Query 005662
Match_columns 685
No_of_seqs 112 out of 128
Neff 3.5
Searched_HMMs 29240
Date Mon Mar 25 03:54:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005662.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005662hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1e52_A Excinuclease ABC subuni 96.0 0.0052 1.8E-07 50.9 3.8 37 126-162 21-57 (63)
2 2d7d_A Uvrabc system protein B 87.7 0.3 1E-05 54.7 3.7 37 126-162 623-659 (661)
3 1e52_A Excinuclease ABC subuni 83.4 0.55 1.9E-05 38.8 2.4 26 166-191 26-51 (63)
4 1c4o_A DNA nucleotide excision 77.1 0.49 1.7E-05 53.1 0.0 39 125-163 607-645 (664)
5 2ca6_A RAN GTPase-activating p 65.4 2.5 8.4E-05 42.5 2.0 23 322-346 289-311 (386)
6 3e0s_A Uncharacterized protein 53.4 82 0.0028 32.1 10.8 101 70-185 46-146 (326)
7 3pxg_A Negative regulator of g 47.0 41 0.0014 35.8 7.7 40 122-161 394-433 (468)
8 2d7d_A Uvrabc system protein B 40.2 15 0.0005 41.3 3.1 27 165-191 627-653 (661)
9 3kf9_B MLCK2, myosin light cha 31.8 22 0.00076 24.2 1.7 15 116-130 3-17 (22)
10 1gp8_A Protein (scaffolding pr 26.7 71 0.0024 24.6 3.9 27 132-158 11-37 (40)
11 1c4o_A DNA nucleotide excision 24.8 15 0.00053 41.1 0.0 28 164-191 611-638 (664)
12 2fbn_A 70 kDa peptidylprolyl i 20.2 3.4E+02 0.012 23.6 7.9 65 127-191 34-113 (198)
13 2ff4_A Probable regulatory pro 20.2 6.7E+02 0.023 25.7 11.2 113 63-191 110-238 (388)
No 1
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair, UVRC binding domain; NMR {Escherichia coli} SCOP: a.2.9.1 PDB: 1qoj_A
Probab=95.96 E-value=0.0052 Score=50.89 Aligned_cols=37 Identities=11% Similarity=0.189 Sum_probs=33.5
Q ss_pred hhhHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHhc
Q 005662 126 DQERLVSILKSQLGNAVFKEEYDDAARLKVAIAAAAT 162 (685)
Q Consensus 126 ~~e~la~~Lk~QLe~AV~~EDYeeAARLK~ai~a~~~ 162 (685)
+...+...|+.+|..|++.++|+.||+||+.|.++..
T Consensus 21 ~~~~~i~~Le~~M~~AA~~leFE~AA~lRD~I~~L~~ 57 (63)
T 1e52_A 21 ALQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLRE 57 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence 4567788999999999999999999999999998874
No 2
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*
Probab=87.74 E-value=0.3 Score=54.71 Aligned_cols=37 Identities=14% Similarity=0.315 Sum_probs=28.4
Q ss_pred hhhHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHhc
Q 005662 126 DQERLVSILKSQLGNAVFKEEYDDAARLKVAIAAAAT 162 (685)
Q Consensus 126 ~~e~la~~Lk~QLe~AV~~EDYeeAARLK~ai~a~~~ 162 (685)
+...+...|+.+|+.|+++++|+.||+||+.|.++..
T Consensus 623 ~~~~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~ 659 (661)
T 2d7d_A 623 ERQKVVEQMEHEMKEAAKALDFERAAELRDLLLELKA 659 (661)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHC-----
T ss_pred HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHh
Confidence 4566778889999999999999999999999988764
No 3
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair, UVRC binding domain; NMR {Escherichia coli} SCOP: a.2.9.1 PDB: 1qoj_A
Probab=83.44 E-value=0.55 Score=38.84 Aligned_cols=26 Identities=19% Similarity=0.322 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHhhhh
Q 005662 166 VGRVMSNLNRAVVQERYEDAALLRDN 191 (685)
Q Consensus 166 Vgrim~~L~~AI~EERY~DAA~lRD~ 191 (685)
+-.+...|+.|.++++|+.||+|||.
T Consensus 26 i~~Le~~M~~AA~~leFE~AA~lRD~ 51 (63)
T 1e52_A 26 IHELEGLMMQHAQNLEFEEAAQIRDQ 51 (63)
T ss_dssp HHHHHHHHHHHHHTTCHHHHTTHHHH
T ss_pred HHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 45667899999999999999999996
No 4
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*
Probab=77.12 E-value=0.49 Score=53.08 Aligned_cols=39 Identities=23% Similarity=0.281 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHhcC
Q 005662 125 DDQERLVSILKSQLGNAVFKEEYDDAARLKVAIAAAATN 163 (685)
Q Consensus 125 e~~e~la~~Lk~QLe~AV~~EDYeeAARLK~ai~a~~~~ 163 (685)
++.+.....|+.+|+.|++.++|+.||+||+.|.++...
T Consensus 607 ~~~~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~ 645 (664)
T 1c4o_A 607 EDLRERIAELELAMWQAAEALDFERAARLRDEIRALEAR 645 (664)
T ss_dssp ---------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHH
Confidence 345567778899999999999999999999999877643
No 5
>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A
Probab=65.43 E-value=2.5 Score=42.48 Aligned_cols=23 Identities=9% Similarity=0.465 Sum_probs=12.7
Q ss_pred hhhHhHHhhhhccCCcceEEEEeec
Q 005662 322 EGLSGFQNILRDMIPGVRVKVLKVT 346 (685)
Q Consensus 322 Egl~g~~nflkd~iP~~KvKVlkV~ 346 (685)
+|+..+...++...|.++ .|.+.
T Consensus 289 ~g~~~l~~~l~~~l~~L~--~L~l~ 311 (386)
T 2ca6_A 289 DAVRTLKTVIDEKMPDLL--FLELN 311 (386)
T ss_dssp HHHHHHHHHHHHHCTTCC--EEECT
T ss_pred HHHHHHHHHHHhcCCCce--EEEcc
Confidence 355556666655556554 45554
No 6
>3e0s_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein structure initiative; 2.09A {Chlorobaculum tepidum}
Probab=53.39 E-value=82 Score=32.09 Aligned_cols=101 Identities=9% Similarity=-0.012 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCCchhhhhhhhccCCCCChhhHHHHHhhhhhhhhhhHHHHHHHHHHHHHhhccchhH
Q 005662 70 LVIQDAFKNAVKLFDSFLKEYGAPQDDAVLEEEKRDESGEDEWDWDRWKSHFDEVDDQERLVSILKSQLGNAVFKEEYDD 149 (685)
Q Consensus 70 ~~f~d~~~~a~~~~~sy~s~~~~~~~~Av~eee~~~~~~~~~wdW~RWkrhF~eVe~~e~la~~Lk~QLe~AV~~EDYee 149 (685)
..+|+| ..|+||+-|.+..|++..+....+.- ..+...+-+.+..+.+.|.++..|..-+. .+..+--..
T Consensus 46 E~lHqm-RValRRLRs~L~~f~~~l~~~~~~~l--------~~~lk~La~~LG~~RD~DVl~~~l~~~~~-~lp~~~~~~ 115 (326)
T 3e0s_A 46 EFLHDF-RVAIRRSRSILRLLNGVFDPEKTAWM--------LAGLRELGKRTNDLRDSDVYLLRREEYTS-LLPPSLRPA 115 (326)
T ss_dssp HHHHHH-HHHHHHHHHHHHHTTTSSCHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHTHHHHHH-SSCTTTGGG
T ss_pred HHHHHH-HHHHHHHHHHHHHHHhhcCcHhHHHH--------HHHHHHHHHHHhhHHHHHHHHHHHHHHHh-hCCHHhhhh
Confidence 479999 89999999999999998876543222 24555566777888888888776543222 111111112
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHHhhhhhhHH
Q 005662 150 AARLKVAIAAAATNDAVGRVMSNLNRAVVQERYEDA 185 (685)
Q Consensus 150 AARLK~ai~a~~~~DpVgrim~~L~~AI~EERY~DA 185 (685)
-.+|...+.... ......+..++...||..-
T Consensus 116 ~~~l~~~l~~~r-----~~a~~~~~~~L~s~ry~~l 146 (326)
T 3e0s_A 116 LDPFFSDLEADK-----RLHHRQFCRYLTGREYSGF 146 (326)
T ss_dssp GHHHHHHHHHHH-----HHHHHHHHHHHTSHHHHHH
T ss_pred HHHHHHHHHHHH-----HHHHHHHHHHHcChHHHHH
Confidence 345555555443 3566667777778888754
No 7
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}
Probab=47.01 E-value=41 Score=35.81 Aligned_cols=40 Identities=18% Similarity=0.258 Sum_probs=34.6
Q ss_pred hhhhhhhHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHh
Q 005662 122 DEVDDQERLVSILKSQLGNAVFKEEYDDAARLKVAIAAAA 161 (685)
Q Consensus 122 ~eVe~~e~la~~Lk~QLe~AV~~EDYeeAARLK~ai~a~~ 161 (685)
.+|++-++.+..|+.+++.|+..+||+.|+.|++.+..+.
T Consensus 394 ~~i~~l~~~i~~l~~~~~~~~~~~d~~~~~~l~~~~~~~~ 433 (468)
T 3pxg_A 394 PNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLR 433 (468)
T ss_dssp SSTHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH
Confidence 3577778888889999999999999999999999887644
No 8
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*
Probab=40.19 E-value=15 Score=41.27 Aligned_cols=27 Identities=30% Similarity=0.332 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHHhhhhhhHHHHhhhh
Q 005662 165 AVGRVMSNLNRAVVQERYEDAALLRDN 191 (685)
Q Consensus 165 pVgrim~~L~~AI~EERY~DAA~lRD~ 191 (685)
-+..+..+|+.|.+++.|+.||+|||.
T Consensus 627 ~i~~l~~~m~~aa~~~~fe~Aa~~Rd~ 653 (661)
T 2d7d_A 627 VVEQMEHEMKEAAKALDFERAAELRDL 653 (661)
T ss_dssp HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence 456788899999999999999999997
No 9
>3kf9_B MLCK2, myosin light chain kinase 2, skeletal/cardiac MUS; centrin, cell cycle, cell divisio mitosis, calmodulin-binding; 2.60A {Scherffelia dubia}
Probab=31.80 E-value=22 Score=24.24 Aligned_cols=15 Identities=40% Similarity=0.835 Sum_probs=12.2
Q ss_pred HHHhhhhhhhhhhHH
Q 005662 116 RWKSHFDEVDDQERL 130 (685)
Q Consensus 116 RWkrhF~eVe~~e~l 130 (685)
||++||..|...-+|
T Consensus 3 ~WkK~f~av~Aanrl 17 (22)
T 3kf9_B 3 RWKKNFIAVSAANRF 17 (26)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHH
Confidence 899999999766554
No 10
>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A
Probab=26.68 E-value=71 Score=24.55 Aligned_cols=27 Identities=19% Similarity=0.325 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhccchhHHHHHHHHHH
Q 005662 132 SILKSQLGNAVFKEEYDDAARLKVAIA 158 (685)
Q Consensus 132 ~~Lk~QLe~AV~~EDYeeAARLK~ai~ 158 (685)
+.|..||..|..+.||+.+-.|+..+.
T Consensus 11 ~aiEQqiyvA~seGd~etv~~Le~QL~ 37 (40)
T 1gp8_A 11 DAIRKQMDAAASKGDVETYRKLKAKLK 37 (40)
T ss_dssp HHHHHHHHHHHTTSCHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 345999999999999999999987663
No 11
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*
Probab=24.81 E-value=15 Score=41.08 Aligned_cols=28 Identities=25% Similarity=0.321 Sum_probs=0.0
Q ss_pred ChHHHHHHHHHHHHhhhhhhHHHHhhhh
Q 005662 164 DAVGRVMSNLNRAVVQERYEDAALLRDN 191 (685)
Q Consensus 164 DpVgrim~~L~~AI~EERY~DAA~lRD~ 191 (685)
.-+.++..+|++|.+++.|+.||+|||.
T Consensus 611 ~~i~~l~~~m~~aa~~l~fe~Aa~lRd~ 638 (664)
T 1c4o_A 611 ERIAELELAMWQAAEALDFERAARLRDE 638 (664)
T ss_dssp ----------------------------
T ss_pred HHHHHHHHHHHHHHHhcChHHHHHHHHH
Confidence 3466778899999999999999999997
No 12
>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1
Probab=20.22 E-value=3.4e+02 Score=23.64 Aligned_cols=65 Identities=12% Similarity=-0.050 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHhcCCh------H--------HHHHHHH-HHHHhhhhhhHHHHhhhh
Q 005662 127 QERLVSILKSQLGNAVFKEEYDDAARLKVAIAAAATNDA------V--------GRVMSNL-NRAVVQERYEDAALLRDN 191 (685)
Q Consensus 127 ~e~la~~Lk~QLe~AV~~EDYeeAARLK~ai~a~~~~Dp------V--------grim~~L-~~AI~EERY~DAA~lRD~ 191 (685)
....+..+...=.......+|++|.++-..+-....+++ . ..+...| .-.+...+|++|..+.+.
T Consensus 34 ~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~ 113 (198)
T 2fbn_A 34 KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASK 113 (198)
T ss_dssp HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 333444445555566788999999887776666555555 0 1222222 223456778887776664
No 13
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*
Probab=20.18 E-value=6.7e+02 Score=25.75 Aligned_cols=113 Identities=11% Similarity=0.092 Sum_probs=63.2
Q ss_pred cCcchhhHHHHHHHH--------HHHHHHHHHhhhcCCCCchhhhhhhhccCCCCChhhHHH-HHhhhhhhhhhhHHHHH
Q 005662 63 SFNRRWDLVIQDAFK--------NAVKLFDSFLKEYGAPQDDAVLEEEKRDESGEDEWDWDR-WKSHFDEVDDQERLVSI 133 (685)
Q Consensus 63 ~~~~rW~~~f~d~~~--------~a~~~~~sy~s~~~~~~~~Av~eee~~~~~~~~~wdW~R-WkrhF~eVe~~e~la~~ 133 (685)
-|..++.+.+..+.. .|+..+..-+..|+...=.... ..+|.. ++.++ .+..+.+
T Consensus 110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~-----------~~~w~~~~r~~l-----~~~~~~a 173 (388)
T 2ff4_A 110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQFVEPFATAL-----VEDKVLA 173 (388)
T ss_dssp BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTTHHHHHHHH-----HHHHHHH
T ss_pred chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC-----------chhHHHHHHHHH-----HHHHHHH
Confidence 456666666665532 2455666667777543222121 123432 23333 2445566
Q ss_pred HHHHHHHHhhccchhHHHHHHHHHHHHh--cCChHHHHHHHHHH----HHhhhhhhHHHH-hhhh
Q 005662 134 LKSQLGNAVFKEEYDDAARLKVAIAAAA--TNDAVGRVMSNLNR----AVVQERYEDAAL-LRDN 191 (685)
Q Consensus 134 Lk~QLe~AV~~EDYeeAARLK~ai~a~~--~~DpVgrim~~L~~----AI~EERY~DAA~-lRD~ 191 (685)
+....+..++..+|++|...-..+-+.. .+.....+|..|.+ |-+-+.|+...+ |+++
T Consensus 174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~e 238 (388)
T 2ff4_A 174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADD 238 (388)
T ss_dssp HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 6777788888999999986555544333 33356777777743 344455555543 5666
Done!