Query psy8244
Match_columns 163
No_of_seqs 115 out of 196
Neff 4.2
Searched_HMMs 29240
Date Fri Aug 16 22:24:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8244.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8244hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ozj_A SMAD 3; MAD homology do 100.0 4E-49 1.4E-53 310.8 4.2 112 11-129 13-137 (144)
2 3qsv_A SMAD4, mothers against 100.0 2.4E-48 8.2E-53 302.7 4.5 109 11-126 13-132 (132)
3 3kmp_A SMAD1-MH1; protein-DNA 100.0 2E-46 6.8E-51 289.1 4.3 107 11-124 7-124 (124)
4 3gmj_D Protein mothers against 93.4 0.029 1E-06 47.2 1.9 18 140-157 46-63 (245)
5 1dd1_A SMAD4; B-sheet sandwich 90.8 0.084 2.9E-06 44.9 1.7 18 140-157 34-51 (268)
6 3ph2_B Cytochrome C6; photosyn 40.9 0.96 3.3E-05 29.1 -3.8 46 6-51 9-54 (86)
7 1c75_A Cytochrome C-553; heme, 37.1 5.4 0.00018 25.0 -0.6 15 6-20 5-19 (71)
8 2o6n_A RH4B designed peptide; 32.1 53 0.0018 19.6 3.3 28 22-49 3-30 (35)
9 2l69_A Rossmann 2X3 fold prote 30.7 54 0.0018 24.5 3.9 33 21-54 59-102 (134)
10 2blf_B SORB, sulfite\:cytochro 27.7 14 0.00049 24.6 0.3 14 6-19 23-36 (81)
11 1f1f_A Cytochrome C6; heme, pr 25.8 4.4 0.00015 26.0 -2.6 46 6-51 8-57 (89)
12 2rnn_A E3 SUMO-protein ligase 21.5 94 0.0032 23.1 3.8 34 18-51 76-113 (114)
No 1
>1ozj_A SMAD 3; MAD homology domain 1, DNA recognition, TGF-beta signaling, zinc-binding module, transcription/DNA complex; 2.40A {Homo sapiens} SCOP: d.164.1.1 PDB: 1mhd_A*
Probab=100.00 E-value=4e-49 Score=310.81 Aligned_cols=112 Identities=28% Similarity=0.511 Sum_probs=98.9
Q ss_pred ceeeeeecCC---CchhHHHHHHHHHHHHhch-hcHHHHHHHHHcCCCCCCCceEecCC-C--C------CCceeeeeee
Q psy8244 11 SCYCCAKTLD---EVPYYESLLRHTLIKRLKD-SELETLVEAIESHGTNMSPCILLPSH-L--L------PNAHFLCCQL 77 (163)
Q Consensus 11 ~~~~~~~~g~---~~e~~a~kav~sLvKkLKk-~~Le~L~~AVes~G~~~s~CVtiprs-d--l------g~PHViyCRL 77 (163)
+.++|||+|+ +||+|++||++||+||||+ ++||+|++||+|+|. +|+||+|||+ | + ++||||||||
T Consensus 13 ~~ll~~~~~~~~~~~e~~~~kai~sLvKkLK~~~~Le~L~~AV~s~g~-~t~CV~iprsldgRlqv~~rk~~PHVi~cRl 91 (144)
T 1ozj_A 13 KRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV-NTKCITIPRSLDGRLQVSHRKGLPHVIYCRL 91 (144)
T ss_dssp HHHHTSCCCSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHCCT-TSCCCEEECCTTSCEEETTEEECHHHHHHHH
T ss_pred HHHHhhhccCCCcchHHHHHHHHHHHHHHhcccccHHHHHHHHhCCCC-CCCeEEcccCCCccccccCccCCCeeEEEEe
Confidence 4678999555 9999999999999999999 799999999999987 7999999997 4 2 8999999999
Q ss_pred ecCCCCCCccccccCCCCCCCCCCCCCCCCCCcceeeCCCccceeeccccCC
Q psy8244 78 WRWPDVSEPYELKKLPNCDSYECSDPSPSSSDLYICCNPYHWSRRCKSVSEE 129 (163)
Q Consensus 78 wRWPDLq~~~ELK~L~~C~~~~~~~~~~~~~~~~VCcNPYHYsRv~~p~~PP 129 (163)
|||||||+++|||++++|+|++..+.+ +||||||||+|++.|++||
T Consensus 92 wRWPDL~~~~ELk~l~~C~~~~~~~~~------~VC~NPYHY~Rv~~p~~pP 137 (144)
T 1ozj_A 92 WRWPDLHSHHELRAMELCEFAFNMKKD------EVCVNPYHYQRVETPVLPP 137 (144)
T ss_dssp HTCTTCCSGGGEEECTTCTTCGGGCCS------EEECCGGGEEECCC-----
T ss_pred eeCccCCCHhhccccccCCCchhcCCC------eEEeCcchhhhhccCCCCC
Confidence 999999999999999999997777666 8999999999999998865
No 2
>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1, transcription factor, DNA binding; HET: DNA; 2.71A {Mus musculus}
Probab=100.00 E-value=2.4e-48 Score=302.66 Aligned_cols=109 Identities=29% Similarity=0.583 Sum_probs=100.0
Q ss_pred ceeeeeecCCCchhHHHHHHHHHHHHhchh--cHHHHHHHHHcCCCCCCCceEecCC-C--C------CCceeeeeeeec
Q psy8244 11 SCYCCAKTLDEVPYYESLLRHTLIKRLKDS--ELETLVEAIESHGTNMSPCILLPSH-L--L------PNAHFLCCQLWR 79 (163)
Q Consensus 11 ~~~~~~~~g~~~e~~a~kav~sLvKkLKk~--~Le~L~~AVes~G~~~s~CVtiprs-d--l------g~PHViyCRLwR 79 (163)
.|+++||||+++|+|+++|+++||||||++ +||+|++||+|+|+.+|+||+|||+ | + ++||||||||||
T Consensus 13 ~~Ll~~k~g~e~ek~~~ka~~sLvKkLK~k~~~Le~L~~Av~s~g~~~s~CV~ipr~ldgrlqv~~rk~~PHvi~cRlwR 92 (132)
T 3qsv_A 13 HSLMCHRQGGESETFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARLWR 92 (132)
T ss_dssp HHHHTTCCCSSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTTSSCCCCCEEECCTTSCEEETTEEECHHHHHHHHHT
T ss_pred hhhhccccCchhHHHHHHHHHHHHHHHhcccchHHHHHHHHhCCCCCCCCeEEeeccccccccccccccCcceeEEEEec
Confidence 588999999999999999999999999986 7999999999999999999999998 4 2 799999999999
Q ss_pred CCCCCCccccccCCCCCCCCCCCCCCCCCCcceeeCCCccceeeccc
Q psy8244 80 WPDVSEPYELKKLPNCDSYECSDPSPSSSDLYICCNPYHWSRRCKSV 126 (163)
Q Consensus 80 WPDLq~~~ELK~L~~C~~~~~~~~~~~~~~~~VCcNPYHYsRv~~p~ 126 (163)
||||++ +|||++++|+++|..+.+ +||||||||+||+.|.
T Consensus 93 WPdL~s-~ELk~l~~C~~~~~~~~~------~VC~NPyHY~Rv~~p~ 132 (132)
T 3qsv_A 93 WPDLHK-NELKHVKYCQYAFDLKCD------SVCVNPYHYERVVSPG 132 (132)
T ss_dssp CTTCCT-TCEEECTTCTTCGGGCCS------EEECCGGGEEECCC--
T ss_pred CCccCH-hhcccCCCCCCCccCCCC------eEEeCCcCcccccCCC
Confidence 999965 999999999998777766 9999999999999873
No 3
>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta hairpin, nucleus, transcription; 2.70A {Mus musculus} SCOP: d.164.1.1
Probab=100.00 E-value=2e-46 Score=289.12 Aligned_cols=107 Identities=31% Similarity=0.532 Sum_probs=98.3
Q ss_pred ceeeeeecCCCchhHHHHHHHHHHHHhch--hcHHHHHHHHHcCCCCCCCceEecCC-C--C------CCceeeeeeeec
Q psy8244 11 SCYCCAKTLDEVPYYESLLRHTLIKRLKD--SELETLVEAIESHGTNMSPCILLPSH-L--L------PNAHFLCCQLWR 79 (163)
Q Consensus 11 ~~~~~~~~g~~~e~~a~kav~sLvKkLKk--~~Le~L~~AVes~G~~~s~CVtiprs-d--l------g~PHViyCRLwR 79 (163)
+.+++|||||+||+|++||++||+||||+ ++||+|++||+++ +.+|+||+|||+ | + ++||||||||||
T Consensus 7 ~~ll~~~~~~~~~~~~~kav~sL~KklK~~~~~Le~L~~Av~~~-~~~s~CV~ipr~ldgrlqv~~~k~~Phvi~crl~R 85 (124)
T 3kmp_A 7 KRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSCP-GQPSNCVTIPRSLDGRLQVSHRKGLPHVIYCRVWR 85 (124)
T ss_dssp HHHHHTCCCCHHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHCT-TSCCCCCEEECCSSSCEEETTEEECHHHHHHHHHT
T ss_pred hHHhhhhcCCchhhHHHHHHHHHHHHHHhccchHHHHHHHHhCC-CCCCCeEEeccccccccccCCcccCceeeEEEeec
Confidence 45789999999999999999999999999 8999999999975 679999999997 4 2 799999999999
Q ss_pred CCCCCCccccccCCCCCCCCCCCCCCCCCCcceeeCCCccceeec
Q psy8244 80 WPDVSEPYELKKLPNCDSYECSDPSPSSSDLYICCNPYHWSRRCK 124 (163)
Q Consensus 80 WPDLq~~~ELK~L~~C~~~~~~~~~~~~~~~~VCcNPYHYsRv~~ 124 (163)
||||||++|||++++|++++..+.+ .||||||||+||+.
T Consensus 86 WpdL~~~~eLk~l~~C~~~~~~~~~------~VC~NPyHY~Rve~ 124 (124)
T 3kmp_A 86 WPDLQSHHELKPLECCEFPFGSKQK------EVCINPYHYKRVES 124 (124)
T ss_dssp CTTCCCGGGEEECTTCSSCGGGCCS------EEECCGGGEEECCC
T ss_pred CCcCCCHHHcccCCCCCCCccCCCC------eEEeCCccchhhcC
Confidence 9999999999999999997776666 99999999999873
No 4
>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental protein, nucleus, phosphoprotein, transcription; 2.80A {Drosophila melanogaster}
Probab=93.39 E-value=0.029 Score=47.17 Aligned_cols=18 Identities=6% Similarity=0.087 Sum_probs=16.1
Q ss_pred cccceeeeeeeeeeceEE
Q psy8244 140 ECGRRFCGLWKWDLGIVI 157 (163)
Q Consensus 140 ~~~~~~c~~~~~~~~~~~ 157 (163)
+++.+||+++||||+.++
T Consensus 46 ~ep~~WcsIaYyEln~RV 63 (245)
T 3gmj_D 46 SEPAFWASIAYYELNCRV 63 (245)
T ss_dssp -CCSCSEEEEEEETTEEE
T ss_pred cCCCceeEEEEeecCcee
Confidence 789999999999999987
No 5
>1dd1_A SMAD4; B-sheet sandwich helix-turn-helix, signaling protein; 2.62A {Homo sapiens} SCOP: b.26.1.1 PDB: 1g88_A
Probab=90.78 E-value=0.084 Score=44.92 Aligned_cols=18 Identities=6% Similarity=0.436 Sum_probs=15.6
Q ss_pred cccceeeeeeeeeeceEE
Q psy8244 140 ECGRRFCGLWKWDLGIVI 157 (163)
Q Consensus 140 ~~~~~~c~~~~~~~~~~~ 157 (163)
.++..||+|+||||+.+|
T Consensus 34 ~~~~~WCsIaYyEln~rV 51 (268)
T 1dd1_A 34 PAPEYWCSIAYFEMDVQV 51 (268)
T ss_dssp CCCSEEEEEEEEETTEEC
T ss_pred CCCCceEEEEEEecCcee
Confidence 467799999999999875
No 6
>3ph2_B Cytochrome C6; photosynthesis, cytochrome F, photosys thylakoid; HET: HEM; 1.40A {Phormidium laminosum} SCOP: a.3.1.1 PDB: 2v08_A* 1c6s_A*
Probab=40.85 E-value=0.96 Score=29.06 Aligned_cols=46 Identities=9% Similarity=0.204 Sum_probs=23.1
Q ss_pred CCCCCceeeeeecCCCchhHHHHHHHHHHHHhchhcHHHHHHHHHc
Q psy8244 6 DTPENSCYCCAKTLDEVPYYESLLRHTLIKRLKDSELETLVEAIES 51 (163)
Q Consensus 6 ~~~~~~~~~~~~~g~~~e~~a~kav~sLvKkLKk~~Le~L~~AVes 51 (163)
.+|+.+|..||..++....-.-.....-++......++.|...+..
T Consensus 9 ~l~~~~C~~CHg~~~~~~~~~p~l~~~~~~~~~~~~~~~~~~~i~~ 54 (86)
T 3ph2_B 9 KVFSANCAACHAGGINLVNAEKTLKKEALEKFGMNSIVAITTVVTN 54 (86)
T ss_dssp HHHHHHTHHHHCSSSCTTCSSSSCCHHHHHHTTCCSHHHHHHHHHH
T ss_pred HHHHHHhHHhCCCCCCCCCCCCccChhhHHhccCCCHHHHHHHHHh
Confidence 3567789999986543221111111112222233456667766665
No 7
>1c75_A Cytochrome C-553; heme, bacillus pasteurii, AB initio, ATOM resolution, electron transport; HET: HEM; 0.97A {Sporosarcina pasteurii} SCOP: a.3.1.1 PDB: 1b7v_A* 1k3g_A* 1k3h_A* 1n9c_A*
Probab=37.11 E-value=5.4 Score=25.05 Aligned_cols=15 Identities=13% Similarity=0.264 Sum_probs=11.0
Q ss_pred CCCCCceeeeeecCC
Q psy8244 6 DTPENSCYCCAKTLD 20 (163)
Q Consensus 6 ~~~~~~~~~~~~~g~ 20 (163)
.+|.++|..||...+
T Consensus 5 ~l~~~~C~~CHg~~g 19 (71)
T 1c75_A 5 AVVQQKCISCHGGDL 19 (71)
T ss_dssp HHHHHHTHHHHCTTS
T ss_pred HHHHHHHHHHcCCCC
Confidence 456788999996643
No 8
>2o6n_A RH4B designed peptide; right-handed, tetramer, de novo protein; HET: CGU; 1.10A {Synthetic} SCOP: k.17.1.1 PDB: 1tgg_A*
Probab=32.10 E-value=53 Score=19.58 Aligned_cols=28 Identities=25% Similarity=0.090 Sum_probs=22.5
Q ss_pred chhHHHHHHHHHHHHhchhcHHHHHHHH
Q psy8244 22 VPYYESLLRHTLIKRLKDSELETLVEAI 49 (163)
Q Consensus 22 ~e~~a~kav~sLvKkLKk~~Le~L~~AV 49 (163)
+.+-++|-+--|+||.|+.-||++-+|-
T Consensus 3 eieqakkeiaylikkakeeileeikkak 30 (35)
T 2o6n_A 3 EIEQAKKEIAYLIKKAKEEILEEIKKAK 30 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4457888999999999998888876653
No 9
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=30.68 E-value=54 Score=24.50 Aligned_cols=33 Identities=15% Similarity=0.253 Sum_probs=24.6
Q ss_pred CchhHHHHHHHHHHHHhch-----------hcHHHHHHHHHcCCC
Q psy8244 21 EVPYYESLLRHTLIKRLKD-----------SELETLVEAIESHGT 54 (163)
Q Consensus 21 ~~e~~a~kav~sLvKkLKk-----------~~Le~L~~AVes~G~ 54 (163)
++.+||+||+. ++|.|-. +.||++-+.|..+|-
T Consensus 59 ddkewaekair-fvkslgaqvliiiydqdqnrleefsrevrrrgf 102 (134)
T 2l69_A 59 DDKEWAEKAIR-FVKSLGAQVLIIIYDQDQNRLEEFSREVRRRGF 102 (134)
T ss_dssp SSHHHHHHHHH-HHHHHCCCCEEEEECSCHHHHHHHHHHHHHTTC
T ss_pred ccHHHHHHHHH-HHHhcCCeEEEEEEeCchhHHHHHHHHHHhcCc
Confidence 46789999996 5666541 359999999998763
No 10
>2blf_B SORB, sulfite\:cytochrome C oxidoreductase subunit B; sulfite oxidase, molybdopterin, C-type cytochrome, heme, electron transport; HET: MSS HEC; 1.8A {Starkeya novella} PDB: 2bpb_B* 2c9x_B* 2ca3_B* 2ca4_B*
Probab=27.75 E-value=14 Score=24.60 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=10.8
Q ss_pred CCCCCceeeeeecC
Q psy8244 6 DTPENSCYCCAKTL 19 (163)
Q Consensus 6 ~~~~~~~~~~~~~g 19 (163)
++|++.|..||..+
T Consensus 23 ~l~~~~C~~CH~~~ 36 (81)
T 2blf_B 23 EAAQNNCAACHSVD 36 (81)
T ss_dssp HHHHHHTTSSSCTH
T ss_pred HHHHHHHHHhcCCc
Confidence 45678999999754
No 11
>1f1f_A Cytochrome C6; heme, protein structure, cyanobacteria, photosynthesis, electron transport; HET: HEM; 2.70A {Arthrospira maxima} SCOP: a.3.1.1 PDB: 1kib_A*
Probab=25.79 E-value=4.4 Score=26.04 Aligned_cols=46 Identities=11% Similarity=0.161 Sum_probs=23.6
Q ss_pred CCCCCceeeeeecCCCc----hhHHHHHHHHHHHHhchhcHHHHHHHHHc
Q psy8244 6 DTPENSCYCCAKTLDEV----PYYESLLRHTLIKRLKDSELETLVEAIES 51 (163)
Q Consensus 6 ~~~~~~~~~~~~~g~~~----e~~a~kav~sLvKkLKk~~Le~L~~AVes 51 (163)
.+|+.+|..||..++.. .......+...++.++....+.|...+..
T Consensus 8 ~l~~~~C~~CHg~~g~g~~~~P~L~~~~~~~~l~~~~~~~~~~l~~~i~~ 57 (89)
T 1f1f_A 8 SVFSANCAACHMGGRNVIVANKTLSKSDLAKYLKGFDDDAVAAVAYQVTN 57 (89)
T ss_dssp HHHHHHTHHHHGGGCCSSSTTCCSSHHHHHHHSTTTTTCHHHHHHHHHHH
T ss_pred HHHHHHhHHhCCCCCCCCcCCCCCCHHHHHHHhhccCccCHHHHHHHHHc
Confidence 35667899999765432 22221112222223333346777777765
No 12
>2rnn_A E3 SUMO-protein ligase SIZ1; SUMO ligase, DNA binding, sumoylation, metal-binding, nucLeu phosphoprotein, UBL conjugation pathway; NMR {Saccharomyces cerevisiae}
Probab=21.52 E-value=94 Score=23.11 Aligned_cols=34 Identities=18% Similarity=0.268 Sum_probs=28.2
Q ss_pred cCCCchhHHHHHHHHHHHHhchh----cHHHHHHHHHc
Q psy8244 18 TLDEVPYYESLLRHTLIKRLKDS----ELETLVEAIES 51 (163)
Q Consensus 18 ~g~~~e~~a~kav~sLvKkLKk~----~Le~L~~AVes 51 (163)
.++..+.|.-+|+..|+.+-..+ ..++|..|+.+
T Consensus 76 ~~g~~D~~rl~ai~~lI~~~~~g~plP~~~~l~~alrt 113 (114)
T 2rnn_A 76 VVGKSDPYRVQAVKFLIERIRKNEPLPVYKDLWNALRK 113 (114)
T ss_dssp CTTCCCHHHHHHHHHHHHHHHHTCCCCCHHHHHHHHHH
T ss_pred ccCCCCHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhc
Confidence 45567789999999999998874 48999999986
Done!