| ++.++|+||+.-+.|...|...|....
T Consensus 323 ~~Ea~~ia~~I~~l~~~~~~~~~diAVL~R~~~~~~~l~~~L~~~g 368 (726)
T TIGR01073 323 RDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKAN 368 (726)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcCCEEEEEeCchhHHHHHHHHHHcC
Confidence 468999999999888876 799999999999999999999998853
No 52
>PF11181 YflT: Heat induced stress protein YflT
Probab=48.82 E-value=36 Score=26.80 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=32.4
Q ss_pred cccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHH
Q psy12660 41 FYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVI 85 (294)
Q Consensus 41 s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L 85 (294)
.|.|..||..++ +.|...||..++|.|||--+.+...|.+..
T Consensus 5 v~~~~~E~~~~I---~~L~~~Gy~~ddI~Vva~d~~~~~~l~~~t 46 (103)
T PF11181_consen 5 VYDNEEEALSAI---EELKAQGYSEDDIYVVAKDKDRTERLADQT 46 (103)
T ss_pred EECCHHHHHHHH---HHHHHcCCCcccEEEEEcCchHHHHHHHhc
Confidence 366777776554 557889999999999998887777776654
No 53
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=45.41 E-value=32 Score=35.82 Aligned_cols=68 Identities=15% Similarity=0.254 Sum_probs=48.8
Q ss_pred HHHHHHHHHHH-cCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCC-----------CCCCCceEEE
Q psy12660 50 YCVALFMYMRL-LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKY-----------QGQQNDYILL 117 (294)
Q Consensus 50 ~vv~lv~~L~~-~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~f-----------QG~E~DvVIl 117 (294)
.++.-+.+|+. .|++++.|.+||+-+.=...+++.|...+... ....+.|+|.|+| .|...++.|+
T Consensus 30 ~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~--~~~~v~v~TfHs~a~~il~~~~~~~g~~~~~~il 107 (664)
T TIGR01074 30 VITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKG--EARGLTISTFHTLGLDIIKREYNALGYKSNFSLF 107 (664)
T ss_pred HHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCcc--ccCCeEEEeHHHHHHHHHHHHHHHhCCCCCCEEe
Confidence 56666677775 48999999999998888888888887765432 1235789999988 2555555665
Q ss_pred ee
Q psy12660 118 SL 119 (294)
Q Consensus 118 S~ 119 (294)
+.
T Consensus 108 ~~ 109 (664)
T TIGR01074 108 DE 109 (664)
T ss_pred CH
Confidence 53
No 54
>cd00899 b4GalT Beta-4-Galactosyltransferase is involved in the formation of the poly-N-acetyllactosamine core structures present in glycoproteins and glycosphingolipids. Beta-4-Galactosyltransferase transfers galactose from uridine diphosphogalactose to the terminal beta-N-acetylglucosamine residues, hereby forming the poly-N-acetyllactosamine core structures present in glycoproteins and glycosphingolipids. At least seven homologous beta-4-galactosyltransferase isoforms have been identified that use different types of glycoproteins and glycolipids as substrates. Of the seven identified members of the beta-1,4-galactosyltransferase subfamily (beta1,4-Gal-T1 to -T7), b1,4-Gal-T1 is most characterized (biochemically). It is a Golgi-resident type II membrane enzyme with a cytoplasmic domain, membrane spanning region, and a stem region and catalytic domain facing the lumen.
Probab=44.22 E-value=33 Score=31.27 Aligned_cols=75 Identities=15% Similarity=0.180 Sum_probs=45.7
Q ss_pred CceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccce-
Q psy12660 66 HKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLG- 144 (294)
Q Consensus 66 ~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~g- 144 (294)
.+++||.||+.....|+..|...-.- =.=|+-+.-+.|+-=+... -.+--..|||+++-|...
T Consensus 2 ~~~aiivpyr~R~~~l~~~l~~~~~~-------------L~rq~~~~~i~vi~Q~~~~---~FNR~~llNvG~~~a~k~~ 65 (219)
T cd00899 2 HKVAIIVPFRNRFEHLLIFLPHLHPF-------------LQRQQLDYRIFVIEQVGNF---RFNRAKLLNVGFLEALKDG 65 (219)
T ss_pred cceEEEEecCCHHHHHHHHHHHHHHH-------------HHhcCCcEEEEEEEecCCc---cchhhhhhhHHHHHHhhcC
Confidence 46999999999888887777653110 0013333333333322211 123345699988887664
Q ss_pred ---eEEEechhhhhc
Q psy12660 145 ---LYVFARVSLFRN 156 (294)
Q Consensus 145 ---LiIVGn~~~l~~ 156 (294)
++|+.+.+++..
T Consensus 66 ~~dc~i~hDVDllP~ 80 (219)
T cd00899 66 DWDCFIFHDVDLLPE 80 (219)
T ss_pred CccEEEEeccccccc
Confidence 789999998764
No 55
>PRK13909 putative recombination protein RecB; Provisional
Probab=40.82 E-value=42 Score=36.71 Aligned_cols=44 Identities=16% Similarity=0.161 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhh
Q psy12660 45 LAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTR 88 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~ 88 (294)
..+++.++..+..++..|++.++|+||+.-+.|...|.+.|...
T Consensus 451 ~~~a~~ia~~I~~l~~~g~~~~dIaILvR~~~~~~~l~~~L~~~ 494 (910)
T PRK13909 451 EELLEQLLQEIQFLLEKGIDPDDIAILCWTNDDALEIKEFLQEQ 494 (910)
T ss_pred HHHHHHHHHHHHHHHHcCCCcCCEEEEEecCccHHHHHHHHHhc
Confidence 34688899999999888999999999999999999999999886
No 56
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=40.34 E-value=52 Score=36.88 Aligned_cols=44 Identities=20% Similarity=0.203 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHc-CCCCCceEEEecc-HHHHHHHHHHHHhh
Q psy12660 45 LAEAEYCVALFMYMRLL-GYPAHKITILSTY-NGQKHLIRDVINTR 88 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~-g~~~~~IgIITpY-~~Q~~lI~~~L~~~ 88 (294)
..|+++|+.-+..|... |++.++|+|+++- +.+...|...+...
T Consensus 315 ~~Eae~va~~I~~l~~~~g~~~~DIAVL~R~~~~y~~~i~~~f~~~ 360 (1158)
T TIGR02773 315 RAEVEGVARQILRLTRDKQYRYQDIAILTRDLEDYAKLVEAVFSDY 360 (1158)
T ss_pred HHHHHHHHHHHHHHHHcCCCChhheEEEeCCHHHHHHHHHHHHHhC
Confidence 37899999888887776 8999999999998 89999999999764
No 57
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms.; GO: 0004386 helicase activity, 0005524 ATP binding
Probab=36.40 E-value=20 Score=38.43 Aligned_cols=47 Identities=30% Similarity=0.328 Sum_probs=35.8
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccc--eeEEEech
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARL--GLYVFARV 151 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~--gLiIVGn~ 151 (294)
.-||++.||+--|-|.+.+...+. | ....+.||+||++. +|.+-.++
T Consensus 742 AmTIhKSQG~SL~kV~i~l~~~~~--F--~~gq~YVAlSRvts~~~L~i~~nP 790 (818)
T PF02689_consen 742 AMTIHKSQGQSLDKVAIDLGKPKV--F--SHGQLYVALSRVTSLEGLKINFNP 790 (818)
T ss_pred EEEEeHhhccccceEEEECCCCcc--c--CCCceEEEEEeeccccccEEecCc
Confidence 579999999999999998876521 1 24569999999987 66665444
No 58
>KOG4032|consensus
Probab=35.49 E-value=18 Score=32.19 Aligned_cols=24 Identities=25% Similarity=0.608 Sum_probs=17.6
Q ss_pred cccccccCCCCCCCCCchhhHhhh
Q psy12660 266 ETHVAIHPGGDSDESGDEEEKEEE 289 (294)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~ 289 (294)
+++.++|-|.++|||+++.+.+++
T Consensus 123 kt~~~v~~~~~~dEDdedvd~~dd 146 (184)
T KOG4032|consen 123 KTKTPVDGGSESDEDDEDVDEEDD 146 (184)
T ss_pred hheecccCCCcccccccccccchh
Confidence 467788889888888777655544
No 59
>PF04592 SelP_N: Selenoprotein P, N terminal region; InterPro: IPR007671 SelP is the only known eukaryotic selenoprotein that contains multiple selenocysteine (Sec) residues, and accounts for more than 50% of the selenium content of rat and human plasma []. It is thought to be glycosylated []. SelP may have antioxidant properties. It can attach to epithelial cells, and may protect vascular endothelial cells against peroxynitrite toxicity []. The high selenium content of SelP suggests that it may be involved in selenium intercellular transport or storage []. The promoter structure of bovine SelP suggests that it may be involved in countering heavy metal intoxication, and may also have a developmental function []. The N-terminal region of SelP can exist independently of the C-terminal region. Zebrafish selenoprotein Pb (Q98SV0 from SWISSPROT) lacks the C-terminal Sec-rich region, and a protein encoded by the rat SelP gene and lacking this region has also been reported []. The N-terminal region contains a conserved SecxxCys motif, which is similar to the CysxxCys found in thioredoxins. It is speculated that the N-terminal region may adopt a thioredoxin fold and catalyse redox reactions []. The N-terminal region also contains a His-rich region, which is thought to mediate heparin binding. Binding to heparan proteoglycans could account for the membrane binding properties of SelP []. The function of the bacterial members of this family is uncharacterised.; GO: 0008430 selenium binding
Probab=34.96 E-value=1e+02 Score=28.58 Aligned_cols=77 Identities=12% Similarity=0.153 Sum_probs=54.7
Q ss_pred ccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCC--CCceeccccCCCCCCCceEEEe
Q psy12660 42 YQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIG--RPHKVTTVDKYQGQQNDYILLS 118 (294)
Q Consensus 42 ~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~--~~i~V~TVd~fQG~E~DvVIlS 118 (294)
+.-...|..+..|-..|++.|++.-.+.||.+...+..++...|+.+...+-... .......-..+-|...||+|..
T Consensus 39 ~~c~~qa~~le~Lr~kL~~~g~~~I~f~vVN~~~~~s~~~~~~l~~r~~~~ipVyqq~~~q~dvW~~L~G~kdD~~iyD 117 (238)
T PF04592_consen 39 YFCLLQASRLEDLREKLENEGLSNISFMVVNHQGEHSRLKYWELKRRVSEHIPVYQQDENQPDVWELLNGSKDDFLIYD 117 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCceEEEEEcCCCcchhHHHHHHHHhCCCCCceecCCccccCHHHHhCCCcCcEEEEe
Confidence 4556667777788888888999988999999998888888888888765331111 1123334445668888888874
No 60
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=34.28 E-value=1.4e+02 Score=27.27 Aligned_cols=58 Identities=17% Similarity=0.232 Sum_probs=38.2
Q ss_pred CCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccC--------------CCCCCCceEEEeeeecCCCCCc
Q psy12660 63 YPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDK--------------YQGQQNDYILLSLVRTASVGHL 128 (294)
Q Consensus 63 ~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~--------------fQG~E~DvVIlS~Vrs~~~gfL 128 (294)
....+||||+|-..|.....+...... .++.+....- .+.+..|+|++.|. ||.
T Consensus 123 ~~~~~vGVivP~~eQ~~~~~~kW~~l~-------~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCm-----GYt 190 (221)
T PF07302_consen 123 VGGHQVGVIVPLPEQIAQQAEKWQPLG-------NPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCM-----GYT 190 (221)
T ss_pred cCCCeEEEEecCHHHHHHHHHHHHhcC-------CCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECC-----CCC
Confidence 355789999999999998877776532 1233333333 34557888888884 665
Q ss_pred Ccch
Q psy12660 129 RDVR 132 (294)
Q Consensus 129 ~d~r 132 (294)
...|
T Consensus 191 ~~~r 194 (221)
T PF07302_consen 191 QEMR 194 (221)
T ss_pred HHHH
Confidence 4333
No 61
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=34.10 E-value=1e+02 Score=31.94 Aligned_cols=83 Identities=13% Similarity=0.100 Sum_probs=53.6
Q ss_pred hhhhhhcCCCCCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHc-CCCCCceEEEeccHHHHHHHHHHHH
Q psy12660 8 AEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLL-GYPAHKITILSTYNGQKHLIRDVIN 86 (294)
Q Consensus 8 p~~~~~n~G~~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~-g~~~~~IgIITpY~~Q~~lI~~~L~ 86 (294)
|+...+-.....++.++-.. |.|.+ ..+..-+.||+.. |+.+.+|..||..+.=...++..+.
T Consensus 5 ~~Q~~av~~~~gp~lV~AGa---GsGKT-------------~vlt~Ria~li~~~~v~p~~Il~vTFTnkAA~em~~Rl~ 68 (655)
T COG0210 5 PEQREAVLHPDGPLLVLAGA---GSGKT-------------RVLTERIAYLIAAGGVDPEQILAITFTNKAAAEMRERLL 68 (655)
T ss_pred HHHHHHHhcCCCCeEEEECC---CCCch-------------hhHHHHHHHHHHcCCcChHHeeeeechHHHHHHHHHHHH
Confidence 33444444444556666554 44432 3556666677776 7999999999999998888988888
Q ss_pred hhcCCCCCCCCCceeccccCCC
Q psy12660 87 TRCADNPLIGRPHKVTTVDKYQ 108 (294)
Q Consensus 87 ~~~~~~~~~~~~i~V~TVd~fQ 108 (294)
..+..... ..+.|+|+|+|-
T Consensus 69 ~~~~~~~~--~~~~v~TfHs~~ 88 (655)
T COG0210 69 KLLGLPAA--EGLTVGTFHSFA 88 (655)
T ss_pred HHhCcccc--cCcEEeeHHHHH
Confidence 87653111 115677777653
No 62
>PRK11054 helD DNA helicase IV; Provisional
Probab=31.60 E-value=64 Score=34.26 Aligned_cols=53 Identities=13% Similarity=0.046 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHc-CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCC
Q psy12660 50 YCVALFMYMRLL-GYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKY 107 (294)
Q Consensus 50 ~vv~lv~~L~~~-g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~f 107 (294)
.+++.+.||+.. +.++++|.++|+-+.=...|++.|..++.. ..+.|+|+|+|
T Consensus 225 vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~-----~~v~v~TFHSl 278 (684)
T PRK11054 225 VLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGT-----EDITARTFHAL 278 (684)
T ss_pred HHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCC-----CCcEEEeHHHH
Confidence 556666777755 578999999999999888899988877642 34789998877
No 63
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=29.93 E-value=1.6e+02 Score=25.66 Aligned_cols=100 Identities=13% Similarity=0.160 Sum_probs=56.2
Q ss_pred HHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCC-------------CCCceEEEe
Q psy12660 52 VALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQG-------------QQNDYILLS 118 (294)
Q Consensus 52 v~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG-------------~E~DvVIlS 118 (294)
..+...+...| .+|.+++|-+..+..|++.+. +.+.||++|-+ ...++||+.
T Consensus 36 ~~~~~~~~~~g---~~v~~~apT~~Aa~~L~~~~~------------~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVD 100 (196)
T PF13604_consen 36 KALAEALEAAG---KRVIGLAPTNKAAKELREKTG------------IEAQTIHSFLYRIPNGDDEGRPELPKKDVLIVD 100 (196)
T ss_dssp HHHHHHHHHTT-----EEEEESSHHHHHHHHHHHT------------S-EEEHHHHTTEECCEECCSSCC-TSTSEEEES
T ss_pred HHHHHHHHhCC---CeEEEECCcHHHHHHHHHhhC------------cchhhHHHHHhcCCcccccccccCCcccEEEEe
Confidence 33444455444 679999999999988888753 23445544421 234666663
Q ss_pred eeecCCCCCcC--cchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhccc
Q psy12660 119 LVRTASVGHLR--DVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQ 172 (294)
Q Consensus 119 ~Vrs~~~gfL~--d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~ 172 (294)
- .+.+. ...+|--++.++...+++||+...|..... ...|..+.....
T Consensus 101 E-----asmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~-g~~~~~l~~~~~ 150 (196)
T PF13604_consen 101 E-----ASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGA-GSPFADLQESGG 150 (196)
T ss_dssp S-----GGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCST-TCHHHHHCGCST
T ss_pred c-----ccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcC-CcHHHHHHhcCC
Confidence 3 23332 233344444555568999999999887655 566666665544
No 64
>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.
Probab=29.53 E-value=94 Score=34.82 Aligned_cols=44 Identities=14% Similarity=0.083 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCceEEEeccHHH-HHHHHHHHHhh
Q psy12660 45 LAEAEYCVALFMYMRLLGYPAHKITILSTYNGQ-KHLIRDVINTR 88 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q-~~lI~~~L~~~ 88 (294)
..|+++|..-+..|+..|++.++|+|+++-..+ ..+|..++...
T Consensus 304 ~~Eve~va~~I~~lv~~g~ry~DIaVl~rd~~~Y~~~i~~iF~~~ 348 (1076)
T TIGR02774 304 KEEVEHVARSIRQKLYEGYRYKDILVLLGDVDSYQLQLGKIFDQY 348 (1076)
T ss_pred HHHHHHHHHHHHHHHHcCCChhheEEEcCCHHHHHHHHHHHHhhc
Confidence 378999998888887779999999999998888 66788887763
No 65
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=28.69 E-value=1.8e+02 Score=30.55 Aligned_cols=113 Identities=12% Similarity=0.160 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHc-CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCC-----CCCCceeccccCCCCCCC-----------
Q psy12660 50 YCVALFMYMRLL-GYPAHKITILSTYNGQKHLIRDVINTRCADNPL-----IGRPHKVTTVDKYQGQQN----------- 112 (294)
Q Consensus 50 ~vv~lv~~L~~~-g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~-----~~~~i~V~TVd~fQG~E~----------- 112 (294)
.+..++..+... +-+...|.+.+|-..-...|++.+......-+. ...+..+.|+|++-|...
T Consensus 183 ~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~ 262 (615)
T PRK10875 183 TVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLGAQPGSQRLRYHAGN 262 (615)
T ss_pred HHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhCcCCCccchhhcccc
Confidence 344444444332 234467999999999999999888754322110 011246788888876532
Q ss_pred ----ceEEEeeeecCCCCCc--CcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHh
Q psy12660 113 ----DYILLSLVRTASVGHL--RDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMI 169 (294)
Q Consensus 113 ----DvVIlS~Vrs~~~gfL--~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~ 169 (294)
|+||+.-. +.+ ....+|--|+ .....||+||+.+.|..... ...|..|++
T Consensus 263 ~l~~dvlIvDEa-----SMvd~~lm~~ll~al-~~~~rlIlvGD~~QL~sV~~-G~VL~DL~~ 318 (615)
T PRK10875 263 PLHLDVLVVDEA-----SMVDLPMMARLIDAL-PPHARVIFLGDRDQLASVEA-GAVLGDICR 318 (615)
T ss_pred CCCCCeEEEChH-----hcccHHHHHHHHHhc-ccCCEEEEecchhhcCCCCC-CchHHHHHH
Confidence 55555221 111 1122222333 34457999999999987544 344555543
No 66
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=27.82 E-value=1.5e+02 Score=26.20 Aligned_cols=78 Identities=15% Similarity=0.191 Sum_probs=47.2
Q ss_pred CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCC------CCCceEEEeeeecCCCCCcCcchhhh
Q psy12660 62 GYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQG------QQNDYILLSLVRTASVGHLRDVRRLI 135 (294)
Q Consensus 62 g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG------~E~DvVIlS~Vrs~~~gfL~d~rRLN 135 (294)
.|..+.+-|++|-.+|+.++++++..... ...|..++++.. .+-.++.|.+...+...-..+.++.
T Consensus 28 afGa~~~yiv~~~~~q~~~v~~I~~~WGg-------~fnv~~~~s~~~~i~~~k~~G~vvhLtmyga~~~~~~~~ir~~- 99 (176)
T PRK03958 28 ALGADKIILASNDEHVKESVEDIVERWGG-------PFEVEVTKSWKKEIREWKDGGIVVHLTMYGENIQDVEPEIREA- 99 (176)
T ss_pred HcCCceEEEecCcHHHHHHHHHHHHhcCC-------ceEEEEcCCHHHHHHHHHhCCcEEEEEEecCCccchHHHHHHh-
Confidence 46778999999999999999999998632 233443333321 2335566666554422212222211
Q ss_pred hhcccccceeEEEe
Q psy12660 136 VAMSRARLGLYVFA 149 (294)
Q Consensus 136 VAlSRAr~gLiIVG 149 (294)
+-..+..|+|||
T Consensus 100 --~~~~~p~LIvvG 111 (176)
T PRK03958 100 --HRKGEPLLIVVG 111 (176)
T ss_pred --hccCCcEEEEEc
Confidence 112567999999
No 67
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=26.33 E-value=1.9e+02 Score=26.54 Aligned_cols=33 Identities=18% Similarity=0.344 Sum_probs=20.7
Q ss_pred HHHHHHHcCCCCCceEEEeccHHHHH-HHHHHHHhh
Q psy12660 54 LFMYMRLLGYPAHKITILSTYNGQKH-LIRDVINTR 88 (294)
Q Consensus 54 lv~~L~~~g~~~~~IgIITpY~~Q~~-lI~~~L~~~ 88 (294)
++..|..+| .++|+|+|||-.=.. .+++.+.+.
T Consensus 111 ~~~AL~alg--~~RIalvTPY~~~v~~~~~~~l~~~ 144 (239)
T TIGR02990 111 AVDGLAALG--VRRISLLTPYTPETSRPMAQYFAVR 144 (239)
T ss_pred HHHHHHHcC--CCEEEEECCCcHHHHHHHHHHHHhC
Confidence 334444444 458999999987554 455556553
No 68
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=25.05 E-value=60 Score=38.69 Aligned_cols=45 Identities=16% Similarity=0.104 Sum_probs=33.7
Q ss_pred eeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEech
Q psy12660 100 KVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARV 151 (294)
Q Consensus 100 ~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~ 151 (294)
-+.|+++.||..++++|...-++ . .+.+-|++|||+..+-|+-+.
T Consensus 806 Ya~T~h~aQG~T~~~~~~~~~~~------~-~~~~~~~lsRa~~~l~IyTd~ 850 (1960)
T TIGR02760 806 YVLTPYHTQPDDAKVFLGVKQYA------L-SKALLNSLNRSASRVDLFTDL 850 (1960)
T ss_pred ccCCCcccCCCcceEEEEecchh------h-hHHHHHHHhhCcceeEEEECC
Confidence 48899999999999777643221 1 234567999999999999544
No 69
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=25.04 E-value=1.3e+02 Score=34.20 Aligned_cols=45 Identities=24% Similarity=0.220 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHc---------------CCCCCceEEEeccHHHHHHHHHHHHhhc
Q psy12660 45 LAEAEYCVALFMYMRLL---------------GYPAHKITILSTYNGQKHLIRDVINTRC 89 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~---------------g~~~~~IgIITpY~~Q~~lI~~~L~~~~ 89 (294)
..||+.|.+-+..|+.. +++.++|+||+.-+.|...|++.|.++.
T Consensus 516 ~~eA~~iA~~I~~ll~~g~~~~~~~~~~~~~r~~~~~DIAVLvRs~~~a~~i~~aL~~~g 575 (1181)
T PRK10876 516 QTMAQQCAAQIRDWLQAGQRGEALLMNGDDSRPVRASDITVLVRSRQEAALIRDALTLLA 575 (1181)
T ss_pred HHHHHHHHHHHHHHHhcccccceeeccCCCcCCCCcccEEEEEecCchHHHHHHHHHhCC
Confidence 45788888777766643 2567899999999999999999998863
No 70
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=24.95 E-value=42 Score=36.12 Aligned_cols=48 Identities=25% Similarity=0.223 Sum_probs=34.3
Q ss_pred eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccc--eeEEEechh
Q psy12660 101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARL--GLYVFARVS 152 (294)
Q Consensus 101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~--gLiIVGn~~ 152 (294)
..||++.||+--|-|.+.+...+ .+ ....+.||+|||+. +|.|.-|..
T Consensus 752 AmTI~KSQG~sL~~V~i~f~~~k---~~-~~gq~YVAlSR~~s~~~L~i~~np~ 801 (828)
T PHA03311 752 AMTIAKSQGLSLDKVAICFGNHK---NL-KLSHVYVAMSRVTSSNFLVMNLNPL 801 (828)
T ss_pred eeeehHhhCCccceEEEECCCcc---cc-ccCcEEEEEEeccCccccEEecCCc
Confidence 56899999999999888754321 11 24568999999987 666665543
No 71
>KOG2340|consensus
Probab=23.60 E-value=77 Score=33.02 Aligned_cols=82 Identities=16% Similarity=0.254 Sum_probs=57.6
Q ss_pred CCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecC--------CCCCcCcchh
Q psy12660 62 GYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTA--------SVGHLRDVRR 133 (294)
Q Consensus 62 g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~--------~~gfL~d~rR 133 (294)
|+..-++.|++||+.-.-.|-++|...+.... .....|.+-.+|+|.=.---...+.+.. ..|-..|.=|
T Consensus 290 G~tRpkVLivvpfRe~A~riVn~lis~l~G~~--q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~Fr 367 (698)
T KOG2340|consen 290 GFTRPKVLIVVPFRESAYRIVNLLISLLSGDD--QGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFR 367 (698)
T ss_pred CCCCceEEEEecchHHHHHHHHHHHHHhcCcc--ccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhh
Confidence 55566799999999998888888877643221 1235688888888876533344444433 4677889999
Q ss_pred hhhhccccccee
Q psy12660 134 LIVAMSRARLGL 145 (294)
Q Consensus 134 LNVAlSRAr~gL 145 (294)
+=||+||--..|
T Consensus 368 iGl~ftkKtikL 379 (698)
T KOG2340|consen 368 IGLAFTKKTIKL 379 (698)
T ss_pred hhHHHHHHHHHH
Confidence 999999965544
No 72
>PF13733 Glyco_transf_7N: N-terminal region of glycosyl transferase group 7; PDB: 2AGD_B 3EE5_A 2AE7_B 2AEC_A 2FYA_A 2AES_B 2AH9_A 2FYB_A 2FY7_A 3LW6_A ....
Probab=23.54 E-value=40 Score=28.58 Aligned_cols=76 Identities=17% Similarity=0.272 Sum_probs=41.8
Q ss_pred CCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccce
Q psy12660 65 AHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLG 144 (294)
Q Consensus 65 ~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~g 144 (294)
..+++||.||+..-..|+..|...-.- . .=|.....+.|+--+.+ +-++--..+||++.-|...
T Consensus 46 ~~kvAiIIPyRdR~~hL~~fl~~l~~~------------L-~rQ~~~y~I~vieQ~~~---~~FNRg~L~NvGf~eA~~~ 109 (136)
T PF13733_consen 46 RHKVAIIIPYRDREEHLRIFLPHLHPF------------L-QRQQLDYRIFVIEQVDN---GPFNRGKLMNVGFLEALKD 109 (136)
T ss_dssp S-EEEEEEEESS-HHHHHHHHHHHHHH------------H-HHTT-EEEEEEEEE-SS---S---HHHHHHHHHHHHHHH
T ss_pred ccceEEEEEeCCHHHHHHHHHHHHHHH------------H-hhCcceEEEEEEeeccC---CCCchhhhhhHHHHHHhhc
Confidence 447999999999888887777653100 0 00222333333333322 2233445699999888764
Q ss_pred ----eEEEechhhhhc
Q psy12660 145 ----LYVFARVSLFRN 156 (294)
Q Consensus 145 ----LiIVGn~~~l~~ 156 (294)
.+|+-+.+++..
T Consensus 110 ~~~dc~ifHDVDllP~ 125 (136)
T PF13733_consen 110 DDFDCFIFHDVDLLPE 125 (136)
T ss_dssp S--SEEEEE-TTEEES
T ss_pred cCCCEEEEeccccccc
Confidence 678888887753
No 73
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=22.56 E-value=2.4e+02 Score=33.24 Aligned_cols=117 Identities=11% Similarity=0.108 Sum_probs=65.5
Q ss_pred eEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCCCcee
Q psy12660 22 QLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKV 101 (294)
Q Consensus 22 q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~~i~V 101 (294)
.|+=+.+..|.|.+. =...++.++..+.. .....|..++|....+..|++. .+..
T Consensus 853 r~~~IqG~AGTGKTT----------~l~~i~~~~~~l~e--~~g~~V~glAPTgkAa~~L~e~-------------Gi~A 907 (1623)
T PRK14712 853 RFTVVQGYAGVGKTT----------QFRAVMSAVNMLPE--SERPRVVGLGPTHRAVGEMRSA-------------GVDA 907 (1623)
T ss_pred ceEEEEeCCCCCHHH----------HHHHHHHHHHHHhh--ccCceEEEEechHHHHHHHHHh-------------CchH
Confidence 455566666777654 13333444433321 1233588899999988887642 1355
Q ss_pred ccccCCCCC-------------CCceEEEeeeecCCCCCcC--cchhhhhhcccccceeEEEechhhhhccccchHHHHH
Q psy12660 102 TTVDKYQGQ-------------QNDYILLSLVRTASVGHLR--DVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQ 166 (294)
Q Consensus 102 ~TVd~fQG~-------------E~DvVIlS~Vrs~~~gfL~--d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~ 166 (294)
.||++|-+. .++++||.- .|++. +..+|--++..+...+|+||+...|...... ..|..
T Consensus 908 ~TIasfL~~~~~~~~~~~~~~~~~~llIVDE-----ASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG-~~F~~ 981 (1623)
T PRK14712 908 QTLASFLHDTQLQQRSGETPDFSNTLFLLDE-----SSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG-QPFRL 981 (1623)
T ss_pred hhHHHHhccccchhhcccCCCCCCcEEEEEc-----cccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC-HHHHH
Confidence 566666442 356666632 33333 2222222333334579999999999875444 45555
Q ss_pred HHh
Q psy12660 167 LMI 169 (294)
Q Consensus 167 l~~ 169 (294)
+..
T Consensus 982 lq~ 984 (1623)
T PRK14712 982 QQT 984 (1623)
T ss_pred HHH
Confidence 554
No 74
>PF11813 DUF3334: Protein of unknown function (DUF3334); InterPro: IPR024513 This family of proteins are functionally uncharacterised. This family is only found in bacteria. Proteins in this family are typically between 227 to 238 amino acids in length.
Probab=22.38 E-value=1.3e+02 Score=27.58 Aligned_cols=41 Identities=20% Similarity=0.426 Sum_probs=32.7
Q ss_pred HHHHHHHHH-HHHHcCCCCCceEEEeccHHHHHHHHHHHHhh
Q psy12660 48 AEYCVALFM-YMRLLGYPAHKITILSTYNGQKHLIRDVINTR 88 (294)
Q Consensus 48 A~~vv~lv~-~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~ 88 (294)
|..++.+|+ ||+..|.|.+.+++.-+-..-...+-+++.+.
T Consensus 70 a~AAmEiY~~YMl~MGMpE~ELA~~hTSdEV~nvmGELMNQi 111 (229)
T PF11813_consen 70 AQAAMEIYRSYMLNMGMPESELAISHTSDEVGNVMGELMNQI 111 (229)
T ss_pred hHHHHHHHHHHHHhcCCCHHHHhhhcccHHHHHHHHHHHHHH
Confidence 677788874 79999999999999988777777776666654
No 75
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=22.06 E-value=1.2e+02 Score=21.45 Aligned_cols=51 Identities=10% Similarity=0.202 Sum_probs=29.5
Q ss_pred ceEEEeccH-HHHHHHHHHHHhhcCCCCCCCCCceeccccC-CCCCCCceEEEe
Q psy12660 67 KITILSTYN-GQKHLIRDVINTRCADNPLIGRPHKVTTVDK-YQGQQNDYILLS 118 (294)
Q Consensus 67 ~IgIITpY~-~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~-fQG~E~DvVIlS 118 (294)
+|.++|+.. +=..++...|++.+..... ...+....++. ......|+||-+
T Consensus 1 ~il~vc~~G~~~s~~l~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~dliitt 53 (84)
T cd00133 1 KILVVCGSGIGSSSMLAEKLEKAAKELGI-EVKVEAQGLSEVIDLADADLIIST 53 (84)
T ss_pred CEEEECCCcHhHHHHHHHHHHHHHHHCCC-eEEEEEcccchhhhcCCccEEEEC
Confidence 367788765 6777788888887754322 12234444554 444566655443
No 76
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include this sensory system with similarity to the bacterial
Probab=20.51 E-value=1.2e+02 Score=22.14 Aligned_cols=52 Identities=15% Similarity=0.238 Sum_probs=29.1
Q ss_pred ceEEEec-cHHHHHHHHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeee
Q psy12660 67 KITILST-YNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLV 120 (294)
Q Consensus 67 ~IgIITp-Y~~Q~~lI~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~V 120 (294)
+|.|+|+ +.+-..+|...|++.+...... ..+.....+...-.+.|+|| |++
T Consensus 2 kilivC~~G~~~s~~l~~~l~~~~~~~~~v-~~~~~~~~~~~~~~~~DlIi-tT~ 54 (85)
T cd05568 2 KALVVCPSGIGTSRLLKSKLKKLFPEIEII-DVISLRELEEVDLDDYDLII-STV 54 (85)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHCCCceEE-EEEeHHHHhhCcccCCCEEE-Ecc
Confidence 4778887 5566668999999987543211 11122223333345677554 444
No 77
>PF13897 GOLD_2: Golgi-dynamics membrane-trafficking
Probab=20.13 E-value=45 Score=28.29 Aligned_cols=21 Identities=43% Similarity=0.678 Sum_probs=16.7
Q ss_pred ccccccCCCCCCCCCchhhHh
Q psy12660 267 THVAIHPGGDSDESGDEEEKE 287 (294)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~~ 287 (294)
..+.+|.++++||++++|+.+
T Consensus 45 ~~vsv~vses~de~~~~~~~~ 65 (136)
T PF13897_consen 45 NQVSVHVSESSDEEDEEEEEE 65 (136)
T ss_pred CceeEecccCccccccccccc
Confidence 468899999988887777665
No 78
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=20.06 E-value=1.7e+02 Score=33.20 Aligned_cols=45 Identities=18% Similarity=0.101 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHcC-------------CCCCceEEEeccHHHHHHHHHHHHhhc
Q psy12660 45 LAEAEYCVALFMYMRLLG-------------YPAHKITILSTYNGQKHLIRDVINTRC 89 (294)
Q Consensus 45 ~~EA~~vv~lv~~L~~~g-------------~~~~~IgIITpY~~Q~~lI~~~L~~~~ 89 (294)
..||.+|...++.|+..| ++.++|+||+.-+.+...|.+.|....
T Consensus 543 ~~EA~~IA~~I~~l~~~g~~v~d~~~~~~r~~~~~DIAIL~Rs~~~~~~i~~aL~~~G 600 (1232)
T TIGR02785 543 QQEATMVAERIKALIKEGFKVYDKKTGEYRPVTYRDIVILTRSRGWNLQIMEEFKKYG 600 (1232)
T ss_pred HHHHHHHHHHHHHHHhcCCccccccccccCCCCcCCEEEEEeccccHHHHHHHHHHcC
Confidence 468999999998887764 567899999999999999999998853
Done!