Query 005929
Match_columns 669
No_of_seqs 153 out of 323
Neff 3.2
Searched_HMMs 29240
Date Mon Mar 25 11:18:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005929.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005929hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ul4_A SPL4, squamosa promoter 100.0 9.4E-41 3.2E-45 292.3 -2.2 91 164-254 2-92 (94)
2 1ul5_A SPL7, squamosa promoter 100.0 5E-39 1.7E-43 278.6 -4.1 82 169-250 2-83 (88)
3 1wj0_A Squamosa promoter-bindi 100.0 3.3E-30 1.1E-34 210.0 0.3 59 169-227 2-60 (60)
4 2d8r_A THAP domain-containing 26.2 27 0.00092 29.9 1.8 13 169-181 8-20 (99)
5 2lau_A THAP domain-containing 22.1 35 0.0012 27.8 1.6 10 171-180 5-14 (81)
6 3fau_A NEDD4-binding protein 2 21.7 37 0.0013 27.8 1.7 31 584-615 51-81 (82)
7 1vk6_A NADH pyrophosphatase; 1 21.2 21 0.00072 35.6 0.1 37 185-222 100-136 (269)
8 4a6q_A Histone deacetylase com 18.6 23 0.00079 33.4 -0.2 28 189-227 20-47 (143)
9 2ywi_A Hypothetical conserved 17.3 1.4E+02 0.0047 26.3 4.5 47 566-612 138-190 (196)
10 2cvb_A Probable thiol-disulfid 16.9 1.6E+02 0.0055 25.8 4.9 46 566-613 124-176 (188)
No 1
>1ul4_A SPL4, squamosa promoter binding protein-like 4; transcription factor, SBP, flower development, DNA binding protein, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=100.00 E-value=9.4e-41 Score=292.29 Aligned_cols=91 Identities=60% Similarity=1.044 Sum_probs=80.3
Q ss_pred CCCCCCCCCcccCCChhhhccchhhhccccccccccccceeeeCCchhhHhhhhhcccCCCccccccchHHHHHHHHHHh
Q 005929 164 SPGTAPYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRR 243 (669)
Q Consensus 164 ~~g~~~~~~CQVdGC~adLs~~k~YhrRhrVCe~H~KA~~V~v~G~~qRFCQQCsRFH~L~eFDg~kRSCR~rLa~Hn~R 243 (669)
++|+++.++||||||.+||+.+|.||+||||||.|+||++|+|+|+++||||||+|||+|+|||++|||||++|++||+|
T Consensus 2 ~~~~~~~~~CqV~GC~~dL~~~k~Y~rR~rvCe~H~ka~~V~~~G~~~RFCQQCsrFH~L~eFD~~kRSCR~rL~~hn~R 81 (94)
T 1ul4_A 2 SSGSSGLRLCQVDRCTADMKEAKLYHRRHKVCEVHAKASSVFLSGLNQRFCQQCSRFHDLQEFDEAKRSCRRRLAGHNER 81 (94)
T ss_dssp ------CCCCSSTTCCCCCTTCCHHHHHTTCCHHHHTCSCEEETTEEEEECTTTSSEEETTTCCSSCCSCSTTTTCCCCC
T ss_pred CCCCCCCCceecCCCCcchhhHHHHHHhhhhhHHHhcCCEEEECChhHHHHHHHhccCCHHHhccccchHHHHHHHHHHH
Confidence 34457889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCchhhh
Q 005929 244 RRKTQPEDITS 254 (669)
Q Consensus 244 RRk~qp~~~~~ 254 (669)
|||++++..++
T Consensus 82 RRk~~~~~~~~ 92 (94)
T 1ul4_A 82 RRKSSGESGPS 92 (94)
T ss_dssp CCSCCCC----
T ss_pred hccCCCCcCCC
Confidence 99999987654
No 2
>1ul5_A SPL7, squamosa promoter binding protein-like 7; transcription factor, SBP, flower development, DNA binding protein, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=100.00 E-value=5e-39 Score=278.61 Aligned_cols=82 Identities=44% Similarity=0.928 Sum_probs=77.8
Q ss_pred CCCCcccCCChhhhccchhhhccccccccccccceeeeCCchhhHhhhhhcccCCCccccccchHHHHHHHHHHhhccCC
Q 005929 169 PYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRRRRKTQ 248 (669)
Q Consensus 169 ~~~~CQVdGC~adLs~~k~YhrRhrVCe~H~KA~~V~v~G~~qRFCQQCsRFH~L~eFDg~kRSCR~rLa~Hn~RRRk~q 248 (669)
+.++||||||++||+.+|.||+||||||.|+||++|+++|+++||||||+|||+|+|||++|||||++|++||+||||++
T Consensus 2 ~~~~CqV~GC~~dLs~~k~Y~rR~rvCe~H~ka~~v~~~G~~~RFCQQC~rFH~L~eFD~~kRSCR~rL~~hn~RRR~~~ 81 (88)
T 1ul5_A 2 SVARCQVPDCEADISELKGYHKRHRVCLRCATASFVVLDGENKRYCQQCGKFHLLPDFDEGKRSCRRKLERHNNRRKRKP 81 (88)
T ss_dssp -CCSCEETTEECCCSSCCSSSGGGTCCHHHHHHSEEEETTEEEEECTTTSSEEEGGGBCSSTTSBSSSCCCSSSCCCCCS
T ss_pred CCCeeecCCCCCChhHhhHHHhhccccHHHcCCCEEEECCEeeHHHHHhccccChhhhccccchHHHHHHHHHHHhccCC
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999988765
Q ss_pred Cc
Q 005929 249 PE 250 (669)
Q Consensus 249 p~ 250 (669)
.+
T Consensus 82 ~~ 83 (88)
T 1ul5_A 82 VD 83 (88)
T ss_dssp CS
T ss_pred cc
Confidence 44
No 3
>1wj0_A Squamosa promoter-binding protein-like 12; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=99.95 E-value=3.3e-30 Score=210.04 Aligned_cols=59 Identities=75% Similarity=1.229 Sum_probs=57.1
Q ss_pred CCCCcccCCChhhhccchhhhccccccccccccceeeeCCchhhHhhhhhcccCCCccc
Q 005929 169 PYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFD 227 (669)
Q Consensus 169 ~~~~CQVdGC~adLs~~k~YhrRhrVCe~H~KA~~V~v~G~~qRFCQQCsRFH~L~eFD 227 (669)
+.++||||||++||+.+|+|||||||||.|+||++|+++|.++||||||+|||+|+|||
T Consensus 2 ~~~~CqV~gC~~dl~~~k~Y~rR~rvCe~H~ka~~v~~~G~~~RFCQQCsrFH~L~eFD 60 (60)
T 1wj0_A 2 SAICCQVDNCGADLSKVKDYHRRHKVCEIHSKATTALVGGIMQRFCQQCSRFHVLEEFD 60 (60)
T ss_dssp -CEECSSTTCCCEETSCCSSTTTTTCCHHHHTCSCEEETTEEECCCSSSCSCCBTTSCC
T ss_pred CCceeecCCCCcChhHhHHHhhccccChhHcCCCEEEECCEEEehhhhccCccCcccCC
Confidence 46799999999999999999999999999999999999999999999999999999998
No 4
>2d8r_A THAP domain-containing protein 2; NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.39.1.16
Probab=26.15 E-value=27 Score=29.88 Aligned_cols=13 Identities=15% Similarity=0.383 Sum_probs=9.6
Q ss_pred CCCCcccCCChhh
Q 005929 169 PYPMCQVDNCKED 181 (669)
Q Consensus 169 ~~~~CQVdGC~ad 181 (669)
....|-|.||...
T Consensus 8 M~~~C~v~gC~n~ 20 (99)
T 2d8r_A 8 MPTNCAAAGCATT 20 (99)
T ss_dssp CCCCCCSSSCCCS
T ss_pred CCCeeEeCCCCCC
Confidence 3346999999864
No 5
>2lau_A THAP domain-containing protein 11; zinc finger, protein-DNA complex, DNA binding domain, transc factor, CCCH, transcription-DNA complex; NMR {Homo sapiens}
Probab=22.09 E-value=35 Score=27.84 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=8.0
Q ss_pred CCcccCCChh
Q 005929 171 PMCQVDNCKE 180 (669)
Q Consensus 171 ~~CQVdGC~a 180 (669)
..|-|.||..
T Consensus 5 ~~C~v~gC~n 14 (81)
T 2lau_A 5 FTCCVPGCYN 14 (81)
T ss_dssp CSCCCSSSSS
T ss_pred CEEEeCCCcC
Confidence 4699999974
No 6
>3fau_A NEDD4-binding protein 2; SMR, small-MUTS related domain, nicking endonuclease, alternative splicing, ATP-binding, coiled coil, cytoplasm, hydrolase; 1.90A {Homo sapiens} SCOP: d.68.8.1
Probab=21.66 E-value=37 Score=27.85 Aligned_cols=31 Identities=19% Similarity=0.539 Sum_probs=23.3
Q ss_pred chhHHHHHHHHhcCCCCCCcccccCCceeeee
Q 005929 584 PGTLRKEIYNWLSNSPSEMESYIRPGCVILSL 615 (669)
Q Consensus 584 P~~LR~QI~~WLs~sPtdmEsYIRPGCiiLTi 615 (669)
+..||..|.+||...|-..+. .-|||+++.+
T Consensus 51 ~~~Lk~~V~~~L~~~~~~~~e-~n~G~l~V~l 81 (82)
T 3fau_A 51 VARIKPAVIKYLISHSFRFSE-IKPGCLKVML 81 (82)
T ss_dssp --CHHHHHHHHHHHTTCCEEE-EETTEEEEEC
T ss_pred cchHHHHHHHHHHhCCCceee-CCCEEEEEEe
Confidence 356999999999998865533 5899988764
No 7
>1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PS protein structure initiative, joint center for structural G hydrolase; HET: MSE; 2.20A {Escherichia coli} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A
Probab=21.16 E-value=21 Score=35.59 Aligned_cols=37 Identities=16% Similarity=0.325 Sum_probs=28.3
Q ss_pred chhhhccccccccccccceeeeCCchhhHhhhhhcccC
Q 005929 185 AKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHP 222 (669)
Q Consensus 185 ~k~YhrRhrVCe~H~KA~~V~v~G~~qRFCQQCsRFH~ 222 (669)
+..++++++-|..+-. +....++...+.|..|+..|-
T Consensus 100 l~~w~~~~~fC~~CG~-~~~~~~~~~~~~C~~C~~~~y 136 (269)
T 1vk6_A 100 LAEFYRSHKYCGYCGH-EMYPSKTEWAMLCSHCRERYY 136 (269)
T ss_dssp HHHHHHTTSBCTTTCC-BEEECSSSSCEEESSSSCEEC
T ss_pred HHhhhhcCCccccCCC-cCccCCCceeeeCCCCCCEec
Confidence 4568899999977654 455567778899999997663
No 8
>4a6q_A Histone deacetylase complex subunit SAP18; transcription, splicing, RNA metabolism, ubiquitin-like; HET: MSE; 1.50A {Mus musculus} PDB: 4a90_A* 2hde_A 4a8x_C
Probab=18.58 E-value=23 Score=33.43 Aligned_cols=28 Identities=32% Similarity=0.565 Sum_probs=22.7
Q ss_pred hccccccccccccceeeeCCchhhHhhhhhcccCCCccc
Q 005929 189 HRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFD 227 (669)
Q Consensus 189 hrRhrVCe~H~KA~~V~v~G~~qRFCQQCsRFH~L~eFD 227 (669)
--|.++|+++.+ -||.+=++||.++||.
T Consensus 20 idRektcPfLLR-----------vF~~~ng~hh~~~eF~ 47 (143)
T 4a6q_A 20 IDREKTCPLLLR-----------VFTTNNGRHHRMDEFS 47 (143)
T ss_dssp CCGGGSCCEEEE-----------EEEESSSSCCCGGGGC
T ss_pred ccccCCCCeEEE-----------EEecCCCCCCCHHHcc
Confidence 468899999764 3776668999999996
No 9
>2ywi_A Hypothetical conserved protein; uncharacterized conserved protein, NPPSFA, national project protein structural and functional analyses; 1.60A {Geobacillus kaustophilus}
Probab=17.25 E-value=1.4e+02 Score=26.29 Aligned_cols=47 Identities=17% Similarity=0.213 Sum_probs=36.4
Q ss_pred CccccEEEEecCCCC-----CC-CchhHHHHHHHHhcCCCCCCcccccCCcee
Q 005929 566 DCTGRIIFKLFDKDP-----SQ-FPGTLRKEIYNWLSNSPSEMESYIRPGCVI 612 (669)
Q Consensus 566 ~RT~RI~FKLF~k~P-----~d-fP~~LR~QI~~WLs~sPtdmEsYIRPGCii 612 (669)
++.|+|+++-...++ +. =+..|++.|...|...+...+..--.||-|
T Consensus 138 d~~G~i~~~~~~~~~~~~~~g~~~~~~l~~~i~~ll~~~~~~~~~~~~~gC~~ 190 (196)
T 2ywi_A 138 DRDLKCVYRGQLDDSRPNNGIPVTGESIRAALDALLEGRPVPEKQKPSIGCSI 190 (196)
T ss_dssp ETTCBEEEEECSSSCCTTTCCCCCCHHHHHHHHHHHHTCCCCSCCCCCEEEEC
T ss_pred cCCCeEEEccccCcccccccCccCHHHHHHHHHHHHcCCCCCCCCCCCCceee
Confidence 477999998543221 22 356899999999999999999999999976
No 10
>2cvb_A Probable thiol-disulfide isomerase/thioredoxin; redox protein, structural genomics, riken struc genomics/proteomics initiative, RSGI; 1.80A {Thermus thermophilus} SCOP: c.47.1.10 PDB: 2ywo_A
Probab=16.89 E-value=1.6e+02 Score=25.82 Aligned_cols=46 Identities=15% Similarity=0.169 Sum_probs=35.2
Q ss_pred CccccEEEEecCCCCC-------CCchhHHHHHHHHhcCCCCCCcccccCCceee
Q 005929 566 DCTGRIIFKLFDKDPS-------QFPGTLRKEIYNWLSNSPSEMESYIRPGCVIL 613 (669)
Q Consensus 566 ~RT~RI~FKLF~k~P~-------dfP~~LR~QI~~WLs~sPtdmEsYIRPGCiiL 613 (669)
++.|+|+++ +.... .-+..|++.|...|...+...+..--.||.|=
T Consensus 124 d~~G~i~~~--g~~~~~~~~~g~~~~~~l~~~i~~ll~~~~~~~~~~~~~gc~~~ 176 (188)
T 2cvb_A 124 DERRLLRYH--GRVNDNPKDPSKVQSHDLEAAIEALLRGEEPPLKEAPAIGCTIK 176 (188)
T ss_dssp CTTCBEEEE--ECSSSCTTCGGGCCCCHHHHHHHHHHTTCCCCSSCCCCCSEECC
T ss_pred CCCCcEEEE--EecCCccccccccCHHHHHHHHHHHHcCCCCCcccCCCCceEEE
Confidence 577899998 32211 13568999999999999998888888999763
Done!