Query psy5894
Match_columns 233
No_of_seqs 96 out of 98
Neff 3.4
Searched_HMMs 29240
Date Fri Aug 16 21:00:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5894.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5894hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3enb_A PRE-mRNA-processing-spl 49.8 9.4 0.00032 33.6 2.7 47 50-101 11-58 (222)
2 3sbt_A PRE-mRNA-splicing facto 45.4 7.1 0.00024 35.1 1.3 47 50-101 19-66 (260)
3 3nrf_A APAG protein; structura 45.0 47 0.0016 26.2 5.8 53 46-102 16-70 (106)
4 2ffg_A YKUJ; structural genomi 44.5 22 0.00074 27.3 3.7 19 79-97 35-53 (87)
5 3e9l_A PRE-mRNA-processing-spl 43.7 13 0.00043 33.4 2.6 47 50-101 20-67 (257)
6 3sbg_A PRE-mRNA-splicing facto 29.1 25 0.00086 34.6 2.3 48 49-101 18-66 (565)
7 4f27_A Clumping factor B; DEV- 25.5 2.1E+02 0.0073 24.5 7.4 30 25-63 55-84 (363)
8 1ll8_A PAS kinase; PAS domain, 21.5 83 0.0028 20.8 3.2 20 75-94 4-23 (114)
9 3ffv_A Protein SYD; membrane, 21.3 1E+02 0.0034 26.1 4.3 35 64-100 127-161 (181)
10 3d33_A Domain of unknown funct 20.7 1E+02 0.0034 23.8 3.9 60 39-99 33-96 (108)
No 1
>3enb_A PRE-mRNA-processing-splicing factor 8; PRP8 domain IV, beta finger, RNAse H, spliceosome, U5-220K, mutation, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: c.55.3.14 PDB: 3lru_A
Probab=49.77 E-value=9.4 Score=33.59 Aligned_cols=47 Identities=21% Similarity=0.394 Sum_probs=33.7
Q ss_pred EecCCccEEEEeCCCCceeeEEecCCCCc-cceEEEEeCCCCcEEEeeeecce
Q psy5894 50 DVGESNQVTVTVPHGSRETVFKGSHKPYQ-KECVLIIDNVTGEITLEKLSNNI 101 (233)
Q Consensus 50 ~vg~~nqVTVtlPng~p~tvFkGs~kp~k-kECVLIfD~~TGeftLEKLsS~i 101 (233)
=|+..|-+.|+++ ..|+|+..... --||+|||+.||..-|--++.++
T Consensus 11 fvDDtnvYrvt~h-----~T~eGn~~tkpiNG~ifIfnP~TGqLflKiihtsv 58 (222)
T 3enb_A 11 FVDDTNVYRVTIH-----KTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHTSV 58 (222)
T ss_dssp EEECTTSSEEEEE-----ECTTSCEEEEEECEEEEEECTTTCEEEEEEECGGG
T ss_pred EEeCCcEEEEEEE-----eccCCCceeecccceEEEEeCCCCcEEEEEEEehh
Confidence 4555555666665 55667665432 38999999999999998888764
No 2
>3sbt_A PRE-mRNA-splicing factor 8; rnaseh like domain, VHS like domain, U5 snRNP assembly; 1.80A {Saccharomyces cerevisiae} SCOP: c.55.3.14 PDB: 3e66_A 3e9o_A* 3e9p_A
Probab=45.40 E-value=7.1 Score=35.05 Aligned_cols=47 Identities=23% Similarity=0.443 Sum_probs=33.4
Q ss_pred EecCCccEEEEeCCCCceeeEEecCCCCc-cceEEEEeCCCCcEEEeeeecce
Q psy5894 50 DVGESNQVTVTVPHGSRETVFKGSHKPYQ-KECVLIIDNVTGEITLEKLSNNI 101 (233)
Q Consensus 50 ~vg~~nqVTVtlPng~p~tvFkGs~kp~k-kECVLIfD~~TGeftLEKLsS~i 101 (233)
=|+..+-+.|+++ -.|+|+..... --||+|||+.||..-|--++.++
T Consensus 19 fvDDtnvYrvt~h-----kT~eGn~~tkpiNG~ififnP~TGqLfLKiihtsv 66 (260)
T 3sbt_A 19 FVDDTNVYRVTVH-----KTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSV 66 (260)
T ss_dssp EEECTTTSEEEEE-----ECTTSCEEEEEECEEEEEECTTTCEEEEEEECGGG
T ss_pred EEeCCcEEEEEEE-----eccCCCceeccccceEEEEeCCCCcEEEEEEehhh
Confidence 4455555556665 55667666432 48999999999999998888653
No 3
>3nrf_A APAG protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; 1.50A {Pseudomonas aeruginosa} PDB: 3sb3_A
Probab=45.02 E-value=47 Score=26.22 Aligned_cols=53 Identities=9% Similarity=0.261 Sum_probs=42.1
Q ss_pred ceeEEecCCccEEEEeCCCCceeeEEecCCCC--ccceEEEEeCCCCcEEEeeeeccee
Q psy5894 46 VAKLDVGESNQVTVTVPHGSRETVFKGSHKPY--QKECVLIIDNVTGEITLEKLSNNIQ 102 (233)
Q Consensus 46 pG~L~vg~~nqVTVtlPng~p~tvFkGs~kp~--kkECVLIfD~~TGeftLEKLsS~i~ 102 (233)
.|.|.++....+|.++- ..|+..+.++- .+=|+--|+.+..+|.|.-++.+++
T Consensus 16 ~GS~s~~~k~~ytktFd----V~vaNl~~~~idLsk~C~~a~~~~gkef~ldTVde~L~ 70 (106)
T 3nrf_A 16 KGSVSVGDKHFRTQAFK----VRLVNAAKSEISLKNSCLVAQSAAGQSFRLDTVDEELT 70 (106)
T ss_dssp EEEEEETTEEEEEEEEE----EEEECCSSSCEECTTCEEEEEETTSCEEEEEEECGGGG
T ss_pred cccEEeCCeeEEEEEEE----EEEecCCCCccccchhhheeeCcCCCEEEecccchhhh
Confidence 58888888777777765 45666666653 4789999999999999999888865
No 4
>2ffg_A YKUJ; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, unknown function; 2.31A {Bacillus subtilis} SCOP: d.317.1.1
Probab=44.53 E-value=22 Score=27.27 Aligned_cols=19 Identities=16% Similarity=0.163 Sum_probs=16.9
Q ss_pred cceEEEEeCCCCcEEEeee
Q psy5894 79 KECVLIIDNVTGEITLEKL 97 (233)
Q Consensus 79 kECVLIfD~~TGeftLEKL 97 (233)
.-|..-||..|++|+||..
T Consensus 35 ~~c~V~y~~~t~~F~L~~~ 53 (87)
T 2ffg_A 35 KICSVKYFEKNQTFELTVF 53 (87)
T ss_dssp EEEEEEEETTTTEEEEEEE
T ss_pred EEEEEEEecCCCeEEEEEe
Confidence 4699999999999999954
No 5
>3e9l_A PRE-mRNA-processing-splicing factor 8; nucleotidyl transfer, disease mutation, MRN splicing, nucleus, phosphoprotein, retinitis pigmentosa; 1.95A {Homo sapiens} SCOP: c.55.3.14
Probab=43.67 E-value=13 Score=33.39 Aligned_cols=47 Identities=21% Similarity=0.394 Sum_probs=33.8
Q ss_pred EecCCccEEEEeCCCCceeeEEecCCCCc-cceEEEEeCCCCcEEEeeeecce
Q psy5894 50 DVGESNQVTVTVPHGSRETVFKGSHKPYQ-KECVLIIDNVTGEITLEKLSNNI 101 (233)
Q Consensus 50 ~vg~~nqVTVtlPng~p~tvFkGs~kp~k-kECVLIfD~~TGeftLEKLsS~i 101 (233)
=|+..|-+.|+++ ..|+|+..... --||+|||+.||..-|--++.++
T Consensus 20 fvDDtnvYrvt~h-----~T~eGn~~tkpiNG~ifIfnP~TGqLflKiihtsv 67 (257)
T 3e9l_A 20 FVDDTNVYRVTIH-----KTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHTSV 67 (257)
T ss_dssp EEECTTSSEEEEE-----ECSSSCEEEEEECEEEEEECTTTCEEEEEEECGGG
T ss_pred EEeCCcEEEEEEE-----eccCCCceeccccceEEEEeCCCCcEEEEEEEhhh
Confidence 4455555556665 56777766433 48999999999999998888654
No 6
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae}
Probab=29.06 E-value=25 Score=34.63 Aligned_cols=48 Identities=25% Similarity=0.461 Sum_probs=34.8
Q ss_pred EEecCCccEEEEeCCCCceeeEEecCCCCc-cceEEEEeCCCCcEEEeeeecce
Q psy5894 49 LDVGESNQVTVTVPHGSRETVFKGSHKPYQ-KECVLIIDNVTGEITLEKLSNNI 101 (233)
Q Consensus 49 L~vg~~nqVTVtlPng~p~tvFkGs~kp~k-kECVLIfD~~TGeftLEKLsS~i 101 (233)
+=|+.-|-+.|+++ -.|+|+..... --||+|||+.||..-|-=++..+
T Consensus 18 ~fvDDtnVYRVtih-----kTfEGN~tTKpiNGaififNP~TGqLfLKiIHtsv 66 (565)
T 3sbg_A 18 LFVDDTNVYRVTVH-----KTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSV 66 (565)
T ss_dssp EEEECTTTSEEEEE-----ECTTSCEEEEEECEEEEEECTTTCEEEEEEECGGG
T ss_pred EEEeCCcEEEEEEE-----eeccCceeeccccceEEEEeCCCCcEEEEEEEehh
Confidence 34455555566665 56778777532 38999999999999998888754
No 7
>4f27_A Clumping factor B; DEV-IGG fold, protein-peptide complex, fibronogen, cell SURF adhesion-blood clotting complex; 1.92A {Staphylococcus aureus} PDB: 4f20_A 4f24_A 4f1z_A 3au0_A 3at0_A 3asw_A
Probab=25.50 E-value=2.1e+02 Score=24.48 Aligned_cols=30 Identities=20% Similarity=0.292 Sum_probs=22.6
Q ss_pred CCCceeeeeeccccCCCCCCCceeEEecCCccEEEEeCC
Q psy5894 25 KGSSFHTLRYDFKPASMDPNEVAKLDVGESNQVTVTVPH 63 (233)
Q Consensus 25 ~~~~FHTLRYDFKPASVD~SkpG~L~vg~~nqVTVtlPn 63 (233)
...+...|+|+|+ |+- .+..|+.++|+||.
T Consensus 55 ~~~~~~~l~~~f~---~~~------~vk~GD~fti~lp~ 84 (363)
T 4f27_A 55 NQSGNTFMAANFK---VTG------QVKSGDYFTAKLPD 84 (363)
T ss_dssp TBTCCEEEEEEEE---ESS------CCCTTCEEEEECCT
T ss_pred CCCceEEEEEEEE---cCC------CCCCCCEEEEEcCC
Confidence 3467788999997 432 25678899999997
No 8
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5
Probab=21.54 E-value=83 Score=20.82 Aligned_cols=20 Identities=25% Similarity=0.420 Sum_probs=14.4
Q ss_pred CCCccceEEEEeCCCCcEEE
Q psy5894 75 KPYQKECVLIIDNVTGEITL 94 (233)
Q Consensus 75 kp~kkECVLIfD~~TGeftL 94 (233)
.....++|+++|.+||.+..
T Consensus 4 ~~~~~~~i~~~d~~~g~I~~ 23 (114)
T 1ll8_A 4 DPEFNKAIFTVDAKTTEILV 23 (114)
T ss_dssp STTTTCEEEEEETTTCBEEE
T ss_pred cCCCCceEEEEECCCCeEEE
Confidence 33445899999988776653
No 9
>3ffv_A Protein SYD; membrane, translocon, secyeg, nanodisc, cell inner membrane, cell membrane, protein binding; 2.00A {Escherichia coli}
Probab=21.30 E-value=1e+02 Score=26.10 Aligned_cols=35 Identities=23% Similarity=0.325 Sum_probs=28.5
Q ss_pred CCceeeEEecCCCCccceEEEEeCCCCcEEEeeeecc
Q psy5894 64 GSRETVFKGSHKPYQKECVLIIDNVTGEITLEKLSNN 100 (233)
Q Consensus 64 g~p~tvFkGs~kp~kkECVLIfD~~TGeftLEKLsS~ 100 (233)
.-+.|+|=|... ..+.|+.+|-.||+.-||.+.+.
T Consensus 127 K~~PT~FIg~td--~e~~lIsv~N~sGeV~LE~~G~~ 161 (181)
T 3ffv_A 127 KLPPTLFIATLE--EELEVISVCNLSGEVCKETLGTR 161 (181)
T ss_dssp TCCCEEEEEECS--STTEEEEEETTTCCEEEEETTSS
T ss_pred CCCCcEEEEEec--CCCcEEEEECCCCeEEEEeCCCC
Confidence 356799999633 35899999999999999998653
No 10
>3d33_A Domain of unknown function with AN immunoglobulin beta-sandwich fold; structural genomics, joint center for structural genomics; HET: MSE; 1.70A {Bacteroides vulgatus atcc 8482}
Probab=20.66 E-value=1e+02 Score=23.78 Aligned_cols=60 Identities=17% Similarity=0.193 Sum_probs=36.4
Q ss_pred CCCCCCCceeEEecC-CccEEEEeCC-CCceeeEEecCCCCc-cceEEEEeCC-CCcEEEeeeec
Q psy5894 39 ASMDPNEVAKLDVGE-SNQVTVTVPH-GSRETVFKGSHKPYQ-KECVLIIDNV-TGEITLEKLSN 99 (233)
Q Consensus 39 ASVD~SkpG~L~vg~-~nqVTVtlPn-g~p~tvFkGs~kp~k-kECVLIfD~~-TGeftLEKLsS 99 (233)
||||-+ -=.|+..+ -.+|||++=+ ....+||+-..-... ..+.+-+|.. +|+|.||=.+.
T Consensus 33 A~id~~-~L~I~F~~~~~~vtItI~~~~tG~iVY~~~v~~~~~~~~~I~L~~~~~G~Y~L~i~~~ 96 (108)
T 3d33_A 33 VFTDGY-LLTLKNASPDRDMTIRITDMAKGGVVYENDIPEVQSAYITISIANFPAEEYKLEITGT 96 (108)
T ss_dssp EEEETT-EEEEEESSCCSEEEEEEEETTTCCEEEEEEECGGGTTEEEEECTTSCSEEEEEEEEEE
T ss_pred EEEECC-EEEEEECCcCCCEEEEEEECCCCcEEEEEeecCCCCcEEEEEcCCccCceEEEEEEeC
Confidence 455532 23344433 2478888884 556789988874333 3445555544 89999987665
Done!