Query 047062
Match_columns 253
No_of_seqs 170 out of 1275
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 07:15:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047062.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047062hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0385 Chromatin remodeling c 100.0 2.9E-54 6.4E-59 407.9 13.4 223 2-239 300-534 (971)
2 KOG0384 Chromodomain-helicase 100.0 3.3E-51 7.1E-56 401.5 15.6 224 3-234 509-741 (1373)
3 KOG0387 Transcription-coupled 100.0 2.9E-47 6.3E-52 361.7 12.6 221 3-239 349-594 (923)
4 KOG0389 SNF2 family DNA-depend 100.0 3.4E-43 7.4E-48 333.7 15.2 229 3-239 536-824 (941)
5 KOG0386 Chromatin remodeling c 100.0 3.2E-44 6.8E-49 347.2 7.8 226 2-239 526-773 (1157)
6 KOG0392 SNF2 family DNA-depend 100.0 3.8E-42 8.1E-47 337.2 16.0 231 3-239 1112-1390(1549)
7 PLN03142 Probable chromatin-re 100.0 4.6E-41 9.9E-46 336.7 16.2 222 2-239 302-534 (1033)
8 KOG0391 SNF2 family DNA-depend 100.0 1.5E-41 3.3E-46 330.6 12.3 139 2-142 748-904 (1958)
9 KOG0388 SNF2 family DNA-depend 100.0 5.3E-38 1.2E-42 295.4 9.3 208 3-228 707-1080(1185)
10 KOG0383 Predicted helicase [Ge 100.0 1.5E-36 3.2E-41 291.3 9.4 222 3-239 448-677 (696)
11 KOG1015 Transcription regulato 100.0 3.8E-35 8.3E-40 282.3 19.0 229 3-238 833-1210(1567)
12 KOG4439 RNA polymerase II tran 100.0 6.8E-33 1.5E-37 261.1 12.4 231 2-239 474-793 (901)
13 KOG0390 DNA repair protein, SN 100.0 4.3E-32 9.4E-37 262.7 15.5 224 2-240 387-643 (776)
14 COG0553 HepA Superfamily II DN 100.0 5.1E-32 1.1E-36 270.8 11.6 231 2-239 483-758 (866)
15 KOG1002 Nucleotide excision re 100.0 1E-29 2.2E-34 232.4 12.2 231 2-239 327-685 (791)
16 KOG1016 Predicted DNA helicase 99.9 4E-28 8.7E-33 230.5 10.3 222 2-231 445-776 (1387)
17 KOG1001 Helicase-like transcri 99.9 4E-24 8.8E-29 207.4 12.9 231 2-239 265-586 (674)
18 PF00176 SNF2_N: SNF2 family N 99.9 2.2E-23 4.7E-28 184.2 5.2 142 2-143 145-299 (299)
19 PRK04914 ATP-dependent helicas 99.5 4.3E-14 9.4E-19 142.4 11.8 187 11-239 295-541 (956)
20 PF11496 HDA2-3: Class II hist 99.3 4.9E-12 1.1E-16 112.9 8.9 132 87-228 4-153 (297)
21 KOG1000 Chromatin remodeling p 99.2 1.8E-11 4E-16 113.3 6.4 180 19-239 338-539 (689)
22 KOG0298 DEAD box-containing he 99.0 3E-10 6.5E-15 114.5 5.6 140 5-145 526-693 (1394)
23 TIGR00603 rad25 DNA repair hel 97.9 8.3E-05 1.8E-09 73.8 11.0 60 168-239 479-538 (732)
24 PRK13766 Hef nuclease; Provisi 97.7 0.00022 4.8E-09 71.7 10.9 54 165-225 343-398 (773)
25 COG1061 SSL2 DNA or RNA helica 96.4 0.034 7.5E-07 52.6 10.9 153 22-238 176-328 (442)
26 cd00079 HELICc Helicase superf 94.7 0.13 2.8E-06 38.9 6.7 60 169-235 12-71 (131)
27 COG1111 MPH1 ERCC4-like helica 90.1 0.59 1.3E-05 44.6 5.5 55 168-229 347-404 (542)
28 PTZ00110 helicase; Provisional 87.8 1.7 3.6E-05 42.3 7.1 66 167-239 359-424 (545)
29 PRK12900 secA preprotein trans 84.6 2.7 6E-05 43.5 6.8 65 168-241 581-645 (1025)
30 KOG0331 ATP-dependent RNA heli 83.6 3.5 7.5E-05 39.8 6.7 66 166-238 321-387 (519)
31 PRK12904 preprotein translocas 83.1 3.5 7.6E-05 42.1 6.8 64 168-240 413-476 (830)
32 PHA02558 uvsW UvsW helicase; P 81.5 5.9 0.00013 38.1 7.6 69 163-238 322-390 (501)
33 PRK12898 secA preprotein trans 80.9 4.6 0.0001 40.2 6.7 62 167-235 455-516 (656)
34 TIGR00963 secA preprotein tran 79.7 5.9 0.00013 40.0 7.0 64 168-240 388-451 (745)
35 PF12431 CitT: Transcriptional 79.2 0.85 1.8E-05 26.4 0.6 9 242-250 22-30 (30)
36 TIGR03714 secA2 accessory Sec 78.1 6.2 0.00014 40.0 6.7 62 167-235 406-467 (762)
37 PRK01297 ATP-dependent RNA hel 73.7 12 0.00026 35.5 7.2 64 166-238 318-381 (475)
38 KOG0298 DEAD box-containing he 72.8 3.7 8E-05 43.4 3.6 50 168-224 1202-1253(1394)
39 PRK09200 preprotein translocas 72.2 11 0.00024 38.4 6.8 60 166-232 409-468 (790)
40 PRK04837 ATP-dependent RNA hel 71.7 15 0.00032 34.3 7.2 62 168-238 240-301 (423)
41 PRK05298 excinuclease ABC subu 71.6 13 0.00029 37.0 7.1 55 167-228 428-482 (652)
42 PRK06646 DNA polymerase III su 69.0 11 0.00024 30.5 4.9 40 166-211 10-49 (154)
43 TIGR00631 uvrb excinuclease AB 69.0 17 0.00037 36.3 7.3 55 167-228 424-478 (655)
44 TIGR00596 rad1 DNA repair prot 68.2 11 0.00024 38.7 5.7 43 165-213 266-317 (814)
45 PRK11192 ATP-dependent RNA hel 65.1 23 0.0005 33.1 7.0 62 168-238 230-291 (434)
46 PRK13107 preprotein translocas 65.0 17 0.00038 37.5 6.4 63 168-237 432-494 (908)
47 PRK05728 DNA polymerase III su 64.8 14 0.00031 29.2 4.8 52 167-224 11-64 (142)
48 PRK13104 secA preprotein trans 64.3 19 0.00042 37.2 6.6 63 167-236 426-488 (896)
49 COG0513 SrmB Superfamily II DN 63.4 19 0.0004 34.9 6.2 62 169-239 259-320 (513)
50 PRK12906 secA preprotein trans 62.9 22 0.00047 36.4 6.7 59 168-233 423-481 (796)
51 PRK04537 ATP-dependent RNA hel 62.6 24 0.00052 34.6 6.8 62 168-238 242-303 (572)
52 COG4646 DNA methylase [Transcr 60.9 4.1 8.9E-05 38.7 1.1 24 24-47 478-501 (637)
53 TIGR00376 DNA helicase, putati 60.6 19 0.00042 35.8 5.8 56 167-229 183-238 (637)
54 PF01352 KRAB: KRAB box; Inte 60.3 9.2 0.0002 23.7 2.3 21 93-113 16-36 (41)
55 PLN00206 DEAD-box ATP-dependen 58.4 34 0.00074 33.0 7.0 65 168-238 350-414 (518)
56 KOG1123 RNA polymerase II tran 58.3 56 0.0012 31.8 8.1 61 165-237 523-583 (776)
57 COG1763 MobB Molybdopterin-gua 57.9 12 0.00027 30.4 3.3 27 165-191 10-36 (161)
58 KOG0333 U5 snRNP-like RNA heli 56.4 31 0.00067 33.6 6.1 65 165-238 499-563 (673)
59 PF13245 AAA_19: Part of AAA d 53.5 35 0.00075 23.9 4.7 39 167-211 20-62 (76)
60 KOG0335 ATP-dependent RNA heli 52.6 32 0.0007 33.0 5.6 68 165-239 310-384 (482)
61 COG5209 RCD1 Uncharacterized p 51.9 82 0.0018 27.5 7.4 72 158-235 50-123 (315)
62 PRK11776 ATP-dependent RNA hel 51.8 53 0.0012 30.9 7.1 63 168-239 227-289 (460)
63 PRK10824 glutaredoxin-4; Provi 49.1 1E+02 0.0022 23.6 6.9 56 185-242 14-69 (115)
64 PTZ00062 glutaredoxin; Provisi 47.4 1.1E+02 0.0024 25.8 7.6 67 174-243 102-168 (204)
65 cd03028 GRX_PICOT_like Glutare 46.6 70 0.0015 22.8 5.5 55 185-241 7-61 (90)
66 PF04364 DNA_pol3_chi: DNA pol 45.6 35 0.00076 26.8 4.1 47 171-223 15-63 (137)
67 COG1198 PriA Primosomal protei 45.5 89 0.0019 31.8 7.7 85 91-225 195-279 (730)
68 PRK10590 ATP-dependent RNA hel 44.3 81 0.0018 29.7 7.0 61 169-238 231-291 (456)
69 PF02492 cobW: CobW/HypB/UreG, 43.7 54 0.0012 26.6 5.1 55 165-227 8-62 (178)
70 cd04911 ACT_AKiii-YclM-BS_1 AC 42.4 10 0.00022 27.0 0.4 9 242-250 34-42 (76)
71 PF05971 Methyltransf_10: Prot 41.9 21 0.00045 32.2 2.4 64 162-229 224-291 (299)
72 KOG0330 ATP-dependent RNA heli 41.5 54 0.0012 30.8 5.0 59 172-239 289-347 (476)
73 PF04763 DUF562: Protein of un 40.0 66 0.0014 25.6 4.6 72 136-235 21-100 (146)
74 PRK13700 conjugal transfer pro 39.9 32 0.00069 34.8 3.6 29 166-194 194-222 (732)
75 PF10412 TrwB_AAD_bind: Type I 39.9 34 0.00073 31.8 3.6 56 166-234 24-79 (386)
76 COG5500 Predicted integral mem 39.1 20 0.00044 28.1 1.7 21 226-246 65-85 (159)
77 PF10490 CENP-F_C_Rb_bdg: Rb-b 36.9 8.9 0.00019 24.5 -0.5 11 70-80 32-42 (49)
78 COG1474 CDC6 Cdc6-related prot 36.8 3.4E+02 0.0074 25.0 10.2 155 69-234 56-224 (366)
79 cd01124 KaiC KaiC is a circadi 36.0 79 0.0017 25.2 4.9 45 167-219 9-53 (187)
80 TIGR01689 EcbF-BcbF capsule bi 35.0 94 0.002 24.2 4.9 47 175-222 30-83 (126)
81 TIGR00365 monothiol glutaredox 34.6 1.4E+02 0.003 21.8 5.6 56 185-242 11-66 (97)
82 PF03205 MobB: Molybdopterin g 34.3 55 0.0012 25.7 3.6 27 165-191 8-34 (140)
83 PRK05973 replicative DNA helic 34.1 91 0.002 27.0 5.2 46 167-220 74-119 (237)
84 cd00984 DnaB_C DnaB helicase C 34.1 1.4E+02 0.003 25.1 6.3 54 166-225 22-76 (242)
85 TIGR00595 priA primosomal prot 32.6 1.3E+02 0.0028 29.1 6.4 57 165-227 5-61 (505)
86 PRK08506 replicative DNA helic 31.9 81 0.0018 30.2 4.9 51 167-223 202-252 (472)
87 PF00265 TK: Thymidine kinase; 31.9 62 0.0013 26.6 3.6 32 165-196 9-40 (176)
88 PF14658 EF-hand_9: EF-hand do 30.0 22 0.00047 24.6 0.5 23 24-49 26-49 (66)
89 PRK11727 23S rRNA mA1618 methy 29.8 24 0.00052 32.1 0.9 65 162-230 234-302 (321)
90 cd01122 GP4d_helicase GP4d_hel 29.1 1.1E+02 0.0024 26.3 5.0 50 166-221 39-89 (271)
91 COG1435 Tdk Thymidine kinase [ 28.0 69 0.0015 27.1 3.2 32 165-196 12-43 (201)
92 cd00047 PTPc Protein tyrosine 27.9 30 0.00066 29.1 1.2 24 20-43 40-63 (231)
93 COG0467 RAD55 RecA-superfamily 27.3 1.4E+02 0.003 25.7 5.2 46 167-220 33-78 (260)
94 TIGR03172 probable selenium-de 27.2 66 0.0014 27.8 3.1 31 165-196 5-35 (232)
95 PTZ00424 helicase 45; Provisio 26.9 2.5E+02 0.0055 25.5 7.2 48 184-238 266-313 (401)
96 TIGR03158 cas3_cyano CRISPR-as 26.4 1.8E+02 0.0038 26.6 6.0 54 169-228 251-310 (357)
97 PF03796 DnaB_C: DnaB-like hel 25.8 1.4E+02 0.0031 25.5 5.1 57 166-228 28-85 (259)
98 PRK04296 thymidine kinase; Pro 25.5 88 0.0019 25.7 3.5 27 167-193 12-38 (190)
99 smart00194 PTPc Protein tyrosi 25.4 36 0.00078 29.3 1.2 63 124-216 176-241 (258)
100 cd01983 Fer4_NifH The Fer4_Nif 24.8 1.2E+02 0.0026 20.6 3.7 29 167-195 9-37 (99)
101 KOG0340 ATP-dependent RNA heli 24.8 2E+02 0.0043 26.9 5.7 70 165-241 233-303 (442)
102 PF07652 Flavi_DEAD: Flaviviru 24.6 75 0.0016 25.6 2.8 40 168-213 15-55 (148)
103 PRK11634 ATP-dependent RNA hel 24.4 2.5E+02 0.0055 27.9 7.0 62 168-238 230-291 (629)
104 TIGR02759 TraD_Ftype type IV c 24.4 85 0.0018 30.8 3.7 29 165-193 184-212 (566)
105 TIGR00176 mobB molybdopterin-g 24.2 1E+02 0.0023 24.5 3.6 28 165-192 7-34 (155)
106 PF13086 AAA_11: AAA domain; P 24.0 1.8E+02 0.0038 23.7 5.1 53 168-226 28-95 (236)
107 TIGR03880 KaiC_arch_3 KaiC dom 23.4 2.3E+02 0.005 23.6 5.8 45 167-219 26-70 (224)
108 KOG1805 DNA replication helica 22.9 1.6E+02 0.0036 30.9 5.3 58 165-229 693-750 (1100)
109 TIGR03600 phage_DnaB phage rep 22.6 1.6E+02 0.0035 27.4 5.0 51 166-222 203-254 (421)
110 PF13419 HAD_2: Haloacid dehal 22.5 1.2E+02 0.0026 23.3 3.6 43 174-225 82-126 (176)
111 PF06745 KaiC: KaiC; InterPro 22.0 1.7E+02 0.0037 24.4 4.7 46 167-220 29-75 (226)
112 TIGR03877 thermo_KaiC_1 KaiC d 21.8 2.2E+02 0.0048 24.1 5.4 44 167-218 31-74 (237)
113 PF05586 Ant_C: Anthrax recept 21.7 50 0.0011 24.2 1.1 16 27-42 53-68 (95)
114 cd03109 DTBS Dethiobiotin synt 21.1 1.3E+02 0.0029 23.1 3.6 27 168-194 10-36 (134)
115 PRK08006 replicative DNA helic 21.1 1.9E+02 0.0042 27.7 5.3 52 167-224 234-286 (471)
116 cd01427 HAD_like Haloacid deha 20.9 1.9E+02 0.0042 20.7 4.4 34 175-217 30-63 (139)
117 COG1936 Predicted nucleotide k 20.9 30 0.00064 28.7 -0.2 54 22-75 2-65 (180)
118 PRK06067 flagellar accessory p 20.5 2.9E+02 0.0063 23.2 5.9 42 166-213 34-75 (234)
119 TIGR00614 recQ_fam ATP-depende 20.2 3.6E+02 0.0077 25.5 6.9 58 174-238 213-272 (470)
120 COG5610 Predicted hydrolase (H 20.2 1.7E+02 0.0037 28.3 4.5 38 174-218 104-141 (635)
No 1
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=2.9e-54 Score=407.87 Aligned_cols=223 Identities=23% Similarity=0.205 Sum_probs=195.8
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC--cchhH-----HhhhHHhHHHHHHHHhhhh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDV--HRKDD-----LMVDAIDNLGSLKEKTSKY 74 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~--~~~~~-----~~~~~~~~~~~L~~~l~pf 74 (253)
-|||.++....-|+.+.+-.|++||||||||||.|||||++|+.|.-|. +.|.. ......+.+.+|+.+++||
T Consensus 300 RiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pF 379 (971)
T KOG0385|consen 300 RIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPF 379 (971)
T ss_pred hhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHHhhhhHH
Confidence 3899999999999999999999999999999999999999999995443 33332 1223345789999999999
Q ss_pred hhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhh-h
Q 047062 75 VAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQ-S 149 (253)
Q Consensus 75 ~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~-~ 149 (253)
+|||+|.+| |||+|.++||.||+.|+++|++++.+....+...++. ....++|++|+||+|||||||+++.+. +
T Consensus 380 lLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~-~k~kL~NI~mQLRKccnHPYLF~g~ePg~ 458 (971)
T KOG0385|consen 380 LLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKG-EKTKLQNIMMQLRKCCNHPYLFDGAEPGP 458 (971)
T ss_pred HHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccccc-hhhHHHHHHHHHHHhcCCccccCCCCCCC
Confidence 999999987 9999999999999999999999999888777665543 356899999999999999999999654 4
Q ss_pred hhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchH
Q 047062 150 LLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVR 229 (253)
Q Consensus 150 ~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r 229 (253)
.++.+.+ ++..||||.+|++||+.++++|||||||||||+ ||||+|+||.. +||.|.|+||||.-.
T Consensus 459 pyttdeh-------Lv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~------mLDILeDyc~~-R~y~ycRiDGSt~~e 524 (971)
T KOG0385|consen 459 PYTTDEH-------LVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTR------MLDILEDYCML-RGYEYCRLDGSTSHE 524 (971)
T ss_pred CCCcchH-------HHhcCcceehHHHHHHHHHhCCCeEEEeHHHHH------HHHHHHHHHHh-cCceeEeecCCCCcH
Confidence 4555444 489999999999999999999999999999999 99999999999 999999999999999
Q ss_pred HHHHHHhhhh
Q 047062 230 CIILALCYFW 239 (253)
Q Consensus 230 ~~~~~~~~~~ 239 (253)
-+.-|...|-
T Consensus 525 eR~~aI~~fn 534 (971)
T KOG0385|consen 525 EREDAIEAFN 534 (971)
T ss_pred HHHHHHHhcC
Confidence 8888887764
No 2
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=3.3e-51 Score=401.54 Aligned_cols=224 Identities=21% Similarity=0.234 Sum_probs=198.9
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCCcc--hhHH-hhhHHhHHHHHHHHhhhhhhhcc
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDVHR--KDDL-MVDAIDNLGSLKEKTSKYVAYGG 79 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~~~--~~~~-~~~~~~~~~~L~~~l~pf~LRRt 79 (253)
+||-.+....+|..++-.+|+++||||+|||+.|||||++|+.|+.|... |... .......+..|++.|+||||||.
T Consensus 509 LkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~~~e~~~~~L~~~L~P~~lRr~ 588 (1373)
T KOG0384|consen 509 LKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDEETEEQVRKLQQILKPFLLRRL 588 (1373)
T ss_pred cCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcchhHHHHHHHHHHhhHHHHHHH
Confidence 58899999999999999999999999999999999999999999987643 3332 23345679999999999999999
Q ss_pred CCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhh-
Q 047062 80 KLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKD- 154 (253)
Q Consensus 80 K~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~- 154 (253)
|+|| |+|.|.++.|+||+.|+++|+.++.+++..+.+|.++.. .+++|+++.||+|||||||+.++++.-...-
T Consensus 589 kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~-~~lLNimmELkKccNHpyLi~gaee~~~~~~~ 667 (1373)
T KOG0384|consen 589 KKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGST-PSLLNIMMELKKCCNHPYLIKGAEEKILGDFR 667 (1373)
T ss_pred HhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCC-chHHHHHHHHHHhcCCccccCcHHHHHHHhhh
Confidence 9998 889999999999999999999999999999999887776 7899999999999999999999866543221
Q ss_pred -hhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHH
Q 047062 155 -LELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIIL 233 (253)
Q Consensus 155 -~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~ 233 (253)
...++.++.+|.+|||+.+||+||.+|++.|||||||||+++ |||||++||.. +||.|+||||++.---+..
T Consensus 668 ~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVR------mLDIL~eYL~~-r~ypfQRLDGsvrgelRq~ 740 (1373)
T KOG0384|consen 668 DKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVR------MLDILAEYLSL-RGYPFQRLDGSVRGELRQQ 740 (1373)
T ss_pred hcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHH------HHHHHHHHHHH-cCCcceeccCCcchHHHHH
Confidence 234578899999999999999999999999999999999999 99999999999 9999999999987655444
Q ss_pred H
Q 047062 234 A 234 (253)
Q Consensus 234 ~ 234 (253)
|
T Consensus 741 A 741 (1373)
T KOG0384|consen 741 A 741 (1373)
T ss_pred H
Confidence 4
No 3
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=2.9e-47 Score=361.71 Aligned_cols=221 Identities=20% Similarity=0.153 Sum_probs=184.4
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCC-------------------CCCcchhHHhhhHHhH
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESR-------------------GDVHRKDDLMVDAIDN 63 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~-------------------~~~~~~~~~~~~~~~~ 63 (253)
|+|++|+++.||+++|...||+||||||||||.|||+||+|+.|| ++.++.......+++.
T Consensus 349 IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykc 428 (923)
T KOG0387|consen 349 IRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKC 428 (923)
T ss_pred ccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHH
Confidence 899999999999999999999999999999999999999999995 2334444455566778
Q ss_pred HHHHHHHhhhhhhhccCCCC-----CCceEEEEeecCCHHHHHHHHHHHHhcccc-ccCCCCCCCcchHHHHHHHHHHHc
Q 047062 64 LGSLKEKTSKYVAYGGKLDS-----SRFVEYWIPVQISNVQLEQYCGTLLSKSLS-LCSPLKNDPVGVLHDILISARKCC 137 (253)
Q Consensus 64 ~~~L~~~l~pf~LRRtK~dv-----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~-l~~~~~~~~~~~ll~~L~~LRqiC 137 (253)
...|+.+|.||+|||+|+|| |+|.|.||+|.||+.|+++|+.++...... +-.+. .+.+..+..||++|
T Consensus 429 a~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~i~ng~-----~~~l~Gi~iLrkIC 503 (923)
T KOG0387|consen 429 AVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNKILNGK-----RNCLSGIDILRKIC 503 (923)
T ss_pred HHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHHHHcCC-----ccceechHHHHhhc
Confidence 88999999999999999976 999999999999999999999998644321 22221 24667788999999
Q ss_pred CCccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCC
Q 047062 138 DHPYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGV 217 (253)
Q Consensus 138 nHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~ 217 (253)
|||.|+....+....... ....+..|||+.++..+|..++.+|+|||+|||... ||||||.+|....||
T Consensus 504 nHPdll~~~~~~~~~~~D-----~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~------mLdilE~fL~~~~~y 572 (923)
T KOG0387|consen 504 NHPDLLDRRDEDEKQGPD-----YEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQ------MLDILESFLRRAKGY 572 (923)
T ss_pred CCcccccCcccccccCCC-----cCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHH------HHHHHHHHHHhcCCc
Confidence 999999885322211111 112378899999999999999999999999999999 999999999933899
Q ss_pred CceeeecCCchHHHHHHHhhhh
Q 047062 218 SPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 218 ~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
+|.|+||+|+.-.+.-.+--|-
T Consensus 573 sylRmDGtT~~~~R~~lVd~Fn 594 (923)
T KOG0387|consen 573 SYLRMDGTTPAALRQKLVDRFN 594 (923)
T ss_pred eEEEecCCCccchhhHHHHhhc
Confidence 9999999999988887776664
No 4
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=3.4e-43 Score=333.74 Aligned_cols=229 Identities=16% Similarity=0.121 Sum_probs=179.8
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCCcchh----------------HHhhhHHhHHHH
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDVHRKD----------------DLMVDAIDNLGS 66 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~~~~~----------------~~~~~~~~~~~~ 66 (253)
.||..|+.-+-|..++|.-|++|||||+||||.|||||+.|+.|.-|..... +......+++.+
T Consensus 536 LKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~~l~qerIsr 615 (941)
T KOG0389|consen 536 LKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENALLSQERISR 615 (941)
T ss_pred hhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhhHHHHHHHHHHH
Confidence 5888999999999999999999999999999999999999999954432111 112233467899
Q ss_pred HHHHhhhhhhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccC
Q 047062 67 LKEKTSKYVAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYL 142 (253)
Q Consensus 67 L~~~l~pf~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L 142 (253)
.+.++.||+|||.|++| |||+..+.+|+|++.|+++|..+.......+..-+++..... -+.+|+||+++|||.|
T Consensus 616 AK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~-~~vlmqlRK~AnHPLL 694 (941)
T KOG0389|consen 616 AKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKS-GNVLMQLRKAANHPLL 694 (941)
T ss_pred HHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhcccccccccccc-chHHHHHHHHhcChhH
Confidence 99999999999999976 999999999999999999999888765433332222211111 4689999999999999
Q ss_pred cchhhhhh--------------h--hhhhhHHHHh------------------------hhhhhcCcHHHHHHHHHHHHH
Q 047062 143 VDKSLQSL--------------L--VKDLELAEYL------------------------DVGVKASGKLQLLDTMLSELK 182 (253)
Q Consensus 143 ~~~~~~~~--------------~--~~~~~~~~~~------------------------~~li~~SgKl~~L~~lL~~l~ 182 (253)
++....+. + .+...+.|.. +.+|..|||...|+.||++++
T Consensus 695 ~R~~Y~de~L~~mak~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k 774 (941)
T KOG0389|consen 695 FRSIYTDEKLRKMAKRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIK 774 (941)
T ss_pred HHHhccHHHHHHHHHHHhCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhHhHHHHHHHHHh
Confidence 76532111 1 1111111211 123788999999999999999
Q ss_pred cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 183 NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 183 ~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
.+|||||||||||. ||||+|.+|.. .||+|.|+||+|+|--++-.+--|-
T Consensus 775 ~~G~RVLiFSQFTq------mLDILE~~L~~-l~~~ylRLDGsTqV~~RQ~lId~Fn 824 (941)
T KOG0389|consen 775 KKGDRVLIFSQFTQ------MLDILEVVLDT-LGYKYLRLDGSTQVNDRQDLIDEFN 824 (941)
T ss_pred hcCCEEEEeeHHHH------HHHHHHHHHHh-cCceEEeecCCccchHHHHHHHhhc
Confidence 99999999999999 99999999998 9999999999999987776655553
No 5
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=3.2e-44 Score=347.22 Aligned_cols=226 Identities=19% Similarity=0.151 Sum_probs=187.4
Q ss_pred CCcchHHHHHhhcc-hhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC------cchhHH-----------hhhHHhH
Q 047062 2 DIDSTKQEILFSLP-TSREKLDGELCDASIAKQTTEYHNMPSLHESRGDV------HRKDDL-----------MVDAIDN 63 (253)
Q Consensus 2 ~i~~~k~~~~~~~~-~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~------~~~~~~-----------~~~~~~~ 63 (253)
.|||+-++.+..+. .-+++.|++|||||+||+|.|||+|++|+-|.-|- .+|..- ..+..-.
T Consensus 526 RmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~eLteEEtlLI 605 (1157)
T KOG0386|consen 526 RMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVELTEEETLLI 605 (1157)
T ss_pred cccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCcccccchHHHHH
Confidence 48999999999888 88999999999999999999999999999994221 223221 1222345
Q ss_pred HHHHHHHhhhhhhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCC
Q 047062 64 LGSLKEKTSKYVAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDH 139 (253)
Q Consensus 64 ~~~L~~~l~pf~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnH 139 (253)
+.+|+++++||+|||.|++| |+|+|+++.|.||..|+.+|..+................+..+++.++.||+||||
T Consensus 606 IrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k~L~N~imqLRKiCNH 685 (1157)
T KOG0386|consen 606 IRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYKPLFNTIMQLRKLCNH 685 (1157)
T ss_pred HHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccchhhhhHhHHHHHhcCC
Confidence 78999999999999999987 99999999999999999999988754443333323445566899999999999999
Q ss_pred ccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCc
Q 047062 140 PYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSP 219 (253)
Q Consensus 140 P~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~ 219 (253)
||++...+......- .. ..+++.|||+.+|+.+|+++++.|||||+|||+|+ ++||+|+||.. .+|.|
T Consensus 686 P~lf~~ve~~~~~~~-~~----~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTr------lmdimEdyL~~-~~~kY 753 (1157)
T KOG0386|consen 686 PYLFANVENSYTLHY-DI----KDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTR------LMDILEDYLQI-REYKY 753 (1157)
T ss_pred chhhhhhcccccccc-Ch----hHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHH------HHHHHHHHHhh-hhhhe
Confidence 999977643321111 11 34599999999999999999999999999999999 99999999999 99999
Q ss_pred eeeecCCchHHHHHHHhhhh
Q 047062 220 EVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 220 ~rl~g~t~~r~~~~~~~~~~ 239 (253)
.|+||+|.++-+...+..|-
T Consensus 754 lRLDG~TK~~eRg~ll~~FN 773 (1157)
T KOG0386|consen 754 LRLDGQTKVEERGDLLEIFN 773 (1157)
T ss_pred eeecCCcchhhHHHHHHHhc
Confidence 99999999999998887774
No 6
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=3.8e-42 Score=337.15 Aligned_cols=231 Identities=16% Similarity=0.083 Sum_probs=184.5
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCC------C-------------cchhHHhhhHHhH
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGD------V-------------HRKDDLMVDAIDN 63 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~------~-------------~~~~~~~~~~~~~ 63 (253)
|||.|+..+.+++++|+.+|++|||||||||..||||||||+.||.- . .........+..+
T Consensus 1112 ikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lA 1191 (1549)
T KOG0392|consen 1112 IKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLA 1191 (1549)
T ss_pred ecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHH
Confidence 89999999999999999999999999999999999999999999721 1 1222234455677
Q ss_pred HHHHHHHhhhhhhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhcccc----ccCCCCCC--CcchHHHHHHHH
Q 047062 64 LGSLKEKTSKYVAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLS----LCSPLKND--PVGVLHDILISA 133 (253)
Q Consensus 64 ~~~L~~~l~pf~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~----l~~~~~~~--~~~~ll~~L~~L 133 (253)
++.|++.+-||||||+|+|| |||+....||+|+|.|+++|+.+..+.... ...+.... ..+++++.|..|
T Consensus 1192 leaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYl 1271 (1549)
T KOG0392|consen 1192 LEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYL 1271 (1549)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHH
Confidence 89999999999999999976 999999999999999999999988762211 11111111 267899999999
Q ss_pred HHHcCCccCcchhhhhhhhh-hhhHHHHhhhh--hhcCcHHHHHHHHHHHHH--------------cCCCeEEEEccccc
Q 047062 134 RKCCDHPYLVDKSLQSLLVK-DLELAEYLDVG--VKASGKLQLLDTMLSELK--------------NQGSRVIILFQILI 196 (253)
Q Consensus 134 RqiCnHP~L~~~~~~~~~~~-~~~~~~~~~~l--i~~SgKl~~L~~lL~~l~--------------~~g~KvLIFSq~~~ 196 (253)
|+.||||.|+..+..+.... ..+.......+ ++.|+|+.+|.++|.+|- ..|||||||+||..
T Consensus 1272 rKLcnHpaLvlt~~hp~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~ 1351 (1549)
T KOG0392|consen 1272 RKLCNHPALVLTPVHPDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKS 1351 (1549)
T ss_pred HHhcCCcceeeCCCcchHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHH
Confidence 99999999998853322211 11111111122 789999999999999982 25899999999999
Q ss_pred cccchHHHHHHHHHHhcC--CCCCceeeecCCchHHHHHHHhhhh
Q 047062 197 IRAKVCENEILGYCISLG--PGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 197 ~~~~~~~Ldile~~l~~~--~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
|+|++|.-|-.. +.+.|.|+|||.+.+.|.-.+.-|-
T Consensus 1352 ------mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN 1390 (1549)
T KOG0392|consen 1352 ------MLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFN 1390 (1549)
T ss_pred ------HHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhc
Confidence 999999877533 8999999999999999998888774
No 7
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=4.6e-41 Score=336.67 Aligned_cols=222 Identities=19% Similarity=0.152 Sum_probs=188.4
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCCc--chhHHh-----hhHHhHHHHHHHHhhhh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDVH--RKDDLM-----VDAIDNLGSLKEKTSKY 74 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~~--~~~~~~-----~~~~~~~~~L~~~l~pf 74 (253)
.|||..++.+++++.+++..||+|||||+||++.|||+|++||.|+.+.+ .|.... ......+.+|+.+++||
T Consensus 302 rIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~~L~~~L~pf 381 (1033)
T PLN03142 302 RIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLHKVLRPF 381 (1033)
T ss_pred ccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHHHHHHHhhHH
Confidence 48999999999999999999999999999999999999999999985543 233221 22345678999999999
Q ss_pred hhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhh
Q 047062 75 VAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSL 150 (253)
Q Consensus 75 ~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~ 150 (253)
||||+|.+| |+|.+.+|+|+||+.|+++|+.++.+....+..+. ....+++.+++||+|||||+|+.......
T Consensus 382 ~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g~---~~~~LlnilmqLRk~cnHP~L~~~~ep~~ 458 (1033)
T PLN03142 382 LLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAGG---ERKRLLNIAMQLRKCCNHPYLFQGAEPGP 458 (1033)
T ss_pred HhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHhccc---cHHHHHHHHHHHHHHhCCHHhhhcccccC
Confidence 999999976 99999999999999999999999977665554332 33468999999999999999988754321
Q ss_pred hhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHH
Q 047062 151 LVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRC 230 (253)
Q Consensus 151 ~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~ 230 (253)
.. .....++..|||+.+|+.+|+++...|+||||||||+. |+|+|+++|.. .||.|.|+||+|+...
T Consensus 459 ~~------~~~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~------~LdiLed~L~~-~g~~y~rIdGsts~~e 525 (1033)
T PLN03142 459 PY------TTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTR------LLDILEDYLMY-RGYQYCRIDGNTGGED 525 (1033)
T ss_pred cc------cchhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHH------HHHHHHHHHHH-cCCcEEEECCCCCHHH
Confidence 11 11234588999999999999999999999999999999 99999999998 8999999999999988
Q ss_pred HHHHHhhhh
Q 047062 231 IILALCYFW 239 (253)
Q Consensus 231 ~~~~~~~~~ 239 (253)
+.-++..|-
T Consensus 526 Rq~~Id~Fn 534 (1033)
T PLN03142 526 RDASIDAFN 534 (1033)
T ss_pred HHHHHHHhc
Confidence 888888883
No 8
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=1.5e-41 Score=330.62 Aligned_cols=139 Identities=16% Similarity=0.099 Sum_probs=116.5
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCC------CCCcchhH--------HhhhHHhHHHHH
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESR------GDVHRKDD--------LMVDAIDNLGSL 67 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~------~~~~~~~~--------~~~~~~~~~~~L 67 (253)
||||-|++--+||-.+++++|++|||||+||+|.||||||+|+.|. .|..+|.. ...-...-+.+|
T Consensus 748 nIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmiEgsqeyn~klV~RL 827 (1958)
T KOG0391|consen 748 NIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMIEGSQEYNHKLVIRL 827 (1958)
T ss_pred hhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhcccchhhchHHHHHH
Confidence 8999999999999999999999999999999999999999999993 22233332 112223567899
Q ss_pred HHHhhhhhhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccC
Q 047062 68 KEKTSKYVAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYL 142 (253)
Q Consensus 68 ~~~l~pf~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L 142 (253)
+++++||+|||+|.|| |+|+|++|+|.||..||.+|+.++.+... ....+.+....++++||+||+|||||.|
T Consensus 828 HkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~T--KetLkSGhfmsVlnilmqLrKvCNHPnL 904 (1958)
T KOG0391|consen 828 HKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGT--KETLKSGHFMSVLNILMQLRKVCNHPNL 904 (1958)
T ss_pred HHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccch--hhHhhcCchhHHHHHHHHHHHHcCCCCc
Confidence 9999999999999987 99999999999999999999999865432 1223344556899999999999999999
No 9
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=5.3e-38 Score=295.40 Aligned_cols=208 Identities=18% Similarity=0.156 Sum_probs=163.1
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCC--Ccch----hHH--------hhhHHhHHHHHH
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGD--VHRK----DDL--------MVDAIDNLGSLK 68 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~--~~~~----~~~--------~~~~~~~~~~L~ 68 (253)
||+.-|..-+.|-..+|+.|++||||||||+..|||+|++||.|.-| .++| ... .......+.+|+
T Consensus 707 IKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFSKdIEshAe~~~tlneqqL~RLH 786 (1185)
T KOG0388|consen 707 IKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFSKDIESHAEMNTTLNEQQLQRLH 786 (1185)
T ss_pred hhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHhhhhHhHHHhcCCcCHHHHHHHH
Confidence 77888888888888999999999999999999999999999999533 2333 322 123446789999
Q ss_pred HHhhhhhhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcc
Q 047062 69 EKTSKYVAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVD 144 (253)
Q Consensus 69 ~~l~pf~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~ 144 (253)
.+++||||||.|+|| -.|+|..|+|.||..|+.+|+.+-.+.. ...+..++++||++||||.|+.
T Consensus 787 ~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS-----------~~E~~~~vmQlrKVCNHPdLFe 855 (1185)
T KOG0388|consen 787 AILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSIS-----------SMEMENLVMQLRKVCNHPDLFE 855 (1185)
T ss_pred HHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhh-----------HHHHHHHHHHHHHhcCChHHHh
Confidence 999999999999987 5699999999999999999987764332 1234468999999999999832
Q ss_pred hhhhhhh-------------------------------------------------------------------------
Q 047062 145 KSLQSLL------------------------------------------------------------------------- 151 (253)
Q Consensus 145 ~~~~~~~------------------------------------------------------------------------- 151 (253)
..+..+.
T Consensus 856 r~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G 935 (1185)
T KOG0388|consen 856 RLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYG 935 (1185)
T ss_pred hcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcCCCcchhcccceeeeccC
Confidence 2110000
Q ss_pred ------hhhhhH--------------------------------------------------------------------
Q 047062 152 ------VKDLEL-------------------------------------------------------------------- 157 (253)
Q Consensus 152 ------~~~~~~-------------------------------------------------------------------- 157 (253)
..+...
T Consensus 936 ~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead~PeId~E~~~~pLn~~i 1015 (1185)
T KOG0388|consen 936 GYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEADLPEIDLENRHIPLNTTI 1015 (1185)
T ss_pred CcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccCCCCCCccccCcccccce
Confidence 000000
Q ss_pred -HHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCch
Q 047062 158 -AEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIV 228 (253)
Q Consensus 158 -~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~ 228 (253)
....+..+..|||+..||.+|.+++++|||||+|.|+|+ |+||+|+||.+ +||.|.|+|||...
T Consensus 1016 ~~Ppm~~FitdSgKL~~LDeLL~kLkaegHRvL~yfQMTk------M~dl~EdYl~y-r~Y~ylRLDGSsk~ 1080 (1185)
T KOG0388|consen 1016 YVPPMNTFITDSGKLVVLDELLPKLKAEGHRVLMYFQMTK------MIDLIEDYLVY-RGYTYLRLDGSSKA 1080 (1185)
T ss_pred ecCcHHhhhccccceeeHHHHHHHhhcCCceEEehhHHHH------HHHHHHHHHHh-hccceEEecCcchh
Confidence 000111266699999999999999999999999999999 99999999999 99999999999753
No 10
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=1.5e-36 Score=291.29 Aligned_cols=222 Identities=22% Similarity=0.171 Sum_probs=189.2
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC--cchhHHhhh--HHhHHHHHHHHhhhhhhhc
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDV--HRKDDLMVD--AIDNLGSLKEKTSKYVAYG 78 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~--~~~~~~~~~--~~~~~~~L~~~l~pf~LRR 78 (253)
|||-.|+.+..+..--.-.+..|||||+|||++||+++|+|+.|+.+- .+|.+...+ ..+.++.|+.++.|.||||
T Consensus 448 lkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d~~~~~~~~~l~~l~~p~~lrr 527 (696)
T KOG0383|consen 448 LKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHDISCEEQIKKLHLLLCPHMLRR 527 (696)
T ss_pred cccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcchhhHHHHHHhhccccCchhhhh
Confidence 688889999999999999999999999999999999999999998554 455554332 3467899999999999999
Q ss_pred cCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhh
Q 047062 79 GKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKD 154 (253)
Q Consensus 79 tK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~ 154 (253)
.|.|| |.|+|.++.+.|++.|+++|+.++.++...+.++ ...-.++++++.|||+|||||++... ++..
T Consensus 528 ~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~~---~~~~s~~n~~mel~K~~~hpy~~~~~-e~~~--- 600 (696)
T KOG0383|consen 528 LKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLAG---VHQYSLLNIVMELRKQCNHPYLSPLE-EPLE--- 600 (696)
T ss_pred hhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCChHHHhhc---chhHHHHHHHHHHHHhhcCcccCccc-cccc---
Confidence 99987 8899999999999999999999999999887763 22335789999999999999999882 2221
Q ss_pred hhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHH
Q 047062 155 LELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILA 234 (253)
Q Consensus 155 ~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~ 234 (253)
.........++.+|||+.+|..|++++++.||||+|||||+. ||||+|+++++ .| .|+|+||+...-.++.|
T Consensus 601 ~~~~~~~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~------~ldlled~~~~-~~-~~~r~dG~~~~~~rq~a 672 (696)
T KOG0383|consen 601 ENGEYLGSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIH------MLDLLEDYLTY-EG-KYERIDGPITGPERQAA 672 (696)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHH------HHHHhHHHHhc-cC-cceeccCCccchhhhhh
Confidence 122223455699999999999999999999999999999999 99999999999 78 99999999888777777
Q ss_pred Hhhhh
Q 047062 235 LCYFW 239 (253)
Q Consensus 235 ~~~~~ 239 (253)
.-.|.
T Consensus 673 i~~~n 677 (696)
T KOG0383|consen 673 IDRFN 677 (696)
T ss_pred ccccC
Confidence 65554
No 11
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=3.8e-35 Score=282.28 Aligned_cols=229 Identities=17% Similarity=0.087 Sum_probs=175.9
Q ss_pred CcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCC-------------------CCCcchhHHhhhHHhH
Q 047062 3 IDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESR-------------------GDVHRKDDLMVDAIDN 63 (253)
Q Consensus 3 i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~-------------------~~~~~~~~~~~~~~~~ 63 (253)
|||+|+.+++||.++|+++||+|||||+||||.|||||++|+.|+ +..++..........+
T Consensus 833 LKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvNpI~nGq~~dST~~DVr~Mk~R 912 (1567)
T KOG1015|consen 833 LKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVNPIQNGQCADSTMVDVRVMKKR 912 (1567)
T ss_pred hccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcCccccCccCCCcHHHHHHHHHH
Confidence 799999999999999999999999999999999999999999994 2223334455566778
Q ss_pred HHHHHHHhhhhhhhc----cCCCCCCceEEEEeecCCHHHHHHHHHHHHhccccccCC--CCCCCcchHHHHHHHHHHHc
Q 047062 64 LGSLKEKTSKYVAYG----GKLDSSRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSP--LKNDPVGVLHDILISARKCC 137 (253)
Q Consensus 64 ~~~L~~~l~pf~LRR----tK~dvP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~--~~~~~~~~ll~~L~~LRqiC 137 (253)
...|.+.|+.++-|+ .+..+|||+||||++.||+.|..+|..++. +....-.. +..+....+|.....|++|+
T Consensus 913 sHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~-h~~~~G~d~eg~~g~~arlf~dfqmlsrIw 991 (1567)
T KOG1015|consen 913 SHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLD-HLTGVGNDSEGGRGAGARLFQDFQMLSRIW 991 (1567)
T ss_pred HHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHh-hccccCCccccccchhhhHHHHHHHHHHHh
Confidence 889999999999998 445779999999999999999999999996 32221111 11123457999999999999
Q ss_pred CCccCcchhhhhh-------------h--------------------------------------hh-------------
Q 047062 138 DHPYLVDKSLQSL-------------L--------------------------------------VK------------- 153 (253)
Q Consensus 138 nHP~L~~~~~~~~-------------~--------------------------------------~~------------- 153 (253)
+|||.++-..... . +.
T Consensus 992 tHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss~~~~~g~~ev~k~k~rk~r 1071 (1567)
T KOG1015|consen 992 THPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSSGSGSDGDVEVIKVKNRKSR 1071 (1567)
T ss_pred cCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccccccccccccccccccCCchhhhhhhhhhcc
Confidence 9999721100000 0 00
Q ss_pred --------------h-----------------hhHHHHhh--------hhhhcCcHHHHHHHHHHHHHcCCCeEEEEccc
Q 047062 154 --------------D-----------------LELAEYLD--------VGVKASGKLQLLDTMLSELKNQGSRVIILFQI 194 (253)
Q Consensus 154 --------------~-----------------~~~~~~~~--------~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~ 194 (253)
+ ....++.. ..+..||||.+|.+||..+.+-|+|+|||||+
T Consensus 1072 ~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGDKlLVFSQS 1151 (1567)
T KOG1015|consen 1072 GGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGDKLLVFSQS 1151 (1567)
T ss_pred ccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcceeEEeecc
Confidence 0 00000111 12567999999999999999999999999999
Q ss_pred cccccchHHHHHHHHHHhcC---------------------CCCCceeeecCCchHHHHHHHhhh
Q 047062 195 LIIRAKVCENEILGYCISLG---------------------PGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 195 ~~~~~~~~~Ldile~~l~~~---------------------~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
.. .||+||++|++. .|..|-||||+|.+-.+-.-...|
T Consensus 1152 L~------SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~F 1210 (1567)
T KOG1015|consen 1152 LI------SLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEF 1210 (1567)
T ss_pred cc------hhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHh
Confidence 99 999999999842 467899999999998776655555
No 12
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=6.8e-33 Score=261.10 Aligned_cols=231 Identities=13% Similarity=0.036 Sum_probs=177.1
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcC--CCCCcchhHH-hhhHHhHHHHHHHHhhhhhhhc
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHES--RGDVHRKDDL-MVDAIDNLGSLKEKTSKYVAYG 78 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P--~~~~~~~~~~-~~~~~~~~~~L~~~l~pf~LRR 78 (253)
||+|.++|.+.|+|+++++.||||||||||||+.|+|||+.|++- ++....+.+. .........+|.-++++.||||
T Consensus 474 ~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s~~g~~rlnll~K~LmLRR 553 (901)
T KOG4439|consen 474 NIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMSKGGANRLNLLTKSLMLRR 553 (901)
T ss_pred hhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCccccchhhhhhhhhhHHhhh
Confidence 799999999999999999999999999999999999999999995 4444444443 3344556788999999999999
Q ss_pred cCCCC---------CCceEEEEeecCCHHHHHHHHHHHHhccccc-----------------------------------
Q 047062 79 GKLDS---------SRFVEYWIPVQISNVQLEQYCGTLLSKSLSL----------------------------------- 114 (253)
Q Consensus 79 tK~dv---------P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l----------------------------------- 114 (253)
||+++ |.|...++.++|+..+...|+-+.......+
T Consensus 554 TKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~ 633 (901)
T KOG4439|consen 554 TKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNI 633 (901)
T ss_pred hHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhhhhhccccCccccchhccccccccccccc
Confidence 99853 8899999999999999999976653322111
Q ss_pred -----cCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhh-------hhHH------------------------
Q 047062 115 -----CSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKD-------LELA------------------------ 158 (253)
Q Consensus 115 -----~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~-------~~~~------------------------ 158 (253)
+.++......++|.+|++|||+|+||.+...+.++..... +...
T Consensus 634 ~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~sde~~~e~~~l~el~k~~~T~~~~D~~ed~ 713 (901)
T KOG4439|consen 634 GPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDSDEEQLEEDNLAELEKNDETDCSDDNCEDL 713 (901)
T ss_pred cchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchhhhhhhhhhHHHhhhhcccccccccccccc
Confidence 0111112234589999999999999988655432221100 0000
Q ss_pred -----HHhhhhhhcCcHHHHHHHHHHHH-HcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHH
Q 047062 159 -----EYLDVGVKASGKLQLLDTMLSEL-KNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCII 232 (253)
Q Consensus 159 -----~~~~~li~~SgKl~~L~~lL~~l-~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~ 232 (253)
..+=.....|+|+.....+++.+ ....+|++|.||||+ +|++++..+.. .|+.|.-++|+..+..++
T Consensus 714 p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwts------vLniv~~hi~~-~g~~y~si~Gqv~vK~Rq 786 (901)
T KOG4439|consen 714 PTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTS------VLNIVRKHIQK-GGHIYTSITGQVLVKDRQ 786 (901)
T ss_pred cccchhhhcccccchhHHHHHHHHHHHHhhcccceeeehhHHHH------HHHHHHHHHhh-CCeeeeeecCccchhHHH
Confidence 00001144699999999999988 678899999999999 99999999998 999999999999998887
Q ss_pred HHHhhhh
Q 047062 233 LALCYFW 239 (253)
Q Consensus 233 ~~~~~~~ 239 (253)
--|-.|-
T Consensus 787 ~iv~~FN 793 (901)
T KOG4439|consen 787 EIVDEFN 793 (901)
T ss_pred HHHHHHH
Confidence 7666663
No 13
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=99.98 E-value=4.3e-32 Score=262.69 Aligned_cols=224 Identities=16% Similarity=0.115 Sum_probs=172.8
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCC--CCcchh-----------------HHhhhHHh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRG--DVHRKD-----------------DLMVDAID 62 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~--~~~~~~-----------------~~~~~~~~ 62 (253)
+.||..+.+.++|..++..+|++|||||+|||+.||||+++|++|+. ...+|. +.... .+
T Consensus 387 rlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e~~~~-~~ 465 (776)
T KOG0390|consen 387 RLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEEDRER-EE 465 (776)
T ss_pred CccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchhhhhh-HH
Confidence 46899999999999999999999999999999999999999999952 111111 11111 45
Q ss_pred HHHHHHHHhhhhhhhccCCC----CCCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcC
Q 047062 63 NLGSLKEKTSKYVAYGGKLD----SSRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCD 138 (253)
Q Consensus 63 ~~~~L~~~l~pf~LRRtK~d----vP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCn 138 (253)
++++|+.++.+|++||+-+. +|.|.|++|+|.+|+.|+++|+.++... . . ....+..+..++.|.++||
T Consensus 466 rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~--~----~~~~~~~l~~~~~L~k~cn 538 (776)
T KOG0390|consen 466 RLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-K--M----RTLKGYALELITKLKKLCN 538 (776)
T ss_pred HHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH-H--h----hhhhcchhhHHHHHHHHhc
Confidence 58999999999999998853 5999999999999999999999988643 1 1 1111236788999999999
Q ss_pred CccCcchhhh-hh---h-----hhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCC-CeEEEEccccccccchHHHHHHH
Q 047062 139 HPYLVDKSLQ-SL---L-----VKDLELAEYLDVGVKASGKLQLLDTMLSELKNQG-SRVIILFQILIIRAKVCENEILG 208 (253)
Q Consensus 139 HP~L~~~~~~-~~---~-----~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g-~KvLIFSq~~~~~~~~~~Ldile 208 (253)
||+|+..... .. . ..+............-|||+..|+.|+...+++. .|+++.|+|+. +||++|
T Consensus 539 hP~L~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~------tldl~e 612 (776)
T KOG0390|consen 539 HPSLLLLCEKTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQ------TLDLFE 612 (776)
T ss_pred CHHhhcccccccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHH------HHHHHH
Confidence 9999852111 00 0 0000000001111345999999999998887664 59999999999 999999
Q ss_pred HHHhcCCCCCceeeecCCchHHHHHHHhhhhh
Q 047062 209 YCISLGPGVSPEVVVSPTIVRCIILALCYFWG 240 (253)
Q Consensus 209 ~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~ 240 (253)
..|.. .||.++||||+|+..+|.-.+=.|--
T Consensus 613 ~~~~~-~g~~~~rLdG~~~~~qRq~~vd~FN~ 643 (776)
T KOG0390|consen 613 QLCRW-RGYEVLRLDGKTSIKQRQKLVDTFND 643 (776)
T ss_pred HHHhh-cCceEEEEcCCCchHHHHHHHHhccC
Confidence 99999 69999999999999999988877743
No 14
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=99.97 E-value=5.1e-32 Score=270.82 Aligned_cols=231 Identities=19% Similarity=0.137 Sum_probs=183.2
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhh-hhcCCCCCcc---hhHHhh-------------hHHhHH
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPS-LHESRGDVHR---KDDLMV-------------DAIDNL 64 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~-Fl~P~~~~~~---~~~~~~-------------~~~~~~ 64 (253)
+|||..++..++++.+++..|++|||||+||++.|||++++ |+.|+.+... |..... .....+
T Consensus 483 ~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~ 562 (866)
T COG0553 483 RIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIGPLEARELGI 562 (866)
T ss_pred HHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhhcccccchhhHHHHH
Confidence 48999999999999999999999999999999999999999 9999866532 332211 112345
Q ss_pred HHHHHHhhhhhhhccCCC--C----CCceEEEEeecCCHHHHHHHHHHHH---hccccccCCCCCC--------CcchHH
Q 047062 65 GSLKEKTSKYVAYGGKLD--S----SRFVEYWIPVQISNVQLEQYCGTLL---SKSLSLCSPLKND--------PVGVLH 127 (253)
Q Consensus 65 ~~L~~~l~pf~LRRtK~d--v----P~K~e~vV~~~Ls~~Qr~lY~~~l~---~~~~~l~~~~~~~--------~~~~ll 127 (253)
.+|++.++||+|||+|.+ | |+|.+.+++|+|++.|+++|+.... .....+....... ....++
T Consensus 563 ~~l~~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 642 (866)
T COG0553 563 ELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEKADSDENRIGDSELNIL 642 (866)
T ss_pred HHHHHHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccchhhHHH
Confidence 559999999999999998 5 9999999999999999999999887 4333332211111 255789
Q ss_pred HHHHHHHHHcCCccCcchh-hhhhhhhh------hhHHHHhhhhhhcC-cHHHHHHHHH-HHHHcCCC--eEEEEccccc
Q 047062 128 DILISARKCCDHPYLVDKS-LQSLLVKD------LELAEYLDVGVKAS-GKLQLLDTML-SELKNQGS--RVIILFQILI 196 (253)
Q Consensus 128 ~~L~~LRqiCnHP~L~~~~-~~~~~~~~------~~~~~~~~~li~~S-gKl~~L~~lL-~~l~~~g~--KvLIFSq~~~ 196 (253)
+.+++||++||||.++... ........ .........++..| ||+..+++++ ..+..+|+ ||||||||+.
T Consensus 643 ~~~~~lr~~~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~ 722 (866)
T COG0553 643 ALLTRLRQICNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTP 722 (866)
T ss_pred HHHHHHHHhccCccccccccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHH
Confidence 9999999999999999886 22111000 01112233457889 9999999999 89999999 9999999999
Q ss_pred cccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 197 IRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 197 ~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
|+|+++.+++. .|+.|.|+||+|..+.+.-.+-.|-
T Consensus 723 ------~l~il~~~l~~-~~~~~~~ldG~~~~~~r~~~i~~f~ 758 (866)
T COG0553 723 ------VLDLLEDYLKA-LGIKYVRLDGSTPAKRRQELIDRFN 758 (866)
T ss_pred ------HHHHHHHHHHh-cCCcEEEEeCCCChhhHHHHHHHhh
Confidence 99999999998 7799999999998777776666654
No 15
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=99.96 E-value=1e-29 Score=232.44 Aligned_cols=231 Identities=12% Similarity=0.071 Sum_probs=179.0
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC-------------cchh--------------
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDV-------------HRKD-------------- 54 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~-------------~~~~-------------- 54 (253)
|||+..+-+.+|+..+++..||+|+|||+||++.|||||++|++..+|. +.|.
T Consensus 327 ~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~~~~ftdr~~c~~c~h~~m~ 406 (791)
T KOG1002|consen 327 NIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASLDWKFTDRMHCDHCSHNIMQ 406 (791)
T ss_pred ccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhccccccceeecccccCCcccchhhh
Confidence 7999999999999999999999999999999999999999998742111 1110
Q ss_pred ------H----------HhhhHHhHHHHHHHHhhhhhhhccCCC------CCCceEEEEeecCCHHHHHHHHHHHHhcc-
Q 047062 55 ------D----------LMVDAIDNLGSLKEKTSKYVAYGGKLD------SSRFVEYWIPVQISNVQLEQYCGTLLSKS- 111 (253)
Q Consensus 55 ------~----------~~~~~~~~~~~L~~~l~pf~LRRtK~d------vP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~- 111 (253)
. ....+.++....+..++.+||||||-+ +||+...+-.=-++..+.++|++++....
T Consensus 407 h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~vRrD~fn~eE~D~YeSLY~dSkr 486 (791)
T KOG1002|consen 407 HTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTVRRDFFNEEEKDLYESLYKDSKR 486 (791)
T ss_pred hhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhcccccccCCCccceeeehhhhhhHHHHHHHHHHHhhHH
Confidence 0 011233455678899999999999974 49988888777899999999999885433
Q ss_pred ---ccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhh----------------------hhhh-------------
Q 047062 112 ---LSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQS----------------------LLVK------------- 153 (253)
Q Consensus 112 ---~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~----------------------~~~~------------- 153 (253)
..+..|.-.+++.+++.++++|||..+||+|+..+... ....
T Consensus 487 kfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~ey 566 (791)
T KOG1002|consen 487 KFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEY 566 (791)
T ss_pred hhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHHHH
Confidence 23445666778899999999999999999994331000 0000
Q ss_pred -----------------------hhhHHH-----------Hh----hhhhhcCcHHHHHHHHHHHHHcCC--CeEEEEcc
Q 047062 154 -----------------------DLELAE-----------YL----DVGVKASGKLQLLDTMLSELKNQG--SRVIILFQ 193 (253)
Q Consensus 154 -----------------------~~~~~~-----------~~----~~li~~SgKl~~L~~lL~~l~~~g--~KvLIFSq 193 (253)
..+..+ .+ -.-+++|.|++.|.+-|..++++. -|.|||||
T Consensus 567 v~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQ 646 (791)
T KOG1002|consen 567 VESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQ 646 (791)
T ss_pred HHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHcccchhhhhHHH
Confidence 000000 00 012888999999999998887654 49999999
Q ss_pred ccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 194 ILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 194 ~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
||+ |||+|+..|.. -|++++.++|+-....+-.++++|-
T Consensus 647 FTS------mLDLi~~rL~k-aGfscVkL~GsMs~~ardatik~F~ 685 (791)
T KOG1002|consen 647 FTS------MLDLIEWRLGK-AGFSCVKLVGSMSPAARDATIKYFK 685 (791)
T ss_pred HHH------HHHHHHHHhhc-cCceEEEeccCCChHHHHHHHHHhc
Confidence 999 99999999997 9999999999999999999999985
No 16
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=99.95 E-value=4e-28 Score=230.50 Aligned_cols=222 Identities=17% Similarity=0.121 Sum_probs=168.5
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcC-------------------CCCCcchhHHhhhHHh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHES-------------------RGDVHRKDDLMVDAID 62 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P-------------------~~~~~~~~~~~~~~~~ 62 (253)
-|||..++|+.+|+.+|.++||.|||-|+||||.|||||+||++| |+..++..+.......
T Consensus 445 rIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmry 524 (1387)
T KOG1016|consen 445 RIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRY 524 (1387)
T ss_pred eeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHH
Confidence 489999999999999999999999999999999999999999999 3444555566667777
Q ss_pred HHHHHHHHhhhhhhhccCC----CCCCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcC
Q 047062 63 NLGSLKEKTSKYVAYGGKL----DSSRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCD 138 (253)
Q Consensus 63 ~~~~L~~~l~pf~LRRtK~----dvP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCn 138 (253)
+...|+.++..|+.||+-. .+|.|.|+|+.+.+|..||++|+.++......... ++....+-|.+..-.-+|+|
T Consensus 525 RtHVLhsLl~GFVQRR~HtvLk~~LP~k~EyViLvr~s~iQR~LY~~Fm~d~~r~~~~--~~~~~~NPLkAF~vCcKIWN 602 (1387)
T KOG1016|consen 525 RTHVLHSLLKGFVQRRTHTVLKKILPEKKEYVILVRKSQIQRQLYRNFMLDAKREIAA--NNDAVFNPLKAFSVCCKIWN 602 (1387)
T ss_pred HHHHHHHHHHHHHHhcchhhHhhhcccccceEEEEeHHHHHHHHHHHHHHHHHHhhcc--ccccccChHHHHHHHHHhcC
Confidence 8899999999999999765 56999999999999999999999888444332221 12222345566666779999
Q ss_pred CccCcchhhhhhhhh-hhh-------------------------------------------------------------
Q 047062 139 HPYLVDKSLQSLLVK-DLE------------------------------------------------------------- 156 (253)
Q Consensus 139 HP~L~~~~~~~~~~~-~~~------------------------------------------------------------- 156 (253)
||..+....+..... +.+
T Consensus 603 HPDVLY~~l~k~~~a~e~dl~vee~~~ag~~~~~~P~~~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~ 682 (1387)
T KOG1016|consen 603 HPDVLYRLLEKKKRAEEDDLRVEEMKFAGLQQQQSPFNSIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEK 682 (1387)
T ss_pred ChHHHHHHHHHhhhhhhhhhhHHHHhhhcccccCCCCCCCCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccc
Confidence 999744322110000 000
Q ss_pred --------HHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcC-----C--------
Q 047062 157 --------LAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLG-----P-------- 215 (253)
Q Consensus 157 --------~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~-----~-------- 215 (253)
...+.......+.|+..+.+++.+-..-|+|+|||||... .||+||.++..+ .
T Consensus 683 y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~g~kil~fSq~l~------~Ld~ieeil~krq~pc~~gdnG~~aq 756 (1387)
T KOG1016|consen 683 YSDWTFELFENYQEGVLENGPKIVISLEILDESTQIGEKILIFSQNLT------ALDMIEEILKKRQIPCKDGDNGCPAQ 756 (1387)
T ss_pred hhhHHHHHHhhhhcccccCCCceEEEEeeeccccccCceEEEeecchh------HHHHHHHHHhcccccCCCCCCCCchh
Confidence 0000111244577888888888888899999999999999 999999999753 2
Q ss_pred ----CCCceeeecCCchHHH
Q 047062 216 ----GVSPEVVVSPTIVRCI 231 (253)
Q Consensus 216 ----g~~~~rl~g~t~~r~~ 231 (253)
..+|.|+||+|....+
T Consensus 757 kW~~n~sy~rldG~t~a~~r 776 (1387)
T KOG1016|consen 757 KWEKNRSYLRLDGTTSAADR 776 (1387)
T ss_pred hhhhccceecccCCcccchH
Confidence 3689999999986544
No 17
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.91 E-value=4e-24 Score=207.41 Aligned_cols=231 Identities=15% Similarity=0.106 Sum_probs=174.2
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCC--CCCcchhHH------hhhHHhHHHHHHHHhhh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESR--GDVHRKDDL------MVDAIDNLGSLKEKTSK 73 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~--~~~~~~~~~------~~~~~~~~~~L~~~l~p 73 (253)
+|+|.++|++.+++.++++.||+|||||+||+++|||+++.|+.-. .....|... .....+....++..+++
T Consensus 265 ~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~~~~~k~l~~~L~~ 344 (674)
T KOG1001|consen 265 TIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKYKEGVKTLQGILKK 344 (674)
T ss_pred ccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999999998743 333333321 12225778899999999
Q ss_pred hhhhccCC---------CCCCceEEEEeecCCHHHHHHHHHHHHhccccc----cCCCCCCCcchHHHHHHHHHHHcCCc
Q 047062 74 YVAYGGKL---------DSSRFVEYWIPVQISNVQLEQYCGTLLSKSLSL----CSPLKNDPVGVLHDILISARKCCDHP 140 (253)
Q Consensus 74 f~LRRtK~---------dvP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l----~~~~~~~~~~~ll~~L~~LRqiCnHP 140 (253)
+||||||. .+|+|+..++.+.++..++++|++......... ..+.....++.++..+++|||+|+||
T Consensus 345 v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~ 424 (674)
T KOG1001|consen 345 VMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHS 424 (674)
T ss_pred HHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccch
Confidence 99999997 349999999999999999999998886554333 23444557888999999999999999
Q ss_pred cCcchhhhhhhhh------------hh---h--------------------HHH---------------------Hhhhh
Q 047062 141 YLVDKSLQSLLVK------------DL---E--------------------LAE---------------------YLDVG 164 (253)
Q Consensus 141 ~L~~~~~~~~~~~------------~~---~--------------------~~~---------------------~~~~l 164 (253)
+++.......... .. . ..+ ....+
T Consensus 425 ~lv~~~~~~~~~~~~~~~~~~~~i~~l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 425 LLVMYEMDSLGDSGSAAALIIRLIVDLSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred HhhhhhhhccccccccchHHHHHHHHHhhccccccccccccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 9955421110000 00 0 000 00011
Q ss_pred hh-------------cCcHHHHHHHHHHHHHcCCC-eEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHH
Q 047062 165 VK-------------ASGKLQLLDTMLSELKNQGS-RVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRC 230 (253)
Q Consensus 165 i~-------------~SgKl~~L~~lL~~l~~~g~-KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~ 230 (253)
+. .|.|+..++.+|........ |++|||||+. ++++++..+.. .|+.|.|.||.-....
T Consensus 505 ~s~~~~~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~------~l~l~~~~l~~-~~~~~~~~~g~~~~~~ 577 (674)
T KOG1001|consen 505 LSANPLPSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIW------GLALVCLRLFF-KGFVFLRYDGEMLMKI 577 (674)
T ss_pred hhcccccchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHH------HHHHhhhhhhh-cccccchhhhhhHHHH
Confidence 22 27888888888886654444 9999999999 99999999997 9999999999877776
Q ss_pred HHHHHhhhh
Q 047062 231 IILALCYFW 239 (253)
Q Consensus 231 ~~~~~~~~~ 239 (253)
+--++..|-
T Consensus 578 r~~s~~~~~ 586 (674)
T KOG1001|consen 578 RTKSFTDFP 586 (674)
T ss_pred HHhhhcccc
Confidence 655555553
No 18
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=99.88 E-value=2.2e-23 Score=184.20 Aligned_cols=142 Identities=21% Similarity=0.247 Sum_probs=116.2
Q ss_pred CCcchHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC--cchhHH-----hhhHHhHHHHHHHHhhhh
Q 047062 2 DIDSTKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHESRGDV--HRKDDL-----MVDAIDNLGSLKEKTSKY 74 (253)
Q Consensus 2 ~i~~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~--~~~~~~-----~~~~~~~~~~L~~~l~pf 74 (253)
++||..+....++..+++..+|+|||||++|++.|+|++++|+.|..+. ..|... .........+|+..+++|
T Consensus 145 ~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~~~~~~~~L~~~l~~~ 224 (299)
T PF00176_consen 145 RLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKENSYENIERLRELLSEF 224 (299)
T ss_dssp GGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTHHHHHHHHHHHHHCCC
T ss_pred ccccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhccccccccccccccccchh
Confidence 4688899999999999999999999999999999999999999997554 334432 234567789999999999
Q ss_pred hhhccCCCC----CCceEEEEeecCCHHHHHHHHHHHHhccccccCCC--CCCCcchHHHHHHHHHHHcCCccCc
Q 047062 75 VAYGGKLDS----SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPL--KNDPVGVLHDILISARKCCDHPYLV 143 (253)
Q Consensus 75 ~LRRtK~dv----P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~--~~~~~~~ll~~L~~LRqiCnHP~L~ 143 (253)
++||+++|+ |++.+.++.|+||+.|+++|+.+.......+.... ..+....++..+.+|||+||||+|+
T Consensus 225 ~~r~~~~d~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 225 MIRRTKKDVEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQSSRKKSKKLSSLLQILKRLRQVCNHPYLV 299 (299)
T ss_dssp EECHCGGGGCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T--TCHHHHHHHHHHHHHHHHHH-THHC
T ss_pred hhhhhcccccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHhCCcccC
Confidence 999999875 89999999999999999999998877776655444 4455667899999999999999985
No 19
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.53 E-value=4.3e-14 Score=142.40 Aligned_cols=187 Identities=11% Similarity=-0.026 Sum_probs=122.3
Q ss_pred Hhhcchh--hhcCCcccchhhhhhCHHHHHHHhhhhcCCCCC--cchhHHhhh-----------------HHhHHHHHHH
Q 047062 11 LFSLPTS--REKLDGELCDASIAKQTTEYHNMPSLHESRGDV--HRKDDLMVD-----------------AIDNLGSLKE 69 (253)
Q Consensus 11 ~~~~~~~--r~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~--~~~~~~~~~-----------------~~~~~~~L~~ 69 (253)
.+.+..+ ++..+++|||||+||+.+|+|++++||+|+.+. +.|...... .......|+.
T Consensus 295 y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ 374 (956)
T PRK04914 295 YQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEKLSDDALNALGE 374 (956)
T ss_pred HHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCcCCHHHHHHHHH
Confidence 4444444 456788999999999999999999999997553 234321100 0011111211
Q ss_pred H---------------------------h---------hhhhhhccCCCC---CCceEEEEeecCCHHHHHHHHHHHHhc
Q 047062 70 K---------------------------T---------SKYVAYGGKLDS---SRFVEYWIPVQISNVQLEQYCGTLLSK 110 (253)
Q Consensus 70 ~---------------------------l---------~pf~LRRtK~dv---P~K~e~vV~~~Ls~~Qr~lY~~~l~~~ 110 (253)
. + .++|+|+++++| |++....+.+++.+.-...++...
T Consensus 375 ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~~fp~R~~~~~~l~~~~~y~~~~~~~~--- 451 (956)
T PRK04914 375 LLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVKGFPKRELHPIPLPLPEQYQTAIKVSL--- 451 (956)
T ss_pred HhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhcCCCcCceeEeecCCCHHHHHHHHHhH---
Confidence 1 1 278999999877 888888888988765333332100
Q ss_pred cccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEE
Q 047062 111 SLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVII 190 (253)
Q Consensus 111 ~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLI 190 (253)
...+++ +.+|.-+..... ....-+..+.|+..|.+++.... ++||||
T Consensus 452 -------------------~~~~~~-~l~pe~~~~~~~-----------~~~~~~~~d~Ki~~L~~~L~~~~--~~KvLV 498 (956)
T PRK04914 452 -------------------EARARD-MLYPEQIYQEFE-----------DNATWWNFDPRVEWLIDFLKSHR--SEKVLV 498 (956)
T ss_pred -------------------HHHHHh-hcCHHHHHHHHh-----------hhhhccccCHHHHHHHHHHHhcC--CCeEEE
Confidence 011222 223321111000 00111455789999999887653 889999
Q ss_pred EccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 191 LFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 191 FSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
|+++.. +.+.++..|....|+.+..+.|..+...+.-++..|.
T Consensus 499 F~~~~~------t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~ 541 (956)
T PRK04914 499 ICAKAA------TALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFA 541 (956)
T ss_pred EeCcHH------HHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHh
Confidence 999999 9999999995448999999999999888877887886
No 20
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=99.32 E-value=4.9e-12 Score=112.86 Aligned_cols=132 Identities=16% Similarity=0.198 Sum_probs=88.5
Q ss_pred eEEEEeecCCHHHHHHHHHHHHhcccccc---CCC-CC---------CCcchHHHHHHHHHHHcCCccCcchhhhhhhhh
Q 047062 87 VEYWIPVQISNVQLEQYCGTLLSKSLSLC---SPL-KN---------DPVGVLHDILISARKCCDHPYLVDKSLQSLLVK 153 (253)
Q Consensus 87 ~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~---~~~-~~---------~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~ 153 (253)
.++.+.++|++.|+++|+.++.-+...+. .+. .. .....+-.++..|+.+||||+|+.+...+....
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~ll 83 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQLL 83 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCccccc
Confidence 47889999999999999988865543322 111 11 112345566788999999999976654332211
Q ss_pred hhhHHHHhhhhhhcCcHHHHHHHHHHHH-----HcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCch
Q 047062 154 DLELAEYLDVGVKASGKLQLLDTMLSEL-----KNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIV 228 (253)
Q Consensus 154 ~~~~~~~~~~li~~SgKl~~L~~lL~~l-----~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~ 228 (253)
..+...++...|||+++|.+++..+ ...+.+++|.++-.+ ++|++|.+|.- .++.|.|.+|...-
T Consensus 84 ---~~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k------~ldllE~~llG-k~~~~kr~sg~~l~ 153 (297)
T PF11496_consen 84 ---LSEPAEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGK------ELDLLEGLLLG-KKLNYKRYSGESLY 153 (297)
T ss_dssp ---STTHHHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STH------HHHHHHHHHTT-SSSEEEESSS--S-
T ss_pred ---cchHHHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCcc------HHHHHHHHHcc-CCeeEEecCCCCCc
Confidence 1222344588999999999999999 667889999999999 99999999996 99999999996543
No 21
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.21 E-value=1.8e-11 Score=113.26 Aligned_cols=180 Identities=11% Similarity=-0.066 Sum_probs=116.1
Q ss_pred hcCCcccchhhhhhCHHHHHHHhhhhcCCCCC--cchhHHhh-----------hHHhHHHHHHHHhh-hhhhhccCCCC-
Q 047062 19 EKLDGELCDASIAKQTTEYHNMPSLHESRGDV--HRKDDLMV-----------DAIDNLGSLKEKTS-KYVAYGGKLDS- 83 (253)
Q Consensus 19 ~~~~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~--~~~~~~~~-----------~~~~~~~~L~~~l~-pf~LRRtK~dv- 83 (253)
+++-|+|+|||---+..|||..+.-++|--|. .+|...+. .+..++++|+-++. -.|+||+|.||
T Consensus 338 akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL 417 (689)
T KOG1000|consen 338 AKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVL 417 (689)
T ss_pred hhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 45557899999999999999999999984333 23332221 12356888888885 58999999976
Q ss_pred ---CCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhhhhHHHH
Q 047062 84 ---SRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKDLELAEY 160 (253)
Q Consensus 84 ---P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~~~~~~~ 160 (253)
|+|.-.+|++ ....+-..-.++...... ..+. +..-+ +|-.++....
T Consensus 418 ~qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~----~t~~-------~~~e~-----~~~~l~l~y~------------- 467 (689)
T KOG1000|consen 418 KQLPPKRREVVYV-SGGRIDARMDDLVKAAAD----YTKV-------NSMER-----KHESLLLFYS------------- 467 (689)
T ss_pred hhCCccceEEEEE-cCCccchHHHHHHHHhhh----cchh-------hhhhh-----hhHHHHHHHH-------------
Confidence 8885555543 334443333333321111 0000 00000 1222211110
Q ss_pred hhhhhhcCcHHHHHHHHHHH----HHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHh
Q 047062 161 LDVGVKASGKLQLLDTMLSE----LKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALC 236 (253)
Q Consensus 161 ~~~li~~SgKl~~L~~lL~~----l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~ 236 (253)
-..-.|+....+-|.. ..+.+.|+|||..-.. +||-|+.++.. +|+.+.|+||+|+.+-+-+++.
T Consensus 468 ----~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~------vLd~Iq~~~~~-r~vg~IRIDGst~s~~R~ll~q 536 (689)
T KOG1000|consen 468 ----LTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQI------VLDTIQVEVNK-RKVGSIRIDGSTPSHRRTLLCQ 536 (689)
T ss_pred ----HhcccccHHHHHHHHhCcccccCCCceEEEEehhHH------HHHHHHHHHHH-cCCCeEEecCCCCchhHHHHHH
Confidence 1112355444444443 4567899999999999 99999999997 9999999999999999999998
Q ss_pred hhh
Q 047062 237 YFW 239 (253)
Q Consensus 237 ~~~ 239 (253)
.|-
T Consensus 537 sFQ 539 (689)
T KOG1000|consen 537 SFQ 539 (689)
T ss_pred Hhc
Confidence 883
No 22
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.01 E-value=3e-10 Score=114.46 Aligned_cols=140 Identities=11% Similarity=0.036 Sum_probs=98.6
Q ss_pred chHHHHHhhcchhhhcCCcccchhhhhhCHHHHHHHhhhhc--CCCCCcchhHHhhhH---HhHHHHHHHHhhhhhhhcc
Q 047062 5 STKQEILFSLPTSREKLDGELCDASIAKQTTEYHNMPSLHE--SRGDVHRKDDLMVDA---IDNLGSLKEKTSKYVAYGG 79 (253)
Q Consensus 5 ~~k~~~~~~~~~~r~~~~~~LTGTPiQN~L~EL~sL~~Fl~--P~~~~~~~~~~~~~~---~~~~~~L~~~l~pf~LRRt 79 (253)
+..|+.++-+..+=++.+|+.||||||| +.|||.|+.|++ |+.....|-...... ......+....+..+-|+-
T Consensus 526 sssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~ra~~~~~~dl~~q~l~R~~ 604 (1394)
T KOG0298|consen 526 SSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLRAKCEPLLDLFKQLLWRTF 604 (1394)
T ss_pred chHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHHhhhhhHHHHHHhhhhhhh
Confidence 3456677778888899999999999999 999999999988 443333443322211 1334578888899999999
Q ss_pred CCCC------CCceEEEEeecCCHHHHHHHHHHHHhcc-------ccc-----cCCC-----CCCCcchHHHHHHHHHHH
Q 047062 80 KLDS------SRFVEYWIPVQISNVQLEQYCGTLLSKS-------LSL-----CSPL-----KNDPVGVLHDILISARKC 136 (253)
Q Consensus 80 K~dv------P~K~e~vV~~~Ls~~Qr~lY~~~l~~~~-------~~l-----~~~~-----~~~~~~~ll~~L~~LRqi 136 (253)
|.+| ||-++.+.+..+++.|..+|+.....-. ..+ ...+ .......++..+.+|||+
T Consensus 605 k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~a~i~~~l~rLRq~ 684 (1394)
T KOG0298|consen 605 KSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLLAIILKWLLRLRQA 684 (1394)
T ss_pred hHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhHHHHHHHHHHHHHh
Confidence 9876 8888888888999999888855442111 111 1111 111234588899999999
Q ss_pred cCCccCcch
Q 047062 137 CDHPYLVDK 145 (253)
Q Consensus 137 CnHP~L~~~ 145 (253)
||||.....
T Consensus 685 Cchplv~~~ 693 (1394)
T KOG0298|consen 685 CCHPLVGNS 693 (1394)
T ss_pred hcccccccC
Confidence 999997554
No 23
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.91 E-value=8.3e-05 Score=73.79 Aligned_cols=60 Identities=13% Similarity=0.203 Sum_probs=44.8
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
..|+..+..++......|+|+||||+++. .++-+...| |. ..++|.|+..-|.-.+-.|-
T Consensus 479 p~K~~~~~~Li~~he~~g~kiLVF~~~~~------~l~~~a~~L----~~--~~I~G~ts~~ER~~il~~Fr 538 (732)
T TIGR00603 479 PNKFRACQFLIRFHEQRGDKIIVFSDNVF------ALKEYAIKL----GK--PFIYGPTSQQERMQILQNFQ 538 (732)
T ss_pred hHHHHHHHHHHHHHhhcCCeEEEEeCCHH------HHHHHHHHc----CC--ceEECCCCHHHHHHHHHHHH
Confidence 46899988888766678999999999988 666555544 43 34889998866666666663
No 24
>PRK13766 Hef nuclease; Provisional
Probab=97.73 E-value=0.00022 Score=71.71 Aligned_cols=54 Identities=22% Similarity=0.194 Sum_probs=48.7
Q ss_pred hhcCcHHHHHHHHHHHHH--cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecC
Q 047062 165 VKASGKLQLLDTMLSELK--NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSP 225 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~--~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~ 225 (253)
...+.|+..|.++|.+.. ..+.|||||+++.. +.+.+..+|.. .|+.+.++.|.
T Consensus 343 ~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~------t~~~L~~~L~~-~~~~~~~~~g~ 398 (773)
T PRK13766 343 DIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRD------TAEKIVDLLEK-EGIKAVRFVGQ 398 (773)
T ss_pred ccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHH------HHHHHHHHHHh-CCCceEEEEcc
Confidence 455799999999999987 57889999999999 99999999987 89999999887
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.40 E-value=0.034 Score=52.58 Aligned_cols=153 Identities=12% Similarity=0.050 Sum_probs=97.7
Q ss_pred CcccchhhhhhCHHHHHHHhhhhcCCCCCcchhHHhhhHHhHHHHHHHHhhhhhhhccCCCCCCceEEEEeecCCHHHHH
Q 047062 22 DGELCDASIAKQTTEYHNMPSLHESRGDVHRKDDLMVDAIDNLGSLKEKTSKYVAYGGKLDSSRFVEYWIPVQISNVQLE 101 (253)
Q Consensus 22 ~~~LTGTPiQN~L~EL~sL~~Fl~P~~~~~~~~~~~~~~~~~~~~L~~~l~pf~LRRtK~dvP~K~e~vV~~~Ls~~Qr~ 101 (253)
+++||+||....-....-+++.+.|-.+-....+. +. ...+.+.....+++.+++.+..
T Consensus 176 ~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~~~~l----------i~-----------~g~Lap~~~~~i~~~~t~~~~~ 234 (442)
T COG1061 176 RLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKEL----------ID-----------EGYLAPYKYVEIKVTLTEDEER 234 (442)
T ss_pred eeeeccCceeecCCchhHHHHhcCCeEeecCHHHH----------Hh-----------CCCccceEEEEEEeccchHHHH
Confidence 78999999866645555666655543221111111 11 2345666777888889999999
Q ss_pred HHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHH
Q 047062 102 QYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSEL 181 (253)
Q Consensus 102 lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l 181 (253)
.|..........+..... +... ............|+..+..++...
T Consensus 235 ~~~~~~~~~~~~~~~~~~----------------------~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~ 280 (442)
T COG1061 235 EYAKESARFRELLRARGT----------------------LRAE------------NEARRIAIASERKIAAVRGLLLKH 280 (442)
T ss_pred Hhhhhhhhhhhhhhhhhh----------------------hhHH------------HHHHHHhhccHHHHHHHHHHHHHh
Confidence 997666443322221110 0000 001111256678888888888766
Q ss_pred HcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 182 KNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 182 ~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
. ++.+++||++.+. ..+-+...+.. .|+ ...++|.|+..-+-..+-.|
T Consensus 281 ~-~~~~~lif~~~~~------~a~~i~~~~~~-~~~-~~~it~~t~~~eR~~il~~f 328 (442)
T COG1061 281 A-RGDKTLIFASDVE------HAYEIAKLFLA-PGI-VEAITGETPKEEREAILERF 328 (442)
T ss_pred c-CCCcEEEEeccHH------HHHHHHHHhcC-CCc-eEEEECCCCHHHHHHHHHHH
Confidence 6 8999999999999 88888888886 666 78888988887665555555
No 26
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=94.73 E-value=0.13 Score=38.92 Aligned_cols=60 Identities=20% Similarity=0.173 Sum_probs=50.0
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHH
Q 047062 169 GKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILAL 235 (253)
Q Consensus 169 gKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~ 235 (253)
+|...+..++.+..+.+.++|||+.... ..+.+..+|+. .+..+..+.|++..+-+...+
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~------~~~~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~ 71 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKK------MLDELAELLRK-PGIKVAALHGDGSQEEREEVL 71 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHH------HHHHHHHHHHh-cCCcEEEEECCCCHHHHHHHH
Confidence 6899999999888778899999999999 89999999987 788889999988665443333
No 27
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=90.14 E-value=0.59 Score=44.60 Aligned_cols=55 Identities=22% Similarity=0.216 Sum_probs=45.4
Q ss_pred CcHHHHHHHHHHHHH--cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCce-eeecCCchH
Q 047062 168 SGKLQLLDTMLSELK--NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPE-VVVSPTIVR 229 (253)
Q Consensus 168 SgKl~~L~~lL~~l~--~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~-rl~g~t~~r 229 (253)
-+||..+.+++.+.. ..+.||+||+||.. +-+.|-.+|.. .|..-- |+-|.....
T Consensus 347 HPKl~~l~eilke~~~k~~~~RvIVFT~yRd------Tae~i~~~L~~-~~~~~~~rFiGQa~r~ 404 (542)
T COG1111 347 HPKLEKLREILKEQLEKNGDSRVIVFTEYRD------TAEEIVNFLKK-IGIKARVRFIGQASRE 404 (542)
T ss_pred CccHHHHHHHHHHHHhcCCCceEEEEehhHh------HHHHHHHHHHh-cCCcceeEEeeccccc
Confidence 579999999998876 56789999999999 99999999987 676665 888865443
No 28
>PTZ00110 helicase; Provisional
Probab=87.84 E-value=1.7 Score=42.32 Aligned_cols=66 Identities=15% Similarity=0.163 Sum_probs=55.2
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
...|...|..++.++...+.|+|||++... .-+.+...|.. .|+....+.|......+.-++..|-
T Consensus 359 ~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~------~a~~l~~~L~~-~g~~~~~ihg~~~~~eR~~il~~F~ 424 (545)
T PTZ00110 359 EHEKRGKLKMLLQRIMRDGDKILIFVETKK------GADFLTKELRL-DGWPALCIHGDKKQEERTWVLNEFK 424 (545)
T ss_pred chhHHHHHHHHHHHhcccCCeEEEEecChH------HHHHHHHHHHH-cCCcEEEEECCCcHHHHHHHHHHHh
Confidence 456888899999888878899999999999 99999999987 8999888888887776666666554
No 29
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=84.61 E-value=2.7 Score=43.50 Aligned_cols=65 Identities=14% Similarity=0.082 Sum_probs=55.7
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhc
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGW 241 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~ 241 (253)
..|+..+.+.+.++...|..||||++++. .-+.+...|.. .|+.+..|.+. ...+-..+..|+|=
T Consensus 581 ~eK~~Ali~~I~~~~~~grpVLIft~Sve------~sE~Ls~~L~~-~gI~h~vLnak--q~~REa~Iia~AG~ 645 (1025)
T PRK12900 581 REKYNAIVLKVEELQKKGQPVLVGTASVE------VSETLSRMLRA-KRIAHNVLNAK--QHDREAEIVAEAGQ 645 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCCCEEEEeCcHH------HHHHHHHHHHH-cCCCceeecCC--HHHhHHHHHHhcCC
Confidence 46999999999999999999999999999 99999999998 89999999974 44555667778764
No 30
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.57 E-value=3.5 Score=39.83 Aligned_cols=66 Identities=17% Similarity=0.170 Sum_probs=56.1
Q ss_pred hcCcHHHHHHHHHHHHH-cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 166 KASGKLQLLDTMLSELK-NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~-~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
...+|...|..+|.+.. ..+.|||||+...+ .-|-++..+.. .||...-|-|.-..-.+--.|.-|
T Consensus 321 ~~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr------~~~~l~~~l~~-~~~~a~~iHGd~sQ~eR~~~L~~F 387 (519)
T KOG0331|consen 321 DETAKLRKLGKLLEDISSDSEGKVIIFCETKR------TCDELARNLRR-KGWPAVAIHGDKSQSERDWVLKGF 387 (519)
T ss_pred CHHHHHHHHHHHHHHHhccCCCcEEEEecchh------hHHHHHHHHHh-cCcceeeecccccHHHHHHHHHhc
Confidence 34678899999999887 55679999999999 99999999997 899999998887777777777666
No 31
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=83.12 E-value=3.5 Score=42.11 Aligned_cols=64 Identities=16% Similarity=0.176 Sum_probs=54.6
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWG 240 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~ 240 (253)
..|+..+.+.+.++...|..||||+.... .-+.+...|.. .|+++..+.|....| -.++-.|+|
T Consensus 413 ~~K~~aI~~~I~~~~~~grpVLIft~Si~------~se~Ls~~L~~-~gi~~~vLnakq~eR--Ea~Iia~Ag 476 (830)
T PRK12904 413 KEKFDAVVEDIKERHKKGQPVLVGTVSIE------KSELLSKLLKK-AGIPHNVLNAKNHER--EAEIIAQAG 476 (830)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHH------HHHHHHHHHHH-CCCceEeccCchHHH--HHHHHHhcC
Confidence 46999999999998899999999999999 99999999998 899999999975544 445566765
No 32
>PHA02558 uvsW UvsW helicase; Provisional
Probab=81.46 E-value=5.9 Score=38.08 Aligned_cols=69 Identities=7% Similarity=-0.062 Sum_probs=55.1
Q ss_pred hhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 163 VGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 163 ~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
.+.....+-.++.++...+...|.+++||+..+. ..+.+...|+. .|+...-+.|.+....+-..+..|
T Consensus 322 ~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~------h~~~L~~~L~~-~g~~v~~i~G~~~~~eR~~i~~~~ 390 (501)
T PHA02558 322 YITSHTKRNKWIANLALKLAKKGENTFVMFKYVE------HGKPLYEMLKK-VYDKVYYVSGEVDTEDRNEMKKIA 390 (501)
T ss_pred HHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHH------HHHHHHHHHHH-cCCCEEEEeCCCCHHHHHHHHHHH
Confidence 3456667778888888888888999999999999 88999999997 899999999998866554444444
No 33
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=80.88 E-value=4.6 Score=40.22 Aligned_cols=62 Identities=18% Similarity=0.197 Sum_probs=52.9
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHH
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILAL 235 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~ 235 (253)
...|+..|.+++.++...|..||||+.... .-+.+...|.. .|+....+-|.-..|-+.+..
T Consensus 455 ~~~K~~aL~~~i~~~~~~~~pvLIft~t~~------~se~L~~~L~~-~gi~~~~Lhg~~~~rE~~ii~ 516 (656)
T PRK12898 455 AAAKWAAVAARVRELHAQGRPVLVGTRSVA------ASERLSALLRE-AGLPHQVLNAKQDAEEAAIVA 516 (656)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHH------HHHHHHHHHHH-CCCCEEEeeCCcHHHHHHHHH
Confidence 356899999999888888889999999999 99999999998 899999999987666655443
No 34
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=79.68 E-value=5.9 Score=40.01 Aligned_cols=64 Identities=16% Similarity=0.162 Sum_probs=52.7
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWG 240 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~ 240 (253)
..|+..+.+.+.++.+.|..||||+.... .-+.+...|.. .|+.+..+.|....| -.++-.|+|
T Consensus 388 ~~k~~ai~~~i~~~~~~grpvLV~t~si~------~se~ls~~L~~-~gi~~~~Lna~q~~r--Ea~ii~~ag 451 (745)
T TIGR00963 388 EEKWKAVVDEIKERHAKGQPVLVGTTSVE------KSELLSNLLKE-RGIPHNVLNAKNHER--EAEIIAQAG 451 (745)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHH------HHHHHHHHHHH-cCCCeEEeeCChHHH--HHHHHHhcC
Confidence 45888888888888999999999999999 99999999998 899999998884444 344555665
No 35
>PF12431 CitT: Transcriptional regulator
Probab=79.21 E-value=0.85 Score=26.41 Aligned_cols=9 Identities=56% Similarity=1.165 Sum_probs=7.2
Q ss_pred cccCCcccc
Q 047062 242 HIPKGIDSV 250 (253)
Q Consensus 242 ~~~~~~~~~ 250 (253)
.+|||||++
T Consensus 22 ~LPKGID~l 30 (30)
T PF12431_consen 22 RLPKGIDEL 30 (30)
T ss_pred CCCCCcccC
Confidence 379999975
No 36
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=78.08 E-value=6.2 Score=39.98 Aligned_cols=62 Identities=13% Similarity=0.133 Sum_probs=53.8
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHH
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILAL 235 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~ 235 (253)
...|+..+.+.+.++...|..||||+..+. .-+.+...|.. .|+++..+.|....+-+....
T Consensus 406 ~~~K~~ai~~~i~~~~~~~~pvLIft~s~~------~se~ls~~L~~-~gi~~~~L~a~~~~~E~~ii~ 467 (762)
T TIGR03714 406 LPEKLMATLEDVKEYHETGQPVLLITGSVE------MSEIYSELLLR-EGIPHNLLNAQNAAKEAQIIA 467 (762)
T ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEECcHH------HHHHHHHHHHH-CCCCEEEecCCChHHHHHHHH
Confidence 367999999999888899999999999999 99999999998 899999999988877654443
No 37
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=73.72 E-value=12 Score=35.50 Aligned_cols=64 Identities=19% Similarity=0.155 Sum_probs=48.2
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
..+.|...|..++.. ..+.|+|||++... ..+.+...|.. .|+....+-|......+.-.+-.|
T Consensus 318 ~~~~k~~~l~~ll~~--~~~~~~IVF~~s~~------~~~~l~~~L~~-~~~~~~~~~g~~~~~~R~~~~~~F 381 (475)
T PRK01297 318 AGSDKYKLLYNLVTQ--NPWERVMVFANRKD------EVRRIEERLVK-DGINAAQLSGDVPQHKRIKTLEGF 381 (475)
T ss_pred cchhHHHHHHHHHHh--cCCCeEEEEeCCHH------HHHHHHHHHHH-cCCCEEEEECCCCHHHHHHHHHHH
Confidence 346677777776643 34569999999999 99999999987 899988888877766555455444
No 38
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=72.78 E-value=3.7 Score=43.40 Aligned_cols=50 Identities=12% Similarity=0.104 Sum_probs=39.5
Q ss_pred CcHHHHHHHHHHHHH--cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeec
Q 047062 168 SGKLQLLDTMLSELK--NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVS 224 (253)
Q Consensus 168 SgKl~~L~~lL~~l~--~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g 224 (253)
+.|+...-..+..++ ...+|||+||||.. .||.+|..+.+ .|+.+.+.++
T Consensus 1202 g~kI~~v~~~il~iK~k~~qekvIvfsqws~------~ldV~e~~~~~-N~I~~~~~~~ 1253 (1394)
T KOG0298|consen 1202 GTKIDSVVIAILYIKFKNEQEKVIVFSQWSV------VLDVKELRYLM-NLIKKQLDGE 1253 (1394)
T ss_pred ccCchhHHHHHHHHhccCcCceEEEEEehHH------HHHHHHHHHHh-hhhHhhhccC
Confidence 667766655555454 45579999999999 99999999998 8998877664
No 39
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=72.20 E-value=11 Score=38.39 Aligned_cols=60 Identities=12% Similarity=0.130 Sum_probs=51.5
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHH
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCII 232 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~ 232 (253)
....|+..+.+.+.+....|..||||+.... .-+.+...|.. .|++...+.|....+-+.
T Consensus 409 ~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~------~se~l~~~L~~-~gi~~~~L~~~~~~~e~~ 468 (790)
T PRK09200 409 TLDEKYKAVIEEVKERHETGRPVLIGTGSIE------QSETFSKLLDE-AGIPHNLLNAKNAAKEAQ 468 (790)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHH------HHHHHHHHHHH-CCCCEEEecCCccHHHHH
Confidence 3367899998988888888999999999999 89999999997 899999999987666543
No 40
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=71.71 E-value=15 Score=34.32 Aligned_cols=62 Identities=19% Similarity=0.182 Sum_probs=48.9
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
..|+..|..++.. ..+.++|||++... ..+-+...|.. .|+....+.|......+.-++..|
T Consensus 240 ~~k~~~l~~ll~~--~~~~~~lVF~~t~~------~~~~l~~~L~~-~g~~v~~lhg~~~~~~R~~~l~~F 301 (423)
T PRK04837 240 EEKMRLLQTLIEE--EWPDRAIIFANTKH------RCEEIWGHLAA-DGHRVGLLTGDVAQKKRLRILEEF 301 (423)
T ss_pred HHHHHHHHHHHHh--cCCCeEEEEECCHH------HHHHHHHHHHh-CCCcEEEecCCCChhHHHHHHHHH
Confidence 4577777777654 35679999999999 88888888987 899988898888777666666666
No 41
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=71.63 E-value=13 Score=37.03 Aligned_cols=55 Identities=16% Similarity=0.110 Sum_probs=45.8
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCch
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIV 228 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~ 228 (253)
..|++..|..-|.+....|.+||||+.... ..+-+...|.. .|+....+.|....
T Consensus 428 ~~~q~~~L~~~L~~~~~~g~~viIf~~t~~------~ae~L~~~L~~-~gi~~~~~h~~~~~ 482 (652)
T PRK05298 428 TKGQVDDLLSEIRKRVAKGERVLVTTLTKR------MAEDLTDYLKE-LGIKVRYLHSDIDT 482 (652)
T ss_pred ccccHHHHHHHHHHHHhCCCEEEEEeCCHH------HHHHHHHHHhh-cceeEEEEECCCCH
Confidence 356788888888888899999999999999 89999999987 89988777665544
No 42
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=69.02 E-value=11 Score=30.48 Aligned_cols=40 Identities=13% Similarity=0.069 Sum_probs=36.6
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHH
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCI 211 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l 211 (253)
..+.++.++..|+++..++|.||+|.+.-.. +++-|...|
T Consensus 10 ~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~------~~~~LD~~L 49 (154)
T PRK06646 10 SDELLLKSILLLIEKCYYSDLKSVILTADAD------QQEMLNKNL 49 (154)
T ss_pred CCChHHHHHHHHHHHHHHcCCEEEEEcCCHH------HHHHHHHHh
Confidence 5588999999999999999999999999888 888888887
No 43
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=68.97 E-value=17 Score=36.30 Aligned_cols=55 Identities=15% Similarity=0.081 Sum_probs=45.2
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCch
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIV 228 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~ 228 (253)
..|++..|..-+.+...+|.+||||+.... +.+-+..+|.. .|+...-+.|....
T Consensus 424 ~~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~------~ae~L~~~L~~-~gi~~~~lh~~~~~ 478 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVARNERVLVTTLTKK------MAEDLTDYLKE-LGIKVRYLHSEIDT 478 (655)
T ss_pred ccchHHHHHHHHHHHHcCCCEEEEEECCHH------HHHHHHHHHhh-hccceeeeeCCCCH
Confidence 367888888888888899999999999999 99999999987 78877777665443
No 44
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=68.19 E-value=11 Score=38.67 Aligned_cols=43 Identities=16% Similarity=0.220 Sum_probs=35.5
Q ss_pred hhcCcHHHHHHHHHHHHHcC---------CCeEEEEccccccccchHHHHHHHHHHhc
Q 047062 165 VKASGKLQLLDTMLSELKNQ---------GSRVIILFQILIIRAKVCENEILGYCISL 213 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~---------g~KvLIFSq~~~~~~~~~~Ldile~~l~~ 213 (253)
.+...|+..|.++|.++... +.+||||+++.. +-.-|.++|..
T Consensus 266 lEe~PKw~~L~eiL~eI~~~~~~~~~~~~~~~iLI~~~d~~------T~~qL~~~L~~ 317 (814)
T TIGR00596 266 LEENPKWEVLTDVLKEISHEMRMTNRLQGPGKVLIMCSDNR------TCLQLRDYLTT 317 (814)
T ss_pred cccCCCHHHHHHHHHHHHhHHhhhcccCCCCcEEEEEcchH------HHHHHHHHHHh
Confidence 45799999999999887543 468999999998 88888888864
No 45
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=65.06 E-value=23 Score=33.06 Aligned_cols=62 Identities=15% Similarity=0.073 Sum_probs=46.5
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
..|..+|..++.. ..+.++|||+.... ..+-+...|.. .|+....+.|......+.-++..|
T Consensus 230 ~~k~~~l~~l~~~--~~~~~~lVF~~s~~------~~~~l~~~L~~-~~~~~~~l~g~~~~~~R~~~l~~f 291 (434)
T PRK11192 230 EHKTALLCHLLKQ--PEVTRSIVFVRTRE------RVHELAGWLRK-AGINCCYLEGEMVQAKRNEAIKRL 291 (434)
T ss_pred HHHHHHHHHHHhc--CCCCeEEEEeCChH------HHHHHHHHHHh-CCCCEEEecCCCCHHHHHHHHHHH
Confidence 3466666666542 35679999999999 89999999987 899999999988766655555544
No 46
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=65.01 E-value=17 Score=37.50 Aligned_cols=63 Identities=14% Similarity=0.116 Sum_probs=52.2
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCY 237 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~ 237 (253)
-.|+..+.+-+.++.+.|..||||+.++. .-+.+...|.. .|+.+..+.+.-..+-+....-+
T Consensus 432 ~~K~~Aii~ei~~~~~~GrpVLV~t~sv~------~se~ls~~L~~-~gi~~~vLnak~~~~Ea~ii~~A 494 (908)
T PRK13107 432 DEKYQAIIKDIKDCRERGQPVLVGTVSIE------QSELLARLMVK-EKIPHEVLNAKFHEREAEIVAQA 494 (908)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCcHH------HHHHHHHHHHH-CCCCeEeccCcccHHHHHHHHhC
Confidence 56888888888889999999999999999 99999999998 99999999887665544444333
No 47
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=64.85 E-value=14 Score=29.23 Aligned_cols=52 Identities=17% Similarity=0.159 Sum_probs=40.0
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHH-hcC-CCCCceeeec
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCI-SLG-PGVSPEVVVS 224 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l-~~~-~g~~~~rl~g 224 (253)
.+.+..++..|+.+...+|+||+|.+.-.. ..+-|..+| ... .++-+..+.|
T Consensus 11 ~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~------~a~~lD~~LW~~~~~sFlPH~~~~ 64 (142)
T PRK05728 11 LSALEALLCELAEKALRAGWRVLVQCEDEE------QAEALDEALWTFRDESFLPHGLAG 64 (142)
T ss_pred chhHHHHHHHHHHHHHHCCCEEEEEcCCHH------HHHHHHHHhcCCCCCcCCCCCcCC
Confidence 467899999999999999999999999888 888887777 322 4444444433
No 48
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=64.31 E-value=19 Score=37.18 Aligned_cols=63 Identities=11% Similarity=0.036 Sum_probs=53.0
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHh
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALC 236 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~ 236 (253)
.-.|+..+.+-+.++.+.|.-||||+.++. .-+.+..+|.. .|+++..|-|.-..+-+....-
T Consensus 426 ~~~k~~av~~~i~~~~~~g~PVLVgt~Sie------~sE~ls~~L~~-~gi~h~vLnak~~q~Ea~iia~ 488 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQPVLVGTVSIE------ASEFLSQLLKK-ENIKHQVLNAKFHEKEAQIIAE 488 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHH------HHHHHHHHHHH-cCCCeEeecCCCChHHHHHHHh
Confidence 356888888888889999999999999999 99999999998 9999999988766664444433
No 49
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=63.37 E-value=19 Score=34.85 Aligned_cols=62 Identities=23% Similarity=0.128 Sum_probs=52.9
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 169 GKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 169 gKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
.|+.+|..++...... ++|||+.-.. ..+-+...|.. .|++..-|-|.-..+.+.-++.-|-
T Consensus 259 ~k~~~L~~ll~~~~~~--~~IVF~~tk~------~~~~l~~~l~~-~g~~~~~lhG~l~q~~R~~~l~~F~ 320 (513)
T COG0513 259 EKLELLLKLLKDEDEG--RVIVFVRTKR------LVEELAESLRK-RGFKVAALHGDLPQEERDRALEKFK 320 (513)
T ss_pred HHHHHHHHHHhcCCCC--eEEEEeCcHH------HHHHHHHHHHH-CCCeEEEecCCCCHHHHHHHHHHHH
Confidence 4888888888654443 7999999999 89999999998 9999999999999988888888874
No 50
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=62.94 E-value=22 Score=36.36 Aligned_cols=59 Identities=14% Similarity=0.165 Sum_probs=51.1
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHH
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIIL 233 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~ 233 (253)
..|+..+.+.+.+..+.|..||||+.+.. .-+.+...|.. .|+++..+.|.-..|-+..
T Consensus 423 ~~K~~al~~~i~~~~~~g~pvLI~t~si~------~se~ls~~L~~-~gi~~~~Lna~~~~~Ea~i 481 (796)
T PRK12906 423 DSKFNAVVKEIKERHAKGQPVLVGTVAIE------SSERLSHLLDE-AGIPHAVLNAKNHAKEAEI 481 (796)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHH------HHHHHHHHHHH-CCCCeeEecCCcHHHHHHH
Confidence 45888898988888899999999999999 99999999998 8999999988876664443
No 51
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=62.62 E-value=24 Score=34.60 Aligned_cols=62 Identities=19% Similarity=0.160 Sum_probs=46.5
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
..|+..|..++.. ..+.++|||+.... ..+-+...|.. .|+....+.|......+.-++-.|
T Consensus 242 ~~k~~~L~~ll~~--~~~~k~LVF~nt~~------~ae~l~~~L~~-~g~~v~~lhg~l~~~eR~~il~~F 303 (572)
T PRK04537 242 EEKQTLLLGLLSR--SEGARTMVFVNTKA------FVERVARTLER-HGYRVGVLSGDVPQKKRESLLNRF 303 (572)
T ss_pred HHHHHHHHHHHhc--ccCCcEEEEeCCHH------HHHHHHHHHHH-cCCCEEEEeCCCCHHHHHHHHHHH
Confidence 3466666666542 45789999999999 88888888887 899999999887776655555544
No 52
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=60.87 E-value=4.1 Score=38.75 Aligned_cols=24 Identities=8% Similarity=0.044 Sum_probs=22.8
Q ss_pred ccchhhhhhCHHHHHHHhhhhcCC
Q 047062 24 ELCDASIAKQTTEYHNMPSLHESR 47 (253)
Q Consensus 24 ~LTGTPiQN~L~EL~sL~~Fl~P~ 47 (253)
.+||||+-|.+.|+|++-+++-|+
T Consensus 478 l~sgTpi~ntlgem~~vqRyl~~~ 501 (637)
T COG4646 478 LASGTPITNTLGEMFSVQRYLGAG 501 (637)
T ss_pred ecCCCchhhhHHhhhhhhhhcCcc
Confidence 589999999999999999999996
No 53
>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=60.63 E-value=19 Score=35.82 Aligned_cols=56 Identities=20% Similarity=0.183 Sum_probs=46.1
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchH
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVR 229 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r 229 (253)
.+||-..+..++..+...|.+||+.++.-. ..|-+-..|.. .|....|+.++..+.
T Consensus 183 GTGKT~t~~~ii~~~~~~g~~VLv~a~sn~------Avd~l~e~l~~-~~~~vvRlg~~~r~~ 238 (637)
T TIGR00376 183 GTGKTRTLVELIRQLVKRGLRVLVTAPSNI------AVDNLLERLAL-CDQKIVRLGHPARLL 238 (637)
T ss_pred CCCHHHHHHHHHHHHHHcCCCEEEEcCcHH------HHHHHHHHHHh-CCCcEEEeCCchhcc
Confidence 489999999999999999999999999988 66655555554 589999998887643
No 54
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=60.28 E-value=9.2 Score=23.72 Aligned_cols=21 Identities=14% Similarity=0.148 Sum_probs=15.7
Q ss_pred ecCCHHHHHHHHHHHHhcccc
Q 047062 93 VQISNVQLEQYCGTLLSKSLS 113 (253)
Q Consensus 93 ~~Ls~~Qr~lY~~~l~~~~~~ 113 (253)
-.|.|.||.+|+.+...+...
T Consensus 16 ~~L~~~Qk~ly~dvm~Eny~~ 36 (41)
T PF01352_consen 16 ELLDPAQKNLYRDVMLENYRN 36 (41)
T ss_dssp HTS-HHHHHHHHHHHHHTTTS
T ss_pred ccccceecccchhHHHHhhcc
Confidence 358899999999998766543
No 55
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=58.36 E-value=34 Score=33.01 Aligned_cols=65 Identities=12% Similarity=0.136 Sum_probs=49.1
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
..|...|.+++......+.++|||..... ..+.+...|....|+....+-|......+.-++..|
T Consensus 350 ~~k~~~l~~~l~~~~~~~~~~iVFv~s~~------~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~F 414 (518)
T PLN00206 350 KQKKQKLFDILKSKQHFKPPAVVFVSSRL------GADLLANAITVVTGLKALSIHGEKSMKERREVMKSF 414 (518)
T ss_pred hhHHHHHHHHHHhhcccCCCEEEEcCCch------hHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHH
Confidence 44666777777666555678999999999 899999988754788888888877766665555555
No 56
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=58.29 E-value=56 Score=31.84 Aligned_cols=61 Identities=18% Similarity=0.295 Sum_probs=41.4
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhh
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCY 237 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~ 237 (253)
+....|++.-.-++.--..+|+|+||||--+- .+=++.++++ -. -+=|+|+.--+.=-|..
T Consensus 523 vMNP~KFraCqfLI~~HE~RgDKiIVFsDnvf--------ALk~YAikl~--Kp--fIYG~Tsq~ERm~ILqn 583 (776)
T KOG1123|consen 523 VMNPNKFRACQFLIKFHERRGDKIIVFSDNVF--------ALKEYAIKLG--KP--FIYGPTSQNERMKILQN 583 (776)
T ss_pred ecCcchhHHHHHHHHHHHhcCCeEEEEeccHH--------HHHHHHHHcC--Cc--eEECCCchhHHHHHHHh
Confidence 44467888777777766779999999998754 6778888873 33 34577766544433333
No 57
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=57.95 E-value=12 Score=30.43 Aligned_cols=27 Identities=37% Similarity=0.609 Sum_probs=23.4
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEE
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIIL 191 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIF 191 (253)
+..|||-.++.++++++.++|.||-+.
T Consensus 10 ~k~SGKTTLie~lv~~L~~~G~rVa~i 36 (161)
T COG1763 10 YKNSGKTTLIEKLVRKLKARGYRVATV 36 (161)
T ss_pred cCCCChhhHHHHHHHHHHhCCcEEEEE
Confidence 677999999999999999998777544
No 58
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=56.42 E-value=31 Score=33.64 Aligned_cols=65 Identities=17% Similarity=0.090 Sum_probs=54.0
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
+..+.|...|.++|+.- ....++||-+..+ --|.|..-|+. .||...++-|+-..=++--||-.|
T Consensus 499 ~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk------~~d~lAk~LeK-~g~~~~tlHg~k~qeQRe~aL~~f 563 (673)
T KOG0333|consen 499 VSEDEKRKKLIEILESN--FDPPIIIFVNTKK------GADALAKILEK-AGYKVTTLHGGKSQEQRENALADF 563 (673)
T ss_pred ecchHHHHHHHHHHHhC--CCCCEEEEEechh------hHHHHHHHHhh-ccceEEEeeCCccHHHHHHHHHHH
Confidence 55578888888888765 3458999999999 99999999998 999999999998877776666655
No 59
>PF13245 AAA_19: Part of AAA domain
Probab=53.46 E-value=35 Score=23.87 Aligned_cols=39 Identities=26% Similarity=0.342 Sum_probs=31.8
Q ss_pred cCcHHHHHHHHHHHHHcC----CCeEEEEccccccccchHHHHHHHHHH
Q 047062 167 ASGKLQLLDTMLSELKNQ----GSRVIILFQILIIRAKVCENEILGYCI 211 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~----g~KvLIFSq~~~~~~~~~~Ldile~~l 211 (253)
.|||-..+...+..+... +.+|++.+.-.. ..|-+...+
T Consensus 20 GtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~------aa~~l~~rl 62 (76)
T PF13245_consen 20 GTGKTTTLAARIAELLAARADPGKRVLVLAPTRA------AADELRERL 62 (76)
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHH------HHHHHHHHH
Confidence 399999988988888865 889999988888 777666555
No 60
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=52.59 E-value=32 Score=32.98 Aligned_cols=68 Identities=16% Similarity=0.124 Sum_probs=54.1
Q ss_pred hhcCcHHHHHHHHHHHHH---cCC----CeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhh
Q 047062 165 VKASGKLQLLDTMLSELK---NQG----SRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCY 237 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~---~~g----~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~ 237 (253)
+..+.|...|.++|.... .+| ++++||..-.+ +.|-++.+|.. .|+++.-+-|.-..+.+--+|..
T Consensus 310 V~~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~------~~d~l~~~l~~-~~~~~~sIhg~~tq~er~~al~~ 382 (482)
T KOG0335|consen 310 VNEMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKR------GADELAAFLSS-NGYPAKSIHGDRTQIEREQALND 382 (482)
T ss_pred ecchhhHHHHHHHhhcccCCcccCCcccceEEEEeeccc------hhhHHHHHHhc-CCCCceeecchhhhhHHHHHHHH
Confidence 445678877878887655 222 59999999999 99999999998 99999999888777777666666
Q ss_pred hh
Q 047062 238 FW 239 (253)
Q Consensus 238 ~~ 239 (253)
|-
T Consensus 383 Fr 384 (482)
T KOG0335|consen 383 FR 384 (482)
T ss_pred hh
Confidence 64
No 61
>COG5209 RCD1 Uncharacterized protein involved in cell differentiation/sexual development [General function prediction only]
Probab=51.85 E-value=82 Score=27.52 Aligned_cols=72 Identities=21% Similarity=0.151 Sum_probs=55.2
Q ss_pred HHHhhhhhhcCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchH-HHHHHH
Q 047062 158 AEYLDVGVKASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVR-CIILAL 235 (253)
Q Consensus 158 ~~~~~~li~~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r-~~~~~~ 235 (253)
-+++-.++....|-+.|+++-++...- +--+++++.+-. |.-++++.+.--+-.+...+|+++..| |-.+++
T Consensus 50 y~wicqlv~g~~kEqaL~EL~rkreq~~dlAl~lW~s~gv------mt~LLqEiisvYpiL~p~~l~~~~snRvcnaL~l 123 (315)
T COG5209 50 YSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGV------MTFLLQEIISVYPILSPSKLDERESNRVCNALNL 123 (315)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHhcCCCeeeeehhccch------HHHHHHHHHhhhhccCccccCchhhhHHHHHHHH
Confidence 345555677788999999999988754 446678888888 888999888743777888999999999 444443
No 62
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=51.76 E-value=53 Score=30.92 Aligned_cols=63 Identities=16% Similarity=0.126 Sum_probs=48.6
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
..|+..|..++.. ..+.++|||++... ..+-+...|.. .|+...-+-|......+.-++..|-
T Consensus 227 ~~k~~~l~~ll~~--~~~~~~lVF~~t~~------~~~~l~~~L~~-~~~~v~~~hg~~~~~eR~~~l~~F~ 289 (460)
T PRK11776 227 DERLPALQRLLLH--HQPESCVVFCNTKK------ECQEVADALNA-QGFSALALHGDLEQRDRDQVLVRFA 289 (460)
T ss_pred HHHHHHHHHHHHh--cCCCceEEEECCHH------HHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHHHH
Confidence 3478888887753 34668999999999 88888888887 8988888888777666666666653
No 63
>PRK10824 glutaredoxin-4; Provisional
Probab=49.13 E-value=1e+02 Score=23.62 Aligned_cols=56 Identities=11% Similarity=-0.066 Sum_probs=31.1
Q ss_pred CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhcc
Q 047062 185 GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGWH 242 (253)
Q Consensus 185 g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~~ 242 (253)
.++|+|||..+.....=.+=.-...+|.. .|+.|.-+|-.... -..-++..+.||.
T Consensus 14 ~~~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~-~~i~~~~idi~~d~-~~~~~l~~~sg~~ 69 (115)
T PRK10824 14 ENPILLYMKGSPKLPSCGFSAQAVQALSA-CGERFAYVDILQNP-DIRAELPKYANWP 69 (115)
T ss_pred cCCEEEEECCCCCCCCCchHHHHHHHHHH-cCCCceEEEecCCH-HHHHHHHHHhCCC
Confidence 48999999842100000033445556655 56666555433222 3455788888995
No 64
>PTZ00062 glutaredoxin; Provisional
Probab=47.36 E-value=1.1e+02 Score=25.82 Aligned_cols=67 Identities=9% Similarity=0.001 Sum_probs=40.2
Q ss_pred HHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhccc
Q 047062 174 LDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGWHI 243 (253)
Q Consensus 174 L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~~~ 243 (253)
+.+.+.++... ++|+||+.-+...-.-..=.-+..+|+. .|+.|.-+|-.... -..-++..+.||..
T Consensus 102 ~~~~v~~li~~-~~Vvvf~Kg~~~~p~C~~C~~~k~~L~~-~~i~y~~~DI~~d~-~~~~~l~~~sg~~T 168 (204)
T PTZ00062 102 TVEKIERLIRN-HKILLFMKGSKTFPFCRFSNAVVNMLNS-SGVKYETYNIFEDP-DLREELKVYSNWPT 168 (204)
T ss_pred HHHHHHHHHhc-CCEEEEEccCCCCCCChhHHHHHHHHHH-cCCCEEEEEcCCCH-HHHHHHHHHhCCCC
Confidence 44555555544 8999998842200000033345667776 78998888776553 33446778889953
No 65
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=46.55 E-value=70 Score=22.83 Aligned_cols=55 Identities=9% Similarity=0.013 Sum_probs=32.7
Q ss_pred CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhc
Q 047062 185 GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGW 241 (253)
Q Consensus 185 g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~ 241 (253)
.++|+|||..+...-.=..=.-+..+|+. .|+.|.-+|-... ....-.+...-|+
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~-~~i~y~~idv~~~-~~~~~~l~~~~g~ 61 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQ-LGVDFGTFDILED-EEVRQGLKEYSNW 61 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHH-cCCCeEEEEcCCC-HHHHHHHHHHhCC
Confidence 57999998742100000034566777876 7899998875443 3344455555666
No 66
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=45.59 E-value=35 Score=26.79 Aligned_cols=47 Identities=17% Similarity=0.169 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHh-cC-CCCCceeee
Q 047062 171 LQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCIS-LG-PGVSPEVVV 223 (253)
Q Consensus 171 l~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~-~~-~g~~~~rl~ 223 (253)
..++..++++...+|.||+|+++-.. ..+-|.+.|= .. ..+-+..++
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~------~a~~lD~~LW~~~~~sFlPH~~~ 63 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEE------QAEALDELLWTFSPDSFLPHGLA 63 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHH------HHHHHHHHTTTSSTT----EEET
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHH------HHHHHHHHHHCCCCCCCCCCccc
Confidence 58999999999999999999999988 8888888773 21 444444443
No 67
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=45.54 E-value=89 Score=31.77 Aligned_cols=85 Identities=21% Similarity=0.173 Sum_probs=62.7
Q ss_pred EeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhhhhhhhhhhHHHHhhhhhhcCcH
Q 047062 91 IPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQSLLVKDLELAEYLDVGVKASGK 170 (253)
Q Consensus 91 V~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgK 170 (253)
.+..+++.|...|+.+.... -+.+|+|+.+ +..|||
T Consensus 195 ~~~~Ln~~Q~~a~~~i~~~~-------------------------~~~~~~Ll~G-------------------vTGSGK 230 (730)
T COG1198 195 EWLALNQEQQAAVEAILSSL-------------------------GGFAPFLLDG-------------------VTGSGK 230 (730)
T ss_pred cccccCHHHHHHHHHHHHhc-------------------------ccccceeEeC-------------------CCCCcH
Confidence 35677888888887665310 2567888887 566999
Q ss_pred HHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecC
Q 047062 171 LQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSP 225 (253)
Q Consensus 171 l~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~ 225 (253)
-++..+++.+..++|.-|||.-.-.. ...-+...++.++|.+..-+-+.
T Consensus 231 TEvYl~~i~~~L~~GkqvLvLVPEI~------Ltpq~~~rf~~rFg~~v~vlHS~ 279 (730)
T COG1198 231 TEVYLEAIAKVLAQGKQVLVLVPEIA------LTPQLLARFKARFGAKVAVLHSG 279 (730)
T ss_pred HHHHHHHHHHHHHcCCEEEEEecccc------chHHHHHHHHHHhCCChhhhccc
Confidence 99999999999999999999998888 66655555554477655555333
No 68
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=44.26 E-value=81 Score=29.75 Aligned_cols=61 Identities=16% Similarity=0.188 Sum_probs=42.6
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 169 GKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 169 gKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
.|..+|..++.. ....++|||+.... .-+-+...|.. .|+...-+.|......+.-++-.|
T Consensus 231 ~k~~~l~~l~~~--~~~~~~lVF~~t~~------~~~~l~~~L~~-~g~~~~~lhg~~~~~~R~~~l~~F 291 (456)
T PRK10590 231 RKRELLSQMIGK--GNWQQVLVFTRTKH------GANHLAEQLNK-DGIRSAAIHGNKSQGARTRALADF 291 (456)
T ss_pred HHHHHHHHHHHc--CCCCcEEEEcCcHH------HHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHH
Confidence 344555554432 34579999999999 88888888887 899888888887765544444444
No 69
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=43.66 E-value=54 Score=26.58 Aligned_cols=55 Identities=25% Similarity=0.288 Sum_probs=37.7
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTI 227 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~ 227 (253)
+-.|||-.++..+++ ....|+|+.|.-+=-. ...+=+..++. .|.....+.+...
T Consensus 8 fLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g------~~~iD~~~l~~-~~~~v~~l~~gci 62 (178)
T PF02492_consen 8 FLGSGKTTLINHLLK-RNRQGERVAVIVNEFG------EVNIDAELLQE-DGVPVVELNNGCI 62 (178)
T ss_dssp STTSSHHHHHHHHHH-HHTTTS-EEEEECSTT------STHHHHHHHHT-TT-EEEEECTTTE
T ss_pred CCCCCHHHHHHHHHH-HhcCCceeEEEEcccc------ccccchhhhcc-cceEEEEecCCCc
Confidence 456999999999999 7777888875544333 35666777776 6777777766543
No 70
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.40 E-value=10 Score=26.97 Aligned_cols=9 Identities=56% Similarity=1.298 Sum_probs=7.7
Q ss_pred cccCCcccc
Q 047062 242 HIPKGIDSV 250 (253)
Q Consensus 242 ~~~~~~~~~ 250 (253)
|+|.|||++
T Consensus 34 h~PSGID~~ 42 (76)
T cd04911 34 HMPSGIDDI 42 (76)
T ss_pred eecCCCccE
Confidence 889999985
No 71
>PF05971 Methyltransf_10: Protein of unknown function (DUF890); InterPro: IPR010286 This family consists of several conserved hypothetical proteins from both eukaryotes and prokaryotes. The function of members of this family are unknown but are predicted to be SAM-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2H00_A.
Probab=41.91 E-value=21 Score=32.18 Aligned_cols=64 Identities=13% Similarity=0.022 Sum_probs=47.1
Q ss_pred hhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCcee---e-ecCCchH
Q 047062 162 DVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEV---V-VSPTIVR 229 (253)
Q Consensus 162 ~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~r---l-~g~t~~r 229 (253)
.+++...|-..++..|+.+...-+++|..|+.++. |-+-|.-|...|+. .|..-.+ + .|.|..|
T Consensus 224 ~El~~~GGEv~FV~rMI~ES~~~~~~v~WfTsmvg---KkssL~~l~~~L~~-~~~~~~~~~e~~QG~t~rw 291 (299)
T PF05971_consen 224 NELWCEGGEVAFVKRMIKESLQLKDQVRWFTSMVG---KKSSLKPLKKELKK-LGATNYKVTEMCQGQTKRW 291 (299)
T ss_dssp TTTHHHHTHHHHHHHHHHHHHHHGGGEEEEEEEES---SGGGHHHHHHHHHH-TT-SEEEEEEEEETTEEEE
T ss_pred ceEEcCCccHHHHHHHHHHHHHhCCCcEEEeeccc---CcccHHHHHHHHHh-cCCceEEEEEccCCceEEE
Confidence 34688899999999999999988899999999998 44456666666665 4544322 2 6887643
No 72
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=41.48 E-value=54 Score=30.85 Aligned_cols=59 Identities=20% Similarity=0.165 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhh
Q 047062 172 QLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFW 239 (253)
Q Consensus 172 ~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~ 239 (253)
..|..+|.+.. |.-++|||..-. .-+.+..+|.. .|+....+-|.-..-.+.-++-.|-
T Consensus 289 ~yLV~ll~e~~--g~s~iVF~~t~~------tt~~la~~L~~-lg~~a~~LhGqmsq~~Rlg~l~~Fk 347 (476)
T KOG0330|consen 289 TYLVYLLNELA--GNSVIVFCNTCN------TTRFLALLLRN-LGFQAIPLHGQMSQSKRLGALNKFK 347 (476)
T ss_pred hhHHHHHHhhc--CCcEEEEEeccc------hHHHHHHHHHh-cCcceecccchhhHHHHHHHHHHHh
Confidence 56666666544 578999999999 89999999997 9999999999988887777776663
No 73
>PF04763 DUF562: Protein of unknown function (DUF562); InterPro: IPR006850 This represents a conserved region found in a number of Chlamydophila pneumoniae proteins.
Probab=40.04 E-value=66 Score=25.57 Aligned_cols=72 Identities=21% Similarity=0.276 Sum_probs=43.5
Q ss_pred HcCCccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEE-EEccccccccchHHHHHHHH-HHhc
Q 047062 136 CCDHPYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVI-ILFQILIIRAKVCENEILGY-CISL 213 (253)
Q Consensus 136 iCnHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvL-IFSq~~~~~~~~~~Ldile~-~l~~ 213 (253)
+|||+++.....++. .+..+..++...|--=| |||--.. -..+-|. +|..
T Consensus 21 v~~~~~~~~~~l~~~----------------------s~~~l~~eL~~~GYSylNIfs~~~~------~~~V~eR~~l~~ 72 (146)
T PF04763_consen 21 VCNHSWPGPESLPPE----------------------SVSLLIEELEESGYSYLNIFSCSSE------SMCVKERQILND 72 (146)
T ss_pred EEeCCcccccCCChH----------------------HHHHHHHHHhhcCCceEEEEEEcCC------CcchHHHHHhcC
Confidence 689998766643221 23355666777777555 6665554 2233333 3333
Q ss_pred C-CCCCceee-----ecCCchHHHHHHH
Q 047062 214 G-PGVSPEVV-----VSPTIVRCIILAL 235 (253)
Q Consensus 214 ~-~g~~~~rl-----~g~t~~r~~~~~~ 235 (253)
. .|-+|..+ .|+...||+.||-
T Consensus 73 ~~~grsFTvI~~elp~g~~DiR~LqLAS 100 (146)
T PF04763_consen 73 DSQGRSFTVILTELPEGSADIRCLQLAS 100 (146)
T ss_pred CccCceEEEEEEcCCCCccchhhhhhhh
Confidence 2 56666666 6788889988873
No 74
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=39.92 E-value=32 Score=34.81 Aligned_cols=29 Identities=17% Similarity=0.323 Sum_probs=25.8
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccc
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQI 194 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~ 194 (253)
..|||=.++.+||..++++|+|+|||=.-
T Consensus 194 tGSGKS~~i~~LL~~ir~RGdrAIIyD~~ 222 (732)
T PRK13700 194 VGAGKSEVIRRLANYARQRGDMVVIYDRS 222 (732)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence 34999999999999999999999999543
No 75
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=39.87 E-value=34 Score=31.76 Aligned_cols=56 Identities=25% Similarity=0.356 Sum_probs=35.1
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHH
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILA 234 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~ 234 (253)
..|||-.++..+|..+.++|+++|||-.= . |+++.+-.. |. ..+-.|...||..-+
T Consensus 24 ~GsGKT~~i~~ll~~~~~~g~~~iI~D~k-g--------~~~~~f~~~--~~--d~ilnP~D~rs~~W~ 79 (386)
T PF10412_consen 24 TGSGKTQAIRHLLDQIRARGDRAIIYDPK-G--------EFTERFYRP--GK--DVILNPFDARSVSWN 79 (386)
T ss_dssp TTSSHHHHHHHHHHHHHHTT-EEEEEEET-T--------HHHHHH--T--T----EEE-TTBTT-----
T ss_pred CCCCHHHHHHHHHHHHHHcCCEEEEEECC-c--------hHHHHhcCC--CC--CEEECcCCCCCCcCC
Confidence 34999999999999999999999999743 2 556666553 43 346667777776433
No 76
>COG5500 Predicted integral membrane protein [Function unknown]
Probab=39.09 E-value=20 Score=28.06 Aligned_cols=21 Identities=38% Similarity=0.833 Sum_probs=18.1
Q ss_pred CchHHHHHHHhhhhhccccCC
Q 047062 226 TIVRCIILALCYFWGWHIPKG 246 (253)
Q Consensus 226 t~~r~~~~~~~~~~~~~~~~~ 246 (253)
|-.-|+|+..-+|-|||-|..
T Consensus 65 TgllcliLl~~a~~gW~~pgs 85 (159)
T COG5500 65 TGLLCLILLISALLGWHQPGS 85 (159)
T ss_pred hhHHHHHHHHHHHhccCCCCc
Confidence 456799999999999999964
No 77
>PF10490 CENP-F_C_Rb_bdg: Rb-binding domain of kinetochore protein Cenp-F/LEK1; InterPro: IPR018302 This entry represents the Rb protein-binding domain from the centromere protein Cenp-F. Cenp-F is a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, that is involved in chromosome segregation during mitosis and is essential for the full functioning of the mitotic checkpoint pathway [, ]. Cenp-F interacts with retinoblastoma protein (RB), CENP-E and BUBR1. This domain is at the very C terminus of the C-terminal coiled-coil region, and binds to the Rb family of tumour suppressors [].
Probab=36.85 E-value=8.9 Score=24.46 Aligned_cols=11 Identities=36% Similarity=0.401 Sum_probs=8.9
Q ss_pred HhhhhhhhccC
Q 047062 70 KTSKYVAYGGK 80 (253)
Q Consensus 70 ~l~pf~LRRtK 80 (253)
..+||+||||-
T Consensus 32 k~sPyilRRtt 42 (49)
T PF10490_consen 32 KTSPYILRRTT 42 (49)
T ss_pred CCCceEEEeec
Confidence 35799999974
No 78
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=36.81 E-value=3.4e+02 Score=25.02 Aligned_cols=155 Identities=17% Similarity=0.072 Sum_probs=86.3
Q ss_pred HHhhhhhhhccCCCCCCceEEEEeecCCHHHHHHHHHHHHhccccccCCCCCCCcchHHHHHHHHHHHcCCccCcchhhh
Q 047062 69 EKTSKYVAYGGKLDSSRFVEYWIPVQISNVQLEQYCGTLLSKSLSLCSPLKNDPVGVLHDILISARKCCDHPYLVDKSLQ 148 (253)
Q Consensus 69 ~~l~pf~LRRtK~dvP~K~e~vV~~~Ls~~Qr~lY~~~l~~~~~~l~~~~~~~~~~~ll~~L~~LRqiCnHP~L~~~~~~ 148 (253)
..+..++.++.++..+.+....|-|.--+...++|..+..... .-...+.....++..+...-..+..+.++--.+-
T Consensus 56 T~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~---~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEi 132 (366)
T COG1474 56 TATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG---KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEV 132 (366)
T ss_pred hHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC---CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcch
Confidence 3344456666666666665556667777777778877775443 1122233344566666555555666665433322
Q ss_pred hhhhhhhhHHHHhhh-------------hhhcCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcC
Q 047062 149 SLLVKDLELAEYLDV-------------GVKASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLG 214 (253)
Q Consensus 149 ~~~~~~~~~~~~~~~-------------li~~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~ 214 (253)
+....... +.+.. ++.-+--+.+.+.+.+.+... |..-|+|..|+. --+-+|+.+-.+.
T Consensus 133 d~L~~~~~--~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~rv~s~l~~~~I~F~pY~a----~el~~Il~~R~~~- 205 (366)
T COG1474 133 DALVDKDG--EVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTA----EELYDILRERVEE- 205 (366)
T ss_pred hhhccccc--hHHHHHHhhccccceeEEEEEEeccHHHHHHhhhhhhhccCcceeeeCCCCH----HHHHHHHHHHHHh-
Confidence 22111110 11111 133345555677777777643 667799999998 2234566666664
Q ss_pred CCCCceeeecCCchHHHHHH
Q 047062 215 PGVSPEVVVSPTIVRCIILA 234 (253)
Q Consensus 215 ~g~~~~rl~g~t~~r~~~~~ 234 (253)
|+....++......|..++
T Consensus 206 -~~~~~~~~~~vl~lia~~~ 224 (366)
T COG1474 206 -GFSAGVIDDDVLKLIAALV 224 (366)
T ss_pred -hccCCCcCccHHHHHHHHH
Confidence 6777777777766665443
No 79
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=36.04 E-value=79 Score=25.21 Aligned_cols=45 Identities=18% Similarity=0.111 Sum_probs=34.8
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCc
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSP 219 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~ 219 (253)
.+||-.+..+++.....+|++|++||--.+ .-++++.+-.. |+..
T Consensus 9 G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~------~~~~~~~~~~~--g~~~ 53 (187)
T cd01124 9 GTGKTTFALQFLYAGLARGEPGLYVTLEES------PEELIENAESL--GWDL 53 (187)
T ss_pred CCCHHHHHHHHHHHHHHCCCcEEEEECCCC------HHHHHHHHHHc--CCCh
Confidence 489999999999888889999999987666 56666665443 5543
No 80
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=34.98 E-value=94 Score=24.15 Aligned_cols=47 Identities=13% Similarity=0.079 Sum_probs=30.9
Q ss_pred HHHHHHHHcCCCeEEEEccccc-ccc------chHHHHHHHHHHhcCCCCCceee
Q 047062 175 DTMLSELKNQGSRVIILFQILI-IRA------KVCENEILGYCISLGPGVSPEVV 222 (253)
Q Consensus 175 ~~lL~~l~~~g~KvLIFSq~~~-~~~------~~~~Ldile~~l~~~~g~~~~rl 222 (253)
.+.|.++++.|++++++|-=.. .+. ..-+++++..+|.. .|+.|..+
T Consensus 30 ie~L~~l~~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k-~~ipYd~l 83 (126)
T TIGR01689 30 IEKLRHYKALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLNQ-HNVPYDEI 83 (126)
T ss_pred HHHHHHHHHCCCEEEEECCCCchhhhccccccchhhHHHHHHHHHH-cCCCCceE
Confidence 3557777889999999983322 000 00123688999987 89999666
No 81
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=34.62 E-value=1.4e+02 Score=21.76 Aligned_cols=56 Identities=11% Similarity=-0.042 Sum_probs=33.7
Q ss_pred CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhcc
Q 047062 185 GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGWH 242 (253)
Q Consensus 185 g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~~ 242 (253)
.++|+|||..++.+..=..=.-...+|.. .|+.|.-+|-... ....-+++...||.
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~-~~i~~~~~di~~~-~~~~~~l~~~tg~~ 66 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKA-CGVPFAYVNVLED-PEIRQGIKEYSNWP 66 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHH-cCCCEEEEECCCC-HHHHHHHHHHhCCC
Confidence 58999998643100000033456677776 8999998886543 23344566667874
No 82
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=34.28 E-value=55 Score=25.70 Aligned_cols=27 Identities=41% Similarity=0.684 Sum_probs=22.1
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEE
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIIL 191 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIF 191 (253)
...|||-.+...++..+.++|.||.++
T Consensus 8 ~~~sGKTTl~~~Li~~l~~~g~~v~~i 34 (140)
T PF03205_consen 8 PKNSGKTTLIRKLINELKRRGYRVAVI 34 (140)
T ss_dssp STTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred CCCCCHHHHHHHHHHHHhHcCCceEEE
Confidence 456999999999999999999998855
No 83
>PRK05973 replicative DNA helicase; Provisional
Probab=34.10 E-value=91 Score=27.01 Aligned_cols=46 Identities=17% Similarity=0.153 Sum_probs=37.2
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCce
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPE 220 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~ 220 (253)
.+||-.+..+++.....+|++|++||---+ --++++..... |+...
T Consensus 74 G~GKT~lalqfa~~~a~~Ge~vlyfSlEes------~~~i~~R~~s~--g~d~~ 119 (237)
T PRK05973 74 GHGKTLLGLELAVEAMKSGRTGVFFTLEYT------EQDVRDRLRAL--GADRA 119 (237)
T ss_pred CCCHHHHHHHHHHHHHhcCCeEEEEEEeCC------HHHHHHHHHHc--CCChH
Confidence 489999999999888778999999987777 67888887765 55443
No 84
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=34.06 E-value=1.4e+02 Score=25.10 Aligned_cols=54 Identities=13% Similarity=0.225 Sum_probs=42.0
Q ss_pred hcCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecC
Q 047062 166 KASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSP 225 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~ 225 (253)
..+||-.+..+++.....+ |++|+.||-=-. .-++++..+....|+.+.++...
T Consensus 22 ~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~------~~~~~~r~~~~~~~~~~~~~~~~ 76 (242)
T cd00984 22 PSMGKTAFALNIAENIAKKQGKPVLFFSLEMS------KEQLLQRLLASESGISLSKLRTG 76 (242)
T ss_pred CCCCHHHHHHHHHHHHHHhCCCceEEEeCCCC------HHHHHHHHHHHhcCCCHHHHhcC
Confidence 3489999999998887766 999999998777 77888887654467777666433
No 85
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.58 E-value=1.3e+02 Score=29.12 Aligned_cols=57 Identities=18% Similarity=0.149 Sum_probs=41.0
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTI 227 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~ 227 (253)
...|||-.+...++.+..++|.+|||.+.... ...=+..-++...|.....+.|.+.
T Consensus 5 ~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~------L~~Q~~~~l~~~f~~~v~vlhs~~~ 61 (505)
T TIGR00595 5 VTGSGKTEVYLQAIEKVLALGKSVLVLVPEIA------LTPQMIQRFKYRFGSQVAVLHSGLS 61 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHH------HHHHHHHHHHHHhCCcEEEEECCCC
Confidence 45699999998889888888999999999888 5544444444336666556655443
No 86
>PRK08506 replicative DNA helicase; Provisional
Probab=31.86 E-value=81 Score=30.15 Aligned_cols=51 Identities=16% Similarity=0.102 Sum_probs=42.9
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeee
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVV 223 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~ 223 (253)
..||-.+...+.......|.+|++||-=-+ .-++++.++....|+.+.++.
T Consensus 202 g~GKT~fal~ia~~~~~~g~~V~~fSlEMs------~~ql~~Rlla~~s~v~~~~i~ 252 (472)
T PRK08506 202 SMGKTTLCLNMALKALNQDKGVAFFSLEMP------AEQLMLRMLSAKTSIPLQNLR 252 (472)
T ss_pred CCChHHHHHHHHHHHHhcCCcEEEEeCcCC------HHHHHHHHHHHhcCCCHHHHh
Confidence 479999999999888778999999998888 888999988755677776664
No 87
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=31.85 E-value=62 Score=26.56 Aligned_cols=32 Identities=19% Similarity=0.174 Sum_probs=27.3
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILI 196 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~ 196 (253)
...|||=..|...+..+...|.||++|.....
T Consensus 9 pM~sGKS~eLi~~~~~~~~~~~~v~~~kp~~D 40 (176)
T PF00265_consen 9 PMFSGKSTELIRRIHRYEIAGKKVLVFKPAID 40 (176)
T ss_dssp STTSSHHHHHHHHHHHHHHTT-EEEEEEESTS
T ss_pred CcCChhHHHHHHHHHHHHhCCCeEEEEEeccc
Confidence 34599999999999999999999999987665
No 88
>PF14658 EF-hand_9: EF-hand domain
Probab=30.03 E-value=22 Score=24.56 Aligned_cols=23 Identities=9% Similarity=0.123 Sum_probs=17.9
Q ss_pred ccch-hhhhhCHHHHHHHhhhhcCCCC
Q 047062 24 ELCD-ASIAKQTTEYHNMPSLHESRGD 49 (253)
Q Consensus 24 ~LTG-TPiQN~L~EL~sL~~Fl~P~~~ 49 (253)
++|| +|-+..|++|++.+| |.+.
T Consensus 26 a~~~~~p~e~~Lq~l~~elD---P~g~ 49 (66)
T PF14658_consen 26 AVTGRSPEESELQDLINELD---PEGR 49 (66)
T ss_pred HHcCCCCcHHHHHHHHHHhC---CCCC
Confidence 4789 999998888888754 7544
No 89
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=29.76 E-value=24 Score=32.07 Aligned_cols=65 Identities=14% Similarity=0.073 Sum_probs=47.0
Q ss_pred hhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCcee----eecCCchHH
Q 047062 162 DVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEV----VVSPTIVRC 230 (253)
Q Consensus 162 ~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~r----l~g~t~~r~ 230 (253)
.+++...|.+.++..|+.+...-..++..|+-++. +-.-++-+...|+. .|+...+ -.|.|..|.
T Consensus 234 ~EL~~~GGe~~fi~~mi~eS~~~~~~~gwftsmv~---kk~~l~~l~~~L~~-~~~~~~~~~e~~qG~~~~~~ 302 (321)
T PRK11727 234 AELWCEGGEVAFIKRMIEESKAFAKQVLWFTSLVS---KKENLPPLYRALKK-VGAVEVKTIEMAQGQKQSRF 302 (321)
T ss_pred hheeeCCcEeeeehHhhHHHHHHHhhCcEEEEEee---ccCCHHHHHHHHHH-cCCceEEEEEEeCCCeeeEE
Confidence 45577899999999999998877777888877776 22346667777776 6774333 378888764
No 90
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=29.08 E-value=1.1e+02 Score=26.26 Aligned_cols=50 Identities=18% Similarity=0.066 Sum_probs=36.1
Q ss_pred hcCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcCCCCCcee
Q 047062 166 KASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEV 221 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~r 221 (253)
..+||-.++..+....... |++|++||-=-. .-++...++....|+.+.+
T Consensus 39 ~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~------~~~~~~r~~~~~~~~~~~~ 89 (271)
T cd01122 39 TGVGKTTFLREYALDLITQHGVRVGTISLEEP------VVRTARRLLGQYAGKRLHL 89 (271)
T ss_pred CCCCHHHHHHHHHHHHHHhcCceEEEEEcccC------HHHHHHHHHHHHhCCCccc
Confidence 3489999999998887666 999999997666 5667776655323444443
No 91
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=28.00 E-value=69 Score=27.13 Aligned_cols=32 Identities=22% Similarity=0.200 Sum_probs=27.8
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILI 196 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~ 196 (253)
...|||-+.|..-+......|.||+||..-..
T Consensus 12 pM~SGKT~eLl~r~~~~~~~g~~v~vfkp~iD 43 (201)
T COG1435 12 PMFSGKTEELLRRARRYKEAGMKVLVFKPAID 43 (201)
T ss_pred cCcCcchHHHHHHHHHHHHcCCeEEEEecccc
Confidence 45699999999999999999999999976555
No 92
>cd00047 PTPc Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (pTyr) residues, instead of pSer or pThr. This family has a distinctive active site signature motif, HCSAGxGRxG. Characterized as either transmembrane, receptor-like or non-transmembrane (soluble) PTPs. Receptor-like PTP domains tend to occur in two copies in the cytoplasmic region of the transmembrane proteins, only one copy may be active.
Probab=27.91 E-value=30 Score=29.13 Aligned_cols=24 Identities=4% Similarity=-0.026 Sum_probs=21.3
Q ss_pred cCCcccchhhhhhCHHHHHHHhhh
Q 047062 20 KLDGELCDASIAKQTTEYHNMPSL 43 (253)
Q Consensus 20 ~~~~~LTGTPiQN~L~EL~sL~~F 43 (253)
+.++++|-+|+.|+++|+|.|+-=
T Consensus 40 ~~~fI~tQ~P~~~t~~~FW~mv~~ 63 (231)
T cd00047 40 PKAYIATQGPLPNTVEDFWRMVWE 63 (231)
T ss_pred CcceEEcCCCChhhHHHHHHHHHh
Confidence 567889999999999999999864
No 93
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=27.28 E-value=1.4e+02 Score=25.73 Aligned_cols=46 Identities=24% Similarity=0.175 Sum_probs=39.7
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCce
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPE 220 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~ 220 (253)
-|||-.+..+.+.+....|++|+.+|---. --++++.+-+ .||.+.
T Consensus 33 GsGKT~f~~qfl~~~~~~ge~vlyvs~~e~------~~~l~~~~~~--~g~d~~ 78 (260)
T COG0467 33 GTGKTIFALQFLYEGAREGEPVLYVSTEES------PEELLENARS--FGWDLE 78 (260)
T ss_pred CCcHHHHHHHHHHHHHhcCCcEEEEEecCC------HHHHHHHHHH--cCCCHH
Confidence 399999999999999989999999998888 8889888877 476664
No 94
>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC. This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.
Probab=27.22 E-value=66 Score=27.83 Aligned_cols=31 Identities=26% Similarity=0.335 Sum_probs=25.9
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILI 196 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~ 196 (253)
+.++||-.++..+..++..+|.||+| +.-|.
T Consensus 5 vG~gGKTtl~~~l~~~~~~~g~~v~~-TTTT~ 35 (232)
T TIGR03172 5 VGAGGKTSTMFWLAAEYRKEGYRVLV-TTTTR 35 (232)
T ss_pred EcCCcHHHHHHHHHHHHHHCCCeEEE-ECCcc
Confidence 45699999999999999999999965 44455
No 95
>PTZ00424 helicase 45; Provisional
Probab=26.89 E-value=2.5e+02 Score=25.47 Aligned_cols=48 Identities=10% Similarity=-0.040 Sum_probs=36.5
Q ss_pred CCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 184 QGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 184 ~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
...++|||+.... ..+-+...+.. .|+....+.|......+...+-.|
T Consensus 266 ~~~~~ivF~~t~~------~~~~l~~~l~~-~~~~~~~~h~~~~~~~R~~i~~~f 313 (401)
T PTZ00424 266 TITQAIIYCNTRR------KVDYLTKKMHE-RDFTVSCMHGDMDQKDRDLIMREF 313 (401)
T ss_pred CCCeEEEEecCcH------HHHHHHHHHHH-CCCcEEEEeCCCCHHHHHHHHHHH
Confidence 4568999999999 88888888886 788888888877665554444444
No 96
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=26.38 E-value=1.8e+02 Score=26.58 Aligned_cols=54 Identities=19% Similarity=0.057 Sum_probs=35.7
Q ss_pred cHHHHHHHHHHHHH-----cCCCeEEEEccccccccchHHHHHHHHHHhcC-CCCCceeeecCCch
Q 047062 169 GKLQLLDTMLSELK-----NQGSRVIILFQILIIRAKVCENEILGYCISLG-PGVSPEVVVSPTIV 228 (253)
Q Consensus 169 gKl~~L~~lL~~l~-----~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~-~g~~~~rl~g~t~~ 228 (253)
-|...+..++..+. ..|.|+|||+.... ..+-+...|+.. .++...++.|....
T Consensus 251 ~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~------~~~~l~~~L~~~~~~~~~~~l~g~~~~ 310 (357)
T TIGR03158 251 FKEEELSELAEEVIERFRQLPGERGAIILDSLD------EVNRLSDLLQQQGLGDDIGRITGFAPK 310 (357)
T ss_pred hhHHHHHHHHHHHHHHHhccCCCeEEEEECCHH------HHHHHHHHHhhhCCCceEEeeecCCCH
Confidence 34555555555442 36789999999999 888888888751 34556666665443
No 97
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=25.75 E-value=1.4e+02 Score=25.52 Aligned_cols=57 Identities=16% Similarity=0.119 Sum_probs=45.3
Q ss_pred hcCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCch
Q 047062 166 KASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIV 228 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~ 228 (253)
...||-.++.++...+... |.+|++||-=-+ .-++.+.++....|+.+.++......
T Consensus 28 pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~------~~~l~~R~la~~s~v~~~~i~~g~l~ 85 (259)
T PF03796_consen 28 PGVGKTAFALQIALNAALNGGYPVLYFSLEMS------EEELAARLLARLSGVPYNKIRSGDLS 85 (259)
T ss_dssp TTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-------HHHHHHHHHHHHHTSTHHHHHCCGCH
T ss_pred ccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC------HHHHHHHHHHHhhcchhhhhhccccC
Confidence 3489999999999988765 699999998877 78899998886578888888655433
No 98
>PRK04296 thymidine kinase; Provisional
Probab=25.52 E-value=88 Score=25.72 Aligned_cols=27 Identities=22% Similarity=0.276 Sum_probs=24.0
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEcc
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQ 193 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq 193 (253)
.+||-..+..++..+...|.||+||..
T Consensus 12 GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 12 NSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred CCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 489999999999999889999999943
No 99
>smart00194 PTPc Protein tyrosine phosphatase, catalytic domain.
Probab=25.37 E-value=36 Score=29.29 Aligned_cols=63 Identities=25% Similarity=0.297 Sum_probs=41.1
Q ss_pred chHHHHHHHHHHHc---CCccCcchhhhhhhhhhhhHHHHhhhhhhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccc
Q 047062 124 GVLHDILISARKCC---DHPYLVDKSLQSLLVKDLELAEYLDVGVKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAK 200 (253)
Q Consensus 124 ~~ll~~L~~LRqiC---nHP~L~~~~~~~~~~~~~~~~~~~~~li~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~ 200 (253)
..++..+..+++.. ..|-++....+ +..||=+-+++.++..+...+. ..
T Consensus 176 ~~~~~~i~~v~~~~~~~~~pivVHC~~G----------------~gRsg~f~a~~~~~~~l~~~~~--------v~---- 227 (258)
T smart00194 176 KSILDLVRAVRKSQSTSTGPIVVHCSAG----------------VGRTGTFIAIDILLQQLEAGKE--------VD---- 227 (258)
T ss_pred HHHHHHHHHHHHhhccCCCCEEEEeCCC----------------CCccchhhHHHHHHHHHHHcCC--------CC----
Confidence 35667777777665 45777766432 5568888888888877776653 45
Q ss_pred hHHHHHHHHHHhcCCC
Q 047062 201 VCENEILGYCISLGPG 216 (253)
Q Consensus 201 ~~~Ldile~~l~~~~g 216 (253)
..+++...-+.+.|
T Consensus 228 --v~~~v~~lR~~R~~ 241 (258)
T smart00194 228 --IFEIVKELRSQRPG 241 (258)
T ss_pred --HHHHHHHHHhcccc
Confidence 67777776665333
No 100
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=24.79 E-value=1.2e+02 Score=20.62 Aligned_cols=29 Identities=24% Similarity=0.464 Sum_probs=25.2
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEcccc
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQIL 195 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~ 195 (253)
.+||-.....+...+.+.|.||+++..+.
T Consensus 9 G~Gktt~~~~l~~~l~~~g~~v~~~~d~i 37 (99)
T cd01983 9 GVGKTTLAANLAAALAKRGKRVLLIDDYV 37 (99)
T ss_pred CCCHHHHHHHHHHHHHHCCCeEEEECCEE
Confidence 58999999999999999999999987444
No 101
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=24.77 E-value=2e+02 Score=26.93 Aligned_cols=70 Identities=19% Similarity=0.167 Sum_probs=59.7
Q ss_pred hhcCcHHHHHHHHHHHHHc-CCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhhhhc
Q 047062 165 VKASGKLQLLDTMLSELKN-QGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYFWGW 241 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~-~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~~~~ 241 (253)
....+|=.+|..+|....+ ...-+.||.|-+. .=+++...|+. -++.-.-+-|.-+.+.+..||--|-.=
T Consensus 233 ~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr------~cQ~l~~~l~~-le~r~~~lHs~m~Q~eR~~aLsrFrs~ 303 (442)
T KOG0340|consen 233 VSIDVKDAYLVHLLRDFENKENGSIMIFVNTTR------ECQLLSMTLKN-LEVRVVSLHSQMPQKERLAALSRFRSN 303 (442)
T ss_pred cchhhhHHHHHHHHhhhhhccCceEEEEeehhH------HHHHHHHHHhh-hceeeeehhhcchHHHHHHHHHHHhhc
Confidence 4456888999999999987 4557889999999 99999999997 888888889999999999999888543
No 102
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=24.62 E-value=75 Score=25.56 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=34.6
Q ss_pred CcHHH-HHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhc
Q 047062 168 SGKLQ-LLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISL 213 (253)
Q Consensus 168 SgKl~-~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~ 213 (253)
|||-. +|-+++.+..+++.||||.-.-.. ..+=++.+|+.
T Consensus 15 aGKTr~vlp~~~~~~i~~~~rvLvL~PTRv------va~em~~aL~~ 55 (148)
T PF07652_consen 15 AGKTRRVLPEIVREAIKRRLRVLVLAPTRV------VAEEMYEALKG 55 (148)
T ss_dssp SSTTTTHHHHHHHHHHHTT--EEEEESSHH------HHHHHHHHTTT
T ss_pred CCCcccccHHHHHHHHHccCeEEEecccHH------HHHHHHHHHhc
Confidence 88885 799999999999999999999999 99999999975
No 103
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=24.39 E-value=2.5e+02 Score=27.92 Aligned_cols=62 Identities=11% Similarity=-0.014 Sum_probs=44.5
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
.-|...|..+|.. ....++|||+.... ..+-+...|.. .||...-+.|......+--.+..|
T Consensus 230 ~~k~~~L~~~L~~--~~~~~~IVF~~tk~------~a~~l~~~L~~-~g~~~~~lhgd~~q~~R~~il~~F 291 (629)
T PRK11634 230 MRKNEALVRFLEA--EDFDAAIIFVRTKN------ATLEVAEALER-NGYNSAALNGDMNQALREQTLERL 291 (629)
T ss_pred hhHHHHHHHHHHh--cCCCCEEEEeccHH------HHHHHHHHHHh-CCCCEEEeeCCCCHHHHHHHHHHH
Confidence 3477777777643 34568999999988 88888888887 899888888876665444444444
No 104
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=24.37 E-value=85 Score=30.84 Aligned_cols=29 Identities=28% Similarity=0.430 Sum_probs=25.7
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEcc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQ 193 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq 193 (253)
-..|||=.++..+|..+.++|+++|||=.
T Consensus 184 ~tGsGKs~~i~~ll~~~~~~g~~~ii~D~ 212 (566)
T TIGR02759 184 TTGSGKSVAIRKLLRWIRQRGDRAIIYDK 212 (566)
T ss_pred CCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 34599999999999999999999999964
No 105
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=24.15 E-value=1e+02 Score=24.50 Aligned_cols=28 Identities=36% Similarity=0.538 Sum_probs=23.7
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEc
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILF 192 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFS 192 (253)
...|||-.++..++..+..+|.||-++-
T Consensus 7 ~~gsGKTtl~~~l~~~l~~~G~~V~viK 34 (155)
T TIGR00176 7 PKNSGKTTLIERLVKALKARGYRVATIK 34 (155)
T ss_pred CCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence 4569999999999999998898887663
No 106
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=24.05 E-value=1.8e+02 Score=23.67 Aligned_cols=53 Identities=15% Similarity=0.158 Sum_probs=35.2
Q ss_pred CcHHHHHHHHHHHH--------HcCCCeEEEEccccccccchHHHH-HHHHHHh------cCCCCCceeeecCC
Q 047062 168 SGKLQLLDTMLSEL--------KNQGSRVIILFQILIIRAKVCENE-ILGYCIS------LGPGVSPEVVVSPT 226 (253)
Q Consensus 168 SgKl~~L~~lL~~l--------~~~g~KvLIFSq~~~~~~~~~~Ld-ile~~l~------~~~g~~~~rl~g~t 226 (253)
+||-.++..++..+ ...+.++||.|+.-. ..| +++.+.+ ........|+-.+.
T Consensus 28 TGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~------avd~~~~~l~~~~~~~~~~~~~~~ir~~~~~ 95 (236)
T PF13086_consen 28 TGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNA------AVDNILERLKKLLDEDGKVYKPKIIRLGSEE 95 (236)
T ss_dssp SSHHHHHHHHHHHH-------HCCCSS-EEEEESSHH------HHHHHHHHHHC--------TT--EEE---GG
T ss_pred CChHHHHHHHHHHhccchhhhhhhccccceeecCCch------hHHHHHHHHHhhccccccccccchhhhcccc
Confidence 89999999999998 678999999999988 666 5666655 11445555654443
No 107
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=23.44 E-value=2.3e+02 Score=23.55 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=33.8
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCc
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSP 219 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~ 219 (253)
.+||-.+..+++.+...+|++|+.||---+ .-++++..-.. |+..
T Consensus 26 G~GKt~~~~~~~~~~~~~g~~~~y~s~e~~------~~~l~~~~~~~--~~~~ 70 (224)
T TIGR03880 26 GTGKTTFSLQFLYQGLKNGEKAMYISLEER------EERILGYAKSK--GWDL 70 (224)
T ss_pred CCCHHHHHHHHHHHHHhCCCeEEEEECCCC------HHHHHHHHHHc--CCCh
Confidence 489988888888877777999999988777 66676666543 5543
No 108
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=22.91 E-value=1.6e+02 Score=30.91 Aligned_cols=58 Identities=12% Similarity=0.079 Sum_probs=46.9
Q ss_pred hhcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchH
Q 047062 165 VKASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVR 229 (253)
Q Consensus 165 i~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r 229 (253)
.-..||-..+..+++.+...|.|||+-|+--+ ..|=|=.=|.. .|+.+.|+..+-.+-
T Consensus 693 MPGTGKTTtI~~LIkiL~~~gkkVLLtsyThs------AVDNILiKL~~-~~i~~lRLG~~~kih 750 (1100)
T KOG1805|consen 693 MPGTGKTTTISLLIKILVALGKKVLLTSYTHS------AVDNILIKLKG-FGIYILRLGSEEKIH 750 (1100)
T ss_pred CCCCCchhhHHHHHHHHHHcCCeEEEEehhhH------HHHHHHHHHhc-cCcceeecCCccccc
Confidence 44599999999999999999999999998888 77755555554 799999997665554
No 109
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=22.61 E-value=1.6e+02 Score=27.42 Aligned_cols=51 Identities=12% Similarity=0.201 Sum_probs=39.8
Q ss_pred hcCcHHHHHHHHHHHHH-cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceee
Q 047062 166 KASGKLQLLDTMLSELK-NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVV 222 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~-~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl 222 (253)
-.+||-.+...+...+- ..|.+|++||-=-+ .-+++++.+...-|+.+.++
T Consensus 203 pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~------~~~l~~Rl~~~~~~v~~~~~ 254 (421)
T TIGR03600 203 PSMGKTTLALNIAENVALREGKPVLFFSLEMS------AEQLGERLLASKSGINTGNI 254 (421)
T ss_pred CCCCHHHHHHHHHHHHHHhCCCcEEEEECCCC------HHHHHHHHHHHHcCCCHHHH
Confidence 35899999999987764 77999999997666 77888888765467766655
No 110
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=22.49 E-value=1.2e+02 Score=23.25 Aligned_cols=43 Identities=19% Similarity=0.275 Sum_probs=30.7
Q ss_pred HHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCC--ceeeecC
Q 047062 174 LDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVS--PEVVVSP 225 (253)
Q Consensus 174 L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~--~~rl~g~ 225 (253)
+.++|..+++.|-++.|+|.... +.++..++. .|+. +..+-++
T Consensus 82 ~~~~L~~l~~~~~~~~i~Sn~~~--------~~~~~~l~~-~~~~~~f~~i~~~ 126 (176)
T PF13419_consen 82 VRELLERLKAKGIPLVIVSNGSR--------ERIERVLER-LGLDDYFDEIISS 126 (176)
T ss_dssp HHHHHHHHHHTTSEEEEEESSEH--------HHHHHHHHH-TTHGGGCSEEEEG
T ss_pred hhhhhhhcccccceeEEeecCCc--------ccccccccc-ccccccccccccc
Confidence 55678888889999999999976 666666665 5555 4455433
No 111
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=21.97 E-value=1.7e+02 Score=24.37 Aligned_cols=46 Identities=24% Similarity=0.158 Sum_probs=32.0
Q ss_pred cCcHHHHHHHHHHHHHcC-CCeEEEEccccccccchHHHHHHHHHHhcCCCCCce
Q 047062 167 ASGKLQLLDTMLSELKNQ-GSRVIILFQILIIRAKVCENEILGYCISLGPGVSPE 220 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~-g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~ 220 (253)
.|||-.+..+.+.+-..+ |++|+.||--.+ .-++++.+-+ .||...
T Consensus 29 GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~------~~~l~~~~~s--~g~d~~ 75 (226)
T PF06745_consen 29 GSGKTTLALQFLYNGLKNFGEKVLYVSFEEP------PEELIENMKS--FGWDLE 75 (226)
T ss_dssp TSSHHHHHHHHHHHHHHHHT--EEEEESSS-------HHHHHHHHHT--TTS-HH
T ss_pred CCCcHHHHHHHHHHhhhhcCCcEEEEEecCC------HHHHHHHHHH--cCCcHH
Confidence 499999999999887777 999999997666 6667666554 466443
No 112
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=21.81 E-value=2.2e+02 Score=24.11 Aligned_cols=44 Identities=14% Similarity=0.030 Sum_probs=34.5
Q ss_pred cCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCC
Q 047062 167 ASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVS 218 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~ 218 (253)
.|||-.+..+++.+-..+|++|+.||---. .-++++..-.. ||.
T Consensus 31 GsGKT~la~~~l~~~~~~ge~~lyvs~ee~------~~~i~~~~~~~--g~~ 74 (237)
T TIGR03877 31 GTGKSIFSQQFLWNGLQMGEPGIYVALEEH------PVQVRRNMAQF--GWD 74 (237)
T ss_pred CCCHHHHHHHHHHHHHHcCCcEEEEEeeCC------HHHHHHHHHHh--CCC
Confidence 489999998988876678999999997777 67777775553 553
No 113
>PF05586 Ant_C: Anthrax receptor C-terminus region; InterPro: IPR008399 Anthrax is an acute disease in humans and animals caused by the bacterium Bacillus anthracis, which can be lethal. There are effective vaccines against anthrax, and some forms of the disease respond well to antibiotic treatment. The anthrax bacillus is one of only a few that can form long-lived spores. The anthrax toxin consists of the proteins protective antigen (PA) lethal factor (LF) and oedema factor (EF). The first step of toxin entry into host cells is the recognition by PA of a receptor on the surface of the target cell. The subsequent cleavage of receptor-bound PA enables EF and LF to bind and form a heptameric PA63 pre-pore, which triggers endocytosis. PA has been shown to bind to two cellular receptors: anthrax toxin receptor/tumour endothelial marker 8 and capillary morphogenesis protein 2 (CMG2), which are closely related host cell receptors. Both bind to PA with high affinity and are capable of mediating toxicity [, ], and both are type 1 membrane proteins that include an approximately 200-aa extracellular von Willebrand factor A (VWA) domain with a metal ion-dependent adhesion site (MIDAS) motif []. This region is found in the putatively cytoplasmic C terminus of the anthrax receptor.; GO: 0004872 receptor activity, 0016021 integral to membrane
Probab=21.70 E-value=50 Score=24.19 Aligned_cols=16 Identities=6% Similarity=0.005 Sum_probs=14.5
Q ss_pred hhhhhhCHHHHHHHhh
Q 047062 27 DASIAKQTTEYHNMPS 42 (253)
Q Consensus 27 GTPiQN~L~EL~sL~~ 42 (253)
-|||.-.|+-||+|+.
T Consensus 53 YtPIKGrlDALwaLlR 68 (95)
T PF05586_consen 53 YTPIKGRLDALWALLR 68 (95)
T ss_pred ccCccchHHHHHHHHH
Confidence 4899999999999986
No 114
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=21.10 E-value=1.3e+02 Score=23.08 Aligned_cols=27 Identities=30% Similarity=0.320 Sum_probs=24.1
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEEccc
Q 047062 168 SGKLQLLDTMLSELKNQGSRVIILFQI 194 (253)
Q Consensus 168 SgKl~~L~~lL~~l~~~g~KvLIFSq~ 194 (253)
|||-.+...+++.+..+|.+|..|-..
T Consensus 10 ~Gkt~~~~~l~~~l~~~~~~v~~~kp~ 36 (134)
T cd03109 10 IGKTVATAILARALKEKGYRVAPLKPV 36 (134)
T ss_pred cCHHHHHHHHHHHHHHCCCeEEEEecC
Confidence 999999999999999999999888443
No 115
>PRK08006 replicative DNA helicase; Provisional
Probab=21.05 E-value=1.9e+02 Score=27.68 Aligned_cols=52 Identities=13% Similarity=0.098 Sum_probs=42.7
Q ss_pred cCcHHHHHHHHHHHHH-cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeec
Q 047062 167 ASGKLQLLDTMLSELK-NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVS 224 (253)
Q Consensus 167 ~SgKl~~L~~lL~~l~-~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g 224 (253)
+.||-.+...+...+. ..|.+|++||-=-+ .-+++++.+....|+++.++..
T Consensus 234 gmGKTafalnia~~~a~~~g~~V~~fSlEM~------~~ql~~Rlla~~~~v~~~~i~~ 286 (471)
T PRK08006 234 SMGKTTFAMNLCENAAMLQDKPVLIFSLEMP------GEQIMMRMLASLSRVDQTRIRT 286 (471)
T ss_pred CCCHHHHHHHHHHHHHHhcCCeEEEEeccCC------HHHHHHHHHHHhcCCCHHHhhc
Confidence 4799999999987764 56899999998877 7889999997657888877753
No 116
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=20.91 E-value=1.9e+02 Score=20.74 Aligned_cols=34 Identities=18% Similarity=0.161 Sum_probs=24.1
Q ss_pred HHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCC
Q 047062 175 DTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGV 217 (253)
Q Consensus 175 ~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~ 217 (253)
.+.|..+.+.|.++.|+|.-.. +.++..++. .|+
T Consensus 30 ~~~l~~l~~~g~~i~ivS~~~~--------~~~~~~~~~-~~~ 63 (139)
T cd01427 30 KEALKELKEKGIKLALATNKSR--------REVLELLEE-LGL 63 (139)
T ss_pred HHHHHHHHHCCCeEEEEeCchH--------HHHHHHHHH-cCC
Confidence 3667778888999999998655 556666654 444
No 117
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=20.90 E-value=30 Score=28.75 Aligned_cols=54 Identities=15% Similarity=0.157 Sum_probs=25.8
Q ss_pred Ccccchhhh------hhCHHH----HHHHhhhhcCCCCCcchhHHhhhHHhHHHHHHHHhhhhh
Q 047062 22 DGELCDASI------AKQTTE----YHNMPSLHESRGDVHRKDDLMVDAIDNLGSLKEKTSKYV 75 (253)
Q Consensus 22 ~~~LTGTPi------QN~L~E----L~sL~~Fl~P~~~~~~~~~~~~~~~~~~~~L~~~l~pf~ 75 (253)
.|++||||= -+.|.+ ..++-+|+.-.+.....++....-.-....++..+.+.+
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~~lg~~~i~l~el~~e~~~~~~~de~r~s~~vD~d~~~~~le~~~ 65 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLRELGYKVIELNELAKENGLYTEYDELRKSVIVDVDKLRKRLEELL 65 (180)
T ss_pred eEEEeCCCCCchHHHHHHHHHhCCceeeHHHHHHhcCCeeccCCccceEEeeHHHHHHHHHHHh
Confidence 478999993 333332 123334444333333333322222234556666666666
No 118
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=20.49 E-value=2.9e+02 Score=23.15 Aligned_cols=42 Identities=19% Similarity=0.193 Sum_probs=33.4
Q ss_pred hcCcHHHHHHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhc
Q 047062 166 KASGKLQLLDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISL 213 (253)
Q Consensus 166 ~~SgKl~~L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~ 213 (253)
..+||-.+...++.+...+|++|+.++.--. .-++++..-+.
T Consensus 34 ~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~------~~~~~~~~~~~ 75 (234)
T PRK06067 34 HGTGKSVLSQQFVYGALKQGKKVYVITTENT------SKSYLKQMESV 75 (234)
T ss_pred CCCChHHHHHHHHHHHHhCCCEEEEEEcCCC------HHHHHHHHHHC
Confidence 3489999999988877778999999998877 66777765443
No 119
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.24 E-value=3.6e+02 Score=25.54 Aligned_cols=58 Identities=14% Similarity=0.090 Sum_probs=39.4
Q ss_pred HHHHHHHHH--cCCCeEEEEccccccccchHHHHHHHHHHhcCCCCCceeeecCCchHHHHHHHhhh
Q 047062 174 LDTMLSELK--NQGSRVIILFQILIIRAKVCENEILGYCISLGPGVSPEVVVSPTIVRCIILALCYF 238 (253)
Q Consensus 174 L~~lL~~l~--~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~~~rl~g~t~~r~~~~~~~~~ 238 (253)
+.+++..+. ..|.++|||+.... .-+-+...|.. .|+....+-|.....-+.-.+..|
T Consensus 213 ~~~l~~~l~~~~~~~~~IIF~~s~~------~~e~la~~L~~-~g~~~~~~H~~l~~~eR~~i~~~F 272 (470)
T TIGR00614 213 LEDLLRFIRKEFKGKSGIIYCPSRK------KSEQVTASLQN-LGIAAGAYHAGLEISARDDVHHKF 272 (470)
T ss_pred HHHHHHHHHHhcCCCceEEEECcHH------HHHHHHHHHHh-cCCCeeEeeCCCCHHHHHHHHHHH
Confidence 334444443 45778899999999 88888888886 788877777765554444433333
No 120
>COG5610 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=20.15 E-value=1.7e+02 Score=28.29 Aligned_cols=38 Identities=18% Similarity=0.248 Sum_probs=32.3
Q ss_pred HHHHHHHHHcCCCeEEEEccccccccchHHHHHHHHHHhcCCCCC
Q 047062 174 LDTMLSELKNQGSRVIILFQILIIRAKVCENEILGYCISLGPGVS 218 (253)
Q Consensus 174 L~~lL~~l~~~g~KvLIFSq~~~~~~~~~~Ldile~~l~~~~g~~ 218 (253)
..++.++..+.|.||++.|-+-- -..+++++|.. .|+.
T Consensus 104 ~~eL~e~ai~n~krVIlISDMYl------ps~Il~~~L~s-~g~d 141 (635)
T COG5610 104 NIELVEEAIKNEKRVILISDMYL------PSSILRTFLNS-FGPD 141 (635)
T ss_pred chHHHHHHHhCCCeEEEEecccC------cHHHHHHHHHh-cCCC
Confidence 34677888999999999999888 79999999997 6763
Done!