Query 022893
Match_columns 290
No_of_seqs 75 out of 77
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 06:55:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022893.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022893hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10483 Elong_Iki1: Elongator 99.9 5.2E-26 1.1E-30 212.3 14.9 216 17-287 10-244 (280)
2 PF09807 DUF2348: Uncharacteri 99.2 1E-09 2.2E-14 101.6 20.1 215 18-259 18-245 (249)
3 PF06745 KaiC: KaiC; InterPro 99.0 1.8E-09 4E-14 96.1 11.4 177 50-269 42-225 (226)
4 PRK06067 flagellar accessory p 98.9 1.2E-07 2.6E-12 85.2 17.2 177 53-271 51-231 (234)
5 TIGR03877 thermo_KaiC_1 KaiC d 98.9 1.5E-07 3.3E-12 85.3 17.1 185 51-271 45-236 (237)
6 PRK04328 hypothetical protein; 98.7 1.9E-06 4.1E-11 79.1 17.3 187 51-273 47-240 (249)
7 COG2874 FlaH Predicted ATPases 98.3 5.8E-05 1.3E-09 69.6 17.7 207 13-270 20-233 (235)
8 PRK09302 circadian clock prote 98.2 5E-05 1.1E-09 76.2 14.9 168 52-267 298-472 (509)
9 PRK09302 circadian clock prote 98.1 0.00012 2.7E-09 73.4 16.2 180 51-272 55-244 (509)
10 PRK08533 flagellar accessory p 98.0 0.00024 5.2E-09 64.7 14.4 172 54-271 51-228 (230)
11 TIGR02655 circ_KaiC circadian 97.9 0.00036 7.9E-09 70.1 15.8 183 50-273 44-235 (484)
12 TIGR02655 circ_KaiC circadian 97.9 0.00016 3.6E-09 72.5 13.3 173 51-272 287-468 (484)
13 TIGR03881 KaiC_arch_4 KaiC dom 97.8 0.0012 2.7E-08 58.7 16.0 172 53-265 46-226 (229)
14 TIGR03878 thermo_KaiC_2 KaiC d 97.8 0.00057 1.2E-08 63.2 13.5 131 51-211 60-203 (259)
15 COG0467 RAD55 RecA-superfamily 97.8 0.00044 9.5E-09 63.3 12.6 184 50-271 46-237 (260)
16 TIGR03880 KaiC_arch_3 KaiC dom 97.7 0.0015 3.2E-08 58.3 13.8 172 53-270 42-221 (224)
17 cd01124 KaiC KaiC is a circadi 97.5 0.0033 7.1E-08 53.5 13.3 134 53-213 25-165 (187)
18 cd01121 Sms Sms (bacterial rad 96.9 0.049 1.1E-06 53.5 16.5 150 54-268 109-269 (372)
19 TIGR02237 recomb_radB DNA repa 96.9 0.032 7E-07 48.8 13.8 154 54-264 39-208 (209)
20 PRK11823 DNA repair protein Ra 96.8 0.088 1.9E-06 52.8 17.2 149 54-267 107-266 (446)
21 cd01122 GP4d_helicase GP4d_hel 96.7 0.19 4.1E-06 45.8 17.7 110 145-269 140-271 (271)
22 PRK09361 radB DNA repair and r 96.4 0.14 3.1E-06 45.5 14.2 98 148-266 109-223 (225)
23 cd01394 radB RadB. The archaea 96.0 0.39 8.4E-06 42.4 14.9 96 148-264 105-217 (218)
24 TIGR00416 sms DNA repair prote 96.0 0.21 4.6E-06 50.3 14.6 148 54-266 121-279 (454)
25 PRK04301 radA DNA repair and r 95.9 0.4 8.6E-06 45.5 15.5 39 56-94 137-177 (317)
26 cd01123 Rad51_DMC1_radA Rad51_ 95.9 0.25 5.5E-06 43.8 13.4 40 55-94 53-94 (235)
27 TIGR02236 recomb_radA DNA repa 95.1 0.78 1.7E-05 43.1 14.4 39 56-94 130-170 (310)
28 PTZ00035 Rad51 protein; Provis 94.9 1.8 3.9E-05 42.0 16.6 157 55-265 152-333 (337)
29 KOG4723 Uncharacterized conser 94.9 0.53 1.1E-05 43.6 11.9 187 16-213 16-218 (248)
30 PRK05973 replicative DNA helic 94.6 0.6 1.3E-05 43.4 11.8 31 53-83 90-120 (237)
31 cd00984 DnaB_C DnaB helicase C 94.6 0.079 1.7E-06 47.2 5.9 67 148-214 125-209 (242)
32 cd01393 recA_like RecA is a b 94.2 1.2 2.7E-05 39.1 12.7 126 56-213 54-201 (226)
33 PLN03186 DNA repair protein RA 94.0 3.8 8.2E-05 40.0 16.6 156 56-265 158-338 (342)
34 TIGR02239 recomb_RAD51 DNA rep 94.0 5.3 0.00011 38.4 17.4 156 56-265 131-312 (316)
35 PF05625 PAXNEB: PAXNEB protei 93.9 0.14 3.1E-06 50.0 6.5 69 148-216 202-280 (363)
36 TIGR02238 recomb_DMC1 meiotic 93.8 2.8 6.2E-05 40.2 15.2 40 55-94 130-171 (313)
37 PLN03187 meiotic recombination 92.5 5.2 0.00011 39.2 14.8 39 56-94 161-201 (344)
38 cd01125 repA Hexameric Replica 92.2 6.8 0.00015 35.3 14.5 140 54-216 40-194 (239)
39 cd01120 RecA-like_NTPases RecA 89.2 10 0.00022 30.4 13.1 64 148-211 87-164 (165)
40 PF08423 Rad51: Rad51; InterP 89.0 9.1 0.0002 35.6 12.4 157 55-265 72-253 (256)
41 TIGR00665 DnaB replicative DNA 87.0 6.8 0.00015 38.6 10.9 186 54-268 223-431 (434)
42 PF05763 DUF835: Protein of un 87.0 2.6 5.7E-05 36.0 6.9 54 148-201 77-132 (136)
43 PF03192 DUF257: Pyrococcus pr 85.0 31 0.00066 31.6 13.4 153 21-213 13-187 (210)
44 PRK09354 recA recombinase A; P 76.9 45 0.00098 32.9 12.2 42 32-82 72-113 (349)
45 cd00983 recA RecA is a bacter 72.2 81 0.0018 30.8 12.5 120 53-213 81-224 (325)
46 PF13481 AAA_25: AAA domain; P 70.3 3.4 7.4E-05 35.3 2.4 24 54-77 69-92 (193)
47 PHA02542 41 41 helicase; Provi 68.2 1.5E+02 0.0032 30.4 17.4 218 15-269 185-428 (473)
48 PF07088 GvpD: GvpD gas vesicl 65.9 75 0.0016 32.6 11.0 165 54-266 36-212 (484)
49 PRK09165 replicative DNA helic 65.9 1.2E+02 0.0027 31.0 12.9 234 15-269 212-487 (497)
50 TIGR02012 tigrfam_recA protein 64.3 57 0.0012 31.8 9.7 47 32-91 67-113 (321)
51 TIGR03600 phage_DnaB phage rep 60.4 22 0.00048 35.0 6.2 64 148-213 307-389 (421)
52 PF03796 DnaB_C: DnaB-like hel 57.5 19 0.0004 32.8 4.8 108 148-270 132-258 (259)
53 PRK09519 recA DNA recombinatio 54.8 1.6E+02 0.0034 32.4 11.9 155 53-261 86-264 (790)
54 PF14417 MEDS: MEDS: MEthanoge 53.8 44 0.00095 29.3 6.4 138 38-200 30-174 (191)
55 PRK05748 replicative DNA helic 52.3 1E+02 0.0022 30.7 9.5 106 148-269 316-442 (448)
56 PRK08760 replicative DNA helic 39.9 4.2E+02 0.0092 27.0 14.8 220 15-269 224-467 (476)
57 PF11382 DUF3186: Protein of u 39.1 53 0.0011 31.6 4.9 61 37-100 65-129 (308)
58 PF00004 AAA: ATPase family as 36.1 93 0.002 24.1 5.2 57 19-75 58-120 (132)
59 PRK06321 replicative DNA helic 34.6 5.2E+02 0.011 26.4 14.1 217 15-269 221-465 (472)
60 PRK08506 replicative DNA helic 31.6 5.7E+02 0.012 26.0 12.3 176 15-212 187-386 (472)
61 KOG3444 Uncharacterized conser 30.8 26 0.00057 29.5 1.2 38 139-176 72-109 (121)
62 PRK04296 thymidine kinase; Pro 29.2 3.6E+02 0.0077 23.5 8.2 63 148-215 80-144 (190)
63 PF00154 RecA: recA bacterial 27.5 1.2E+02 0.0027 29.6 5.4 51 29-92 62-112 (322)
64 PF08695 Coa1: Cytochrome oxid 27.2 1.1E+02 0.0024 24.6 4.3 78 165-264 26-109 (116)
65 PRK05595 replicative DNA helic 26.7 6.5E+02 0.014 25.1 12.5 106 148-269 313-438 (444)
66 KOG3949 RNA polymerase II elon 26.1 1.5E+02 0.0032 29.7 5.6 73 167-248 231-307 (360)
67 COG1158 Rho Transcription term 25.6 2.3E+02 0.0051 28.6 6.9 86 42-162 191-276 (422)
68 PF11633 SUD-M: Single-strande 25.4 24 0.00053 30.7 0.1 63 26-94 7-69 (142)
69 COG4544 Uncharacterized conser 22.6 1.3E+02 0.0028 28.7 4.3 53 36-95 66-118 (260)
70 PF06574 FAD_syn: FAD syntheta 21.6 1.5E+02 0.0033 25.5 4.3 39 51-95 32-86 (157)
71 PF13911 AhpC-TSA_2: AhpC/TSA 21.2 89 0.0019 24.7 2.6 34 54-98 12-45 (115)
72 KOG3124 Pyrroline-5-carboxylat 20.7 50 0.0011 31.6 1.2 29 14-43 214-243 (267)
No 1
>PF10483 Elong_Iki1: Elongator subunit Iki1; InterPro: IPR019519 Histone acetylation protein (Hap) 2 (also known as Elongator complex protein 5) is one of three histone acetyltransferases proteins that, in yeasts, are found associated with elongating forms of RNA polymerase II (Elongator). The Haps can be isolated in two forms, as a six-subunit complex with Elongator, and as a complex of the three proteins on their own. The role of the Hap complex in transcription is still speculative, being possibly to keep the histone acetylation activity of free Elongator in check, allowing histone acetylation only in the presence of a transcribing polymerase, or the interaction with Haps might render Elongator susceptible to modifications thereby altering its activity []. This protein family also contains Dermal papilla-derived protein 6, which also belong to the ELP5 family. ; PDB: 4A8J_B 4EJS_B.
Probab=99.94 E-value=5.2e-26 Score=212.35 Aligned_cols=216 Identities=21% Similarity=0.254 Sum_probs=116.0
Q ss_pred CCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccC
Q 022893 17 EHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTD 96 (290)
Q Consensus 17 e~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsD 96 (290)
|..|+++|.||++.|+ ..++++++. ..+.+...||+|+||.+++ .+ |+|.. ++|-
T Consensus 10 d~spl~Li~DSl~q~a-~~Ll~e~i~-------~a~~~~~~V~~lsfEt~~~--~~-----~~d~~--------~~~~-- 64 (280)
T PF10483_consen 10 DASPLTLILDSLEQSA-RPLLKEFIR-------RAKSRNEKVHFLSFETLNK--PE-----YADSF--------INAR-- 64 (280)
T ss_dssp S--SEEEEEEBTTB-S-HHHHHHHHH-------HHTS----EEEEESS--S----T-----T-SEE--------EETT--
T ss_pred CCCCeEEEEEcccccC-HHHHHHHHH-------HHHcCCCeEEEEEeEeCCC--cc-----cCCee--------cccc--
Confidence 3789999999999985 777666543 4466788999999999876 33 55522 2222
Q ss_pred CCCCcccccCccccccccccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhc
Q 022893 97 PLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 176 (290)
Q Consensus 97 PlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~ 176 (290)
+|+ +.+++..+.........+.+.+++|+|||||||+.|+++ +++++|++|++
T Consensus 65 --~~~------------------------~~~i~~~i~s~~~~~~~~~~~~~lVvIDSLn~ll~~~~~-~l~~fLssl~~ 117 (280)
T PF10483_consen 65 --GKS------------------------LQDIVKEIKSHLPSSSSSPTKKFLVVIDSLNYLLNHHPC-QLSQFLSSLLS 117 (280)
T ss_dssp --SS-------------------------HHHHHHHHHHTS--SS-SS---EEEEES-GGGS-GG----GHHHHHHHH--
T ss_pred --CCC------------------------HHHHHHHHHhhcccccccCCCCeEEEEEcchHHHHHHHH-HHHHHHHhccc
Confidence 332 111222333321111222344599999999999999999 99999999998
Q ss_pred CCceeEEEEeecccc-------cchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhh------hcccceeEEEEE
Q 022893 177 HDQVSSIFWLLHSDL-------HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLE------QNFRKGKFHVRF 243 (290)
Q Consensus 177 ~~~issV~~LlHsDL-------He~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~------~n~~~~~~~Vr~ 243 (290)
+++ .+|||++|+|+ |+|+++.+|+|||+++++|+|........++.-+++...+ .|..+..+++++
T Consensus 118 ~p~-~svv~~~H~Dl~~~~~~~~~P~~l~lL~~LATtii~v~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~l~~ 196 (280)
T PF10483_consen 118 SPQ-SSVVGLYHTDLLPPSQNPYYPSPLSLLSYLATTIITVEPLSHISADKEALDRSLSKPEFGLGEGLNGVGFVLELEN 196 (280)
T ss_dssp -TT-EEEEEEEETTS---TTB-TS--HHHHHHHH-SEEEEEEE---SS--HHHHHHHHHTT---SS---S-SEEEEEEEE
T ss_pred CCC-cEEEEEEccCcCcccccccCcCHHHHHHHhceEEEEEcccCccchhHHHHHhhhhhcccChhhhccCceEEEEEEE
Confidence 777 77999999999 9999999999999999999998876655555555554443 444588999999
Q ss_pred ecCCCCeeeeEeEEEEEcCceEEEeccCc------chhhcccCCcceEEE
Q 022893 244 KRRNGRVRVMCEEILVELAGIKFTPVLSE------DEIINQRLLPKVSII 287 (290)
Q Consensus 244 kRr~GRV~~~~E~f~I~~~~~~f~~~~~~------~~~~~~~~~~~v~~~ 287 (290)
|||+||+.. |||.|..++..+..+... ..+...++.|+++|-
T Consensus 197 RrksGR~~~--e~~~~~~~~~~~~~~~~~~e~~~~~~~~p~~~~~~~TFN 244 (280)
T PF10483_consen 197 RRKSGRVVS--EWFVIDINSHIYEQVSEKKEVEEEPEEDPESLQPNLTFN 244 (280)
T ss_dssp E-TTS-EEE--EEEEEETTTTEEEE-------------------------
T ss_pred EcCCCCcEe--EEEEEecCCCcceeecccccccCCCCCCcccccccceEe
Confidence 999999766 566666676555555432 224667788888885
No 2
>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function.
Probab=99.25 E-value=1e-09 Score=101.57 Aligned_cols=215 Identities=18% Similarity=0.229 Sum_probs=143.9
Q ss_pred CCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEeccc
Q 022893 18 HAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYT 95 (290)
Q Consensus 18 ~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fs 95 (290)
..-+++|+|+ .+++ .=+..|++. .+++ .+..|.+|+|..+.+.|..-++|-|++-... +.+++++|+.+
T Consensus 18 ~g~~ili~d~-~~dg-sFLlh~~L~---~~Lk----~~~~V~fv~~~q~~~HY~~v~~KLG~NL~~~~~~gql~fiD~l~ 88 (249)
T PF09807_consen 18 PGKLILIEDC-ETDG-SFLLHHFLS---QYLK----AGCKVCFVAFSQSFSHYNNVAQKLGVNLSAAKEKGQLVFIDGLK 88 (249)
T ss_pred CCeEEEEEcC-CCCc-hhHHHHHHH---HHhc----CCCcEEEEEccCCHHHHHHHHHhhEecchHhccCCcEEEeehhh
Confidence 3447999999 8874 556667654 2222 2448999999999999999999999987652 34799999999
Q ss_pred CCCCCcccccCccccccccccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHH-hCChHHHHHHHHhh
Q 022893 96 DPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVR-HASISSVAGILSNL 174 (290)
Q Consensus 96 DPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~-h~s~~~v~~lL~~L 174 (290)
++.+|--.....+... +..+.-......|.+|+..+.+..+...+ .++ ++|+||-||.|+- ..+..+|.++++.+
T Consensus 89 ~~~~~l~~~~~~~~~~--~~~~l~~~~~~~L~~L~~~I~~~l~~~~~-~~~-~~liIDdls~Ll~lG~s~~~vldF~~yc 164 (249)
T PF09807_consen 89 SSLDLLFDEDSSDEPN--PLKFLREDNASSLRSLYEFIQEALSPADS-NGS-VVLIIDDLSVLLSLGVSSNDVLDFIHYC 164 (249)
T ss_pred hhhhhhhccccccCCc--cccccccCCcchHHHHHHHHHHHHhhccC-CCC-eEEEEeCHHHHHHcCCCHHHHHHHHHHH
Confidence 8887742211000000 00111111234577777777665542222 233 8999999999997 45567899999999
Q ss_pred hc--CCc-eeEEEEeecccccc----hh-HHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecC
Q 022893 175 RS--HDQ-VSSIFWLLHSDLHE----IK-FTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRR 246 (290)
Q Consensus 175 r~--~~~-issV~~LlHsDLHe----~~-v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr 246 (290)
|. ..+ -.+++.+.|.|-.. .. ....|+|+|+++|+++|.+.. +++. =.|.+.|.+|+.
T Consensus 165 ra~l~~~~~~~lVvl~h~d~~~~~e~~~~l~~~L~h~a~l~i~v~~L~TG--~s~D------------VhGqL~v~~r~~ 230 (249)
T PF09807_consen 165 RATLCSESNGSLVVLVHCDIDDEDEENDLLLNSLAHMADLVITVEPLPTG--YSKD------------VHGQLTVLWRGN 230 (249)
T ss_pred HHHhccccCCCEEEEEecCCCCccchHHHHHHHHHHHhcEEEEecCCCCc--cccc------------ceEEEEEEEccC
Confidence 95 222 34799999998652 23 789999999999999998664 2222 348888877773
Q ss_pred --CCCeeeeEeEEEE
Q 022893 247 --NGRVRVMCEEILV 259 (290)
Q Consensus 247 --~GRV~~~~E~f~I 259 (290)
.|+-..+...|++
T Consensus 231 ~~~~~~~~~~~~~~y 245 (249)
T PF09807_consen 231 SSSGYHRPKTKTYQY 245 (249)
T ss_pred CccccccccceEEEE
Confidence 3444444345554
No 3
>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=99.05 E-value=1.8e-09 Score=96.09 Aligned_cols=177 Identities=18% Similarity=0.217 Sum_probs=110.7
Q ss_pred hhccc-cCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCCCCcccccCccccccccccccccccchhh
Q 022893 50 AGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL 126 (290)
Q Consensus 50 a~~~q-~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L 126 (290)
++..+ ++.+.++++|.+|+++.+.++..|+|.+.. +.++.++|+++...+|... ++..+
T Consensus 42 ~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~~~~~------------------~~~~l 103 (226)
T PF06745_consen 42 NGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIGWSPN------------------DLEEL 103 (226)
T ss_dssp HHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST-TSC------------------CHHHH
T ss_pred HhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEeccccccccccc------------------CHHHH
Confidence 34555 789999999999999999999999876531 2359999999999888621 12222
Q ss_pred hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhcC---CceeEEEEeecccccchhHHHHHHh-
Q 022893 127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLLHSDLHEIKFTSVLEY- 202 (290)
Q Consensus 127 ~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~---~~issV~~LlHsDLHe~~v~~ALe~- 202 (290)
...+...++. .++ -.|+||||+.+....+....-.+|++|.+. ..++.++..-..+-+++.....+++
T Consensus 104 ~~~i~~~i~~-------~~~-~~vVIDsls~l~~~~~~~~~r~~l~~l~~~l~~~~~t~llt~~~~~~~~~~~~~~i~~~ 175 (226)
T PF06745_consen 104 LSKIREAIEE-------LKP-DRVVIDSLSALLLYDDPEELRRFLRALIKFLKSRGVTTLLTSEMPSGSEDDGTFGIEHY 175 (226)
T ss_dssp HHHHHHHHHH-------HTS-SEEEEETHHHHTTSSSGGGHHHHHHHHHHHHHHTTEEEEEEEEESSSSSSSSSTSHHHH
T ss_pred HHHHHHHHHh-------cCC-CEEEEECHHHHhhcCCHHHHHHHHHHHHHHHHHCCCEEEEEEccccCcccccccchhhh
Confidence 2222233332 233 589999999997777887777777777653 3344443333244445555666665
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
+++++|.++-.... +...-.+.|..+|-. +.....-.|.|.++|+++.|.
T Consensus 176 l~D~vI~L~~~~~~----------------~~~~R~l~I~K~Rg~-~~~~~~~~f~I~~~Gi~i~~~ 225 (226)
T PF06745_consen 176 LADGVIELRYEEEG----------------GRIRRRLRIVKMRGS-RHSTGIHPFEITPGGIEIYPP 225 (226)
T ss_dssp HSSEEEEEEEEEET----------------TEEEEEEEEEEETTS-----BEEEEEEETTEEEEETT
T ss_pred cccEEEEEEEEeeC----------------CEEEEEEEEEEcCCC-CCCCcEEEEEEECCeEEEecC
Confidence 99999999843331 112345555555544 455667889999988888763
No 4
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=98.89 E-value=1.2e-07 Score=85.17 Aligned_cols=177 Identities=18% Similarity=0.200 Sum_probs=117.8
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY 130 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~ 130 (290)
.+++.+.++.+|.+|+++.+-+++.|+|.... ..++.++|.+..+..|... +.++ ++
T Consensus 51 ~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~------------------~~~~---ll 109 (234)
T PRK06067 51 KQGKKVYVITTENTSKSYLKQMESVKIDISDFFLWGYLRIFPLNTEGFEWNST------------------LANK---LL 109 (234)
T ss_pred hCCCEEEEEEcCCCHHHHHHHHHHCCCChhHHHhCCCceEEeccccccccCcc------------------hHHH---HH
Confidence 45889999999999999999999999886541 2356777877666655432 1122 22
Q ss_pred HHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhcCCc-eeEEEEeecccccchhHHHHHHhhceeEEE
Q 022893 131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQ-VSSIFWLLHSDLHEIKFTSVLEYLSSMVAS 209 (290)
Q Consensus 131 ~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~~~-issV~~LlHsDLHe~~v~~ALe~LAs~vi~ 209 (290)
..+.+.. .+.++ -.|+|||++.++...+...+..+++.|+...+ =..++...|...+.......++|+++.+|.
T Consensus 110 ~~l~~~i----~~~~~-~~iviDs~t~~~~~~~~~~~~~~l~~l~~l~~~g~tvllt~~~~~~~~~~~~~~~~l~DgvI~ 184 (234)
T PRK06067 110 ELIIEFI----KSKRE-DVIIIDSLTIFATYAEEDDILNFLTEAKNLVDLGKTILITLHPYAFSEELLSRIRSICDVYLK 184 (234)
T ss_pred HHHHHHH----HhcCC-CEEEEecHHHHHhcCCHHHHHHHHHHHHHHHhCCCEEEEEecCCcCCHHHHHHHHhheEEEEE
Confidence 2333311 12234 47999999999888888888887666544222 135777788877766777889999999999
Q ss_pred EeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcC-ceEEEeccC
Q 022893 210 VEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELA-GIKFTPVLS 271 (290)
Q Consensus 210 vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~-~~~f~~~~~ 271 (290)
+...... +...-.+.|..+|.+....+..-.|.|.++ |+.+.|...
T Consensus 185 L~~~~~~----------------~~~~r~l~i~K~Rg~~~~~~~~~~~~I~~~~Gi~v~~~~~ 231 (234)
T PRK06067 185 LRAEQIG----------------GRYVKVLEVVKLRGARKTTGNIISFDVDPAFGIKIIPLSL 231 (234)
T ss_pred EEeeccC----------------CEEeEEEEEEhhcCCCCCCCCEEEEEEcCCCCeEEEEeec
Confidence 9854321 113344555555555443335667888874 898887654
No 5
>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=98.87 E-value=1.5e-07 Score=85.27 Aligned_cols=185 Identities=16% Similarity=0.129 Sum_probs=109.6
Q ss_pred hccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhH
Q 022893 51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK 128 (290)
Q Consensus 51 ~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~s 128 (290)
+..+++.+.+|++|-+|+++.+-+++.|+|... -..++.++|||++-.++..... .-+.....+++.
T Consensus 45 ~~~~ge~~lyvs~ee~~~~i~~~~~~~g~~~~~~~~~g~l~~~d~~~~~~~~~~~~~-----------~~~~~~~~~~~~ 113 (237)
T TIGR03877 45 GLQMGEPGIYVALEEHPVQVRRNMAQFGWDVRKYEEEGKFAIVDAFTGGIGEAAERE-----------KYVVKDPTDVRE 113 (237)
T ss_pred HHHcCCcEEEEEeeCCHHHHHHHHHHhCCCHHHHhhcCCEEEEeccccccccccccc-----------cccccCcccHHH
Confidence 334588999999999999999999999997532 1347999999998555433211 001112234455
Q ss_pred HHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHH----HHHHHHhhhcCCceeEEEEeecccccchhH-HHHHHhh
Q 022893 129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISS----VAGILSNLRSHDQVSSIFWLLHSDLHEIKF-TSVLEYL 203 (290)
Q Consensus 129 l~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~----v~~lL~~Lr~~~~issV~~LlHsDLHe~~v-~~ALe~L 203 (290)
++..+.+..+ +.++ -.|+||||+.++.. .... +.++.+.+++. .+.. +...|.+..+... ...++|+
T Consensus 114 ~~~~i~~~i~----~~~~-~~vVIDSls~l~~~-~~~~~r~~l~~l~~~lk~~-~~t~-llt~~~~~~~~~~~~~~~~~~ 185 (237)
T TIGR03877 114 LIDVLRQAIR----DINA-KRVVIDSVTTLYIT-KPAMARSIVMQLKRVLSGL-GCTS-IFVSQVSVGERGFGGPGVEHA 185 (237)
T ss_pred HHHHHHHHHH----HhCC-CEEEEcChhHhhcC-ChHHHHHHHHHHHHHHHhC-CCEE-EEEECcccccccccccceEEE
Confidence 5455444222 2233 47999999998875 3332 23333344432 3333 3344544332111 1357999
Q ss_pred ceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeccC
Q 022893 204 SSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLS 271 (290)
Q Consensus 204 As~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~~ 271 (290)
++++|.++-.... +...-.+.| .|-|..+.....-.|.|...|+..-|...
T Consensus 186 ~D~vI~L~~~~~~----------------~~~~R~l~i-~K~Rg~~~~~~~~~~~It~~Gi~v~~~~~ 236 (237)
T TIGR03877 186 VDGIIRLDLDEID----------------GELKRSLIV-WKMRGTKHSMRRHPFEITDKGIIVYPDKV 236 (237)
T ss_pred EeEEEEEEEEeeC----------------CceEEEEEE-EECCCCCCCCceEEEEEcCCCEEEEeCCC
Confidence 9999999733221 111222333 34455556666678999999998877643
No 6
>PRK04328 hypothetical protein; Provisional
Probab=98.65 E-value=1.9e-06 Score=79.10 Aligned_cols=187 Identities=16% Similarity=0.110 Sum_probs=111.3
Q ss_pred hccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhH
Q 022893 51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK 128 (290)
Q Consensus 51 ~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~s 128 (290)
+..+++.+.++++|-+|+.+++.+++.|+|... -+.++.++|+|+.-.+...... . + +.....+++.
T Consensus 47 ~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~~~l~iid~~~~~~~~~~~~~--------~--~-~~~~~~~~~~ 115 (249)
T PRK04328 47 GLQMGEPGVYVALEEHPVQVRRNMRQFGWDVRKYEEEGKFAIVDAFTGGIGSAAKRE--------K--Y-VVKDPDDVRE 115 (249)
T ss_pred HHhcCCcEEEEEeeCCHHHHHHHHHHcCCCHHHHhhcCCEEEEeccccccccccccc--------c--c-cccCcccHHH
Confidence 445688999999999999999999999987532 1347999999998766532111 0 1 1112234444
Q ss_pred HHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHH----HHHHHHhhhcCCceeEEEEeecccccchhH-HHHHHhh
Q 022893 129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISS----VAGILSNLRSHDQVSSIFWLLHSDLHEIKF-TSVLEYL 203 (290)
Q Consensus 129 l~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~----v~~lL~~Lr~~~~issV~~LlHsDLHe~~v-~~ALe~L 203 (290)
++..+.+..+ +.++ -.||||||+.|.+. .... +.++.+.|++. .++. +...|.+..+... -..++|+
T Consensus 116 ~~~~i~~~i~----~~~~-~~vVIDSlt~l~~~-~~~~~r~~~~~l~~~lk~~-g~t~-llt~e~~~~~~~~~~~~~~~~ 187 (249)
T PRK04328 116 LIDVLRQAIK----DIGA-KRVVIDSVSTLYLT-KPAMARSIVMQLKRVLSGL-GCTA-IFVSQVSVGERGFGGPGVEHA 187 (249)
T ss_pred HHHHHHHHHH----hhCC-CEEEEeChhHhhcC-ChHHHHHHHHHHHHHHHhC-CCEE-EEEECccccccccCCCCcEEE
Confidence 4444444221 2233 47999999998764 3332 33344445543 2333 3334544333211 1246999
Q ss_pred ceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeccCcc
Q 022893 204 SSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSED 273 (290)
Q Consensus 204 As~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~~~~ 273 (290)
++++|.++-.... +...-.+.|..+ |........-.|.|.++|+.+-|...+.
T Consensus 188 ~D~vI~L~~~~~~----------------~~~~R~l~I~K~-Rg~~~~~~~~~~~It~~Gi~v~~~~~~~ 240 (249)
T PRK04328 188 VDGIIRLDLDEID----------------GELKRSLIVWKM-RGTKHSMRRHPFEITDKGIVVYPDKVLK 240 (249)
T ss_pred EEEEEEEEEEecC----------------CcEEEEEEEEEc-cCCCCCCceEEEEEcCCCEEEEecceEE
Confidence 9999999732221 112223444433 4444555556799999999988876665
No 7
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=98.32 E-value=5.8e-05 Score=69.61 Aligned_cols=207 Identities=16% Similarity=0.140 Sum_probs=142.9
Q ss_pred cc-cCCCCCceE-eecCCCCCchhhHHHHHHHHHHHHHHhhccc-cCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCe
Q 022893 13 GL-EGEHAPALT-IKDSKASPFGFDVFNYVLTQLSNYILAGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDW 87 (290)
Q Consensus 13 ~~-~ge~ap~l~-i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q-~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~r 87 (290)
+| .|=+.|.|+ ||..=.+ |=.++ +...+-+..+ +..+.++.-|.+--+|..-|..-+.|..- ++.+
T Consensus 20 rLGGGiP~GsL~lIEGd~~t--GKSvL-------sqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~ 90 (235)
T COG2874 20 RLGGGIPVGSLILIEGDNGT--GKSVL-------SQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGR 90 (235)
T ss_pred hccCCCccCeEEEEECCCCc--cHHHH-------HHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcce
Confidence 45 345566554 5544333 33332 2233334444 44999999999999999999988887553 4556
Q ss_pred EEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHH
Q 022893 88 IHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSV 167 (290)
Q Consensus 88 v~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v 167 (290)
+.|+-.-.+|.+|+...+ ++++..+++..| .+..=+|+|||||.++.+.+..++
T Consensus 91 l~~~~~~~~~~~~~~~~~---------------------~~~L~~l~~~~k-----~~~~dViIIDSls~~~~~~~~~~v 144 (235)
T COG2874 91 LLFFPVNLEPVNWGRRSA---------------------RKLLDLLLEFIK-----RWEKDVIIIDSLSAFATYDSEDAV 144 (235)
T ss_pred eEEEEecccccccChHHH---------------------HHHHHHHHhhHH-----hhcCCEEEEecccHHhhcccHHHH
Confidence 777777778999987633 122233333222 122249999999999999999999
Q ss_pred HHHHHhhhcCC-ceeEEEEeecccccchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecC
Q 022893 168 AGILSNLRSHD-QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRR 246 (290)
Q Consensus 168 ~~lL~~Lr~~~-~issV~~LlHsDLHe~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr 246 (290)
.+++..+|... +=.-|+..+|.+.-.+.++.-++..+++-+.++-..-. +-..-.+.++.-+-
T Consensus 145 l~fm~~~r~l~d~gKvIilTvhp~~l~e~~~~rirs~~d~~l~L~~~~~G----------------g~~~~~~~i~K~~g 208 (235)
T COG2874 145 LNFMTFLRKLSDLGKVIILTVHPSALDEDVLTRIRSACDVYLRLRLEELG----------------GDLIKVLEIVKYRG 208 (235)
T ss_pred HHHHHHHHHHHhCCCEEEEEeChhhcCHHHHHHHHHhhheeEEEEhhhhC----------------CeeeEEEEEeeecC
Confidence 99999999853 44468999999999999999999999999999732221 11334566666666
Q ss_pred CCCeeeeEeEEEEEcCc-eEEEecc
Q 022893 247 NGRVRVMCEEILVELAG-IKFTPVL 270 (290)
Q Consensus 247 ~GRV~~~~E~f~I~~~~-~~f~~~~ 270 (290)
.++-..+.=-|.|+++- +...|++
T Consensus 209 a~~s~~~~I~F~V~P~~Glkvep~S 233 (235)
T COG2874 209 ARKSFQNIISFRVEPGFGLKVEPAS 233 (235)
T ss_pred chhhcCCceeEEecCCCceEEEEee
Confidence 66666778889999997 4555543
No 8
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=98.15 E-value=5e-05 Score=76.22 Aligned_cols=168 Identities=16% Similarity=0.183 Sum_probs=103.6
Q ss_pred ccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHH
Q 022893 52 KSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKL 129 (290)
Q Consensus 52 ~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl 129 (290)
..+++.+.++.||-+|+.+.+.++..|+|.+. -..++.+++.+.++.++... +..+
T Consensus 298 ~~~g~~~~yis~e~~~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~----------------------~~~i 355 (509)
T PRK09302 298 CRRGERCLLFAFEESRAQLIRNARSWGIDLEKMEEKGLLKIICARPESYGLEDH----------------------LIII 355 (509)
T ss_pred HhCCCcEEEEEecCCHHHHHHHHHHcCCChHHHhhcCCceeecCCcccCCHHHH----------------------HHHH
Confidence 35688999999999999999999999987543 12356778877666554221 1111
Q ss_pred HHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhcC---CceeEEEEee-cccc-cchhHHHHHHhhc
Q 022893 130 YSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLL-HSDL-HEIKFTSVLEYLS 204 (290)
Q Consensus 130 ~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~---~~issV~~Ll-HsDL-He~~v~~ALe~LA 204 (290)
...++ +.++ -.|+||||+.+....+...+-+.|++|.+. ..++.++... +... +.+.....++|++
T Consensus 356 -~~~i~-------~~~~-~~vVIDslt~l~~~~~~~~~~~~l~~l~~~~k~~~~t~l~t~~~~~~~g~~~~~~~~~~~l~ 426 (509)
T PRK09302 356 -KREIE-------EFKP-SRVAIDPLSALARGGSLNEFRQFVIRLTDYLKSEEITGLFTNLTPDFMGSHSITESHISSLT 426 (509)
T ss_pred -HHHHH-------HcCC-CEEEEcCHHHHHHhCCHHHHHHHHHHHHHHHHhCCCeEEEEeccccccCCCCCCcCceEEee
Confidence 22222 1344 479999999999887776665555554432 2344444322 2221 2333334589999
Q ss_pred eeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEE
Q 022893 205 SMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFT 267 (290)
Q Consensus 205 s~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~ 267 (290)
+++|.++-.... |..+-.+.|..+ |..+.....-.|.|..+|+.+-
T Consensus 427 D~vI~L~~~~~~----------------~~~~R~l~I~K~-Rg~~~~~~~~~f~It~~Gi~v~ 472 (509)
T PRK09302 427 DTWILLQYVEIN----------------GEMNRALYVLKM-RGSWHSNQIREFVITDKGIHIK 472 (509)
T ss_pred eEEEEEEEeecC----------------CeeEEEEEEEEc-CCCCCCCceEEEEEeCCcEEEc
Confidence 999999843221 112223444444 4444566677789999998774
No 9
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=98.09 E-value=0.00012 Score=73.39 Aligned_cols=180 Identities=16% Similarity=0.108 Sum_probs=109.1
Q ss_pred hccc-cCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCCCCcccccCccccccccccccccccchhhh
Q 022893 51 GKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD 127 (290)
Q Consensus 51 ~~~q-~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~ 127 (290)
++.+ ++.++++++|-+++++.+-++..|+|.+.. +.++.++|.|.+|..|... . -.++.
T Consensus 55 ~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~g~l~~~~~~~~~~~~~~~-~-----------------~~~~~ 116 (509)
T PRK09302 55 GIKRFDEPGVFVTFEESPEDIIRNVASFGWDLQKLIDEGKLFILDASPDPSEQEEA-G-----------------EYDLE 116 (509)
T ss_pred HHHhcCCCEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCeEEEEecCccccccccc-c-----------------cccHH
Confidence 3444 789999999999999999999999986541 3469999999999888542 1 01334
Q ss_pred HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChH-----HHHHHHHhhhcCCceeEEEEeecccccch--hHHHHH
Q 022893 128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASIS-----SVAGILSNLRSHDQVSSIFWLLHSDLHEI--KFTSVL 200 (290)
Q Consensus 128 sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~-----~v~~lL~~Lr~~~~issV~~LlHsDLHe~--~v~~AL 200 (290)
+++..+.+..+ +.++ -.|+|||++.+....... .+..+++.|+.. .++ ++...|..-... ...+..
T Consensus 117 ~l~~~l~~~i~----~~~~-~~vVIDSls~l~~~~d~~~~~r~~l~~L~~~Lk~~-g~T-vLlt~~~~~~~~~~~~~~~~ 189 (509)
T PRK09302 117 ALFIRIEYAID----KIGA-KRVVLDSIEALFSGFSNEAVVRRELRRLFAWLKQK-GVT-AVITGERGDEYGPLTRYGVE 189 (509)
T ss_pred HHHHHHHHHHH----hhCC-CEEEECCHHHHHhhccCHHHHHHHHHHHHHHHHhC-CCE-EEEEECCccCcCCccccCce
Confidence 44444444222 2333 479999999987654332 344555555543 233 333355433111 122345
Q ss_pred HhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeccCc
Q 022893 201 EYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSE 272 (290)
Q Consensus 201 e~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~~~ 272 (290)
+|+++++|.++-... ++...-.+.|...|.. +.....-.|.|...|+.+-|....
T Consensus 190 ~~laDgVI~L~~~~~----------------~~~~~R~l~I~K~Rg~-~~~~~~~~f~I~~~Gi~v~p~~~~ 244 (509)
T PRK09302 190 EFVSDCVIILRNRLE----------------GEKRTRTLRILKYRGT-THGKNEYPFTITEDGISVLPLTAM 244 (509)
T ss_pred EEEeeEEEEEeEEcc----------------CCeEEEEEEEEECCCC-CcCCccEEEEECCCcEEEEecccc
Confidence 899999999972211 1112234455444433 333335668888888888777654
No 10
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=97.97 E-value=0.00024 Score=64.69 Aligned_cols=172 Identities=12% Similarity=0.072 Sum_probs=104.8
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS 131 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~ 131 (290)
+++.+.++.+|.+++++.+.+++.|++.+. ....+.++++|..-.+. .+.+..+.
T Consensus 51 ~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~-----------------------~~~~~~l~ 107 (230)
T PRK08533 51 NGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGN-----------------------SEKRKFLK 107 (230)
T ss_pred CCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccCh-----------------------HHHHHHHH
Confidence 567899999999999999999999987542 13457777776321111 01112223
Q ss_pred HHHHhccCccCCCCCcEEEEEechhHHHHhCC----hHHHHHHHHhhhcCCceeEEEEeecccccchhHHHHHHhhceeE
Q 022893 132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS----ISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMV 207 (290)
Q Consensus 132 ~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s----~~~v~~lL~~Lr~~~~issV~~LlHsDLHe~~v~~ALe~LAs~v 207 (290)
++.+..+ ..++ -.++|||++.++.... ...+.++|+.|+.... .++...|.+.-......-++|+++++
T Consensus 108 ~il~~~~----~~~~-~~lVIDe~t~~l~~~~d~~~~~~l~~~l~~l~~~g~--tvi~t~~~~~~~~~~~~~~~~~~Dgv 180 (230)
T PRK08533 108 KLMNTRR----FYEK-DVIIIDSLSSLISNDASEVAVNDLMAFFKRISSLNK--VIILTANPKELDESVLTILRTAATML 180 (230)
T ss_pred HHHHHHH----hcCC-CEEEEECccHHhcCCcchHHHHHHHHHHHHHHhCCC--EEEEEecccccccccceeEEEeeeEE
Confidence 3333211 1233 4799999999985421 2456667776655322 23333332221222234579999999
Q ss_pred EEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeccC
Q 022893 208 ASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLS 271 (290)
Q Consensus 208 i~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~~ 271 (290)
|.++-... +|..+-.+.|..+|..++.....=-|.|.++-+-.+.+.|
T Consensus 181 I~L~~~~~----------------~~~~~R~i~V~KmR~~~~~~~~~~~f~i~~~~g~~~~~~~ 228 (230)
T PRK08533 181 IRLEVKVF----------------GGDLKNSAKIVKYNMAKGSFQKSIPFRVEPKIGLAVEIAS 228 (230)
T ss_pred EEEEEeec----------------CCEEEEEEEEEEecCCccccCCEEEEEEcCCccEEEEEee
Confidence 99984322 1223456888888888887777788999988654444444
No 11
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=97.92 E-value=0.00036 Score=70.07 Aligned_cols=183 Identities=17% Similarity=0.144 Sum_probs=108.3
Q ss_pred hhccc-cCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCCCCcccccCccccccccccccccccchhh
Q 022893 50 AGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL 126 (290)
Q Consensus 50 a~~~q-~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L 126 (290)
+++.+ ++.+++|+||-+|+++.+.+++.|+|.+.. ..++.++|.+..+ |..... .--++
T Consensus 44 ~g~~~~ge~~lyvs~eE~~~~l~~~~~~~G~~~~~~~~~g~l~~~~~~~~~--~~~~~~----------------~~~~l 105 (484)
T TIGR02655 44 NGIIHFDEPGVFVTFEESPQDIIKNARSFGWDLQKLVDEGKLFILDASPDP--EGQDVV----------------GGFDL 105 (484)
T ss_pred HHHHhCCCCEEEEEEecCHHHHHHHHHHcCCCHHHHhhcCceEEEecCchh--cccccc----------------ccCCH
Confidence 34455 789999999999999999999999986531 3468888875433 222100 00133
Q ss_pred hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCCh-----HHHHHHHHhhhcCCceeEEEEeecccccch-hHHHHH
Q 022893 127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-----SSVAGILSNLRSHDQVSSIFWLLHSDLHEI-KFTSVL 200 (290)
Q Consensus 127 ~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~-----~~v~~lL~~Lr~~~~issV~~LlHsDLHe~-~v~~AL 200 (290)
+.++..+.+... .+++ --|+|||++.+....+. ..+..+++.|+.. .++.++..-+.+.... ...+..
T Consensus 106 ~~~l~~i~~~ls----~g~~-qRVvIDSl~aL~~~~~~~~~~r~~l~~Li~~L~~~-g~TvLLtsh~~~~~~~~~~~~~~ 179 (484)
T TIGR02655 106 SALIERINYAIR----KYKA-KRVSIDSVTAVFQQYDAVSVVRREIFRLVARLKQI-GVTTVMTTERIEEYGPIARYGVE 179 (484)
T ss_pred HHHHHHHHHHHH----HhCC-cEEEEeehhHhhhhcCchHHHHHHHHHHHHHHHHC-CCEEEEEecCcccccccccCCce
Confidence 344344433211 2333 47999999998766444 2456677777652 3444443322332222 112235
Q ss_pred HhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeccCcc
Q 022893 201 EYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSED 273 (290)
Q Consensus 201 e~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~~~~ 273 (290)
+|+++++|.+.-.... +...-.+.|+.+|.+ +.....-.|.|..+|+.+.|.....
T Consensus 180 e~laDgVI~L~~~~~~----------------~~~~R~l~I~K~Rgs-~~~~~~~~~~It~~Gi~v~p~~~~~ 235 (484)
T TIGR02655 180 EFVSDNVVILRNVLEG----------------ERRRRTLEILKLRGT-SHMKGEYPFTITDHGINIFPLGAMR 235 (484)
T ss_pred eEeeeeEEEEEEEecC----------------CEEEEEEEEEECCCC-CcCCceEEEEEcCCcEEEEeccccc
Confidence 9999999999732111 112234555555533 3344445699999999988866554
No 12
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=97.91 E-value=0.00016 Score=72.52 Aligned_cols=173 Identities=16% Similarity=0.192 Sum_probs=103.9
Q ss_pred hccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhH
Q 022893 51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK 128 (290)
Q Consensus 51 ~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~s 128 (290)
++.+++.+.+++||-|++++..-+++-|+|.+. ...++.+++.+....+... .+..
T Consensus 287 ~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~~~----------------------~~~~ 344 (484)
T TIGR02655 287 ACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGLED----------------------HLQI 344 (484)
T ss_pred HHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCChHH----------------------HHHH
Confidence 445678999999999999999999999987542 1235888887643322111 1222
Q ss_pred HHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHH----hhhcCCceeEEEE-eecccc-cchhHHHHHHh
Q 022893 129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILS----NLRSHDQVSSIFW-LLHSDL-HEIKFTSVLEY 202 (290)
Q Consensus 129 l~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~----~Lr~~~~issV~~-LlHsDL-He~~v~~ALe~ 202 (290)
++..+.+ .++ -.|+||||+.+....+..++-..++ .||+ ..++.++. ..|.-. ..+-.-.-++|
T Consensus 345 i~~~i~~--------~~~-~~vvIDsi~~~~~~~~~~~~r~~~~~l~~~lk~-~~it~~~t~~~~~~~~~~~~~~~~~s~ 414 (484)
T TIGR02655 345 IKSEIAD--------FKP-ARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQ-EEITGFFTNTSDQFMGSHSITDSHIST 414 (484)
T ss_pred HHHHHHH--------cCC-CEEEEcCHHHHHHhcCHHHHHHHHHHHHHHHhh-CCCeEEEeecccccccCCccCCCCeeE
Confidence 2222222 234 4899999999987666665544343 4443 34554333 333211 11111134699
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEE-eccCc
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFT-PVLSE 272 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~-~~~~~ 272 (290)
|++.+|.+.-.... +..+-.+. ..|.|.+....+.-+|.|...|++.. |....
T Consensus 415 l~D~ii~l~~~e~~----------------g~~~r~i~-V~K~R~~~~~~~~~~~~It~~Gi~v~~~~~~~ 468 (484)
T TIGR02655 415 ITDTILMLQYVEIR----------------GEMSRAIN-VFKMRGSWHDKGIREFMISDKGPEIKDSFRNF 468 (484)
T ss_pred eeeEEEEEEEEecC----------------CEEEEEEE-EEEccCCCCCCceEEEEEcCCcEEEcccccCC
Confidence 99999998632221 00112233 35667777788888899999999884 44433
No 13
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=97.82 E-value=0.0012 Score=58.74 Aligned_cols=172 Identities=15% Similarity=0.117 Sum_probs=94.9
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCC--CCcccccCccccccccccccccccchhhhH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPL--GWKNWLIDKDISQEASSLSSFCQDVRNLDK 128 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPl--gW~~~~~~~~~~~~~s~~~~~~~~v~~L~s 128 (290)
.+++.+.++.+|.+++.+.+.+++.|++.... +.++.++|.+.... .|.-. . . ++.++.
T Consensus 46 ~~g~~~~~is~e~~~~~i~~~~~~~g~~~~~~~~~~~l~i~d~~~~~~~~~~~~~-~-----------~----~~~~~~- 108 (229)
T TIGR03881 46 RDGDPVIYVTTEESRESIIRQAAQFGMDFEKAIEEGKLVIIDALMKEKEDEWSLR-E-----------L----SIEELL- 108 (229)
T ss_pred hcCCeEEEEEccCCHHHHHHHHHHhCCCHHHHhhcCCEEEEEccccccccccccc-c-----------C----CHHHHH-
Confidence 35779999999999999999899999876532 24688899776431 12110 0 1 122222
Q ss_pred HHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhcC---CceeEEEEeecccc-cchhHHHHHHhhc
Q 022893 129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLLHSDL-HEIKFTSVLEYLS 204 (290)
Q Consensus 129 l~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~---~~issV~~LlHsDL-He~~v~~ALe~LA 204 (290)
.++.+..+ ..+ .++ -.|+|||++.++...+ ...-..+..|++. ..++ ++...|... -+......++|++
T Consensus 109 --~~i~~~~~-~~~-~~~-~~vvIDsl~~l~~~~~-~~~r~~~~~l~~~l~~~~~t-vil~~~~~~~~~~~~~~~~~~l~ 181 (229)
T TIGR03881 109 --NKVIEAKK-YLG-YGH-ARLVIDSMSAFWLDKP-AMARKYSYYLKRVLNRWNFT-ILLTSQYAITTSQAFGFGIEHVA 181 (229)
T ss_pred --HHHHHHHH-hhc-cCc-eEEEecCchhhhccCh-HHHHHHHHHHHHHHHhCCCE-EEEEecccccCCCCcccceEEEE
Confidence 22222111 001 122 5789999999987543 2222333333332 2333 444455322 2222224689999
Q ss_pred eeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEc-CceE
Q 022893 205 SMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVEL-AGIK 265 (290)
Q Consensus 205 s~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~-~~~~ 265 (290)
+++|.++-.... |..+-.+.|+.+|.++ .....-.|.|.+ .|+.
T Consensus 182 D~vI~L~~~~~~----------------~~~~R~i~i~K~R~~~-~~~~~~~~~I~~~~Gi~ 226 (229)
T TIGR03881 182 DGIIRFRKVVVD----------------GELRRYLIVEKMRQTN-HDKRAWEIDIVPGKGLV 226 (229)
T ss_pred eEEEEEEEeccC----------------CcEEEEEEEEeccCCC-CCCceeEEEEcCCCceE
Confidence 999999843221 1123345555555443 444455677875 4554
No 14
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=97.77 E-value=0.00057 Score=63.19 Aligned_cols=131 Identities=13% Similarity=0.097 Sum_probs=71.1
Q ss_pred hccccCcEEEEEecCChHHHHHH----HHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhh
Q 022893 51 GKSQSRGLVVVAYSRSPSFYVDL----LKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL 126 (290)
Q Consensus 51 ~~~q~~~V~vlafe~spe~y~~~----lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L 126 (290)
++.+++.+.++.+|-++++..+. .++.|+|.+...++++++|..+.+.- . .++
T Consensus 60 ~a~~Ge~vlyis~Ee~~~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~-----~------------------~~~ 116 (259)
T TIGR03878 60 QASRGNPVLFVTVESPANFVYTSLKERAKAMGVDFDKIEENIILIDAASSTEL-----R------------------ENV 116 (259)
T ss_pred HHhCCCcEEEEEecCCchHHHHHHHHHHHHcCCCHHHHhCCEEEEECCCchhh-----h------------------hhH
Confidence 33568899999999777644333 45667775544457888887653210 0 122
Q ss_pred hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHH----HHHHHhhhcCCceeE-EEEeecccccc----hhHH
Q 022893 127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSV----AGILSNLRSHDQVSS-IFWLLHSDLHE----IKFT 197 (290)
Q Consensus 127 ~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v----~~lL~~Lr~~~~iss-V~~LlHsDLHe----~~v~ 197 (290)
+.++..+.+..+ +.++ -.||||||+.+.+... ... .++++.|+.. .+.. ++.-.+.+.++ +..-
T Consensus 117 ~~l~~~l~~~i~----~~~~-~~vVIDSls~l~~~~~-~~~r~~~~~L~~~lk~~-~~t~ll~~e~~~~~~~~~~~~~~~ 189 (259)
T TIGR03878 117 PNLLATLAYAIK----EYKV-KNTVIDSITGLYEAKE-MMAREIVRQLFNFMKKW-YQTALFVSQKRSGHEELSAEAAGG 189 (259)
T ss_pred HHHHHHHHHHHH----hhCC-CEEEEcCchHhcccch-HHHHHHHHHHHHHHHHc-CCeEEEEeccccCcccccccccCC
Confidence 333333332111 1233 4899999998765432 222 2344444442 2333 33323332221 1111
Q ss_pred HHHHhhceeEEEEe
Q 022893 198 SVLEYLSSMVASVE 211 (290)
Q Consensus 198 ~ALe~LAs~vi~ve 211 (290)
..++|+++++|.+.
T Consensus 190 ~~~~~l~D~vI~L~ 203 (259)
T TIGR03878 190 YAVSHIVDGTIVLA 203 (259)
T ss_pred cceeEeeccEEEEe
Confidence 35899999999997
No 15
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=97.77 E-value=0.00044 Score=63.29 Aligned_cols=184 Identities=18% Similarity=0.193 Sum_probs=106.3
Q ss_pred hhccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhh
Q 022893 50 AGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD 127 (290)
Q Consensus 50 a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~ 127 (290)
.++..++.++++++|-+|+++++.+++.|.|.+. -+..+.++|.|+.+.+-..... ....++.
T Consensus 46 ~~~~~ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~~~g~l~i~d~~~~~~~~~~~~~---------------~~~~~~~ 110 (260)
T COG0467 46 EGAREGEPVLYVSTEESPEELLENARSFGWDLEVYIEKGKLAILDAFLSEKGLVSIVV---------------GDPLDLE 110 (260)
T ss_pred HHHhcCCcEEEEEecCCHHHHHHHHHHcCCCHHHHhhcCCEEEEEccccccccccccc---------------cCCccHH
Confidence 3444488999999999999999999999998752 2346889999888775322000 1112344
Q ss_pred HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHH-HHHHhhhcCCceeEEEEeecccccch--hHHHHHHhhc
Q 022893 128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVA-GILSNLRSHDQVSSIFWLLHSDLHEI--KFTSVLEYLS 204 (290)
Q Consensus 128 sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~-~lL~~Lr~~~~issV~~LlHsDLHe~--~v~~ALe~LA 204 (290)
++...+.+..+ +.++ ..++|||++.+......+... ..+..|++.-.-..+.+++.++.... ...+-.+|++
T Consensus 111 ~l~~~I~~~~~----~~~~-~~~ViDsi~~~~~~~~~~~~~r~~~~~l~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~v 185 (260)
T COG0467 111 ELLDRIREIVE----KEGA-DRVVIDSITELTLYLNDPALVRRILLLLKRFLKKLGVTSLLTTEAPVEERGESGVEEYIV 185 (260)
T ss_pred HHHHHHHHHHH----HhCC-CEEEEeCCchHhhhcCchHHHHHHHHHHHHHHHhCCCEEEEEecccccCCCccceEEEEE
Confidence 44344444222 2223 799999999766665555553 55555554311111444555554322 2214566799
Q ss_pred eeEEEEeecCcccccccchhhhhhhhhhcccceeE-EEEEecCCC-CeeeeEeEEEEEc-CceEEEeccC
Q 022893 205 SMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKF-HVRFKRRNG-RVRVMCEEILVEL-AGIKFTPVLS 271 (290)
Q Consensus 205 s~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~-~Vr~kRr~G-RV~~~~E~f~I~~-~~~~f~~~~~ 271 (290)
+.+|.+...... +.+.- .++-.|..| ......-.|.|.+ +++.+.+-..
T Consensus 186 dgvI~l~~~~~~------------------~~~~r~~~~i~k~r~~~~~~~~~~~~i~~g~gi~i~~~~~ 237 (260)
T COG0467 186 DGVIRLDLKEIE------------------GGGDRRYLRILKMRGTPHSLKVIPFEITDGEGIVVYPEGR 237 (260)
T ss_pred EEEEEEeeeccc------------------CceEEEEEEEEeccccccCCceeceEEecCCcEEEecCcc
Confidence 999999864332 12222 333333222 4444555566677 5666665433
No 16
>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=97.65 E-value=0.0015 Score=58.25 Aligned_cols=172 Identities=12% Similarity=0.107 Sum_probs=98.3
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCC-CCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS-SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS 131 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~-~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~ 131 (290)
.+++.+.++.+|-+++.+.+-++..|++.+. .++++.++|....-. ...+..+...+.
T Consensus 42 ~~g~~~~y~s~e~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---------------------~~~~~~l~~~~~ 100 (224)
T TIGR03880 42 KNGEKAMYISLEEREERILGYAKSKGWDLEDYIDKSLYIVRLDPSDF---------------------KTSLNRIKNELP 100 (224)
T ss_pred hCCCeEEEEECCCCHHHHHHHHHHcCCChHHHHhCCeEEEecCHHHH---------------------HhhHHHHHHHHH
Confidence 4578999999999999999999999887543 122467776321100 001112221111
Q ss_pred HHHHhccCccCCCCCcEEEEEechhHHHHhC-Ch----HHHHHHHHhhhcCCceeEEEEeecccccch--hHHHHHHhhc
Q 022893 132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHA-SI----SSVAGILSNLRSHDQVSSIFWLLHSDLHEI--KFTSVLEYLS 204 (290)
Q Consensus 132 ~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~-s~----~~v~~lL~~Lr~~~~issV~~LlHsDLHe~--~v~~ALe~LA 204 (290)
..++ +.+. -.|+|||++.+-.-. .. ..+..+++.|+.. .+ .++...|.+-+.+ .....++|++
T Consensus 101 ~~i~-------~~~~-~~vVIDsls~l~~~~~~~~~~r~~l~~l~~~lk~~-~~-tvll~s~~~~~~~~~~~~~~~~~l~ 170 (224)
T TIGR03880 101 ILIK-------ELGA-SRVVIDPISLLETLFDDDAERRTELFRFYSSLRET-GV-TTILTSEADKTNVFASKYGLIEYLA 170 (224)
T ss_pred HHHH-------HhCC-CEEEEcChHHHhhhcCCHHHHHHHHHHHHHHHHhC-CC-EEEEEEcccCCCCCccCCCceEEEE
Confidence 2222 1223 367899999872211 21 3556778888754 33 4555566554432 2245589999
Q ss_pred eeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEecc
Q 022893 205 SMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVL 270 (290)
Q Consensus 205 s~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~ 270 (290)
+.+|.+.-.... .. +...-.+.|..+ |..+.....-.|.|..+|+...|-+
T Consensus 171 D~vI~L~~~~~~-~~-------------~~~~r~l~v~K~-Rg~~~~~~~~~~~i~~~Gi~v~~~~ 221 (224)
T TIGR03880 171 DGVIILKYVRNS-DL-------------RDVRLAVEVVKM-RRSKHSREIKPYEITDSGITVYSEA 221 (224)
T ss_pred eEEEEEeeeecc-cC-------------cceEEEEEEEEc-cCCCCCCceEEEEEcCCcEEEeccC
Confidence 999999622110 00 001113444333 4455666677799999999876643
No 17
>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=97.50 E-value=0.0033 Score=53.48 Aligned_cols=134 Identities=19% Similarity=0.112 Sum_probs=81.7
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCCC--CCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY 130 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~--~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~ 130 (290)
.+++.+.++.+|-+++.+.+-+++.|++.+.. +..+.+.|.+...+..... . ...++...+
T Consensus 25 ~~g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~s~~~~-~----------------~~~~~~~~i 87 (187)
T cd01124 25 ARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAES-S----------------LRLELIQRL 87 (187)
T ss_pred HCCCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCCeEEEecCccccchhhh-h----------------hhHHHHHHH
Confidence 45789999999999999999999999885431 2346777755544422110 0 000111111
Q ss_pred HHHHHhccCccCCCCCcEEEEEechhHHHH---hCChHHHHHHHHhhhcCCceeEEEEeeccccc-c-hhHHHHHHhhce
Q 022893 131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVR---HASISSVAGILSNLRSHDQVSSIFWLLHSDLH-E-IKFTSVLEYLSS 205 (290)
Q Consensus 131 ~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~---h~s~~~v~~lL~~Lr~~~~issV~~LlHsDLH-e-~~v~~ALe~LAs 205 (290)
...+. +.++ -.|+||+++.++. ......+..++..|++. .+. ++...|..-. + ......++|+++
T Consensus 88 ~~~~~-------~~~~-~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~~-g~t-vi~v~~~~~~~~~~~~~~~~~~~aD 157 (187)
T cd01124 88 KDAIE-------EFKA-KRVVIDSVSGLLLMEQSTARLEIRRLLFALKRF-GVT-TLLTSEQSGLEGTGFGGGDVEYLVD 157 (187)
T ss_pred HHHHH-------HhCC-CEEEEeCcHHHhhcChHHHHHHHHHHHHHHHHC-CCE-EEEEeccccCCCcccCcCceeEeee
Confidence 22111 1233 5899999999987 44445566777777764 333 4444443322 1 233467899999
Q ss_pred eEEEEeec
Q 022893 206 MVASVEPF 213 (290)
Q Consensus 206 ~vi~vep~ 213 (290)
.++.++-.
T Consensus 158 ~ii~l~~~ 165 (187)
T cd01124 158 GVIRLRLD 165 (187)
T ss_pred EEEEEEEE
Confidence 99999844
No 18
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=96.93 E-value=0.049 Score=53.51 Aligned_cols=150 Identities=21% Similarity=0.179 Sum_probs=85.7
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
+++.|.++.+|-+++.+..-.++.|++.+ ++.+++. .+++.++..+
T Consensus 109 ~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~----~l~l~~e------------------------------~~le~I~~~i 154 (372)
T cd01121 109 RGGKVLYVSGEESPEQIKLRADRLGISTE----NLYLLAE------------------------------TNLEDILASI 154 (372)
T ss_pred cCCeEEEEECCcCHHHHHHHHHHcCCCcc----cEEEEcc------------------------------CcHHHHHHHH
Confidence 35689999999999888776777776532 3433210 0223332222
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHhC------ChHHHHHHHHhhhcC---CceeEEEEeecccccc--hhHHHHHHh
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHA------SISSVAGILSNLRSH---DQVSSIFWLLHSDLHE--IKFTSVLEY 202 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h~------s~~~v~~lL~~Lr~~---~~issV~~LlHsDLHe--~~v~~ALe~ 202 (290)
.+ .++ -.|+|||++.|.... +..++-..+..|++. ..+ .+|..-|..-.. .+ ...++|
T Consensus 155 ~~--------~~~-~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~lak~~~i-tvilvghvtk~g~~aG-~~~leh 223 (372)
T cd01121 155 EE--------LKP-DLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERNI-PIFIVGHVTKEGSIAG-PKVLEH 223 (372)
T ss_pred Hh--------cCC-cEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHHHHcCC-eEEEEeeccCCCcccC-cccchh
Confidence 22 234 579999999986532 134444444444442 223 244444433221 12 358999
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEe
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTP 268 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~ 268 (290)
++++++.+|-.... ..-.+++ .|.|.|. ..+...|.|..+|+..++
T Consensus 224 ~vD~Vi~le~~~~~------------------~~R~Lri-~KnR~g~-~~ei~~F~i~~~Gl~~v~ 269 (372)
T cd01121 224 MVDTVLYFEGDRHS------------------EYRILRS-VKNRFGS-TNELGVFEMRENGLREVS 269 (372)
T ss_pred hceEEEEEEcCCCC------------------cEEEEEE-EeCCCCC-CCCEEEEEECCCCeEEcc
Confidence 99999998832210 1122332 3445564 557788999999988544
No 19
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=96.93 E-value=0.032 Score=48.82 Aligned_cols=154 Identities=14% Similarity=0.148 Sum_probs=79.6
Q ss_pred ccCcEEEEEecC-ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHH
Q 022893 54 QSRGLVVVAYSR-SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL 132 (290)
Q Consensus 54 q~~~V~vlafe~-spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~ 132 (290)
+++.+.++.+|. +++.+.+..+.+ .+ ....++++++++ |+. ++...+..
T Consensus 39 ~g~~v~yi~~e~~~~~rl~~~~~~~-~~--~~~~~i~~~~~~-~~~--------------------------~~~~~~~~ 88 (209)
T TIGR02237 39 QGKKVVYIDTEGLSPERFKQIAEDR-PE--RALSNFIVFEVF-DFD--------------------------EQGVAIQK 88 (209)
T ss_pred CCCeEEEEECCCCCHHHHHHHHHhC-hH--HHhcCEEEEECC-CHH--------------------------HHHHHHHH
Confidence 467999999996 888888866543 11 113568887763 111 11111122
Q ss_pred HHHhccCccCCCCCcEEEEEechhHHHHhCC-------hHHHHHHHHhhhc---CCceeEEE-Eeeccccc----chhHH
Q 022893 133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS-------ISSVAGILSNLRS---HDQVSSIF-WLLHSDLH----EIKFT 197 (290)
Q Consensus 133 ~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s-------~~~v~~lL~~Lr~---~~~issV~-~LlHsDLH----e~~v~ 197 (290)
+.+.. .+.++ -.|+||||+.+.+... ...+...+..|++ ...+..++ .-+-++.+ .|---
T Consensus 89 l~~~~----~~~~~-~lvVIDSis~l~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~~~~~~~~~~~~gg 163 (209)
T TIGR02237 89 TSKFI----DRDSA-SLVVVDSFTALYRLELSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVYTDVNNGTLRPLGG 163 (209)
T ss_pred HHHHH----hhcCc-cEEEEeCcHHHhHHHhCCccHHHHHHHHHHHHHHHHHHHHcCCEEEEEcccEEecCCCCCcCCCc
Confidence 22211 11233 5899999999876321 1133333444433 22233222 22222232 22112
Q ss_pred HHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCce
Q 022893 198 SVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGI 264 (290)
Q Consensus 198 ~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~ 264 (290)
..++|++++++.++-. . +.-.+ + .+|+++......-+|.|.++|+
T Consensus 164 ~~~~~~~d~vi~l~~~-~-------------------~~r~~-~-i~k~~~~~~~~~~~f~It~~Gi 208 (209)
T TIGR02237 164 HLLEHWSKVILRLEKF-R-------------------GRRLA-T-LEKHRSRPEGESVYFRITDDGI 208 (209)
T ss_pred chhheeeeEEEEEEec-C-------------------CEEEE-E-EEECCCCCCCCeEEEEEeCCcc
Confidence 3689999999988832 1 11122 2 3443333345556799988875
No 20
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.78 E-value=0.088 Score=52.81 Aligned_cols=149 Identities=21% Similarity=0.173 Sum_probs=84.8
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
+++.|.++.+|-+++.+..-.++.|++.+ ++.+.+ . .+++.++..+
T Consensus 107 ~g~~vlYvs~Ees~~qi~~ra~rlg~~~~----~l~~~~----e--------------------------~~l~~i~~~i 152 (446)
T PRK11823 107 AGGKVLYVSGEESASQIKLRAERLGLPSD----NLYLLA----E--------------------------TNLEAILATI 152 (446)
T ss_pred cCCeEEEEEccccHHHHHHHHHHcCCChh----cEEEeC----C--------------------------CCHHHHHHHH
Confidence 46789999999999988887777777633 333221 0 0223332222
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHh------CChHHHHHHHHhhhcC---CceeEEEEeecccccc--hhHHHHHHh
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRH------ASISSVAGILSNLRSH---DQVSSIFWLLHSDLHE--IKFTSVLEY 202 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h------~s~~~v~~lL~~Lr~~---~~issV~~LlHsDLHe--~~v~~ALe~ 202 (290)
.+ .++ -.|+|||++.+... .+..++-..+..|++. ..+. ++..-|..-.. .+. ..++|
T Consensus 153 ~~--------~~~-~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~~ak~~~it-vilv~hvtk~~~~ag~-~~leh 221 (446)
T PRK11823 153 EE--------EKP-DLVVIDSIQTMYSPELESAPGSVSQVRECAAELMRLAKQRGIA-VFLVGHVTKEGAIAGP-RVLEH 221 (446)
T ss_pred Hh--------hCC-CEEEEechhhhccccccCCCCCHHHHHHHHHHHHHHHHHcCCE-EEEEeeccCCCCcCCc-chhhh
Confidence 22 234 57999999998752 1234444444445443 2222 33333533322 222 56999
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEE
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFT 267 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~ 267 (290)
++++++.++-.... ..-.+.+ .|.|.|. ..+...|.|...|+.-+
T Consensus 222 lvD~Vi~le~~~~~------------------~~R~l~i-~K~R~g~-~~e~~~f~it~~Gi~~v 266 (446)
T PRK11823 222 MVDTVLYFEGDRHS------------------RYRILRA-VKNRFGA-TNEIGVFEMTEQGLREV 266 (446)
T ss_pred hCeEEEEEEcCCCC------------------ceEEEEE-ccCCCCC-CCceEEEEEcCCCceEC
Confidence 99999988731110 1122332 3444454 44667899999998744
No 21
>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=96.74 E-value=0.19 Score=45.77 Aligned_cols=110 Identities=19% Similarity=0.200 Sum_probs=61.1
Q ss_pred CCcEEEEEechhHHHHhCC-----hHHHHHHHHhhhcCC-cee-EEEEeecccc--cc-------------hhHHHHHHh
Q 022893 145 KDRFSIAIDSVSEMVRHAS-----ISSVAGILSNLRSHD-QVS-SIFWLLHSDL--HE-------------IKFTSVLEY 202 (290)
Q Consensus 145 k~~~~VaIDSLS~LL~h~s-----~~~v~~lL~~Lr~~~-~is-sV~~LlHsDL--He-------------~~v~~ALe~ 202 (290)
++ -.|+||+|+.|..... -..+-++++.|+... +.. .|+.+-|..- .. .+-..++++
T Consensus 140 ~~-~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll~sq~~~~~~~~~~~~~~~~~~~d~~gs~~i~~ 218 (271)
T cd01122 140 GI-QHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSHLRRPDGDKTHEEGGEVSLSDFRGSAAIGQ 218 (271)
T ss_pred Cc-eEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEEEecccCccCCCccccCCCceEEeccCcHhHhh
Confidence 44 5899999999976531 122345555555431 222 3444555332 11 122458999
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
.|++++.++...... + .+.....++|..+|.+|..-.. -.++++....+|.|.
T Consensus 219 ~aD~vi~l~r~~~~e------~-------~~~~~~~i~v~K~R~~~~~g~~-~~~~~~~~t~~~~~~ 271 (271)
T cd01122 219 LADNVIALERNQQAE------L-------DERNTTYLRILKNRFTGGTGVA-GPLEYDKETGRLSPP 271 (271)
T ss_pred hccEEEEEEecCccc------c-------ccCCcEEEEEEeeccCCCccce-eeEEEECCCceecCC
Confidence 999999998433210 0 1113345666666666543222 346667888888873
No 22
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.37 E-value=0.14 Score=45.45 Aligned_cols=98 Identities=20% Similarity=0.146 Sum_probs=54.1
Q ss_pred EEEEEechhHHHHhC-----C----hHHHHHHHHhhhcC---CceeE-EEEeecccccc----hhHHHHHHhhceeEEEE
Q 022893 148 FSIAIDSVSEMVRHA-----S----ISSVAGILSNLRSH---DQVSS-IFWLLHSDLHE----IKFTSVLEYLSSMVASV 210 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~-----s----~~~v~~lL~~Lr~~---~~iss-V~~LlHsDLHe----~~v~~ALe~LAs~vi~v 210 (290)
-.|+||||+.+.+.. . ...+.+.++.|++. -.+.- +..-++.+.+. +---..++|++++++.+
T Consensus 109 ~lvVIDsi~al~~~~~~~~~~~~~~~~~l~~~l~~L~~~a~~~~v~vi~tnq~~~~~~~~~~~~~gg~~~~~~~d~ii~l 188 (225)
T PRK09361 109 GLIVLDSATSLYRLELEDEEDNSKLNRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSDGLRPLGGHTLEHWSKTILRL 188 (225)
T ss_pred cEEEEeCcHHHhHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEccceecCCCCcccCCCcchhhhhccEEEEE
Confidence 589999999987642 1 12345544445442 12222 22333344442 21123789999999999
Q ss_pred eecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEE
Q 022893 211 EPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKF 266 (290)
Q Consensus 211 ep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f 266 (290)
+. ... .+-.+ +..|+| +......-+|.|...|+..
T Consensus 189 ~~-~~~------------------~~r~~-~i~k~~-~~~~~~~~~f~It~~Gi~~ 223 (225)
T PRK09361 189 EK-FRN------------------GKRRA-TLEKHR-SRPEGESAEFRITDRGIEI 223 (225)
T ss_pred EE-ccC------------------CeEEE-EEEECC-CCCCCCeEEEEEeCCcEec
Confidence 85 111 12222 334444 3344455679999888753
No 23
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=95.99 E-value=0.39 Score=42.38 Aligned_cols=96 Identities=19% Similarity=0.089 Sum_probs=51.7
Q ss_pred EEEEEechhHHHHhCCh---------HHHHHHHHhhhcC---CceeE-EEEeeccccc----chhHHHHHHhhceeEEEE
Q 022893 148 FSIAIDSVSEMVRHASI---------SSVAGILSNLRSH---DQVSS-IFWLLHSDLH----EIKFTSVLEYLSSMVASV 210 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s~---------~~v~~lL~~Lr~~---~~iss-V~~LlHsDLH----e~~v~~ALe~LAs~vi~v 210 (290)
-.|+||||+.+.+..-. ..+.+.++.|+.. ..+.- +.+-+..+.. .|.--..++|+++++|.+
T Consensus 105 ~lvvIDsi~~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~t~q~~~~~~~~~~~p~~g~~~~~~~d~~i~l 184 (218)
T cd01394 105 DLVVVDSATALYRLELGDDDTTIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVILRL 184 (218)
T ss_pred cEEEEechHHhhhHHhcCccchHHHHHHHHHHHHHHHHHHHHhCCEEEEecCCEEcCCCCcccccCCcchhcceeEEEEE
Confidence 58999999999753211 1445555555542 12221 2223333333 121123689999999999
Q ss_pred eecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCce
Q 022893 211 EPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGI 264 (290)
Q Consensus 211 ep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~ 264 (290)
+=.. . . .+..+ .||+++......-.|.|.+.|+
T Consensus 185 ~~~~-~------------------~-~r~~~-~~~~~~~~~~~~~~f~It~~Gi 217 (218)
T cd01394 185 EKLR-V------------------G-TRRAV-LEKHRFRPEGSSVYFRITDKGI 217 (218)
T ss_pred EEcC-C------------------C-eEEEE-EeeCCCCCCCceEEEEEeCCcc
Confidence 8221 1 1 12223 3344444455556799988775
No 24
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=95.97 E-value=0.21 Score=50.30 Aligned_cols=148 Identities=19% Similarity=0.122 Sum_probs=84.4
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
+++.|.++.+|-+++.+..-.++.|++. +++.+++.. +++.+...+
T Consensus 121 ~g~kvlYvs~EEs~~qi~~ra~rlg~~~----~~l~~~~e~------------------------------~~~~I~~~i 166 (454)
T TIGR00416 121 NQMKVLYVSGEESLQQIKMRAIRLGLPE----PNLYVLSET------------------------------NWEQICANI 166 (454)
T ss_pred cCCcEEEEECcCCHHHHHHHHHHcCCCh----HHeEEcCCC------------------------------CHHHHHHHH
Confidence 3568999999999988877666677652 245544310 122222222
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHhC------ChHHHHHHHHhhhcC---CceeEEEEeecccccc--hhHHHHHHh
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHA------SISSVAGILSNLRSH---DQVSSIFWLLHSDLHE--IKFTSVLEY 202 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h~------s~~~v~~lL~~Lr~~---~~issV~~LlHsDLHe--~~v~~ALe~ 202 (290)
.+ .++ -.|+|||++.+.... +..++-..+..|.+. ..++ ++-.-|..-.+ .+. ..++|
T Consensus 167 ~~--------~~~-~~vVIDSIq~l~~~~~~~~~g~~~q~r~~~~~L~~~ak~~giT-vllt~hvtkeg~~aG~-~~le~ 235 (454)
T TIGR00416 167 EE--------ENP-QACVIDSIQTLYSPDISSAPGSVSQVRECTAELMRLAKTRGIA-IFIVGHVTKEGSIAGP-KVLEH 235 (454)
T ss_pred Hh--------cCC-cEEEEecchhhcccccccCCCCHHHHHHHHHHHHHHHHHhCCE-EEEEeccccCCccCCc-ccEee
Confidence 22 234 479999999986531 233444444444442 2233 33344543332 122 56899
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEE
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKF 266 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f 266 (290)
++++++.++-.... ....+.+ .|.|.|. ..+.-.|.|..+|+..
T Consensus 236 lvD~VI~Le~~~~~------------------~~R~L~v-~K~R~g~-~~e~~~f~it~~Gl~~ 279 (454)
T TIGR00416 236 MVDTVLYFEGDRDS------------------RFRILRS-VKNRFGA-TNEIGIFEMTEQGLRE 279 (454)
T ss_pred eceEEEEEeccCCC------------------cEEEEEE-ecCCCCC-CCcEEEEEEecCCcee
Confidence 99999999832110 2223333 4455664 4577789999999863
No 25
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=95.91 E-value=0.4 Score=45.50 Aligned_cols=39 Identities=21% Similarity=0.269 Sum_probs=30.8
Q ss_pred CcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 56 ~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
..++++.+|. +|+.+.+.+++.|++.+..-+++++++++
T Consensus 137 ~~~~yi~te~~f~~~rl~~~~~~~g~~~~~~l~~i~~~~~~ 177 (317)
T PRK04301 137 GKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAY 177 (317)
T ss_pred ceEEEEeCCCCcCHHHHHHHHHHcCCChHhhhccEEEEeCC
Confidence 5899999999 69999999988888765434567777764
No 26
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=95.91 E-value=0.25 Score=43.78 Aligned_cols=40 Identities=23% Similarity=0.284 Sum_probs=30.7
Q ss_pred cCcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 55 SRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 55 ~~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
.+++.++..|. +++.+.+.+++.|.+....-+++++.++|
T Consensus 53 ~~~viyi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~ 94 (235)
T cd01123 53 EGKAVYIDTEGTFRPERLVQIAERFGLDPEEVLDNIYVARAY 94 (235)
T ss_pred CccEEEEeCCCCcCHHHHHHHHHHhccChHhHhcCEEEEecC
Confidence 36899999988 57888888888887766555678877764
No 27
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=95.13 E-value=0.78 Score=43.10 Aligned_cols=39 Identities=18% Similarity=0.263 Sum_probs=29.8
Q ss_pred CcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 56 ~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
..++++.+|- +|+.+.+.++..|++.+..-+++.++.++
T Consensus 130 ~~~~yi~te~~f~~~rl~~~~~~~gl~~~~~~~~i~i~~~~ 170 (310)
T TIGR02236 130 GKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAY 170 (310)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhhceEEEecC
Confidence 3899999999 79999999998888754334567776653
No 28
>PTZ00035 Rad51 protein; Provisional
Probab=94.93 E-value=1.8 Score=41.98 Aligned_cols=157 Identities=15% Similarity=0.128 Sum_probs=85.5
Q ss_pred cCcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHH
Q 022893 55 SRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL 132 (290)
Q Consensus 55 ~~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~ 132 (290)
+..++++..|. +|+.+.+..++.|++.+..-.++.+..+|+- .++..++..
T Consensus 152 ~g~vvyIdtE~~f~~eri~~ia~~~g~~~~~~l~nI~~~~~~~~---------------------------e~~~~~l~~ 204 (337)
T PTZ00035 152 EGKVLYIDTEGTFRPERIVQIAERFGLDPEDVLDNIAYARAYNH---------------------------EHQMQLLSQ 204 (337)
T ss_pred CceEEEEEccCCCCHHHHHHHHHHhCCChHhHhhceEEEccCCH---------------------------HHHHHHHHH
Confidence 45788899987 4888888888888876554456666554421 011111122
Q ss_pred HHHhccCccCCCCCcEEEEEechhHHHHhC-C--------hHHHHHHHHhhhcC---CceeE-EEEeecccc--------
Q 022893 133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRHA-S--------ISSVAGILSNLRSH---DQVSS-IFWLLHSDL-------- 191 (290)
Q Consensus 133 ~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~-s--------~~~v~~lL~~Lr~~---~~iss-V~~LlHsDL-------- 191 (290)
+.+. -.+.+. -.|+|||++.+.+.. + -..+.++++.|++. -.+.- +..-+.+|.
T Consensus 205 ~~~~----l~~~~~-~lvVIDSital~r~~~~~~~~~~~r~~~l~~~~~~L~~la~~~~vavvvtNqv~~~~~~~~~~~~ 279 (337)
T PTZ00035 205 AAAK----MAEERF-ALLIVDSATALFRVDYSGRGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVA 279 (337)
T ss_pred HHHH----hhccCc-cEEEEECcHHhhhhhccCcccHHHHHHHHHHHHHHHHHHHHHcCcEEEEecceEEecCCccccCC
Confidence 1111 011333 589999999998752 1 12255666667652 11111 111122221
Q ss_pred --cchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceE
Q 022893 192 --HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIK 265 (290)
Q Consensus 192 --He~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~ 265 (290)
..|--=..+.|.+++.+.+.-... ..-.++|. |.|+...-. -.|.|..+|+.
T Consensus 280 ~~~~p~gG~~~~h~~~~Rl~l~k~~~-------------------~~R~~~i~-ksp~~p~~~--~~f~It~~Gi~ 333 (337)
T PTZ00035 280 DPKKPIGGHIIAHASTTRLSLRKGRG-------------------EQRICKIY-DSPNLPESE--AVFAISEGGII 333 (337)
T ss_pred CCccCCchHHHHhheeEEEEEEecCC-------------------CeeEEEEE-ECCCCCCee--EEEEEeCCccc
Confidence 112112578899999888873211 12244444 555554333 47999998875
No 29
>KOG4723 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.87 E-value=0.53 Score=43.64 Aligned_cols=187 Identities=15% Similarity=0.166 Sum_probs=103.2
Q ss_pred CCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEec
Q 022893 16 GEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDC 93 (290)
Q Consensus 16 ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~rv~i~D~ 93 (290)
.|+--..+++|+..+| |.-+|-|++. ...++ .+.+.+++|.++-+.|--.+++-|.|... .+.+++++|+
T Consensus 16 ~EqgkltLl~d~~eT~-gsFl~H~~l~----~~Lka---n~~~cFlaf~k~fshy~i~~rKlG~~l~t~k~rgqlvF~dg 87 (248)
T KOG4723|consen 16 PEQGKLTLLLDTRETP-GSFLFHYYLY----HALKA---NESTCFLAFSKTFSHYAISMRKLGMDLKTKKNRGQLVFIDG 87 (248)
T ss_pred CCCccEEEEeecccCC-ceeeHHHHHH----HHHhc---CCcEEEEEeecchhHHHHHHHHhCCceeecccCCcEEEEhh
Confidence 4566789999999998 4767776542 22222 27999999999999999999999998776 2335999999
Q ss_pred cc---CCCCCcccccCccccccccccccccc-cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCC---hHH
Q 022893 94 YT---DPLGWKNWLIDKDISQEASSLSSFCQ-DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS---ISS 166 (290)
Q Consensus 94 fs---DPlgW~~~~~~~~~~~~~s~~~~~~~-~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s---~~~ 166 (290)
++ ||.-...+-. .+-.+... -+.+. .++.+.+..-.+.+...-...-...+.++++|++|-++.-.- ...
T Consensus 88 l~~~~~~i~~q~~kq--~~~t~~~~-~a~~~~ni~~v~e~~rE~~~~v~~~e~i~~~~~t~~vDd~sil~~~~~g~~~~~ 164 (248)
T KOG4723|consen 88 LSMLFAPISKQSKKQ--APETKNHI-KAVFAPNIQCVEENDREFENSVIIIEDIDILQSTHAVDDTSILQAILEGRCFSR 164 (248)
T ss_pred hhhhhCccchhhhhc--CchhHHHH-HhhcCcchhHHHHHHHHHhhheeeeeeeecccceEEEchHHHHHHHHcccchHH
Confidence 87 4544432211 00000000 01111 233333321112111110011112236899999997765322 234
Q ss_pred HHHHHHhhhcCCc-ee-EEEEeeccccc----chhHHHHHHhhce-eEEEEeec
Q 022893 167 VAGILSNLRSHDQ-VS-SIFWLLHSDLH----EIKFTSVLEYLSS-MVASVEPF 213 (290)
Q Consensus 167 v~~lL~~Lr~~~~-is-sV~~LlHsDLH----e~~v~~ALe~LAs-~vi~vep~ 213 (290)
|..+++-=---++ -+ ..+.+.|.+-- +|-++....++++ .++.-||.
T Consensus 165 Vldfvhycatl~~e~~~~~vIlvH~~~~a~~erp~~ll~~~~~~~~l~l~aepl 218 (248)
T KOG4723|consen 165 VLDFVHYCATLPQEKSLGSVILVHMATRAISERPLTLLSARRITGFLRLSAEPL 218 (248)
T ss_pred HhhhhhhccccchhhcCCeEEEEecccchhccCchhhhhhhhhcceEEEecccc
Confidence 4444443211122 22 35667787643 3555555555555 77777874
No 30
>PRK05973 replicative DNA helicase; Provisional
Probab=94.57 E-value=0.6 Score=43.37 Aligned_cols=31 Identities=23% Similarity=0.144 Sum_probs=27.6
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCC
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS 83 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~ 83 (290)
.+++.++++.||-+++++.+-++..|++.+.
T Consensus 90 ~~Ge~vlyfSlEes~~~i~~R~~s~g~d~~~ 120 (237)
T PRK05973 90 KSGRTGVFFTLEYTEQDVRDRLRALGADRAQ 120 (237)
T ss_pred hcCCeEEEEEEeCCHHHHHHHHHHcCCChHH
Confidence 4588999999999999999999999998664
No 31
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=94.57 E-value=0.079 Score=47.24 Aligned_cols=67 Identities=18% Similarity=0.102 Sum_probs=40.4
Q ss_pred EEEEEechhHHHHhC----ChHHHHHHHHhhhcCCc-eeEEEEeec-c-----c-------ccchhHHHHHHhhceeEEE
Q 022893 148 FSIAIDSVSEMVRHA----SISSVAGILSNLRSHDQ-VSSIFWLLH-S-----D-------LHEIKFTSVLEYLSSMVAS 209 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~----s~~~v~~lL~~Lr~~~~-issV~~LlH-s-----D-------LHe~~v~~ALe~LAs~vi~ 209 (290)
-.|+||+|+.+-... .-..+..+++.|+.... ....++++| - + ++.-+-.+++++.|++++.
T Consensus 125 ~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q~~r~~~~~~~~~~~~~~~~gS~~i~~~aD~vi~ 204 (242)
T cd00984 125 GLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQLSRGVESRADKRPMLSDLRESGSIEQDADVVMF 204 (242)
T ss_pred CEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhhhccCCCCCCHHHHhhhcccccCCCEEEE
Confidence 589999999664332 12345566677775432 333333333 1 1 2233445788999999999
Q ss_pred EeecC
Q 022893 210 VEPFN 214 (290)
Q Consensus 210 vep~~ 214 (290)
+....
T Consensus 205 l~~~~ 209 (242)
T cd00984 205 LYRDE 209 (242)
T ss_pred Eeccc
Confidence 98543
No 32
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=94.23 E-value=1.2 Score=39.13 Aligned_cols=126 Identities=15% Similarity=0.150 Sum_probs=69.5
Q ss_pred CcEEEEEecCC--hHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 56 RGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 56 ~~V~vlafe~s--pe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
..+.++..|.+ ++.+.+.....+.+.+...++++++++++ + .++...+..+
T Consensus 54 ~~v~yi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~-~--------------------------~~~~~~l~~~ 106 (226)
T cd01393 54 GKVVYIDTEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPYN-G--------------------------EQQLEIVEEL 106 (226)
T ss_pred ceEEEEecCCCCCHHHHHHHHHHhccchhhhhccEEEEeCCC-H--------------------------HHHHHHHHHH
Confidence 68899999986 66777766776665444345677777642 1 1122222232
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHhC--Ch-------HHHHHHHHhhhcCCc-ee-EEEEeecc--ccc-----chh
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHA--SI-------SSVAGILSNLRSHDQ-VS-SIFWLLHS--DLH-----EIK 195 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h~--s~-------~~v~~lL~~Lr~~~~-is-sV~~LlHs--DLH-----e~~ 195 (290)
.+. ..+.+. -.|+||||+.+.+.. +- ..+.++++.|++... .. .|+.+-|. +.- ...
T Consensus 107 ~~~----~~~~~~-~lvVIDsis~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~tnq~~~~~~~~~~~~~~ 181 (226)
T cd01393 107 ERI----MSSGRV-DLVVVDSVAALFRKEFIGRGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVRAKVDVMFGDPET 181 (226)
T ss_pred HHH----hhcCCe-eEEEEcCcchhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHhCcEEEEEEEEeeecccccCCCcc
Confidence 221 111233 589999999987642 11 234445555554321 11 23333332 221 122
Q ss_pred HH--HHHHhhceeEEEEeec
Q 022893 196 FT--SVLEYLSSMVASVEPF 213 (290)
Q Consensus 196 v~--~ALe~LAs~vi~vep~ 213 (290)
+. .+++|.+++.+.++-.
T Consensus 182 p~~G~~~~~~~~~ri~l~~~ 201 (226)
T cd01393 182 PAGGNALAHASTTRLDLRKG 201 (226)
T ss_pred ccCchhhhCcccEEEEEEec
Confidence 23 6899999999988844
No 33
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=94.04 E-value=3.8 Score=40.03 Aligned_cols=156 Identities=10% Similarity=0.107 Sum_probs=86.7
Q ss_pred CcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 56 ~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
..++++.+|. +|+-+.+..++.|++.+..-+++++.++|+ . .++..++..+
T Consensus 158 g~vlyIdtE~~f~~eRl~qia~~~~~~~~~~l~~i~~~~~~~----~-----------------------e~~~~ll~~~ 210 (342)
T PLN03186 158 GKAMYIDTEGTFRPQRLIQIAERFGLNGADVLENVAYARAYN----T-----------------------DHQSELLLEA 210 (342)
T ss_pred ceEEEEECCCCccHHHHHHHHHHcCCChhhhccceEEEecCC----H-----------------------HHHHHHHHHH
Confidence 3799999999 699899999998888654345666666541 1 1111111222
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHhC--C---h----HHHHHHHHhhhcCC---cee-EEEEeecccccc------h
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHA--S---I----SSVAGILSNLRSHD---QVS-SIFWLLHSDLHE------I 194 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h~--s---~----~~v~~lL~~Lr~~~---~is-sV~~LlHsDLHe------~ 194 (290)
... ..+.+. -.|+|||++.+.+.. + . ..+.++++.|++.. .+. =+..-+.++... |
T Consensus 211 ~~~----~~~~~~-~LIVIDSI~alfr~~~~~~g~l~~r~~~L~~~l~~L~~lA~~~~vaVviTNqv~~~~~~~~~~~~~ 285 (342)
T PLN03186 211 ASM----MAETRF-ALMIVDSATALYRTEFSGRGELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGP 285 (342)
T ss_pred HHH----hhccCC-CEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHcCCEEEEEcCEEEccCCccccCCC
Confidence 111 112334 589999999998741 1 1 12456666666521 111 122222223321 2
Q ss_pred hH----HHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceE
Q 022893 195 KF----TSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIK 265 (290)
Q Consensus 195 ~v----~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~ 265 (290)
.+ =.+++|.+++.+.++-... ..+.--..|-|.+.... -.|.|..+|+.
T Consensus 286 ~~~P~gG~~~~h~~~tRl~L~k~~~--------------------~~R~~~v~ksp~~p~~e--~~F~I~~~Gi~ 338 (342)
T PLN03186 286 QLKPIGGNIMAHASTTRLALRKGRG--------------------ENRICKVISSPCLPEAE--ARFSISSEGVT 338 (342)
T ss_pred ccccchhHHHHhhccEEEEEEecCC--------------------CeEEEEEEECCCCCCeE--EEEEEECCcee
Confidence 21 1389999999999983211 11222334445554433 77999998875
No 34
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=94.02 E-value=5.3 Score=38.39 Aligned_cols=156 Identities=12% Similarity=0.088 Sum_probs=84.2
Q ss_pred CcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHHH
Q 022893 56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI 133 (290)
Q Consensus 56 ~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~ 133 (290)
..++++..|. +|+-+.+..++.|++.+..-+++.+.++|+ + .++..++..+
T Consensus 131 ~~vvyIdtE~~f~~~Rl~~ia~~~~~~~~~~l~~i~~~~~~~-~--------------------------~~~~~~l~~~ 183 (316)
T TIGR02239 131 GKALYIDTEGTFRPERLLAIAERYGLNPEDVLDNVAYARAYN-T--------------------------DHQLQLLQQA 183 (316)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHcCCChHHhhccEEEEecCC-h--------------------------HHHHHHHHHH
Confidence 3678899988 688888888888887654344566655431 1 1111122222
Q ss_pred HHhccCccCCCCCcEEEEEechhHHHHhCC-----h----HHHHHHHHhhhcCC---cee-EEEEeecccccc-------
Q 022893 134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHAS-----I----SSVAGILSNLRSHD---QVS-SIFWLLHSDLHE------- 193 (290)
Q Consensus 134 ~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s-----~----~~v~~lL~~Lr~~~---~is-sV~~LlHsDLHe------- 193 (290)
.+. ..+.+. -.|+|||++.+.+..- . ..+.++++.|++.. .+. =+..-+.+|...
T Consensus 184 ~~~----~~~~~~-~LvVIDSI~al~r~~~~~~~~~~~rq~~l~~~~~~L~~la~~~~vavv~tNqv~~~~~~~~~~~~g 258 (316)
T TIGR02239 184 AAM----MSESRF-ALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGSMFAG 258 (316)
T ss_pred HHh----hccCCc-cEEEEECcHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceEEecCCccccccC
Confidence 221 112334 5899999999976421 1 12345556665521 111 122222222221
Q ss_pred ----hhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceE
Q 022893 194 ----IKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIK 265 (290)
Q Consensus 194 ----~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~ 265 (290)
|--=.+++|.+++.+.++-... ..+.--..|-|.+.... -.|.|...|+.
T Consensus 259 ~~~~p~gG~~~~h~~~~ri~l~k~~~--------------------~~R~~~v~ksp~~p~~~--~~f~i~~~Gi~ 312 (316)
T TIGR02239 259 DPKKPIGGNIMAHASTTRLSLRKGRG--------------------EQRICKIYDSPCLPESE--AMFAIYEDGIG 312 (316)
T ss_pred CCCcCCchHHHHhhccEEEEEEecCC--------------------CeEEEEEEECCCCCCeE--EEEEEeCCcee
Confidence 2223588999999999983211 11222233445554433 77889888864
No 35
>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ]. It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.
Probab=93.88 E-value=0.14 Score=50.05 Aligned_cols=69 Identities=23% Similarity=0.229 Sum_probs=49.6
Q ss_pred EEEEEechhHHHHhCC----hHHHHHHHHhhhcC----CceeEEEEeeccccc--chhHHHHHHhhceeEEEEeecCcc
Q 022893 148 FSIAIDSVSEMVRHAS----ISSVAGILSNLRSH----DQVSSIFWLLHSDLH--EIKFTSVLEYLSSMVASVEPFNQA 216 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s----~~~v~~lL~~Lr~~----~~issV~~LlHsDLH--e~~v~~ALe~LAs~vi~vep~~~~ 216 (290)
.=|+|-||-.-+...+ ...++++|+.||.- .....++..+=++|- .+..+..||++++++|.|+|-+..
T Consensus 202 ~RI~I~sl~SP~w~~~~~~~~~~ll~FL~~LR~LlR~~~s~~v~~iTlP~~L~~~~~~~~~~l~~l~D~vi~Le~F~~~ 280 (363)
T PF05625_consen 202 LRIVIPSLGSPLWYPPSASQPSELLRFLHSLRALLRKYSSNAVAMITLPSHLYPRSPSLVRRLEHLADGVIELESFAGS 280 (363)
T ss_dssp EEEEETTTT-TTTS-GGGGBHHHHHHHHHHHHHHHHHTTTTEEEEEEEEGTTS---HHHHHHHHHHSSEEEEEEE--HH
T ss_pred EEEEEcCCCCcccCCcccccHHHHHHHHHHHHHHHhccCCCEEEEEEECHHHhccChHHHHHHHHhCCEEEEeecCCCc
Confidence 6688887766543322 22489999999883 445567777888888 689999999999999999997654
No 36
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=93.84 E-value=2.8 Score=40.25 Aligned_cols=40 Identities=18% Similarity=0.222 Sum_probs=31.5
Q ss_pred cCcEEEEEecCC--hHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 55 SRGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 55 ~~~V~vlafe~s--pe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
+..++++..|-+ |+.+.+.++++|+|.+..-+++.+.++|
T Consensus 130 ~~~vvYIdtE~~f~~eRi~~~a~~~g~d~~~~l~~i~~~~~~ 171 (313)
T TIGR02238 130 NGKVAYIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAY 171 (313)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHcCCChHHhcCcEEEecCC
Confidence 568999999995 9999999999999876545567766554
No 37
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=92.45 E-value=5.2 Score=39.16 Aligned_cols=39 Identities=21% Similarity=0.256 Sum_probs=31.2
Q ss_pred CcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 56 ~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
..+.++.+|. +|+-+.+..++.|++.+..-++|.+.++|
T Consensus 161 ~~vvyIdTE~tF~peRl~~ia~~~g~d~~~~l~~I~~~~~~ 201 (344)
T PLN03187 161 GKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAY 201 (344)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHcCCChhhhcCeEEEecCC
Confidence 5899999999 79999999999999876545567766654
No 38
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=92.24 E-value=6.8 Score=35.31 Aligned_cols=140 Identities=14% Similarity=0.064 Sum_probs=72.5
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCc--CCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDI--ASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS 131 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~--~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~ 131 (290)
+...|++++.|.+++++.+-++..+..- +....++++.+....|+.+..... . .....+ .
T Consensus 40 ~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~~~~l~~~~~~~-----------~---~~~~~~----~ 101 (239)
T cd01125 40 EPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGRIQPISIAREGR-----------I---IVVPEF----E 101 (239)
T ss_pred CCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccCCCceecccCCc-----------c---cccHHH----H
Confidence 4558999999999998887776654421 111345555433222222211000 0 011223 3
Q ss_pred HHHHhccCccCCCCCcEEEEEechhHHH--HhCChHHHHHHHHhhhcCC-ceeEEEEeecccccc----------hhHHH
Q 022893 132 LIIEQGKGLIGQGKDRFSIAIDSVSEMV--RHASISSVAGILSNLRSHD-QVSSIFWLLHSDLHE----------IKFTS 198 (290)
Q Consensus 132 ~~~e~~~~~~~~~k~~~~VaIDSLS~LL--~h~s~~~v~~lL~~Lr~~~-~issV~~LlHsDLHe----------~~v~~ 198 (290)
.+++..+ ..++ -+|+||+++.+- ...+....-.+++.|+... +....+.++|.+-.. .+=..
T Consensus 102 ~l~~~~~----~~~~-~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~K~~~~~~~~~~~~rGss 176 (239)
T cd01125 102 RIIEQLL----IRRI-DLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVRKGSAKDGDTQEAARGAS 176 (239)
T ss_pred HHHHHHH----hcCC-CEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccCcccccCcccccccCcHH
Confidence 3333221 1234 699999998871 1123444555555555432 223334444444432 22366
Q ss_pred HHHhhceeEEEEeecCcc
Q 022893 199 VLEYLSSMVASVEPFNQA 216 (290)
Q Consensus 199 ALe~LAs~vi~vep~~~~ 216 (290)
||...+..+..+.+....
T Consensus 177 al~~~~r~~~~l~~~~~~ 194 (239)
T cd01125 177 ALVDGARWVRALTRMTSE 194 (239)
T ss_pred HHhcccceEEEEeeCCHH
Confidence 777778888888876554
No 39
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=89.17 E-value=10 Score=30.38 Aligned_cols=64 Identities=16% Similarity=0.165 Sum_probs=42.6
Q ss_pred EEEEEechhHHHHhCC------hHHHHHHHHhhhcCCc-ee-EEEEeecccccchh------HHHHHHhhceeEEEEe
Q 022893 148 FSIAIDSVSEMVRHAS------ISSVAGILSNLRSHDQ-VS-SIFWLLHSDLHEIK------FTSVLEYLSSMVASVE 211 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s------~~~v~~lL~~Lr~~~~-is-sV~~LlHsDLHe~~------v~~ALe~LAs~vi~ve 211 (290)
-.++||++..++.... ...+...|.+|....+ .. .++...|.+-=+.. ...+++|++++++.+.
T Consensus 87 ~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~ 164 (165)
T cd01120 87 DLIILDELTRLVRALREIREGYPGELDEELRELLERARKGGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLS 164 (165)
T ss_pred EEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhcCCceEEEEEecCCccccCcccccCccceeeecceEEEEe
Confidence 6899999999886532 2355666666665322 22 47777776643321 4478999999998764
No 40
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=88.97 E-value=9.1 Score=35.55 Aligned_cols=157 Identities=16% Similarity=0.131 Sum_probs=84.6
Q ss_pred cCcEEEEEecC--ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHH
Q 022893 55 SRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL 132 (290)
Q Consensus 55 ~~~V~vlafe~--spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~ 132 (290)
...++++..|. +++-+.+.+++++++.+..-+++++..+|+- .++..++..
T Consensus 72 ~~~vvyidTe~~f~~~Rl~~i~~~~~~~~~~~l~~I~v~~~~~~---------------------------~~l~~~L~~ 124 (256)
T PF08423_consen 72 GGKVVYIDTEGTFSPERLQQIAERFGLDPEEILDNIFVIRVFDL---------------------------EELLELLEQ 124 (256)
T ss_dssp SSEEEEEESSSSS-HHHHHHHHHHTTS-HHHHHHTEEEEE-SSH---------------------------HHHHHHHHH
T ss_pred CCceEEEeCCCCCCHHHHHHHhhccccccchhhhceeeeecCCH---------------------------HHHHHHHHH
Confidence 34799999887 6888899999888876544557777776531 112222122
Q ss_pred HHHhccCccCCCCCcEEEEEechhHHHHhC-----C----hHHHHHHHHhhhcC------Cc-ee-EEEEeecc------
Q 022893 133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRHA-----S----ISSVAGILSNLRSH------DQ-VS-SIFWLLHS------ 189 (290)
Q Consensus 133 ~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~-----s----~~~v~~lL~~Lr~~------~~-is-sV~~LlHs------ 189 (290)
..+. +. +.+. -.|+|||++.+.+.. . ...+.++++.|++. +. ++ +|..-..+
T Consensus 125 l~~~---l~-~~~i-kLIVIDSIaalfr~e~~~~~~~~~R~~~L~~~~~~L~~lA~~~~iaVvvTNqv~~~~~~~~~~~~ 199 (256)
T PF08423_consen 125 LPKL---LS-ESKI-KLIVIDSIAALFRSEFSGRGDLAERQRMLARLARILKRLARKYNIAVVVTNQVTTKIDSNSLFDG 199 (256)
T ss_dssp HHHH---HH-HSCE-EEEEEETSSHHHHHHSGSTTTHHHHHHHHHHHHHHHHHHHHHTT-EEEEEEEECSSTT----SST
T ss_pred HHhh---cc-ccce-EEEEecchHHHHHHHHccchhhHHHHHHHHHHHHHHHHHHHhCCceEEeeceeeecCCccccccc
Confidence 1111 11 1233 699999999999753 1 13344444555552 11 11 23322222
Q ss_pred cccchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceE
Q 022893 190 DLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIK 265 (290)
Q Consensus 190 DLHe~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~ 265 (290)
|.-.|--=..+.|..++-+.++-... +-+.-...|-|+-. .. .-.|.|.+.|++
T Consensus 200 ~~~~PalG~~w~h~~~~Rl~l~k~~~--------------------~~R~~~i~ksp~~p-~~-~~~f~It~~Gi~ 253 (256)
T PF08423_consen 200 DRLKPALGHSWSHAVTTRLFLSKGRG--------------------SERVATIVKSPSLP-EG-SASFQITEDGIR 253 (256)
T ss_dssp TSEEETTHHHHHHHSSEEEEEEECST--------------------TEEEEEEEECSSSS-SE-EEEEEEETTEEE
T ss_pred ccceecCcchhhhhccEEEEEEeCCC--------------------CeEEEEEeECCCCC-Cc-eEEEEEeCCCcc
Confidence 22223334568999999998874221 12333334444432 22 345899998875
No 41
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=87.05 E-value=6.8 Score=38.57 Aligned_cols=186 Identities=12% Similarity=0.065 Sum_probs=89.7
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccc----cchhhhHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQ----DVRNLDKL 129 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~----~v~~L~sl 129 (290)
++.+|.++.+|-+++++.+-+-..+.+.+ ..++ ..+.-++..|..-....+.-.+. .+-+.. ++.++.+.
T Consensus 223 ~g~~vl~~SlEm~~~~i~~R~~~~~~~v~--~~~~--~~g~l~~~~~~~~~~a~~~l~~~--~l~i~d~~~~~~~~i~~~ 296 (434)
T TIGR00665 223 EGKPVAFFSLEMSAEQLAMRMLSSESRVD--SQKL--RTGKLSDEDWEKLTSAAGKLSEA--PLYIDDTPGLTITELRAK 296 (434)
T ss_pred CCCeEEEEeCcCCHHHHHHHHHHHhcCCC--HHHh--ccCCCCHHHHHHHHHHHHHHhcC--CEEEECCCCCCHHHHHHH
Confidence 46789999999999999876654432222 1122 12222233453210000000000 011100 23334332
Q ss_pred HHHHHHhccCccCCCCCcEEEEEechhHHHHhC----ChHHHHHHHHhhhcCCc-eeE-EEEeecc--c----------c
Q 022893 130 YSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHA----SISSVAGILSNLRSHDQ-VSS-IFWLLHS--D----------L 191 (290)
Q Consensus 130 ~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~----s~~~v~~lL~~Lr~~~~-iss-V~~LlHs--D----------L 191 (290)
+..... +.+. -.|+||+|..|-... .-..+....+.|+..++ ... |+.+-|- + +
T Consensus 297 i~~~~~-------~~~~-~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi~lsqlnr~~~~r~~~~p~l 368 (434)
T TIGR00665 297 ARRLKR-------EHGL-GLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQREDKRPQL 368 (434)
T ss_pred HHHHHH-------hcCC-CEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEeccCcchhccCCCCCCh
Confidence 222211 1223 589999998763111 11335555666665332 232 4444441 1 2
Q ss_pred cchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEec-CCCCeeeeEeEEEEEcCceEEEe
Q 022893 192 HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKR-RNGRVRVMCEEILVELAGIKFTP 268 (290)
Q Consensus 192 He~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kR-r~GRV~~~~E~f~I~~~~~~f~~ 268 (290)
++-+-.+++|+.|++++.+..... |... +..++...+...| |+|..-. =.+.+.+...+|..
T Consensus 369 sdlr~Sg~ieq~aD~vi~l~r~~~---~~~~----------~~~~~~~~l~v~KnR~G~~g~--~~l~~~~~~~~f~~ 431 (434)
T TIGR00665 369 SDLRESGSIEQDADIVMFLYRDEY---YNPD----------SEDKGIAEIIIAKQRNGPTGT--VKLAFQGEYTRFEN 431 (434)
T ss_pred HHHhhccchhhcCCEEEEeccccc---cCCC----------cCCCCceEEEEecCCCCCCCe--EEEEEecCCCcccC
Confidence 223445899999999999974321 2110 0012334443333 7887553 26677777788864
No 42
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=86.96 E-value=2.6 Score=35.98 Aligned_cols=54 Identities=13% Similarity=0.231 Sum_probs=39.0
Q ss_pred EEEEEechhHHHHhCChHHHHHHHHhhhcCCcee--EEEEeecccccchhHHHHHH
Q 022893 148 FSIAIDSVSEMVRHASISSVAGILSNLRSHDQVS--SIFWLLHSDLHEIKFTSVLE 201 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~~~is--sV~~LlHsDLHe~~v~~ALe 201 (290)
.+|+||++--|+.+++..++..+|..||-+.-.. .++-.+-.+.-+++..+-|+
T Consensus 77 ~vViiD~lEYL~l~NgF~~v~KFL~~LkD~~~~~~~~lIl~~~~~al~ere~~lL~ 132 (136)
T PF05763_consen 77 GVVIIDGLEYLILENGFESVLKFLASLKDYALLNNGTLILVVDPEALDEREWALLR 132 (136)
T ss_pred cEEEEecHHHHHHHcCHHHHHHHHHHhHHHeeccCCEEEEEEChhhcCHHHHHHHH
Confidence 5999999999999999999999999999765333 24334444444555544443
No 43
>PF03192 DUF257: Pyrococcus protein of unknown function, DUF257; InterPro: IPR005489 This family of proteins is of unknown function.; PDB: 2EKD_C.
Probab=85.05 E-value=31 Score=31.59 Aligned_cols=153 Identities=17% Similarity=0.256 Sum_probs=88.9
Q ss_pred ceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEE---------
Q 022893 21 ALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHIL--------- 91 (290)
Q Consensus 21 ~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~--------- 91 (290)
+++||-+-.++ +.++ +...+...+.++-+|.+.-+=.+-..|..-|+..|+|.+.+ +++-++
T Consensus 13 ~VLVEy~S~~~--~el~------~~~li~~~~~~~~~vlI~DilDtl~i~~~~l~~~Gi~~~~l-~~~~VIKiGG~~~~G 83 (210)
T PF03192_consen 13 TVLVEYSSSSP--PELL------FYELIKWAREKGYPVLIDDILDTLHIYKKHLELMGIDTDIL-DNIKVIKIGGRIEVG 83 (210)
T ss_dssp EEEEEE-TTS---THHH------HHHHHH---T-SS-BEEEEETTHHHHHHHHHHHTT---HHH-HCSEEEEES-S---S
T ss_pred EEEEEeCCCCc--HHHH------HHHHHHHhhhcCCCEEEEEcCCCHHHHHHHHHHcCCCcccc-cCceEEEecCeeeee
Confidence 56788766333 4433 33445556666779999998888899999999999997641 223332
Q ss_pred ------ecccCCCCCcccccCccccccccccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHH--HhCC
Q 022893 92 ------DCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMV--RHAS 163 (290)
Q Consensus 92 ------D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL--~h~s 163 (290)
+..+||.-|. +.+..+.+. +.. +.+++..+=-+..++ ...+
T Consensus 84 nVv~ri~~~~d~~~~~--------------------------k~Y~~~~~~---~~~--~~~~i~ivlGiekl~~~~~~~ 132 (210)
T PF03192_consen 84 NVVGRIPITSDPSVYL--------------------------KEYEEILEK---VLE--KEKVINIVLGIEKLFYFFENS 132 (210)
T ss_dssp EEEEEE-----BBTTB--------------------------HHHHHHHTT--------S-SEEEEEE-HHHHH-HH-S-
T ss_pred eEEEEEecccChHHHH--------------------------HHHHHHHHH---Hhc--cCCeEEEEecHHHHHHHHhcc
Confidence 3333333222 122232221 111 222555555666666 4469
Q ss_pred hHHHHHHHHhhhcCCc--eeEEEEeecccccch---hHHHHHHhhceeEEEEeec
Q 022893 164 ISSVAGILSNLRSHDQ--VSSIFWLLHSDLHEI---KFTSVLEYLSSMVASVEPF 213 (290)
Q Consensus 164 ~~~v~~lL~~Lr~~~~--issV~~LlHsDLHe~---~v~~ALe~LAs~vi~vep~ 213 (290)
...+..++..+.+.-. -..-|..++.|+-+. .++..||-+||+|+.++..
T Consensus 133 ~~e~~~~~~~i~~~lg~~~r~a~yfiN~dvl~~~~~~~l~~LEeiattVi~i~~~ 187 (210)
T PF03192_consen 133 PRELILFFNSISRFLGNERRIAFYFINRDVLEKISPEVLPLLEEIATTVIEIEKE 187 (210)
T ss_dssp HHHHHHHHHHHHCCTT-TTEEEEEEEEHHHHHHHHHHHHHHHHHHSSEEEEEETT
T ss_pred HHHHHHHHHHHHHhcCCCceEEEEEEchHHhcccCchHHHHHHHHhhheEEEecC
Confidence 9999999999988632 224788999999986 8888999999999999843
No 44
>PRK09354 recA recombinase A; Provisional
Probab=76.92 E-value=45 Score=32.91 Aligned_cols=42 Identities=10% Similarity=0.040 Sum_probs=27.8
Q ss_pred chhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcC
Q 022893 32 FGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIA 82 (290)
Q Consensus 32 ~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~ 82 (290)
+=+.+..|++.+ ...+++.++++.+|-+++. +.+++.|+|.+
T Consensus 72 GKTtLal~~~~~-------~~~~G~~~~yId~E~s~~~--~~a~~lGvdld 113 (349)
T PRK09354 72 GKTTLALHAIAE-------AQKAGGTAAFIDAEHALDP--VYAKKLGVDID 113 (349)
T ss_pred CHHHHHHHHHHH-------HHHcCCcEEEECCccchHH--HHHHHcCCCHH
Confidence 445555564432 2245778999999998874 55677788754
No 45
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=72.20 E-value=81 Score=30.79 Aligned_cols=120 Identities=16% Similarity=0.187 Sum_probs=63.9
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL 132 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~ 132 (290)
.+++.+.++.+|-+++. +.+++.|+|.+ ++++.. |... .++...+..
T Consensus 81 ~~g~~~vyId~E~~~~~--~~a~~lGvd~~----~l~v~~----p~~~-----------------------eq~l~i~~~ 127 (325)
T cd00983 81 KLGGTVAFIDAEHALDP--VYAKKLGVDLD----NLLISQ----PDTG-----------------------EQALEIADS 127 (325)
T ss_pred HcCCCEEEECccccHHH--HHHHHcCCCHH----HheecC----CCCH-----------------------HHHHHHHHH
Confidence 34678899999988763 55667787743 455433 3211 111111122
Q ss_pred HHHhccCccCCCCCcEEEEEechhHHHHhCCh-------------HHHHHHHHhhhcC---CceeE-EEEeecccc----
Q 022893 133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-------------SSVAGILSNLRSH---DQVSS-IFWLLHSDL---- 191 (290)
Q Consensus 133 ~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~-------------~~v~~lL~~Lr~~---~~iss-V~~LlHsDL---- 191 (290)
.+. +++. -.|+|||++.+..+... ..+.+.|+.|... ..+.. +..-++.+.
T Consensus 128 li~-------s~~~-~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig~~~ 199 (325)
T cd00983 128 LVR-------SGAV-DLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQLREKIGVMF 199 (325)
T ss_pred HHh-------ccCC-CEEEEcchHhhcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEEcccccccccc
Confidence 222 2233 68999999999865221 1233555555442 22222 222233332
Q ss_pred ---cchhHHHHHHhhceeEEEEeec
Q 022893 192 ---HEIKFTSVLEYLSSMVASVEPF 213 (290)
Q Consensus 192 ---He~~v~~ALe~LAs~vi~vep~ 213 (290)
+.+-==.+|+|.|++.+.+.-.
T Consensus 200 g~~e~~~GG~~L~~~ss~rl~lrk~ 224 (325)
T cd00983 200 GNPETTTGGNALKFYSSVRLDIRRI 224 (325)
T ss_pred CCCccCCCchHHhhhcceEEEEEee
Confidence 1221124699999999999744
No 46
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=70.28 E-value=3.4 Score=35.25 Aligned_cols=24 Identities=13% Similarity=0.122 Sum_probs=16.8
Q ss_pred ccCcEEEEEecCChHHHHHHHHhc
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRR 77 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~ 77 (290)
+...|.++.+|.+++++..-+++.
T Consensus 69 ~~~~Vl~i~~E~~~~~~~~rl~~~ 92 (193)
T PF13481_consen 69 RPGRVLYISLEDSESQIARRLRAL 92 (193)
T ss_dssp ----EEEEESSS-HHHHHHHHHHH
T ss_pred cCceEEEEeccCCHHHHHHHHHHH
Confidence 566999999999999998877755
No 47
>PHA02542 41 41 helicase; Provisional
Probab=68.18 E-value=1.5e+02 Score=30.38 Aligned_cols=218 Identities=12% Similarity=0.026 Sum_probs=102.3
Q ss_pred cCCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHH--HhcCCCcCCCCCeEEEEe
Q 022893 15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLL--KRRGIDIASSHDWIHILD 92 (290)
Q Consensus 15 ~ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~l--k~~G~d~~~~~~rv~i~D 92 (290)
.|-+++-+.|--.-..-|=+.+..+ ++..++ .++++|.+|.+|-+++++..-+ ...|++.. ++. .
T Consensus 185 gGl~~G~LiiIaarPgmGKTtfaln----iA~~~a---~~g~~Vl~fSLEM~~~ql~~Rl~a~~~~i~~~----~l~--~ 251 (473)
T PHA02542 185 GGAERKTLNVLLAGVNVGKSLGLCS----LAADYL---QQGYNVLYISMEMAEEVIAKRIDANLLDVSLD----DID--D 251 (473)
T ss_pred CCCCCCcEEEEEcCCCccHHHHHHH----HHHHHH---hcCCcEEEEeccCCHHHHHHHHHHHHcCCCHH----HHh--h
Confidence 3555665555444444343444444 333332 3477999999999999988855 33444432 221 1
Q ss_pred cccCCCCCcccccCcc--ccccc--cccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHh-------
Q 022893 93 CYTDPLGWKNWLIDKD--ISQEA--SSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRH------- 161 (290)
Q Consensus 93 ~fsDPlgW~~~~~~~~--~~~~~--s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h------- 161 (290)
+ +.-.|.+...... ...+. ....+..-.+.++++...+.... + ..+. -+|+||.|.-|--.
T Consensus 252 -l-~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~-~----g~~~-dlVvIDYLqL~~~~~~~~~~~ 323 (473)
T PHA02542 252 -L-SKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELKLK-K----NFKP-DVIIVDYLGICASSRLRVSSE 323 (473)
T ss_pred -c-CHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHHHh-c----CCCC-CEEEEechhhccCCcccCCCC
Confidence 1 2234542111000 00000 00000001244566543332221 1 1123 58999999766310
Q ss_pred CC---hHHHHHHHHhhhcC-CceeEEEEeeccccc--------chhHHHHHHhhceeEEEEeecCcccccccchhhhhhh
Q 022893 162 AS---ISSVAGILSNLRSH-DQVSSIFWLLHSDLH--------EIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSM 229 (290)
Q Consensus 162 ~s---~~~v~~lL~~Lr~~-~~issV~~LlHsDLH--------e~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~ 229 (290)
.- ...+.+-|++|-+- ....=++.-++-++. +-+-.+++|+.|+.++.+.-... |.
T Consensus 324 nr~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~dP~lsDLreSG~IEqdAD~vl~l~r~~~---~~--------- 391 (473)
T PHA02542 324 NSYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDSSDVDMSDTAESAGLPATADFMLAVIETEE---LA--------- 391 (473)
T ss_pred ChHHHHHHHHHHHHHHHHHhCCeEEEEEeeCccccccCCCcchhcccccchHhhcCEEEEEecCcc---cc---------
Confidence 01 23344555555442 212223333443332 23567899999999998863211 10
Q ss_pred hhhcccceeEEEEEecCCCCeee-eEeEEEEEcCceEEEec
Q 022893 230 LEQNFRKGKFHVRFKRRNGRVRV-MCEEILVELAGIKFTPV 269 (290)
Q Consensus 230 ~~~n~~~~~~~Vr~kRr~GRV~~-~~E~f~I~~~~~~f~~~ 269 (290)
+.+.+.+.| -|-|+|..-. -.=++.+.+.-.+|...
T Consensus 392 ---~~~~~eliv-~KnR~G~~g~~g~v~l~f~~~~~~F~~~ 428 (473)
T PHA02542 392 ---QMGQQLVKQ-LKSRYGDKNKFNKFLMGVDKGNQRWYDV 428 (473)
T ss_pred ---cCCeEEEEE-ecCCCCCCCCceEEEEEEECCcCccccc
Confidence 002233333 3558888642 12244556666777653
No 48
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=65.94 E-value=75 Score=32.64 Aligned_cols=165 Identities=16% Similarity=0.164 Sum_probs=91.7
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccc---cchhhhHHH
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQ---DVRNLDKLY 130 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~---~v~~L~sl~ 130 (290)
...+|.++.--++++...+..- ..-.+ -.+..|+|+..||+.-..... ++. .+..+..++
T Consensus 36 ~~~~v~YISTRVd~d~vy~~y~---~~~~~-i~~~~vlDatQd~~~~~~~~~-------------vp~~~l~~ds~~~f~ 98 (484)
T PF07088_consen 36 DHGNVMYISTRVDQDTVYEMYP---WIEES-IDPTNVLDATQDPFELPLDKD-------------VPFERLDIDSFRDFV 98 (484)
T ss_pred ccCCeEEEEeccCHHHHHHhhh---hhccc-cChhhhhhhccchhhcccccc-------------CcccccCHHHHHHHH
Confidence 3558889999999886554221 00011 225567899999987644211 111 233344443
Q ss_pred HHHHHhccCccCCCCCcEEEEEec----hhHHH-HhCChHHHHHHHHhhhcC---CceeEEEEeecccccchhHHHHHHh
Q 022893 131 SLIIEQGKGLIGQGKDRFSIAIDS----VSEMV-RHASISSVAGILSNLRSH---DQVSSIFWLLHSDLHEIKFTSVLEY 202 (290)
Q Consensus 131 ~~~~e~~~~~~~~~k~~~~VaIDS----LS~LL-~h~s~~~v~~lL~~Lr~~---~~issV~~LlHsDLHe~~v~~ALe~ 202 (290)
.++.+ .++ +.+|++|| ++-+= +|...++.-.++++|-.. ..+--|+-+ |-.-...|+|
T Consensus 99 ~~i~~-------~~k-~~iI~~DSWdaiieyla~~~~~~ed~e~l~~dLv~lard~g~~LIlVs------Esa~~~~LdY 164 (484)
T PF07088_consen 99 DKINE-------AGK-KPIIAFDSWDAIIEYLAEEHDEPEDIETLTNDLVELARDMGINLILVS------ESAENEPLDY 164 (484)
T ss_pred HHhhh-------ccc-CcEEEEecHHHHHHHhhhhhcCcHHHHHHHHHHHHHHhhcCceEEEEE------ecCCCCcchh
Confidence 43332 123 37999999 44332 366777777777776422 223333333 3334567999
Q ss_pred hceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEec-CCCCeeeeEeEEEEEcCceEE
Q 022893 203 LSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKR-RNGRVRVMCEEILVELAGIKF 266 (290)
Q Consensus 203 LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kR-r~GRV~~~~E~f~I~~~~~~f 266 (290)
+++.||++...... | +.-.=.++.+| |.=++.+...-|+..++..++
T Consensus 165 ivDGVVTL~v~~de----------------r-GR~~R~L~LeKLRGV~I~q~~Y~fTL~nGrF~~ 212 (484)
T PF07088_consen 165 IVDGVVTLQVKNDE----------------R-GRTRRYLRLEKLRGVRIKQRLYPFTLANGRFRS 212 (484)
T ss_pred eeeeEEEEEecccc----------------C-CceEEEEEehhhcCcccCCccceEEeeCCEEEE
Confidence 99999999533221 0 23344555556 444555555566666555433
No 49
>PRK09165 replicative DNA helicase; Provisional
Probab=65.91 E-value=1.2e+02 Score=30.96 Aligned_cols=234 Identities=12% Similarity=0.031 Sum_probs=106.6
Q ss_pred cCCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHh--------hccccCcEEEEEecCChHHHHHHHH--hcCCCcCCC
Q 022893 15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILA--------GKSQSRGLVVVAYSRSPSFYVDLLK--RRGIDIASS 84 (290)
Q Consensus 15 ~ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a--------~~~q~~~V~vlafe~spe~y~~~lk--~~G~d~~~~ 84 (290)
.|=+++-+.|----...+=+.+..+++...+..... ...+++.|.+|.+|-+++++.+-+- ..|++..
T Consensus 212 gG~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~la~~s~v~~~-- 289 (497)
T PRK09165 212 GGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSEISSS-- 289 (497)
T ss_pred CCCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHHHHhcCCCHH--
Confidence 455555555544444444455555544322211000 0123678999999999999988553 2344422
Q ss_pred CCeEEEEecccCCCCCcccccCccccccccccccccc----cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHH
Q 022893 85 HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQ----DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVR 160 (290)
Q Consensus 85 ~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~----~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~ 160 (290)
++ .++.-+...|.+-........+.+ +-+.. ++.++.+- +-. +..+.+. -+|+||.|..|--
T Consensus 290 --~i--~~~~l~~~e~~~l~~a~~~l~~~~--l~I~d~~~~ti~~i~~~---ir~----l~~~~~~-~lvvIDyLqli~~ 355 (497)
T PRK09165 290 --KI--RRGKISEEDFEKLVDASQELQKLP--LYIDDTPALSISQLRAR---ARR----LKRQHGL-DLLVVDYLQLIRG 355 (497)
T ss_pred --HH--hcCCCCHHHHHHHHHHHHHHhcCC--eEEeCCCCCCHHHHHHH---HHH----HHHhcCC-CEEEEcchHhccC
Confidence 22 233223334432100000000000 10100 23333332 222 1112233 4899999995531
Q ss_pred hC---------ChHHHHHHHHhhhc-CCceeEEEEeeccccc----------chhHHHHHHhhceeEEEEeecCcccccc
Q 022893 161 HA---------SISSVAGILSNLRS-HDQVSSIFWLLHSDLH----------EIKFTSVLEYLSSMVASVEPFNQAAFGQ 220 (290)
Q Consensus 161 h~---------s~~~v~~lL~~Lr~-~~~issV~~LlHsDLH----------e~~v~~ALe~LAs~vi~vep~~~~~~~~ 220 (290)
.. -+..+.+.|++|-+ .....-+++-|.-+.. +-+-.+++|.-|++++-+.-. . .|.
T Consensus 356 ~~~~~~~~r~~ev~~is~~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLr~Sg~IEqdAD~v~~l~R~-~--~y~ 432 (497)
T PRK09165 356 SSKRSSDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVYRE-E--YYL 432 (497)
T ss_pred CCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEeecccchhhccCCCCCchhhhhhccchhccCCEEEEEeeh-h--hhc
Confidence 11 02334455555532 2222234444454443 236678999999999988621 1 111
Q ss_pred c-chhhhhh------hhhhcccceeEEEE-EecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 221 R-VDLENLS------MLEQNFRKGKFHVR-FKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 221 ~-~~~~~~~------~~~~n~~~~~~~Vr-~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
+ ..|+.-. .-+.+..++...+. -|.|+|..-.- .+.+.+...+|...
T Consensus 433 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~ivaKnR~G~~g~~--~~~f~~~~~~f~~~ 487 (497)
T PRK09165 433 KRKEPREGTPKHEEWQEKMEKVHNKAEVIIAKQRHGPTGTV--KLAFESEFTRFGDL 487 (497)
T ss_pred cccccccccchhhhhhhhhcccCCceEEEEeccCCCCCeeE--EEEEecCCCcccCc
Confidence 0 0010000 00001112445554 44488877643 46667777788754
No 50
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=64.34 E-value=57 Score=31.76 Aligned_cols=47 Identities=6% Similarity=0.009 Sum_probs=29.1
Q ss_pred chhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEE
Q 022893 32 FGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHIL 91 (290)
Q Consensus 32 ~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~ 91 (290)
+=+.+..|++... ..+++.+.++.+|-+++. ..+++.|+|.+ ++++.
T Consensus 67 GKTtLaL~~~~~~-------~~~g~~v~yId~E~~~~~--~~a~~lGvd~~----~l~v~ 113 (321)
T TIGR02012 67 GKTTLALHAIAEA-------QKAGGTAAFIDAEHALDP--VYARKLGVDID----NLLVS 113 (321)
T ss_pred CHHHHHHHHHHHH-------HHcCCcEEEEcccchhHH--HHHHHcCCCHH----HeEEe
Confidence 4355556654322 234678889999988765 34667788743 56643
No 51
>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=60.35 E-value=22 Score=34.98 Aligned_cols=64 Identities=11% Similarity=0.196 Sum_probs=37.3
Q ss_pred EEEEEechhHHHH------hCChHHHHHHHHhhhcCCcee-EEEEeec--cccc----------chhHHHHHHhhceeEE
Q 022893 148 FSIAIDSVSEMVR------HASISSVAGILSNLRSHDQVS-SIFWLLH--SDLH----------EIKFTSVLEYLSSMVA 208 (290)
Q Consensus 148 ~~VaIDSLS~LL~------h~s~~~v~~lL~~Lr~~~~is-sV~~LlH--sDLH----------e~~v~~ALe~LAs~vi 208 (290)
-+|+||+|.-|-- +.....+++.|+.|-+ +.. .|+.+-| -+.. +-+-.+++|+-|++++
T Consensus 307 ~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAk--e~~i~Vi~lsQlnr~~~~r~~krp~lsdlr~Sg~Ieq~AD~v~ 384 (421)
T TIGR03600 307 DLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAK--ELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIG 384 (421)
T ss_pred CEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHH--HhCCcEEEecccCcchhhcCCCCCChHHHhhcCCccccCcEEE
Confidence 5899999987642 1112234444444433 122 2444544 3332 2355679999999999
Q ss_pred EEeec
Q 022893 209 SVEPF 213 (290)
Q Consensus 209 ~vep~ 213 (290)
-+...
T Consensus 385 ~l~R~ 389 (421)
T TIGR03600 385 LIHRE 389 (421)
T ss_pred Eeccc
Confidence 99843
No 52
>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=57.49 E-value=19 Score=32.83 Aligned_cols=108 Identities=13% Similarity=0.108 Sum_probs=55.5
Q ss_pred EEEEEechhHHHHh----CChHHHHHHHHhhhcC---CceeEEEEeec--cccc-----ch-----hHHHHHHhhceeEE
Q 022893 148 FSIAIDSVSEMVRH----ASISSVAGILSNLRSH---DQVSSIFWLLH--SDLH-----EI-----KFTSVLEYLSSMVA 208 (290)
Q Consensus 148 ~~VaIDSLS~LL~h----~s~~~v~~lL~~Lr~~---~~issV~~LlH--sDLH-----e~-----~v~~ALe~LAs~vi 208 (290)
-+|+||.|.-|=.. ..-..+....+.|+.. -.+ .|+++.| -+.. .| +-.+++|+-|++++
T Consensus 132 ~~v~IDyl~ll~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i-~vi~~sQlnr~~~~~~~~~p~l~dl~~sg~Ie~~AD~vl 210 (259)
T PF03796_consen 132 DVVFIDYLQLLKSEDSSDNRRQEIGEISRELKALAKELNI-PVIALSQLNREAEDREDKRPSLSDLRESGAIEQDADVVL 210 (259)
T ss_dssp EEEEEEEGGGSBTSCSSSCCHHHHHHHHHHHHHHHHHHTS-EEEEEEEBSGGGGGSSSCS--HHHHCSTSSHHHH-SEEE
T ss_pred CEEEechHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHcCC-eEEEccccChhhhcccccccchhhhhhhHHHHHHHhhhh
Confidence 68999999854331 1234444444444442 122 2444443 3322 22 33578999999999
Q ss_pred EEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEecc
Q 022893 209 SVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVL 270 (290)
Q Consensus 209 ~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~~~~~f~~~~ 270 (290)
-+....... ...+ ......++|. |-|+|..-.-. +.+.+...+|...+
T Consensus 211 ~l~r~~~~~---~~~~--------~~~~~~l~v~-KnR~G~~g~v~--~~f~~~~~~f~~~~ 258 (259)
T PF03796_consen 211 FLHRDEKYD---EDRD--------DKGEAELIVA-KNRNGPTGTVP--LRFNPETSRFTDLE 258 (259)
T ss_dssp EEEEHCHCH---CCSS--------CTTEEEEEEE-EESSS--EEEE--EEEETTTTEEEE--
T ss_pred hhccchhhc---cccC--------CCCeEEEEEE-ecCCCCCceEE--EEEECCCCeEeecc
Confidence 998543321 0000 0023344433 33688877433 88888888887654
No 53
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=54.83 E-value=1.6e+02 Score=32.40 Aligned_cols=155 Identities=13% Similarity=0.102 Sum_probs=80.1
Q ss_pred cccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccccchhhhHHHHH
Q 022893 53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL 132 (290)
Q Consensus 53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~ 132 (290)
.+++.+.++.+|-+++ .+-+++.|+|.+ ++.+.. |.. ..++-..+..
T Consensus 86 ~~G~~v~yId~E~t~~--~~~A~~lGvDl~----~llv~~----~~~-----------------------~E~~l~~i~~ 132 (790)
T PRK09519 86 AAGGVAAFIDAEHALD--PDYAKKLGVDTD----SLLVSQ----PDT-----------------------GEQALEIADM 132 (790)
T ss_pred HcCCcEEEECCccchh--HHHHHHcCCChh----HeEEec----CCC-----------------------HHHHHHHHHH
Confidence 4577889999988877 245566688754 343221 210 0111111122
Q ss_pred HHHhccCccCCCCCcEEEEEechhHHHHh------CC-----hH--HHHHHHHhhhcC---CceeE-EEEeecccc----
Q 022893 133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRH------AS-----IS--SVAGILSNLRSH---DQVSS-IFWLLHSDL---- 191 (290)
Q Consensus 133 ~~e~~~~~~~~~k~~~~VaIDSLS~LL~h------~s-----~~--~v~~lL~~Lr~~---~~iss-V~~LlHsDL---- 191 (290)
.++ +++. -.|+|||++.|..+ .+ .+ .+.+.|+.|... ..+.. +.-.++.+.
T Consensus 133 lv~-------~~~~-~LVVIDSI~aL~~r~E~~g~~g~~~~~~q~rl~~q~L~~L~~~l~~~nvtvi~TNQv~~~~g~~f 204 (790)
T PRK09519 133 LIR-------SGAL-DIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVMF 204 (790)
T ss_pred Hhh-------cCCC-eEEEEcchhhhcchhhccCCCCcccHHHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecCCCcC
Confidence 222 2344 68999999999952 11 11 123556655553 22332 223333332
Q ss_pred ---cchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEc
Q 022893 192 ---HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVEL 261 (290)
Q Consensus 192 ---He~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~I~~ 261 (290)
+.+--=.+|.|-|++-+.|--......+ ++ ..|.-.+..--+|+.+......|.+..
T Consensus 205 g~p~~~~GG~~l~h~ss~Ri~lrk~~~ik~~-~~------------~~G~~~~~kv~ks~cLpe~e~v~~i~t 264 (790)
T PRK09519 205 GSPETTTGGKALKFYASVRMDVRRVETLKDG-TN------------AVGNRTRVKVVKNKCLAEGTRIFDPVT 264 (790)
T ss_pred CCCCcCCCCcccceeccEEEEeeeccccccC-cc------------ccceEEEEEEEECCCCCCceEEEEecC
Confidence 2333346799999999888743322111 10 223333333347777766666666653
No 54
>PF14417 MEDS: MEDS: MEthanogen/methylotroph, DcmR Sensory domain
Probab=53.83 E-value=44 Score=29.32 Aligned_cols=138 Identities=13% Similarity=0.096 Sum_probs=80.9
Q ss_pred HHHHHHHHHHHHhhccccCcEEEEEe-cCChHHHHHHHHhcCCCcCC--CCCeEEEEeccc--CCCCCcccccCcccccc
Q 022893 38 NYVLTQLSNYILAGKSQSRGLVVVAY-SRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYT--DPLGWKNWLIDKDISQE 112 (290)
Q Consensus 38 ~h~~~~l~s~i~a~~~q~~~V~vlaf-e~spe~y~~~lk~~G~d~~~--~~~rv~i~D~fs--DPlgW~~~~~~~~~~~~ 112 (290)
..++..+..+|+++-.+++.+.+++= ....+...+.|++.|.|.+. -...+.++|... -+-|+.+...
T Consensus 30 ~e~~~~~~~Fi~~GL~~ge~~l~v~~~~~~~~~l~~~L~~~~~d~~~~~~~gqL~~~~~~~~Y~~~g~f~~~~------- 102 (191)
T PF14417_consen 30 EELLEVLVPFIREGLARGERCLYVAPDPRRVEELRDELRKAGPDVEQYLDSGQLELLDAEEWYLPDGRFDPAR------- 102 (191)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEEECCCCCHHHHHHHHHhcCCchhhcccCCCEEEecchhhhccCCCcCHHH-------
Confidence 55677899999999999999999998 78889999999988887654 244688888521 1223322111
Q ss_pred ccccccccccchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhcC--CceeEEEEeeccc
Q 022893 113 ASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH--DQVSSIFWLLHSD 190 (290)
Q Consensus 113 ~s~~~~~~~~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~--~~issV~~LlHsD 190 (290)
.+..+.+.+..... ++-..+-++-| ..|.++. ....+...=..+-.. ..-...++.-..+
T Consensus 103 ---------~i~~~~~~~~~a~~-------~G~~~lRv~ge-~~w~~~~-~~~~l~~yE~~ln~~~~~~~~~~lC~Yd~~ 164 (191)
T PF14417_consen 103 ---------MIAFWRAALEQALA-------EGYRGLRVIGE-MTWALRS-GWEELLRYEALLNRLFAEHPFTALCAYDRR 164 (191)
T ss_pred ---------HHHHHHHHHHHHHh-------CCCCcEEEEEe-chhhccc-cHHHHHHHHHHHHHHhcCCCEEEEeccchH
Confidence 12233332222222 22233777777 7888877 555554332222221 2222455666666
Q ss_pred ccchhHHHHH
Q 022893 191 LHEIKFTSVL 200 (290)
Q Consensus 191 LHe~~v~~AL 200 (290)
.-.+.++..+
T Consensus 165 ~~~~~~~~~~ 174 (191)
T PF14417_consen 165 RFSPEVLADA 174 (191)
T ss_pred hCCHHHHHHH
Confidence 5566555444
No 55
>PRK05748 replicative DNA helicase; Provisional
Probab=52.33 E-value=1e+02 Score=30.71 Aligned_cols=106 Identities=19% Similarity=0.187 Sum_probs=57.3
Q ss_pred EEEEEechhHHHHhCC------hHHHHHHHHhhhcC----CceeEEEEeecccccc----------hhHHHHHHhhceeE
Q 022893 148 FSIAIDSVSEMVRHAS------ISSVAGILSNLRSH----DQVSSIFWLLHSDLHE----------IKFTSVLEYLSSMV 207 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s------~~~v~~lL~~Lr~~----~~issV~~LlHsDLHe----------~~v~~ALe~LAs~v 207 (290)
-.|+||.|.-| ...+ -..+....+.||.. ....-+++-+.-+... -+-.+++|+-|+++
T Consensus 316 ~~vvIDyL~li-~~~~~~~~~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r~~k~p~lsdlr~Sg~Ieq~AD~v 394 (448)
T PRK05748 316 GLILIDYLQLI-QGSGRSGENRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIV 394 (448)
T ss_pred CEEEEccchhc-CCCCCCCcCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhcCCCCCChHHHHhhcchhcCCCEE
Confidence 58999999966 2111 13455555566442 2222334444443322 23358999999999
Q ss_pred EEEeecCcccccccchhhhhhhhhhcccceeEEEE-EecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 208 ASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVR-FKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 208 i~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr-~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
+-+.... .|.++ . . .++...+. -|.|+|.+-.- .|.+.+...+|...
T Consensus 395 ~~l~r~~---~~~~~-~-------~--~~~~~e~~v~K~R~G~~g~~--~~~~~~~~~~f~~~ 442 (448)
T PRK05748 395 AFLYRDD---YYDEE-T-------E--NKNTIEIIIAKQRNGPVGTV--ELAFQKEYNKFVNL 442 (448)
T ss_pred EEEeccc---ccCcc-c-------c--CCCceEEEEeccCCCCCceE--EEEEeCCCCccccc
Confidence 9987432 12111 0 0 12334333 34478876653 55566777777643
No 56
>PRK08760 replicative DNA helicase; Provisional
Probab=39.94 E-value=4.2e+02 Score=26.98 Aligned_cols=220 Identities=13% Similarity=0.077 Sum_probs=101.2
Q ss_pred cCCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 15 ~ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
.|=+.+-+.|----...+=+.+..+++ ..++ ..++.+|.++.+|-+++++..-+-..+-..+ ..++ -.+.
T Consensus 224 ~G~~~G~LivIaarPg~GKTafal~iA----~~~a--~~~g~~V~~fSlEMs~~ql~~Rl~a~~s~i~--~~~i--~~g~ 293 (476)
T PRK08760 224 AGLQPTDLIILAARPAMGKTTFALNIA----EYAA--IKSKKGVAVFSMEMSASQLAMRLISSNGRIN--AQRL--RTGA 293 (476)
T ss_pred cCCCCCceEEEEeCCCCChhHHHHHHH----HHHH--HhcCCceEEEeccCCHHHHHHHHHHhhCCCc--HHHH--hcCC
Confidence 354555555544444434344344432 2221 1236689999999999998886655432222 1222 1222
Q ss_pred cCCCCCcccccCccccccccccccccc----cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCC-----hH
Q 022893 95 TDPLGWKNWLIDKDISQEASSLSSFCQ----DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS-----IS 165 (290)
Q Consensus 95 sDPlgW~~~~~~~~~~~~~s~~~~~~~----~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s-----~~ 165 (290)
-.+..|.+-..-.+.-.+ .++.+.. ++.++.+-..++.. +.+. -+|+||.|.-| ...+ ..
T Consensus 294 l~~~e~~~~~~a~~~l~~--~~l~I~d~~~~t~~~I~~~~r~l~~-------~~~~-~lVvIDyLql~-~~~~~~~~r~~ 362 (476)
T PRK08760 294 LEDEDWARVTGAIKMLKE--TKIFIDDTPGVSPEVLRSKCRRLKR-------EHDL-GLIVIDYLQLM-SVPGNSENRAT 362 (476)
T ss_pred CCHHHHHHHHHHHHHHhc--CCEEEeCCCCCCHHHHHHHHHHHHH-------hcCC-CEEEEecHHhc-CCCCCCcccHH
Confidence 233345321000000000 0011100 23344332111111 1223 48999999854 2111 12
Q ss_pred HHHHHHHhhhcCCc----eeEEEEeecccc----------cchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhh
Q 022893 166 SVAGILSNLRSHDQ----VSSIFWLLHSDL----------HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLE 231 (290)
Q Consensus 166 ~v~~lL~~Lr~~~~----issV~~LlHsDL----------He~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~ 231 (290)
.+....+.||..+. ..=+++-|.-++ .+-+-.+++|+-|++++-+.-. . .|.+...+
T Consensus 363 ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R~-~--~y~~~~~~------ 433 (476)
T PRK08760 363 EISEISRSLKGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRD-D--YYNKENSP------ 433 (476)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEeeccCccccccCCCCCCHHHHhhccchhcCCCEEEEEech-h--hccccccc------
Confidence 34444455554221 122333333333 2235678999999999998632 1 12111000
Q ss_pred hcccceeEEE-EEecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 232 QNFRKGKFHV-RFKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 232 ~n~~~~~~~V-r~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
.++...+ .-|-|+|.+-.- .+.+.+...+|...
T Consensus 434 ---~~~~~eliiaKnR~G~~g~~--~l~f~~~~~~f~~~ 467 (476)
T PRK08760 434 ---DKGLAEIIIGKHRGGPTGSC--KLKFFGEYTRFDNL 467 (476)
T ss_pred ---CCCceEEEEEccCCCCCceE--EEEEecCCCceecc
Confidence 1233444 445588876643 45556666777653
No 57
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=39.11 E-value=53 Score=31.58 Aligned_cols=61 Identities=20% Similarity=0.332 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHhhccccCcEEEEEecC----ChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCC
Q 022893 37 FNYVLTQLSNYILAGKSQSRGLVVVAYSR----SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGW 100 (290)
Q Consensus 37 ~~h~~~~l~s~i~a~~~q~~~V~vlafe~----spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW 100 (290)
.+.|..+++..+-+++..++.|.||.... ..+...+.|+..|.... .++.+-|-|.||..-
T Consensus 65 ~d~f~~~~~~~lv~g~L~g~~V~vV~~p~a~~~~~~~v~~~L~~AGA~v~---g~i~lt~~~~d~~~~ 129 (308)
T PF11382_consen 65 ADQFIAAVAPRLVAGRLTGRSVAVVTLPGADDEDVDAVRELLEQAGATVT---GRITLTDKFLDPEQA 129 (308)
T ss_pred HHHHHHHHHHHHhcCccCCCEEEEEEcCCCChHHHHHHHHHHHHCCCeEE---EEEEEchhhcChhhH
Confidence 56778888888889999999999999653 35577888888888754 489999999999864
No 58
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=36.11 E-value=93 Score=24.08 Aligned_cols=57 Identities=21% Similarity=0.203 Sum_probs=44.2
Q ss_pred CCceEeecCCCCCchhh------HHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHH
Q 022893 19 APALTIKDSKASPFGFD------VFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLK 75 (290)
Q Consensus 19 ap~l~i~dsl~~~~g~~------~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk 75 (290)
.|.+++-|.++.-++.. ....++..|.+.+.....+..++.+++....++..-..+.
T Consensus 58 ~~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~ 120 (132)
T PF00004_consen 58 KPCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALL 120 (132)
T ss_dssp TSEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHH
T ss_pred cceeeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeCChhhCCHhHH
Confidence 58999999997765443 5677788888888887666667888888888888877776
No 59
>PRK06321 replicative DNA helicase; Provisional
Probab=34.62 E-value=5.2e+02 Score=26.43 Aligned_cols=217 Identities=10% Similarity=0.042 Sum_probs=102.7
Q ss_pred cCCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHh--cCCCcCCCCCeEEEEe
Q 022893 15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKR--RGIDIASSHDWIHILD 92 (290)
Q Consensus 15 ~ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~--~G~d~~~~~~rv~i~D 92 (290)
.|=+++-+.|----.+-+=+.+..+ ++.+++ ..++.+|.++.+|-+++++.+-+-. .|++ .+++..
T Consensus 221 ~Gl~~G~LiiiaarPgmGKTafal~----ia~~~a--~~~g~~v~~fSLEMs~~ql~~Rlla~~s~v~----~~~i~~-- 288 (472)
T PRK06321 221 NGFSPSNLMILAARPAMGKTALALN----IAENFC--FQNRLPVGIFSLEMTVDQLIHRIICSRSEVE----SKKISV-- 288 (472)
T ss_pred cCCCCCcEEEEEeCCCCChHHHHHH----HHHHHH--HhcCCeEEEEeccCCHHHHHHHHHHhhcCCC----HHHhhc--
Confidence 3555555555443333333443333 333222 1246799999999999999886542 2333 233432
Q ss_pred cccCCCCCcccccCccccccccccccccc----cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHh------C
Q 022893 93 CYTDPLGWKNWLIDKDISQEASSLSSFCQ----DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRH------A 162 (290)
Q Consensus 93 ~fsDPlgW~~~~~~~~~~~~~s~~~~~~~----~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h------~ 162 (290)
+.-++..|.+-......-.+. .+-+.. ++.++.+- +-.. ..+.+. -+|+||.|.-|--. .
T Consensus 289 ~~l~~~e~~~~~~a~~~l~~~--~~~idd~~~~ti~~i~~~---~r~~----~~~~~~-~lvvIDyLql~~~~~~~~~~~ 358 (472)
T PRK06321 289 GDLSGRDFQRIVSVVNEMQEH--TLLIDDQPGLKITDLRAR---ARRM----KESYDI-QFLIIDYLQLLSGSGNLRNSE 358 (472)
T ss_pred CCCCHHHHHHHHHHHHHHHcC--CEEEeCCCCCCHHHHHHH---HHHH----HHhcCC-CEEEEcchHHcCCCCccCCcc
Confidence 222334565311100000000 011110 23344432 1121 111222 49999999776310 0
Q ss_pred C-hHHHHHHHHhhhcCC----ceeEEEEeeccccc----------chhHHHHHHhhceeEEEEeecCcccccccchhhhh
Q 022893 163 S-ISSVAGILSNLRSHD----QVSSIFWLLHSDLH----------EIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENL 227 (290)
Q Consensus 163 s-~~~v~~lL~~Lr~~~----~issV~~LlHsDLH----------e~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~ 227 (290)
. -..+...-+.||..+ ...-++.-+.-++. +-+-.+++|+-|++++-+.-. . .|. +++
T Consensus 359 ~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~~krP~lsDLReSG~IEqdAD~v~~l~R~-~--~y~---~~~- 431 (472)
T PRK06321 359 SRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRR-E--YYD---PND- 431 (472)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhccCCCCCCHHHHhhcccccccCCEEEEEech-h--hcC---CcC-
Confidence 0 134555666666432 22223333434433 235568999999999998731 1 121 111
Q ss_pred hhhhhcccceeEEEE-EecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 228 SMLEQNFRKGKFHVR-FKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 228 ~~~~~n~~~~~~~Vr-~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
..+...+. -|.|+|..-. =.+.+.+...+|...
T Consensus 432 -------~~~~~elivaKnR~G~~G~--v~l~f~~~~~~f~~~ 465 (472)
T PRK06321 432 -------KPGTAELIVAKNRHGSIGS--VPLVFEKEFARFRNY 465 (472)
T ss_pred -------CCCceEEEEEecCCCCCce--EEEEEecCCCcccCc
Confidence 12334443 3448887743 255666777777653
No 60
>PRK08506 replicative DNA helicase; Provisional
Probab=31.57 E-value=5.7e+02 Score=25.97 Aligned_cols=176 Identities=14% Similarity=0.073 Sum_probs=83.0
Q ss_pred cCCCCCceEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHh--cCCCcCCCCCeEEEEe
Q 022893 15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKR--RGIDIASSHDWIHILD 92 (290)
Q Consensus 15 ~ge~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~--~G~d~~~~~~rv~i~D 92 (290)
.|=+++-+.|----..-+=+.+..+++ ..++ .++..|.+|.+|-++++..+-+-. .|++.. ++. .
T Consensus 187 ~G~~~G~LivIaarpg~GKT~fal~ia----~~~~---~~g~~V~~fSlEMs~~ql~~Rlla~~s~v~~~----~i~--~ 253 (472)
T PRK08506 187 KGFNKGDLIIIAARPSMGKTTLCLNMA----LKAL---NQDKGVAFFSLEMPAEQLMLRMLSAKTSIPLQ----NLR--T 253 (472)
T ss_pred CCCCCCceEEEEcCCCCChHHHHHHHH----HHHH---hcCCcEEEEeCcCCHHHHHHHHHHHhcCCCHH----HHh--c
Confidence 455556555544333433344444433 2221 346799999999999999875533 444422 332 2
Q ss_pred cccCCCCCcccccCccccccccccccccc----cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhCC-----
Q 022893 93 CYTDPLGWKNWLIDKDISQEASSLSSFCQ----DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS----- 163 (290)
Q Consensus 93 ~fsDPlgW~~~~~~~~~~~~~s~~~~~~~----~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~s----- 163 (290)
+.-++..|..-....+.-.. .++-+.. ++.++.+.+.+... +.+.--+|+||.|.-|--...
T Consensus 254 ~~l~~~e~~~~~~a~~~l~~--~~l~I~d~~~~ti~~I~~~~r~l~~-------~~~~~~lvvIDyLql~~~~~~~~~r~ 324 (472)
T PRK08506 254 GDLDDDEWERLSDACDELSK--KKLFVYDSGYVNIHQVRAQLRKLKS-------QHPEIGLAVIDYLQLMSGSGNFKDRH 324 (472)
T ss_pred CCCCHHHHHHHHHHHHHHHc--CCeEEECCCCCCHHHHHHHHHHHHH-------hCCCCCEEEEcChhhccCCCCCCCHH
Confidence 22234456421000000000 0011111 23444433122111 111125889999984421111
Q ss_pred --hHHHHHHHHhhhcC-CceeEEEEeecccc----------cchhHHHHHHhhceeEEEEee
Q 022893 164 --ISSVAGILSNLRSH-DQVSSIFWLLHSDL----------HEIKFTSVLEYLSSMVASVEP 212 (290)
Q Consensus 164 --~~~v~~lL~~Lr~~-~~issV~~LlHsDL----------He~~v~~ALe~LAs~vi~vep 212 (290)
+..+.+-|++|-+- ....-+++-++-+. .+-+-.+++|+-|++++-+..
T Consensus 325 ~ev~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R 386 (472)
T PRK08506 325 LQISEISRGLKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYR 386 (472)
T ss_pred HHHHHHHHHHHHHHHHhCCcEEEEeecCcchhhccCCCCChHHhhcchhhhhcCCEEEEEec
Confidence 23444445544432 11222333444433 233557899999999999984
No 61
>KOG3444 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.77 E-value=26 Score=29.52 Aligned_cols=38 Identities=34% Similarity=0.451 Sum_probs=32.6
Q ss_pred CccCCCCCcEEEEEechhHHHHhCChHHHHHHHHhhhc
Q 022893 139 GLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 176 (290)
Q Consensus 139 ~~~~~~k~~~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~ 176 (290)
||..-.|-.|++|+||=+.-+|.....++|+.||.|-.
T Consensus 72 gfvtNTkVKFIlvvdssd~avreteiRsv~r~~h~l~t 109 (121)
T KOG3444|consen 72 GFVTNTKVKFILVVDSSDYAVRETEIRSVFRILHLLYT 109 (121)
T ss_pred EEEeccEEEEEEEEcCCcceehhHHHHHHHHHHHHHHH
Confidence 45555677799999999999999999999999998864
No 62
>PRK04296 thymidine kinase; Provisional
Probab=29.22 E-value=3.6e+02 Score=23.52 Aligned_cols=63 Identities=16% Similarity=0.119 Sum_probs=45.3
Q ss_pred EEEEEechhHHHHhCChHHHHHHHHhhhcCCceeEEEEeecccccc-h-hHHHHHHhhceeEEEEeecCc
Q 022893 148 FSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHE-I-KFTSVLEYLSSMVASVEPFNQ 215 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s~~~v~~lL~~Lr~~~~issV~~LlHsDLHe-~-~v~~ALe~LAs~vi~vep~~~ 215 (290)
-+|+||.+-. .+..++..+++.|+. ..+.-++.-+.+|.-. + .....|..+|+.+..+....+
T Consensus 80 dvviIDEaq~----l~~~~v~~l~~~l~~-~g~~vi~tgl~~~~~~~~f~~~~~L~~~aD~V~~l~~vC~ 144 (190)
T PRK04296 80 DCVLIDEAQF----LDKEQVVQLAEVLDD-LGIPVICYGLDTDFRGEPFEGSPYLLALADKVTELKAICV 144 (190)
T ss_pred CEEEEEcccc----CCHHHHHHHHHHHHH-cCCeEEEEecCcccccCcCchHHHHHHhcCeEEEeeEEcc
Confidence 6899999932 344557778887775 4466666667777655 3 566788999999999986654
No 63
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=27.55 E-value=1.2e+02 Score=29.57 Aligned_cols=51 Identities=8% Similarity=0.084 Sum_probs=26.3
Q ss_pred CCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEe
Q 022893 29 ASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILD 92 (290)
Q Consensus 29 ~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D 92 (290)
.+.+-+.++.|+++++ ..++.-+.++..|.+ ...+.+++.|+|.+ ++.++.
T Consensus 62 ~ssGKttLaL~~ia~~-------q~~g~~~a~ID~e~~--ld~~~a~~lGvdl~----rllv~~ 112 (322)
T PF00154_consen 62 ESSGKTTLALHAIAEA-------QKQGGICAFIDAEHA--LDPEYAESLGVDLD----RLLVVQ 112 (322)
T ss_dssp TTSSHHHHHHHHHHHH-------HHTT-EEEEEESSS-----HHHHHHTT--GG----GEEEEE
T ss_pred CCCchhhhHHHHHHhh-------hcccceeEEecCccc--chhhHHHhcCcccc----ceEEec
Confidence 4556778777866532 122444555555444 45566667799865 576655
No 64
>PF08695 Coa1: Cytochrome oxidase complex assembly protein 1; InterPro: IPR014807 Coa1 is an inner mitochondrial membrane protein that associates with Shy1 and is required for cytochrome oxidase complex IV assembly. It contains a conserved hydrophobic segment (amino acids 74-92) with the potential to form a membrane-spanning helix. The N terminus of Coa1 is rich in positively charged amino acids and could form an amphipathic alpha helix, characteristic of a mitochondrial presequence. A cleavage site for the mitochondrial processing peptidase is predicted adjacent to the presequence. Upon in vitro import into mitochondria, Coa1 is processed to a mature form, indicating that it possesses a cleavable presequence []. The eukaryotic cytochrome oxidase complex consists of 12-13 subunits, with three mitochondrial encoded subunits, Cox1-Cox3, forming the core enzyme. Translation of the Cox1 transcript requires the two promoters, Pet309 and Mss51, and the latter has an additional role in translational elongation. Coa1 is necessary for linking the activity of Mss51 to Cox1 insertion into the assembly complex [].
Probab=27.23 E-value=1.1e+02 Score=24.55 Aligned_cols=78 Identities=17% Similarity=0.135 Sum_probs=48.6
Q ss_pred HHHHHHHHhhhcCCceeEEEEe-ecccccc--hhHHHHHHhh---ceeEEEEeecCcccccccchhhhhhhhhhccccee
Q 022893 165 SSVAGILSNLRSHDQVSSIFWL-LHSDLHE--IKFTSVLEYL---SSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238 (290)
Q Consensus 165 ~~v~~lL~~Lr~~~~issV~~L-lHsDLHe--~~v~~ALe~L---As~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~ 238 (290)
+..-..|.+||+++++...+|- + .+-. +.+.+.+.+. ++..+-|. ++. ++|.
T Consensus 26 ~~y~~al~~l~~~~~v~~~LGe~i--pi~~~~~~i~G~~~~~~g~a~~~~pV~-G~k-------------------~~G~ 83 (116)
T PF08695_consen 26 EYYKEALEQLRSNPEVVEALGENI--PIKDGWPWISGSINTSKGRADLSFPVK-GPK-------------------GKGT 83 (116)
T ss_pred HHHHHHHHHHHhCHHHHHHcCCCC--CcccCcccccceeeccCcEEEEEEEEE-cCC-------------------CcEE
Confidence 3346778899999888877773 0 1222 2234444443 33344333 333 7899
Q ss_pred EEEEEecCCCCeeeeEeEEEEEcCce
Q 022893 239 FHVRFKRRNGRVRVMCEEILVELAGI 264 (290)
Q Consensus 239 ~~Vr~kRr~GRV~~~~E~f~I~~~~~ 264 (290)
+++.-.|+.++..-..+.+.+...+.
T Consensus 84 v~~~a~r~~~~~~W~~~~~~v~~~~g 109 (116)
T PF08695_consen 84 VYVEATRSGGKDPWEILRLEVEIDDG 109 (116)
T ss_pred EEEEEEecCCCCceEEEEEEEEeCCC
Confidence 99999999998667777777665543
No 65
>PRK05595 replicative DNA helicase; Provisional
Probab=26.70 E-value=6.5e+02 Score=25.09 Aligned_cols=106 Identities=15% Similarity=0.055 Sum_probs=56.8
Q ss_pred EEEEEechhHHHHhCC-----hHHHHHHHHhhhcCC----ceeEEEEeecccc----------cchhHHHHHHhhceeEE
Q 022893 148 FSIAIDSVSEMVRHAS-----ISSVAGILSNLRSHD----QVSSIFWLLHSDL----------HEIKFTSVLEYLSSMVA 208 (290)
Q Consensus 148 ~~VaIDSLS~LL~h~s-----~~~v~~lL~~Lr~~~----~issV~~LlHsDL----------He~~v~~ALe~LAs~vi 208 (290)
-.|+||.|.-| ...+ -..+...-+.||..+ ...-+++-|.-+. .+-+-.+++|+-|++++
T Consensus 313 ~~vvIDylql~-~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~lsQLnR~~e~r~~~rP~lsdlr~Sg~Ieq~AD~vl 391 (444)
T PRK05595 313 DMILIDYLQLM-SGGKGSESRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVM 391 (444)
T ss_pred CEEEEeHHHhc-cCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEeeccCcchhccCCCCCchhhhhhhcccccCCCEEE
Confidence 58999999865 3211 133444445555432 2222333343333 23356689999999999
Q ss_pred EEeecCcccccccchhhhhhhhhhcccceeEEE-EEecCCCCeeeeEeEEEEEcCceEEEec
Q 022893 209 SVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHV-RFKRRNGRVRVMCEEILVELAGIKFTPV 269 (290)
Q Consensus 209 ~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~V-r~kRr~GRV~~~~E~f~I~~~~~~f~~~ 269 (290)
-+.... .|.++-. .++...+ .-|.|+|..-. =.|.+.+...+|...
T Consensus 392 ~l~r~~---~~~~~~~----------~~~~~e~iv~K~R~G~~g~--~~~~~~~~~~~f~~~ 438 (444)
T PRK05595 392 FLYRDE---YYNKETE----------DKNVAECIIAKQRNGPTGT--VKLAWLGQYSKFGNL 438 (444)
T ss_pred EEeccc---ccccccC----------CCCceEEEEEccCCCCCce--EEEEEecCCCccccc
Confidence 998432 1211100 1233344 34557887663 345556666777654
No 66
>KOG3949 consensus RNA polymerase II elongator complex, subunit ELP4 [Chromatin structure and dynamics; Transcription]
Probab=26.07 E-value=1.5e+02 Score=29.69 Aligned_cols=73 Identities=23% Similarity=0.148 Sum_probs=48.0
Q ss_pred HHHHHHhhhcCCcee----EEEEeecccccchhHHHHHHhhceeEEEEeecCcccccccchhhhhhhhhhcccceeEEEE
Q 022893 167 VAGILSNLRSHDQVS----SIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVR 242 (290)
Q Consensus 167 v~~lL~~Lr~~~~is----sV~~LlHsDLHe~~v~~ALe~LAs~vi~vep~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr 242 (290)
+.++|+-||+..+.+ -|..-.|=+-+ +..+.-|++||+++|.+||-+..... ++.+-.+ +.|.+|++
T Consensus 231 ~ikfL~~Lrslvr~~~~vciit~p~~l~~~-~~~~~~l~~laD~vi~Le~f~~~e~e-------~~~~~k~-~~Gllhi~ 301 (360)
T KOG3949|consen 231 LIKFLYLLRSLVRSSYSVCIITAPSSLIPK-PSLIARLENLADTVIGLEPFPGNEKE-------TNPLYKD-YHGLLHIH 301 (360)
T ss_pred HHHHHHHHHHHHhhcceEEEEeechhhccc-hhHHHHHHHHHHHHhcccccCCcccc-------ccccccc-ccceeeee
Confidence 446788887754433 34455555555 68899999999999999997654211 2222233 56889988
Q ss_pred EecCCC
Q 022893 243 FKRRNG 248 (290)
Q Consensus 243 ~kRr~G 248 (290)
...|-+
T Consensus 302 Klp~~~ 307 (360)
T KOG3949|consen 302 KLPRLN 307 (360)
T ss_pred eccccc
Confidence 777543
No 67
>COG1158 Rho Transcription termination factor [Transcription]
Probab=25.55 E-value=2.3e+02 Score=28.63 Aligned_cols=86 Identities=23% Similarity=0.400 Sum_probs=48.7
Q ss_pred HHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCCCCcccccCccccccccccccccc
Q 022893 42 TQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQ 121 (290)
Q Consensus 42 ~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~ 121 (290)
..++..|..+-- .--+.|+-.|=-|||+.+ |.|. -+--+|.--|-.|-..
T Consensus 191 q~IA~aIt~N~P-e~~LiVLLIDERPEEVTd-mqrs-------V~geViaSTFDepp~~--------------------- 240 (422)
T COG1158 191 QNIANAITTNHP-ECELIVLLIDERPEEVTD-MQRS-------VKGEVVASTFDEPPSR--------------------- 240 (422)
T ss_pred HHHHHHHhcCCC-ceEEEEEEecCCchHHHH-HHHh-------hcceEEeecCCCcchh---------------------
Confidence 346666665532 226777788888889888 3332 1134444444444411
Q ss_pred cchhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhC
Q 022893 122 DVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHA 162 (290)
Q Consensus 122 ~v~~L~sl~~~~~e~~~~~~~~~k~~~~VaIDSLS~LL~h~ 162 (290)
.++- . +-.+|..|-++..+|. ++|.+||+.-|=|-+
T Consensus 241 HvqV-A---E~viEkAKRlVE~~kD-VVILLDSITRLaRAY 276 (422)
T COG1158 241 HVQV-A---EMVIEKAKRLVEHGKD-VVILLDSITRLARAY 276 (422)
T ss_pred hHHH-H---HHHHHHHHHHHHcCCc-EEEEehhHHHHHHHh
Confidence 1211 1 2233333335555667 999999999988764
No 68
>PF11633 SUD-M: Single-stranded poly(A) binding domain; InterPro: IPR024375 This domain identifies non-structural protein 3 (Nsp3). It is found in human SARS coronavirus polyprotein 1a and 1ab, and in related coronavirus polyproteins [].; PDB: 2KQV_A 2W2G_A 2WCT_D 2JZE_A 2JZF_A 2RNK_A 2JZD_A.
Probab=25.45 E-value=24 Score=30.68 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=30.3
Q ss_pred cCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecc
Q 022893 26 DSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCY 94 (290)
Q Consensus 26 dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~f 94 (290)
.+.+.+....+...+.-.+...++-++. .+-+..++.|.++ +...||++|++.. ..++-+|+|
T Consensus 7 ~~~~~~~~~~ll~~v~~~~r~ml~~ak~-~g~~~pvc~D~~A--~~k~lkr~gv~~~---egl~t~~G~ 69 (142)
T PF11633_consen 7 NSAADNSKEELLGVVSWNFRAMLQHAKE-TGLLCPVCIDYPA--FCKTLKRKGVDPK---EGLQTVDGV 69 (142)
T ss_dssp --S-------GGCEE---CHHHHHHHHH-HT-EEEEETT-HH--HHHHHHHTTS------SEEEES-SS
T ss_pred cCCCCCCCCceeeeeehhHHHHHHHHHh-cCcEEEEEeccHH--HHHHHhccCcccc---cceEEecce
Confidence 3444444444444444444444444444 3367788888888 8999999999764 477777665
No 69
>COG4544 Uncharacterized conserved protein [Function unknown]
Probab=22.60 E-value=1.3e+02 Score=28.66 Aligned_cols=53 Identities=11% Similarity=0.127 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEeccc
Q 022893 36 VFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYT 95 (290)
Q Consensus 36 ~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fs 95 (290)
...=|+..|+...++.+..+.-||+...+ +-|.=-|+.+|++++ |++|+-|++
T Consensus 66 a~~GaAaAl~~~g~~~r~~gpVvWi~tr~---dlf~paL~~~Gl~~~----RlifVea~~ 118 (260)
T COG4544 66 AADGAAAALAVLGLAARRGGPVVWILTRE---DLFPPALAAFGLDPE----RLIFVEARK 118 (260)
T ss_pred chhhHHHHHHHHhhhcccCCCEEEEEecc---cccchhHhhcCCChh----hEEEEeCCc
Confidence 34445666777777766656678887743 333333899999944 899999764
No 70
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=21.59 E-value=1.5e+02 Score=25.54 Aligned_cols=39 Identities=21% Similarity=0.428 Sum_probs=26.4
Q ss_pred hccccCcEEEEEecCChHHH----------------HHHHHhcCCCcCCCCCeEEEEeccc
Q 022893 51 GKSQSRGLVVVAYSRSPSFY----------------VDLLKRRGIDIASSHDWIHILDCYT 95 (290)
Q Consensus 51 ~~~q~~~V~vlafe~spe~y----------------~~~lk~~G~d~~~~~~rv~i~D~fs 95 (290)
++.++-...++.|+.+|..+ .+.|++.|+| .++++|+-.
T Consensus 32 a~~~~~~~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l~~~Gvd------~~~~~~F~~ 86 (157)
T PF06574_consen 32 AKEKGLKSVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELLESLGVD------YVIVIPFTE 86 (157)
T ss_dssp HHHCT-EEEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHHHHTTES------EEEEE-CCC
T ss_pred hhhcccceEEEEcccCHHHHhcCCCcccCCCCHHHHHHHHHHcCCC------EEEEecchH
Confidence 34445578999999988655 4578888887 688888543
No 71
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=21.15 E-value=89 Score=24.69 Aligned_cols=34 Identities=21% Similarity=0.322 Sum_probs=22.8
Q ss_pred ccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCC
Q 022893 54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPL 98 (290)
Q Consensus 54 q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~rv~i~D~fsDPl 98 (290)
.+-.+++|+++..+. ..+.++.++++ .+.|+||.
T Consensus 12 ~gv~lv~I~~g~~~~-~~~f~~~~~~p----------~~ly~D~~ 45 (115)
T PF13911_consen 12 AGVKLVVIGCGSPEG-IEKFCELTGFP----------FPLYVDPE 45 (115)
T ss_pred cCCeEEEEEcCCHHH-HHHHHhccCCC----------CcEEEeCc
Confidence 355788999887754 66666666665 24678885
No 72
>KOG3124 consensus Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]
Probab=20.75 E-value=50 Score=31.65 Aligned_cols=29 Identities=31% Similarity=0.360 Sum_probs=20.7
Q ss_pred ccCCCCCceEeecCCCCCchhhH-HHHHHHH
Q 022893 14 LEGEHAPALTIKDSKASPFGFDV-FNYVLTQ 43 (290)
Q Consensus 14 ~~ge~ap~l~i~dsl~~~~g~~~-~~h~~~~ 43 (290)
++.++-|+ .++|+++||+|+.+ +.|++.+
T Consensus 214 l~s~qHP~-~Lkd~V~SPgG~TI~glh~LE~ 243 (267)
T KOG3124|consen 214 LASGQHPA-QLKDDVCSPGGTTIYGLHALEK 243 (267)
T ss_pred HhccCCcH-HHhCCCCCCCcchHHHHHHHHh
Confidence 34444454 36999999999887 6677765
Done!