Query 030427
Match_columns 177
No_of_seqs 120 out of 242
Neff 4.9
Searched_HMMs 29240
Date Mon Mar 25 22:03:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030427.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030427hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3qoq_A Alginate and motility r 51.5 14 0.00047 25.3 3.3 23 20-42 19-41 (69)
2 1baz_A ARC repressor; transcri 43.4 19 0.00064 22.9 2.8 20 21-40 8-27 (53)
3 2ijx_A DNA polymerase sliding 37.0 78 0.0027 24.7 6.2 50 23-78 65-116 (244)
4 1ud9_A DNA polymerase sliding 35.6 80 0.0027 24.7 6.1 50 23-78 65-116 (245)
5 1rwz_A DNA polymerase sliding 34.0 78 0.0027 24.8 5.7 50 22-78 64-115 (245)
6 3c65_A Uvrabc system protein C 26.8 4.7 0.00016 33.4 -2.8 60 75-136 8-74 (226)
7 3aiz_C DNA polymerase sliding 24.8 1.2E+02 0.0043 23.6 5.4 49 22-77 64-115 (246)
8 3aiz_A DNA polymerase sliding 22.6 1.4E+02 0.005 23.2 5.4 50 22-78 65-120 (248)
9 3ite_A SIDN siderophore synthe 21.2 60 0.0021 28.2 3.1 41 61-102 374-414 (562)
10 2d1s_A Luciferase, luciferin 4 20.2 48 0.0016 29.0 2.2 16 87-102 413-428 (548)
11 3g7s_A Long-chain-fatty-acid-- 20.1 51 0.0017 28.7 2.4 12 91-102 415-426 (549)
No 1
>3qoq_A Alginate and motility regulator Z; protein-DNA complex, ribbon-helix-helix; HET: DNA; 3.10A {Pseudomonas aeruginosa}
Probab=51.52 E-value=14 Score=25.29 Aligned_cols=23 Identities=22% Similarity=0.611 Sum_probs=17.6
Q ss_pred cceeEEecCcchHHHHHHHHhcC
Q 030427 20 EEQFILRVPPSVAERIDRLLSEN 42 (177)
Q Consensus 20 EeqfILRlP~~~a~~lr~~v~~~ 42 (177)
-.||.||+|+++-+.|+..-++.
T Consensus 19 ~~kf~LRlP~eL~~~L~~~A~~~ 41 (69)
T 3qoq_A 19 ADKFVVRLPEGMREQIAEVARSH 41 (69)
T ss_dssp SEEEEEECCTTHHHHHHHHHHHT
T ss_pred CCceEEECCHHHHHHHHHHHHHh
Confidence 46999999999888887654443
No 2
>1baz_A ARC repressor; transcription regulation; 1.90A {Enterobacteria phage P22} SCOP: a.43.1.1 PDB: 1bdv_A* 1arq_A 1arr_A 1bdt_A* 1par_A* 1myk_A 1qtg_A 1b28_A 1myl_A
Probab=43.39 E-value=19 Score=22.86 Aligned_cols=20 Identities=25% Similarity=0.360 Sum_probs=15.5
Q ss_pred ceeEEecCcchHHHHHHHHh
Q 030427 21 EQFILRVPPSVAERIDRLLS 40 (177)
Q Consensus 21 eqfILRlP~~~a~~lr~~v~ 40 (177)
.+|-||+|+++-+.|...-.
T Consensus 8 ~~~~lRlp~eL~~~l~~~A~ 27 (53)
T 1baz_A 8 PQVNLRWPREVLDLVRKVAE 27 (53)
T ss_dssp CEEEEECCHHHHHHHHHHHH
T ss_pred CeeEEECCHHHHHHHHHHHH
Confidence 48999999998777765443
No 3
>2ijx_A DNA polymerase sliding clamp A; PCNA3 subunit, protein-protein interaction, PCNA123 heterotr binding protein; HET: DNA; 1.90A {Sulfolobus solfataricus} PDB: 2nti_F* 2hii_C 2hik_C 2ix2_C*
Probab=36.98 E-value=78 Score=24.75 Aligned_cols=50 Identities=12% Similarity=0.264 Sum_probs=35.2
Q ss_pred eEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC--eecceeeccC
Q 030427 23 FILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN--DHFPVSLMDL 78 (177)
Q Consensus 23 fILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~--~~y~a~LvDL 78 (177)
.+++++ ...|.++++... .++.+.|.+..++.+..|.+++ ..|..+|+|-
T Consensus 65 i~~~~~---l~~l~kiL~~~~---~~~~v~i~~~~~~~~l~~~~~~~~~~~~~rlidg 116 (244)
T 2ijx_A 65 FKFGFN---TQYLMKILKVAK---RKEAIEIASESPDSVIINIIGSTNREFNVRNLEV 116 (244)
T ss_dssp EEEEEE---HHHHHHHHTTCC---SSCEEEEEEEETTEEEEEEESSSEEEEEEECCCC
T ss_pred EEEEEE---HHHHHHHHhhCC---CCCEEEEEecCCCCEEEEEECCEEEEEEEECCcc
Confidence 455555 556667776322 1345888887666899999999 8898888884
No 4
>1ud9_A DNA polymerase sliding clamp A; DNA-binding, DNA replication, DNA binding protein; HET: DNA; 1.68A {Sulfolobus tokodaii} SCOP: d.131.1.2 d.131.1.2
Probab=35.65 E-value=80 Score=24.72 Aligned_cols=50 Identities=12% Similarity=0.195 Sum_probs=34.9
Q ss_pred eEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC--eecceeeccC
Q 030427 23 FILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN--DHFPVSLMDL 78 (177)
Q Consensus 23 fILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~--~~y~a~LvDL 78 (177)
.+++++ ...|.++++... .++.+.|.+..++.+..|.+++ ..|..+|+|-
T Consensus 65 i~~~~~---l~~l~kiL~~~~---~~~~v~i~~~~~~~~l~~~~~~~~~~~~~rlidg 116 (245)
T 1ud9_A 65 FKFGFN---TQYMSKLLKAAK---RKEEIIIDADSPEVVKLTLSGALNRVFNVNNIEV 116 (245)
T ss_dssp EEEEEE---HHHHHHHHTTCC---SCCCEEEEEEETTEEEEEECSSSCEEEEEECCCC
T ss_pred eEEEEE---HHHHHHHHhcCC---CCCEEEEEEcCCCCEEEEEECCEEEEEEEECccc
Confidence 455555 556667776322 1346888887555689999999 8888888884
No 5
>1rwz_A DNA polymerase sliding clamp; torus, processivity factor, replication; HET: DNA; 1.80A {Archaeoglobus fulgidus} SCOP: d.131.1.2 d.131.1.2 PDB: 1rxm_A* 1rxz_A* 3p83_A*
Probab=34.02 E-value=78 Score=24.85 Aligned_cols=50 Identities=10% Similarity=0.070 Sum_probs=33.2
Q ss_pred eeEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC--eecceeeccC
Q 030427 22 QFILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN--DHFPVSLMDL 78 (177)
Q Consensus 22 qfILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~--~~y~a~LvDL 78 (177)
..+++++ ...|.++++... .++.+.|.+..++ +..|.+++ ..|..+|+|-
T Consensus 64 ~i~~~~~---l~el~kiL~~~~---~~~~v~i~~~~~~-~l~~~~~~~~~~~~~rlidg 115 (245)
T 1rwz_A 64 EKTIGVD---MDRIFDISKSIS---TKDLVELIVEDES-TLKVKFGSVEYKVALIDPSA 115 (245)
T ss_dssp CEEEEEE---HHHHHHHHTTSC---TTSEEEEEESSSS-EEEEEETTEEEEEECBCGGG
T ss_pred CeEEEEE---HHHHHHHHhhCC---CCCEEEEEECCCC-eEEEEEeeeEEEEEEEcccc
Confidence 3455555 556667776322 1345778775434 99999999 8888888774
No 6
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=26.77 E-value=4.7 Score=33.38 Aligned_cols=60 Identities=18% Similarity=0.459 Sum_probs=38.7
Q ss_pred eccCCeeeeeeeeccCcceEEeeccceeEEecCCCCCCCCcc-cc-cCCCCcc-----ccccccccccC
Q 030427 75 LMDLPCVVESFKTYDDCALVKTADIGQMIMVREPGDSTPDAV-EY-RHGLTPP-----MRDARKRRFRR 136 (177)
Q Consensus 75 LvDLP~IiEs~KT~D~k~~yKtaDIsQMLvv~~~~~~~p~~~-~~-~hGiTPP-----mknvRkRRFRK 136 (177)
+++||. -.-..-+|..++.=+.=|+-| ||++++.|....| .| -.|+++| |+-|-.|||++
T Consensus 8 ~l~l~~-p~rIE~fDiSh~~G~~~V~sm-Vvf~~g~p~k~~YR~f~i~~~~g~DDya~m~Evl~RR~~r 74 (226)
T 3c65_A 8 RLGIPA-PRRIEAFDNSNIYGADPVSAL-VVFLDGKPAKKEYRKYKVKTVAGPNDYETMREVVRRRYTR 74 (226)
T ss_dssp HHTSCC-CSEEEEEEEEESSSSSCEEEE-EEEETTEECGGGCEEEECCCCCTTCHHHHHHHHHHHHHHH
T ss_pred HhCcCC-CCEEEEEECCccCCcCceEEE-EEEeCCccChhhCceeecCCCCCCcHHHHHHHHHHHHHhh
Confidence 455654 333334688889889999998 6666666654433 12 2356654 77888888875
No 7
>3aiz_C DNA polymerase sliding clamp C; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_A*
Probab=24.79 E-value=1.2e+02 Score=23.58 Aligned_cols=49 Identities=14% Similarity=0.143 Sum_probs=32.9
Q ss_pred eeEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC---eecceeecc
Q 030427 22 QFILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN---DHFPVSLMD 77 (177)
Q Consensus 22 qfILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~---~~y~a~LvD 77 (177)
..+++++ ...|.++++... .++.+.|.+. ++.+..|.+++ ..|..+|+|
T Consensus 64 ~i~~~~~---l~~l~kiL~~~~---~~~~v~i~~~-~~~~l~~~~~~~~~~~~~~rlid 115 (246)
T 3aiz_C 64 EEKVGVK---LEDFTDVLKTVT---KNDSLYLETD-ENQNIKVTLDGVYERTFTFPSIV 115 (246)
T ss_dssp CEEEEEE---HHHHHHHHTTCC---TTCEEEEEEC-SSSCEEEEEESSSEEEEEECCCC
T ss_pred CeEEEEE---HHHHHHHHhhCC---CCCEEEEEEC-CCCeEEEEEecCcEEEEEEEccc
Confidence 3455555 556667776322 1345788873 44689999998 888888887
No 8
>3aiz_A DNA polymerase sliding clamp B; protein-protein complex, replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB: 3aix_B*
Probab=22.61 E-value=1.4e+02 Score=23.22 Aligned_cols=50 Identities=8% Similarity=0.164 Sum_probs=33.7
Q ss_pred eeEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC------eecceeeccC
Q 030427 22 QFILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN------DHFPVSLMDL 78 (177)
Q Consensus 22 qfILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~------~~y~a~LvDL 78 (177)
..++++| ...+.++++.. + ++.+.|.+..++.+..|.+++ ..|..+|+|-
T Consensus 65 ~i~~~~~---l~~l~kil~~~--~--~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~~~rlidg 120 (248)
T 3aiz_A 65 PLGIKIN---INDLKKILGKA--K--SKSATVTLEETEAGLKVTVRDEKTGTRSNIYIKGEKT 120 (248)
T ss_dssp CEEEEEE---HHHHHHHHHTC--S--STTCEEEEEECSSEEEEEEEETTTTEEEEEEEECEEE
T ss_pred CeEEEEE---HHHHHHHHhhc--C--CCEEEEEEeCCCCeEEEEEEeCCCCEEEEEEEEcccc
Confidence 3566666 44455556532 1 235888887666888999988 8888888874
No 9
>3ite_A SIDN siderophore synthetase; ligase, non-ribosomal peptide synthesis, NRPS, sidna3, fungal, endophyte; HET: MSE; 2.00A {Neotyphodium lolii}
Probab=21.16 E-value=60 Score=28.24 Aligned_cols=41 Identities=22% Similarity=0.330 Sum_probs=21.4
Q ss_pred eEEEEECCeecceeeccCCeeeeeeeeccCcceEEeecccee
Q 030427 61 SGTFVIGNDHFPVSLMDLPCVVESFKTYDDCALVKTADIGQM 102 (177)
Q Consensus 61 ~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~k~~yKtaDIsQM 102 (177)
.|.+.+.|.....--++-|--.. ....|...||+|||++.+
T Consensus 374 ~GEl~v~g~~v~~GY~~~p~~t~-~~~~~g~~w~~TGDlg~~ 414 (562)
T 3ite_A 374 AGELVIEGSLVANGYLNRPDAKG-FCDINGRKMYRTGDIVRM 414 (562)
T ss_dssp CEEEEEESTTSCCEESSCTTCCS-EEEETTEEEEEEEEEEEE
T ss_pred ceEEEEeccccchhhCCCccccc-cccCCCCEEEecCCEEEE
Confidence 35666655332222223332221 112455569999999887
No 10
>2d1s_A Luciferase, luciferin 4-monooxygenase; alpha/beta, beta barrel, alpha+beta, riken structural genomics/proteomics initiative, RSGI; HET: SLU; 1.30A {Luciola cruciata} PDB: 2d1q_A* 2d1r_A* 2d1t_A*
Probab=20.21 E-value=48 Score=29.03 Aligned_cols=16 Identities=31% Similarity=0.439 Sum_probs=12.8
Q ss_pred eccCcceEEeecccee
Q 030427 87 TYDDCALVKTADIGQM 102 (177)
Q Consensus 87 T~D~k~~yKtaDIsQM 102 (177)
.++...||+|||++.+
T Consensus 413 ~f~~~g~~~TGDl~~~ 428 (548)
T 2d1s_A 413 LIDEEGWLHTGDIGYY 428 (548)
T ss_dssp HBCTTSCEEEEEEEEE
T ss_pred cccCCcEEEccCEEEE
Confidence 4556679999999876
No 11
>3g7s_A Long-chain-fatty-acid--COA ligase (FADD-1); protein structure initiative, PSI-II, NYSGXRC, 11193J, structural genomics; 2.15A {Archaeoglobus fulgidus dsm 4304}
Probab=20.14 E-value=51 Score=28.75 Aligned_cols=12 Identities=25% Similarity=0.542 Sum_probs=10.0
Q ss_pred cceEEeecccee
Q 030427 91 CALVKTADIGQM 102 (177)
Q Consensus 91 k~~yKtaDIsQM 102 (177)
..||+|||++.+
T Consensus 415 ~~~~~TGDl~~~ 426 (549)
T 3g7s_A 415 RKFFRTGDVGFI 426 (549)
T ss_dssp CEEEEEEEEEEE
T ss_pred CceEccCcEEEE
Confidence 349999999876
Done!