Query 003665
Match_columns 804
No_of_seqs 436 out of 2773
Neff 10.4
Searched_HMMs 29240
Date Tue Mar 26 18:36:13 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/003665.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1713-1717//hhsearch_pdb/003665hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4ayc_A E3 ubiquitin-protein li 1.0 1 1 113.4 8.9 48 750-798 54-101 (138)
2 2c2l_A CHIP, carboxy terminus 1.0 1 1 111.9 6.8 58 746-803 205-262 (281)
3 2f42_A STIP1 homology and U-bo 1.0 1 1 110.3 6.9 60 744-803 101-160 (179)
4 3fl2_A E3 ubiquitin-protein li 1.0 1 1 108.4 4.1 55 749-803 52-107 (124)
5 2y1n_A E3 ubiquitin-protein li 1.0 1 1 105.2 5.1 57 746-802 329-385 (389)
6 1z6u_A NP95-like ring finger p 1.0 1 1 104.1 7.5 54 750-803 79-133 (150)
7 2ckl_B Ubiquitin ligase protei 1.0 1 1 102.4 2.1 51 748-798 53-104 (165)
8 3lrq_A E3 ubiquitin-protein li 1.0 1 1 102.1 5.4 55 750-804 23-78 (100)
9 2kre_A Ubiquitin conjugation f 1.0 1 1 101.3 4.4 59 744-803 24-82 (100)
10 1jm7_A BRCA1, breast cancer ty 1.0 1 1 100.9 4.5 69 736-804 8-78 (112)
No 1
>4ayc_A E3 ubiquitin-protein ligase RNF8; DNA damage, K63 chains; HET: CPQ; 1.90A {Homo sapiens} PDB: 4epo_C
Probab=1.00 E-value=1 Score=113.36 Aligned_cols=48 Identities=31% Similarity=0.701 Sum_probs=44.1
Q ss_pred CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 4232445566782553588845388799886018987556676778899
Q 003665 750 LKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSD 798 (804)
Q Consensus 750 l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d 798 (804)
+.||||++.|.+||+++|||+||..||..|+. +...||.||.+|...+
T Consensus 54 ~~C~iC~~~~~~~~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~ 101 (138)
T 4ayc_A 54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMK-RKIECPICRKDIKSKT 101 (138)
T ss_dssp SBCTTTCSBCSSEEEETTSCEEEHHHHHHHTT-TCSBCTTTCCBCCCEE
T ss_pred CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHH-CCCCCCCCCCCCCCCC
T ss_conf 99756272327966788999846999999997-6996999998278899
No 2
>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2
Probab=1.00 E-value=1 Score=111.93 Aligned_cols=58 Identities=16% Similarity=0.044 Sum_probs=51.8
Q ss_pred CCCCCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 7985423244556678255358884538879988601898755667677889965566
Q 003665 746 CKAILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSDVRFVK 803 (804)
Q Consensus 746 ~~~~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d~~~~~ 803 (804)
.-..+.||||.+.|++||+++|||+||..||..|+......||.||.+|...++.|++
T Consensus 205 ~~~~~~c~i~~~~~~dPv~~~~gh~f~~~~i~~~~~~~~~~cP~~~~~~~~~~l~~n~ 262 (281)
T 2c2l_A 205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNL 262 (281)
T ss_dssp CCSTTBCTTTCSBCSSEEECSSCCEEETTHHHHHHHHTCSSCTTTCCCCCGGGCEECH
T ss_pred CCCCCCCCCCCCHHCCCEECCCCCEECHHHHHHHHHHCCCCCCCCCCCCCHHCCCCCH
T ss_conf 9966179273887138859999897779999999987879996978999521086169
No 3
>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A {Danio rerio} PDB: 2c2v_S 2oxq_C
Probab=1.00 E-value=1 Score=110.33 Aligned_cols=60 Identities=15% Similarity=0.066 Sum_probs=53.2
Q ss_pred HCCCCCCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 347985423244556678255358884538879988601898755667677889965566
Q 003665 744 KDCKAILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSDVRFVK 803 (804)
Q Consensus 744 ~~~~~~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d~~~~~ 803 (804)
......+.||||++.|++||+++|||+||..||..|+...+..||.||.+|...++.|++
T Consensus 101 ~~ip~~f~CPI~~elm~DPV~~~~Ghtfer~~I~~~l~~~~~tcP~t~~~l~~~~L~pN~ 160 (179)
T 2f42_A 101 REIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNL 160 (179)
T ss_dssp CCCCGGGBCTTTCSBCSSEEECTTSCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECH
T ss_pred CCCCHHHCCCCCCCCCCCCEECCCCCEECHHHHHHHHHHCCCCCCCCCCCCCHHHCCCHH
T ss_conf 589276164470341789848899897878999999996889897984999856281359
No 4
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA repair, ring finger domain, metal binding, DNA replication; 1.75A {Homo sapiens}
Probab=1.00 E-value=1 Score=108.40 Aligned_cols=55 Identities=22% Similarity=0.587 Sum_probs=49.3
Q ss_pred CCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCC-CCCCCCC
Q ss_conf 542324455667825535888453887998860189875566767788-9965566
Q 003665 749 ILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQ-SDVRFVK 803 (804)
Q Consensus 749 ~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~-~d~~~~~ 803 (804)
.+.||||++.|.+||+++|||+||..||..|+......||.||.+|.. .++.+++
T Consensus 52 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~n~ 107 (124)
T 3fl2_A 52 TFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAMQVNQ 107 (124)
T ss_dssp HTBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCCCH
T ss_pred CCCCCCCCHHHCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCH
T ss_conf 89998689577694772287914499999999678098999986589988778789
No 5
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB: 2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A 2ldr_A*
Probab=1.00 E-value=1 Score=105.17 Aligned_cols=57 Identities=26% Similarity=0.577 Sum_probs=49.0
Q ss_pred CCCCCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 798542324455667825535888453887998860189875566767788996556
Q 003665 746 CKAILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSDVRFV 802 (804)
Q Consensus 746 ~~~~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d~~~~ 802 (804)
......|+||++.+.++++++|||+||..|+..|+..+...||.||.++...++..+
T Consensus 329 ~~~~~~C~ICle~~~~pv~lpCGH~FC~~Ci~~wl~~~~~~CP~CR~~i~~~~~i~v 385 (389)
T 2y1n_A 329 GSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVV 385 (389)
T ss_dssp TTSSSBCTTTSSSBCCEEEETTCCEECHHHHHHHHHHTCSBCTTTCCBCCEEEECSC
T ss_pred CCCCCCCCCCCCCCCCEEEECCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEC
T ss_conf 678998971576888838747998331799999996599989999882677605754
No 6
>1z6u_A NP95-like ring finger protein isoform B; structural genomics consortium, ligase, ubiquitin-protein ligase, cell cycle regulation, SGC; 2.10A {Homo sapiens}
Probab=1.00 E-value=1 Score=104.06 Aligned_cols=54 Identities=30% Similarity=0.664 Sum_probs=48.9
Q ss_pred CCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCC
Q ss_conf 423244556678255358884538879988601898755667677889-965566
Q 003665 750 LKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQS-DVRFVK 803 (804)
Q Consensus 750 l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~-d~~~~~ 803 (804)
+.|+||++.|.+||+++|||+||..||..|+......||.|+.+|... ++.+++
T Consensus 79 ~~C~IC~~~~~~pv~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~l~~n~ 133 (150)
T 1z6u_A 79 FMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNE 133 (150)
T ss_dssp TBCTTTSSBCSSEEECTTSCEEEHHHHHHHHHTTCCBCTTTCCBCCTTCCCCBCH
T ss_pred CEEECCCHHHCCCEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCH
T ss_conf 9900579042598882899903199999999839895999883578877788798
No 7
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase, nuclear protein, chromosomal protein, transcription regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Probab=1.00 E-value=1 Score=102.45 Aligned_cols=51 Identities=31% Similarity=0.774 Sum_probs=45.4
Q ss_pred CCCCCCCCCCCCCCCEEC-CCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 854232445566782553-588845388799886018987556676778899
Q 003665 748 AILKCGVCFDRPKEVVIT-KCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSD 798 (804)
Q Consensus 748 ~~l~C~iC~~~~~~~v~~-~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d 798 (804)
..+.|+||++.|.+|+++ +|||+||..||..|+..+...||.|+.+|...+
T Consensus 53 ~~~~C~IC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~ 104 (165)
T 2ckl_B 53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKR 104 (165)
T ss_dssp HHHBCTTTSSBCSSEEEETTTCCEEEHHHHHHHHHTTCCBCTTTCCBCCSGG
T ss_pred CCCCCCCCCHHHHCCCEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf 9999962692763938848998962899999999868297999998078856
No 8
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: MSE; 2.29A {Homo sapiens}
Probab=1.00 E-value=1 Score=102.08 Aligned_cols=55 Identities=22% Similarity=0.664 Sum_probs=50.4
Q ss_pred CCCCCCCCCCCCCEE-CCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 423244556678255-3588845388799886018987556676778899655669
Q 003665 750 LKCGVCFDRPKEVVI-TKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSDVRFVKI 804 (804)
Q Consensus 750 l~C~iC~~~~~~~v~-~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d~~~~~~ 804 (804)
+.|+||++.|.+||+ ++|||+||..||..|+......||.||.+|...++.++++
T Consensus 23 ~~C~IC~~~~~~p~~~~~CgH~FC~~Ci~~~~~~~~~~CP~Cr~~~~~~~l~~~~~ 78 (100)
T 3lrq_A 23 FRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRW 78 (100)
T ss_dssp TBCTTTCSBCSSEEECTTTCCEEEHHHHHHHHHHTCSBCTTTCCBCCGGGCEECTT
T ss_pred CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 89962892300866658999842299999999778498988888489999576388
No 9
>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin ligase, E4 polyubiquitin chain EL factor, phosphoprotein, UBL conjugation pathway; NMR {Homo sapiens} PDB: 3l1x_A 3l1z_B
Probab=1.00 E-value=1 Score=101.29 Aligned_cols=59 Identities=14% Similarity=-0.011 Sum_probs=52.9
Q ss_pred HCCCCCCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 347985423244556678255358884538879988601898755667677889965566
Q 003665 744 KDCKAILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRHRKCPGCGTAFGQSDVRFVK 803 (804)
Q Consensus 744 ~~~~~~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~~~CP~C~~~~~~~d~~~~~ 803 (804)
......+.||||.+.|++||+++|||+||..||..|+. ....||.||.+|...++.+++
T Consensus 24 ~~~p~~~~CpI~~~~m~dPV~~~cGhtf~r~~I~~~l~-~~~~cP~~~~~l~~~~L~pn~ 82 (100)
T 2kre_A 24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLL-NSPTDPFNRQTLTESMLEPVP 82 (100)
T ss_dssp SSCSTTTBCTTTCSBCSSEEEETTTEEEEHHHHHHHTT-SCSBCSSSCCBCCTTSSEECH
T ss_pred CCCCHHHCCCCCCCCCCCCEECCCCCEECHHHHHHHHH-CCCCCCCCCCCCCHHHCEECH
T ss_conf 15807608817157255986999999886699999997-389899988988856362879
No 10
>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger, zinc-binding protein, heterodimer, ubiquitin ligase, antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=1.00 E-value=1 Score=100.85 Aligned_cols=69 Identities=29% Similarity=0.655 Sum_probs=0.0
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCEECCCCCCCCHHHHHHHHHCCC--CCCCCCCCCCCCCCCCCCCC
Q ss_conf 9976986734798542324455667825535888453887998860189--87556676778899655669
Q 003665 736 IQKLQDEIKDCKAILKCGVCFDRPKEVVITKCFHLFCNPCIQRNLEIRH--RKCPGCGTAFGQSDVRFVKI 804 (804)
Q Consensus 736 ~~~l~~ei~~~~~~l~C~iC~~~~~~~v~~~C~H~fC~~Ci~~~~~~~~--~~CP~C~~~~~~~d~~~~~~ 804 (804)
...+...+..+...+.|+||++.|.+|++++|||+||..||..|+.... ..||.|+.+|...++.+++.
T Consensus 8 ~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 78 (112)
T 1jm7_A 8 VEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTR 78 (112)
T ss_dssp HHHHHHHHHHHHHHTSCSSSCCCCSSCCBCTTSCCCCSHHHHHHHHSSSSSCCCTTTSCCCCTTTCBCCCS
T ss_pred HHHHHHHHHHCCCCCCCCCCCHHHCCEEECCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHCCCCHH
T ss_conf 99999999956589999525916439578978987899999999981899897929898388764675377
Done!