Query psy12031
Match_columns 128
No_of_seqs 25 out of 27
Neff 2.1
Searched_HMMs 29240
Date Fri Aug 16 16:53:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12031.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12031hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3qsv_A SMAD4, mothers against 96.5 0.004 1.4E-07 46.4 5.3 91 11-111 25-126 (132)
2 3kmp_A SMAD1-MH1; protein-DNA 96.4 0.0059 2E-07 44.8 5.7 89 11-111 19-120 (124)
3 1ozj_A SMAD 3; MAD homology do 96.3 0.0036 1.2E-07 47.4 4.0 87 12-114 29-131 (144)
4 1a73_A Intron 3 (I-PPO) encode 75.4 0.8 2.7E-05 35.6 0.8 51 62-117 68-118 (163)
5 3pt3_A E3 ubiquitin-protein li 37.7 26 0.00088 24.7 3.0 58 23-108 38-96 (118)
6 1d0q_A DNA primase; zinc-bindi 33.7 6.7 0.00023 26.2 -0.6 38 70-108 16-55 (103)
7 3bbo_1 Ribosomal protein L31; 28.5 20 0.0007 27.1 1.2 49 19-67 47-108 (144)
8 2kcp_A 30S ribosomal protein S 27.9 18 0.00061 25.8 0.8 13 44-56 71-83 (98)
9 2elv_A Zinc finger protein 406 21.4 40 0.0014 16.3 1.2 16 85-100 2-17 (36)
10 2jtt_C Calcyclin-binding prote 21.0 76 0.0026 18.7 2.5 26 15-40 9-34 (35)
No 1
>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1, transcription factor, DNA binding; HET: DNA; 2.71A {Mus musculus}
Probab=96.50 E-value=0.004 Score=46.38 Aligned_cols=91 Identities=22% Similarity=0.469 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHhhhcCh--hhHhhhHhhhcCC--CCCeeEeeCCCCCCccc--ccccccc--cCeeeehheeeeehhccc
Q psy12031 11 QKWASRLLGKLRKDITQ--ECREDFVLSITGK--KPAMCVLSNPDQKGKMR--RIDCLRQ--ADKVWRLDLVMVILFKAI 82 (128)
Q Consensus 11 ~kWasrLL~KLrKDI~~--e~re~Fv~~itg~--~~~~CvlSnpDqKGKmR--RIDclrQ--aDKVWRLDlVmviLfkgi 82 (128)
.||+.+...-|-|.+.. ..-|+..++|+.+ .+..||.--....|+++ .-.++-+ .=++||- =
T Consensus 25 ek~~~ka~~sLvKkLK~k~~~Le~L~~Av~s~g~~~s~CV~ipr~ldgrlqv~~rk~~PHvi~cRlwRW----------P 94 (132)
T 3qsv_A 25 ETFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARLWRW----------P 94 (132)
T ss_dssp HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTTSSCCCCCEEECCTTSCEEETTEEECHHHHHHHHHTC----------T
T ss_pred HHHHHHHHHHHHHHHhcccchHHHHHHHHhCCCCCCCCeEEeeccccccccccccccCcceeEEEEecC----------C
Confidence 37766654444444443 3688999999865 47889986545555542 1111111 1133442 2
Q ss_pred ccccCcccccccCCCC---CCCcccccCeeeE
Q psy12031 83 PLESTDGERLEKAPEC---AHPSLCVNPYHIN 111 (128)
Q Consensus 83 PLESTDgeRl~k~~~C---~~p~LCV~P~Hi~ 111 (128)
.|.|..=++|.-|... .....||||||.+
T Consensus 95 dL~s~ELk~l~~C~~~~~~~~~~VC~NPyHY~ 126 (132)
T 3qsv_A 95 DLHKNELKHVKYCQYAFDLKCDSVCVNPYHYE 126 (132)
T ss_dssp TCCTTCEEECTTCTTCGGGCCSEEECCGGGEE
T ss_pred ccCHhhcccCCCCCCCccCCCCeEEeCCcCcc
Confidence 3555444556655544 2246999999987
No 2
>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=96.41 E-value=0.0059 Score=44.85 Aligned_cols=89 Identities=27% Similarity=0.496 Sum_probs=47.1
Q ss_pred HHHHHH----HHHHHhhhcChhhHhhhHhhhcCCCC-CeeEeeCCCCCCccc--ccccccc--cCeeeehheeeeehhcc
Q psy12031 11 QKWASR----LLGKLRKDITQECREDFVLSITGKKP-AMCVLSNPDQKGKMR--RIDCLRQ--ADKVWRLDLVMVILFKA 81 (128)
Q Consensus 11 ~kWasr----LL~KLrKDI~~e~re~Fv~~itg~~~-~~CvlSnpDqKGKmR--RIDclrQ--aDKVWRLDlVmviLfkg 81 (128)
.+||.+ |++||+| +...-|.+..+|+...+ ..||.--....|++. .--++-+ .=++||-.
T Consensus 19 ~~~~~kav~sL~KklK~--~~~~Le~L~~Av~~~~~~s~CV~ipr~ldgrlqv~~~k~~Phvi~crl~RWp--------- 87 (124)
T 3kmp_A 19 EKWAEKAVDALVKKLKK--KKGAMEELEKALSCPGQPSNCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWP--------- 87 (124)
T ss_dssp HHHHHHHHHHHHHHHTT--STTHHHHHHHHHHCTTSCCCCCEEECCSSSCEEETTEEECHHHHHHHHHTCT---------
T ss_pred hhHHHHHHHHHHHHHHh--ccchHHHHHHHHhCCCCCCCeEEeccccccccccCCcccCceeeEEEeecCC---------
Confidence 377665 5556554 34788889998875533 457765444556553 0001110 11344432
Q ss_pred ccccc-CcccccccCCCCC---CCcccccCeeeE
Q psy12031 82 IPLES-TDGERLEKAPECA---HPSLCVNPYHIN 111 (128)
Q Consensus 82 iPLES-TDgeRl~k~~~C~---~p~LCV~P~Hi~ 111 (128)
.|.+ ..=.+|..|..-. ....|+||||.+
T Consensus 88 -dL~~~~eLk~l~~C~~~~~~~~~~VC~NPyHY~ 120 (124)
T 3kmp_A 88 -DLQSHHELKPLECCEFPFGSKQKEVCINPYHYK 120 (124)
T ss_dssp -TCCCGGGEEECTTCSSCGGGCCSEEECCGGGEE
T ss_pred -cCCCHHHcccCCCCCCCccCCCCeEEeCCccch
Confidence 2222 2224554443321 346899999987
No 3
>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=96.28 E-value=0.0036 Score=47.35 Aligned_cols=87 Identities=26% Similarity=0.524 Sum_probs=49.4
Q ss_pred HHHH----HHHHHHhhhcChhhHhhhHhhhcCCC-CCeeEeeCCCCCCcccccc---cccc--cCeeeehheeeeehhcc
Q psy12031 12 KWAS----RLLGKLRKDITQECREDFVLSITGKK-PAMCVLSNPDQKGKMRRID---CLRQ--ADKVWRLDLVMVILFKA 81 (128)
Q Consensus 12 kWas----rLL~KLrKDI~~e~re~Fv~~itg~~-~~~CvlSnpDqKGKmRRID---clrQ--aDKVWRLDlVmviLfkg 81 (128)
+|+. .|++||+| ...-|.+..+|+-+. +..||.---...|++ +++ ++-+ .=++||-.=
T Consensus 29 ~~~~kai~sLvKkLK~---~~~Le~L~~AV~s~g~~t~CV~iprsldgRl-qv~~rk~~PHVi~cRlwRWPD-------- 96 (144)
T 1ozj_A 29 KWCEKAVKSLVKKLKK---TGQLDELEKAITTQNVNTKCITIPRSLDGRL-QVSHRKGLPHVIYCRLWRWPD-------- 96 (144)
T ss_dssp HHHHHHHHHHHHHHHH---TTCHHHHHHHHHHCCTTSCCCEEECCTTSCE-EETTEEECHHHHHHHHHTCTT--------
T ss_pred HHHHHHHHHHHHHhcc---cccHHHHHHHHhCCCCCCCeEEcccCCCccc-cccCccCCCeeEEEEeeeCcc--------
Confidence 5655 56777766 367888988887432 456765544666776 121 1110 115566521
Q ss_pred cccccCcccccccCCCCC------CCcccccCeeeEEEe
Q psy12031 82 IPLESTDGERLEKAPECA------HPSLCVNPYHINVSV 114 (128)
Q Consensus 82 iPLESTDgeRl~k~~~C~------~p~LCV~P~Hi~v~v 114 (128)
|.| +..|-.-+.|. +...|+||||.+-..
T Consensus 97 --L~~--~~ELk~l~~C~~~~~~~~~~VC~NPYHY~Rv~ 131 (144)
T 1ozj_A 97 --LHS--HHELRAMELCEFAFNMKKDEVCVNPYHYQRVE 131 (144)
T ss_dssp --CCS--GGGEEECTTCTTCGGGCCSEEECCGGGEEECC
T ss_pred --CCC--HhhccccccCCCchhcCCCeEEeCcchhhhhc
Confidence 222 23444445665 346899999998543
No 4
>1a73_A Intron 3 (I-PPO) encoded endonuclease; complex (homing endonuclease/DNA), zinc, DNA binding, protein folding, hydrolase/DNA complex; HET: DNA; 1.80A {Physarum polycephalum} SCOP: d.4.1.3 PDB: 1a74_A* 1ipp_A* 1evw_A* 2o6m_A 1evx_A 1cz0_A 1cyq_A
Probab=75.41 E-value=0.8 Score=35.60 Aligned_cols=51 Identities=20% Similarity=0.344 Sum_probs=38.8
Q ss_pred ccccCeeeehheeeeehhcccccccCcccccccCCCCCCCcccccCeeeEEEechh
Q psy12031 62 LRQADKVWRLDLVMVILFKAIPLESTDGERLEKAPECAHPSLCVNPYHINVSVREL 117 (128)
Q Consensus 62 lrQaDKVWRLDlVmviLfkgiPLESTDgeRl~k~~~C~~p~LCV~P~Hi~v~vreL 117 (128)
.|+++--|-.-.|..|+-.+ +-+++.+.-|+-|.| +.|+||.|..+.-+-+
T Consensus 68 g~~~~~~i~~H~l~~~~e~~----~~~~~~~~vSHLCHN-g~C~NP~HLv~Ep~~v 118 (163)
T 1a73_A 68 INQVVHRWGSHTVPFLLEPD----NINGKTCTASHLCHN-TRCHNPLHLCWESLDD 118 (163)
T ss_dssp ETTEEEEEETTTGGGTTSCS----EETTEEEEEEETTCC-TTBCCGGGEEEEEHHH
T ss_pred cEEEEEEeeceeEEEEeecC----CCCcccceeeeeecC-CCccCcceEEeehhhh
Confidence 46777777777777777555 336689999999998 6999999999875443
No 5
>3pt3_A E3 ubiquitin-protein ligase UBR5; EDD, HHYD, mixed alpha-beta fold, ubiquitin ligase; 1.97A {Homo sapiens}
Probab=37.69 E-value=26 Score=24.70 Aligned_cols=58 Identities=24% Similarity=0.423 Sum_probs=35.7
Q ss_pred hhcChhhHhhhHhhhcCCCC-CeeEeeCCCCCCcccccccccccCeeeehheeeeehhcccccccCcccccccCCCCCCC
Q psy12031 23 KDITQECREDFVLSITGKKP-AMCVLSNPDQKGKMRRIDCLRQADKVWRLDLVMVILFKAIPLESTDGERLEKAPECAHP 101 (128)
Q Consensus 23 KDI~~e~re~Fv~~itg~~~-~~CvlSnpDqKGKmRRIDclrQaDKVWRLDlVmviLfkgiPLESTDgeRl~k~~~C~~p 101 (128)
.+..+|.|..|++-+||... +. + -.| .. -| .+ +. | . ..|.+||=.+++|.|
T Consensus 38 ~~~~~eer~~fL~FvTGs~rlP~---~---~~G-f~---~l---~~------~~-i--~-----~~~~~~LP~A~TCfn- 89 (118)
T 3pt3_A 38 EKMSMTERQDLVYFWTSSPSLPA---S---EEG-FQ---PM---PS------IT-I--R-----PPDDQHLPTANTCIS- 89 (118)
T ss_dssp HHCCHHHHHHHHHHHHSCC-------------------------CE------EE-E--E-----SCCTTSCCEEETTTT-
T ss_pred HHCCHHHHHHHHhHhcCCCCCCC---c---ccC-cc---cC---Cc------EE-E--E-----CCCCCCCccceehhc-
Confidence 57899999999999999842 21 0 001 00 00 00 01 1 1 246789999999999
Q ss_pred cccccCe
Q psy12031 102 SLCVNPY 108 (128)
Q Consensus 102 ~LCV~P~ 108 (128)
.|.+-||
T Consensus 90 ~L~LP~Y 96 (118)
T 3pt3_A 90 RLYVPLY 96 (118)
T ss_dssp EEEEECC
T ss_pred eeECCCC
Confidence 5887776
No 6
>1d0q_A DNA primase; zinc-binding motif, protein, transferase; HET: DNA; 1.71A {Geobacillus stearothermophilus} SCOP: g.41.3.2
Probab=33.74 E-value=6.7 Score=26.21 Aligned_cols=38 Identities=26% Similarity=0.301 Sum_probs=28.9
Q ss_pred ehheeeeehhcccccccCcccccccCCCC--CCCcccccCe
Q psy12031 70 RLDLVMVILFKAIPLESTDGERLEKAPEC--AHPSLCVNPY 108 (128)
Q Consensus 70 RLDlVmviLfkgiPLESTDgeRl~k~~~C--~~p~LCV~P~ 108 (128)
++|++-++--. +||..+.++-...|+.| .+|++.|+|.
T Consensus 16 ~~~i~~v~~~~-~~lk~~G~~~~~~CPfh~e~~pSf~V~~~ 55 (103)
T 1d0q_A 16 GVDIVDVIGEY-VQLKRQGRNYFGLCPFHGEKTPSFSVSPE 55 (103)
T ss_dssp HCCHHHHHTTT-SCCEEETTEEEECCSSSCCSSCCEEEETT
T ss_pred cCCHHHHHHHh-CCeeecCCeEEEECCCCCCCCCcEEEEcC
Confidence 46676665444 89988888888899999 4788888874
No 7
>3bbo_1 Ribosomal protein L31; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=28.53 E-value=20 Score=27.09 Aligned_cols=49 Identities=16% Similarity=0.045 Sum_probs=33.4
Q ss_pred HHHhhhcChhhHh-hhHhhhcCC-----------CCCeeEeeCCCCCCcccc-cccccccCe
Q psy12031 19 GKLRKDITQECRE-DFVLSITGK-----------KPAMCVLSNPDQKGKMRR-IDCLRQADK 67 (128)
Q Consensus 19 ~KLrKDI~~e~re-~Fv~~itg~-----------~~~~CvlSnpDqKGKmRR-IDclrQaDK 67 (128)
..++|||+|++++ .|+.+-.|. +-+.|--|-|=.-||-+| +|=-.+.||
T Consensus 47 ~~MKk~IHPeY~~Vv~v~cs~g~~f~t~ST~~~i~VDIcS~cHPFYTGkqkk~vDt~GRVeK 108 (144)
T 3bbo_1 47 TCRKKELHPEFHEDAKVYCNGELVMTTGGTKKEYVVDVWSGNHPFYLGNRSALMVDADQVEK 108 (144)
T ss_dssp ---CTTTCCCCCHHHHHCSSSCTTTSCSSCSCSSSCCSSCCCCCSSSSSSSCCCCCCCCCCC
T ss_pred eccCCCCCCCCEEeEEEEcCCCeEEEEEecCceEEeeecCCCCccEeCceeeEecccccHHH
Confidence 5789999999998 888772222 235688888999998874 566555555
No 8
>2kcp_A 30S ribosomal protein S8E; RPS8E, beta, NESG, ribonucleoprotein, structural genomics, PSI-2; NMR {Methanothermobacter thermautotrophicusstr} PDB: 2kcy_A
Probab=27.88 E-value=18 Score=25.78 Aligned_cols=13 Identities=38% Similarity=0.572 Sum_probs=11.7
Q ss_pred eeEeeCCCCCCcc
Q psy12031 44 MCVLSNPDQKGKM 56 (128)
Q Consensus 44 ~CvlSnpDqKGKm 56 (128)
.||-|+|.|-|.+
T Consensus 71 A~VTSRPGQdG~v 83 (98)
T 2kcp_A 71 VRVTSRPGQDGVI 83 (98)
T ss_dssp EEECSCTTGGGSC
T ss_pred EEEecCCCCccEE
Confidence 8999999999964
No 9
>2elv_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=21.40 E-value=40 Score=16.25 Aligned_cols=16 Identities=19% Similarity=0.206 Sum_probs=12.1
Q ss_pred ccCcccccccCCCCCC
Q psy12031 85 ESTDGERLEKAPECAH 100 (128)
Q Consensus 85 ESTDgeRl~k~~~C~~ 100 (128)
+|-.|++..+|+.|..
T Consensus 2 ~~h~~~k~~~C~~C~k 17 (36)
T 2elv_A 2 SSGSSGLLYDCHICER 17 (36)
T ss_dssp CCSCCCCCEECSSSCC
T ss_pred CCCCCCCCeECCCCCC
Confidence 3456788899999964
No 10
>2jtt_C Calcyclin-binding protein; S100A6, SIAH-1 interacting protein, ubiquitination, E3 ligase complex, beta-catenin, calcium, cell cycle, mitogen; NMR {Mus musculus}
Probab=21.02 E-value=76 Score=18.65 Aligned_cols=26 Identities=12% Similarity=0.134 Sum_probs=22.6
Q ss_pred HHHHHHHhhhcChhhHhhhHhhhcCC
Q psy12031 15 SRLLGKLRKDITQECREDFVLSITGK 40 (128)
Q Consensus 15 srLL~KLrKDI~~e~re~Fv~~itg~ 40 (128)
-.++.||++|-.+|-|....++++-+
T Consensus 9 ~~~fk~iY~~gddd~kram~KS~~eS 34 (35)
T 2jtt_C 9 MNVLKKIYEDGDDDMKRTINKAWVES 34 (35)
T ss_dssp HHHHHHHHTTCCSSHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCHHHHHHHHHHHhhc
Confidence 57899999999999999998887643
Done!