Query 000875
Match_columns 1242
No_of_seqs 164 out of 194
Neff 3.6
Searched_HMMs 29240
Date Tue Mar 26 17:18:59 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000875.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_643-646//hhsearch_pdb/000875hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tba_A TAFII230, transcription 1.0 1 1 95.2 -4.1 49 26-74 5-63 (67)
2 1bby_A RAP30; average structur 1.0 1 1 32.8 6.4 63 801-870 5-67 (69)
3 2daf_A FLJ35834 protein; hypot 1.0 1 1 18.9 0.5 39 594-632 52-90 (118)
4 3m63_B Ubiquitin domain-contai 1.0 1 1 17.5 1.9 35 595-629 64-98 (101)
5 3phx_B Ubiquitin-like protein 1.0 1 1 17.5 1.6 35 594-628 40-74 (79)
6 3m62_B UV excision repair prot 1.0 1 1 17.4 2.0 38 594-631 37-74 (106)
7 2w51_A Protein arMet; MANF, CD 1.0 1 1 17.3 0.1 28 1003-1030 99-126 (158)
8 1wju_A NEDD8 ultimate buster-1 1.0 1 1 17.2 0.6 37 595-631 56-92 (100)
9 2kd0_A LRR repeats and ubiquit 1.0 1 1 17.2 1.7 35 595-629 48-82 (85)
10 2bwf_A Ubiquitin-like protein 1.0 1 1 17.1 1.7 35 595-629 40-74 (77)
No 1
>1tba_A TAFII230, transcription initiation factor IID 230K chain; complex (transcription factors), TAF, TAFII230, solution structure; NMR {Drosophila melanogaster} SCOP: a.15.1.1
Probab=1.00 E-value=1 Score=95.21 Aligned_cols=49 Identities=27% Similarity=0.468 Sum_probs=45.8
Q ss_pred CCCCCEEEEEECCCCCCCCCCC---------CCCCHHHHHHHHHHHH-HHCCCCCCCCC
Q ss_conf 8973102466203589899863---------1011889999999996-42697201223
Q 000875 26 SGGNRLLGFMFGNVDYAGDLDV---------DYLDEDAKEHLAAVAD-KLGPSLTDIDV 74 (1242)
Q Consensus 26 ~~~~~~~gf~fgn~~~~g~l~~---------~~ld~~~k~hl~~~~~-~lg~~~~~i~~ 74 (1242)
++|+.|+||||||||..|+|++ +|||+++|+||++|+. +||++|++|..
T Consensus 5 g~g~~LtGfLFGNID~~G~L~~d~~~~~~~~d~lD~E~ke~L~sLs~lGL~s~l~evi~ 63 (67)
T 1tba_A 5 GNGLDLTGILFGNIDSEGRLLQDDDGEGRGGTGFDAELRENIGSLSKLGLDSMLLEVID 63 (67)
T ss_dssp SCSCCCTTHHHHCEETTTEECCSSCCCSSSCSSCCTTTHHHHTTCTTTTHHHHHHTSCC
T ss_pred CCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf 88833122365032777761344334443332018999999999987240358999873
No 2
>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A
Probab=1.00 E-value=1 Score=32.84 Aligned_cols=63 Identities=16% Similarity=0.285 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCC
Q ss_conf 7778999999999985206999842275776218999399999999884501114898305872389999
Q 000875 801 SINRMLVNVYREFSAAAKRGLLPCIGVDELSVQFPNLSEAIIRKKLKECAFLRRDGNGKQVWSMKRTFHI 870 (1242)
Q Consensus 801 ~kNRLkv~iyRlf~k~~~~~~~~rIkv~DI~k~FP~~sE~qIRKRLKecAd~qR~g~g~g~W~lKp~~rl 870 (1242)
-++-|.-.+|.+|.+. +--.++++... ..|++.-+++.|++.|.+.+.|...+.|.|||.|+-
T Consensus 5 ~~~~l~d~lF~~Fek~------~yw~lK~L~~~-t~QP~~yLKeiL~~Ia~~~k~g~~~~~weLKpEyr~ 67 (69)
T 1bby_A 5 DKQHVLDMLFSAFEKH------QYYNLKDLVDI-TKQPVVYLKEILKEIGVQNVKGIHKNTWELKPEYRH 67 (69)
T ss_dssp HHHHHHHHHHHHHHHC------SCBCHHHHHHH-CCSCHHHHHHHHHHHCCCBCCTTCCCBBCCCCSSCC
T ss_pred CHHHHHHHHHHHHHHC------CCCCHHHHHHH-HCCCHHHHHHHHHHHHHHHCCCCCCCEEECCHHHHC
T ss_conf 8999999999998636------78749999999-769489999999999999737987780217598760
No 3
>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=18.86 Aligned_cols=39 Identities=21% Similarity=0.456 Sum_probs=33.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 986334431136542335665444458986211123211
Q 000875 594 KPAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIRTKI 632 (1242)
Q Consensus 594 ~P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R~k~ 632 (1242)
-|.+...|-|.||.+.++-+|...+|+|+..+|+++...
T Consensus 52 iP~e~qrLIy~GKiLKD~eTL~~~gIk~g~TIhLvi~s~ 90 (118)
T 2daf_A 52 IPHSVLQIRYSGKILKNNETLVQHGVKPQEIVQVEIFST 90 (118)
T ss_dssp CCTTTEEEEETTEEECSSCCHHHHSCCSSCEEEEEEEES
T ss_pred CCHHHEEEEECCEECCCCCHHHHCCCCCCCEEEEEEECC
T ss_conf 996887999898586874539884998997899999137
No 4
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats, UBL conjugation pathway, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=17.47 Aligned_cols=35 Identities=26% Similarity=0.606 Sum_probs=29.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 86334431136542335665444458986211123
Q 000875 595 PAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIR 629 (1242)
Q Consensus 595 P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R 629 (1242)
|....+|+|.|+.+.++.+|...+++.++.+++++
T Consensus 64 p~~~QrLi~~Gk~L~D~~tL~~~gI~~g~tI~lv~ 98 (101)
T 3m63_B 64 PVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVK 98 (101)
T ss_dssp CSTTCCEEETTEECCTTSBTTTTTCCTTEEEEECC
T ss_pred CHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
T ss_conf 96898999899988886829997999998999996
No 5
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase, DE-isgylase, hydrolase-protein complex; 1.60A {Homo sapiens}
Probab=1.00 E-value=1 Score=17.47 Aligned_cols=35 Identities=26% Similarity=0.374 Sum_probs=30.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98633443113654233566544445898621112
Q 000875 594 KPAESVKLFYLGKELEDHKSLADQNVRPNSLIHLI 628 (1242)
Q Consensus 594 ~P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~ 628 (1242)
-|....+++|.|+.+.++.+|...++++++.+|++
T Consensus 40 ip~~~qrL~~~G~~L~d~~tL~~~~i~~~~~l~l~ 74 (79)
T 3phx_B 40 VQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMN 74 (79)
T ss_dssp CCGGGEEEEETTEECCTTSBGGGGTCCTTCEEEEE
T ss_pred CCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEE
T ss_conf 99788899989989899981899798999999999
No 6
>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL conjugation pathway, DNA damage, nucleus, phosphoprotein; HET: 1PE; 2.40A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=17.36 Aligned_cols=38 Identities=21% Similarity=0.441 Sum_probs=31.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98633443113654233566544445898621112321
Q 000875 594 KPAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIRTK 631 (1242)
Q Consensus 594 ~P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R~k 631 (1242)
-|....+|+|.|+.+.++.+|...+++.++.+|++..+
T Consensus 37 ip~~~QrLi~~Gk~L~D~~tL~~~~i~~g~~i~lv~~~ 74 (106)
T 3m62_B 37 CEESQIKLIYSGKVLQDSKTVSECGLKDGDQVVFMVSQ 74 (106)
T ss_dssp SCGGGCEEEETTEECCTTSBTTTTTCCTTCEEEEECCC
T ss_pred CCHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEECC
T ss_conf 79345899989999988487999699999899999717
No 7
>2w51_A Protein arMet; MANF, CDNF, saposin, secreted, ER stress, phosphoprotein, neurotrophic factor, sialic acid, glycoprotein, growth factor, hormone; 2.80A {Homo sapiens} PDB: 2kvd_A 2rqy_A 2kve_A
Probab=1.00 E-value=1 Score=17.32 Aligned_cols=28 Identities=14% Similarity=0.354 Sum_probs=22.8
Q ss_pred CCCCCCCHHHHCCCHHHHHHHHHHCCCC
Q ss_conf 8645560455304999999999947999
Q 000875 1003 STVTGTDADLRRLSMEAAREVLLKFNVP 1030 (1242)
Q Consensus 1003 ~tVTGTDADLRKLSM~eAR~iLrkfGVp 1030 (1242)
..+-=+..||.||.+++++++|..+|++
T Consensus 99 k~iDl~~~Dl~KlrVkeLK~IL~d~g~~ 126 (158)
T 2w51_A 99 KQIDLSTVDLKKLRVKELKKILDDWGET 126 (158)
T ss_dssp CCCCCCCSSCCTTHHHHHHHHTTCCCTT
T ss_pred CCCCCCCCCHHHCCHHHHHHHHHHCCCC
T ss_conf 0037666874346299999999986998
No 8
>1wju_A NEDD8 ultimate buster-1; ubiquitin-like domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, protein binding; NMR {Homo sapiens} SCOP: d.15.1.1
Probab=1.00 E-value=1 Score=17.22 Aligned_cols=37 Identities=24% Similarity=0.273 Sum_probs=30.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8633443113654233566544445898621112321
Q 000875 595 PAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIRTK 631 (1242)
Q Consensus 595 P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R~k 631 (1242)
|....+|-|.||-+.++.+|..++|++++.+++++.+
T Consensus 56 p~~qQrLI~~GKiL~D~~TL~~y~I~~gsti~vl~lr 92 (100)
T 1wju_A 56 QENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELK 92 (100)
T ss_dssp CSTTCEEEETTEECCTTSBHHHHTCCSSEEEEEECCC
T ss_pred CHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEEEC
T ss_conf 9899698968838789984999299999999999977
No 9
>2kd0_A LRR repeats and ubiquitin-like domain-containing protein AT2G30105; ubiquitin-like protein, NESG, leucine-rich repeat, structural genomics; NMR {Arabidopsis thaliana}
Probab=1.00 E-value=1 Score=17.17 Aligned_cols=35 Identities=23% Similarity=0.373 Sum_probs=27.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 86334431136542335665444458986211123
Q 000875 595 PAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIR 629 (1242)
Q Consensus 595 P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R 629 (1242)
|....+|+|.|+.+.+..+|...++++++.++++.
T Consensus 48 p~~~qrL~~~Gk~L~D~~tL~~~gi~~g~~l~l~~ 82 (85)
T 2kd0_A 48 LPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMA 82 (85)
T ss_dssp CTTTCEEEETTEECCTTCBTTTTTCCTTEEEEEEC
T ss_pred CHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
T ss_conf 95788999899697994999998999899999998
No 10
>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling proteins; 1.15A {Saccharomyces cerevisiae} SCOP: d.15.1.1 PDB: 2bwe_S
Probab=1.00 E-value=1 Score=17.08 Aligned_cols=35 Identities=26% Similarity=0.606 Sum_probs=29.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 86334431136542335665444458986211123
Q 000875 595 PAESVKLFYLGKELEDHKSLADQNVRPNSLIHLIR 629 (1242)
Q Consensus 595 P~~~~klfY~gkel~~~~sl~~~~VrPnsl~h~~R 629 (1242)
|....+++|.|+.+.++.+|...++++++.+|++.
T Consensus 40 ~~~~qrL~~~gk~L~d~~tL~~~~i~~g~~i~l~~ 74 (77)
T 2bwf_A 40 PVANQRLIYSGKILKDDQTVESYHIQDGHSVHLVK 74 (77)
T ss_dssp CGGGEEEEETTEECCTTSBTGGGTCCTTCEEEEEE
T ss_pred CHHHEEEEECCEECCCCCCHHHCCCCCCCEEEEEE
T ss_conf 97998999899485897888995999998999997
Done!