Query 028711
Match_columns 205
No_of_seqs 154 out of 199
Neff 3.3
Searched_HMMs 29240
Date Tue Mar 26 02:38:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028711.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028711hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3c5n_A Tubby-related protein 1 99.9 3.5E-23 1.2E-27 178.8 7.3 67 117-188 4-83 (246)
2 2fim_A Tubby related protein 1 99.9 8.7E-23 3E-27 179.1 7.7 68 116-188 27-107 (276)
3 1fs1_A SKP2 F-BOX, cyclin A/CD 98.5 2.2E-08 7.5E-13 65.6 1.6 40 53-100 5-44 (53)
4 2ast_B S-phase kinase-associat 97.7 9.1E-06 3.1E-10 66.3 1.7 40 53-100 5-44 (336)
5 2p1m_B Transport inhibitor res 97.6 1.5E-05 5E-10 69.7 0.8 42 53-101 2-43 (594)
6 2e31_A FBS1, F-box only protei 97.5 2.5E-05 8.6E-10 69.0 2.0 40 54-101 48-88 (297)
7 2ovr_B FBW7, F-BOX/WD repeat p 96.8 0.00035 1.2E-08 58.4 1.5 41 53-101 15-55 (445)
8 3v7d_B Cell division control p 96.6 0.00045 1.5E-08 57.5 0.6 41 53-101 11-51 (464)
9 1p22_A F-BOX/WD-repeat protein 96.1 0.0011 3.7E-08 55.6 0.4 40 54-101 8-51 (435)
10 3ogk_B Coronatine-insensitive 96.0 0.0016 5.4E-08 57.0 0.8 38 57-101 13-50 (592)
11 3l2o_B F-box only protein 4; s 95.9 0.00084 2.9E-08 60.4 -1.1 38 56-101 4-41 (312)
12 3nct_A Protein PSIB; DNA bindi 26.5 81 0.0028 25.7 4.5 30 126-158 60-89 (144)
No 1
>3c5n_A Tubby-related protein 1; inositol, signalling, alternative splicing, disease mutation, polymorphism, retinitis pigmentosa, sensory transduction; HET: I3P; 1.80A {Homo sapiens} PDB: 1i7e_A* 1c8z_A
Probab=99.88 E-value=3.5e-23 Score=178.78 Aligned_cols=67 Identities=33% Similarity=0.536 Sum_probs=58.4
Q ss_pred cccCCCCCCCCeeeEEEecCCCc------eEEEeecCCCCCCCCCeEEEeccccCCCCee--EEeeCCCCc----cccce
Q 028711 117 CLKQPGPREFPHQCLIRRNKKTS------TFYLYLALTPSFSEKGKFLLAARRYRRGAHI--LISLGQTLQ----FTTVG 184 (205)
Q Consensus 117 sLkqPgPR~~~iQCfIkRdK~~~------tY~LyL~Ls~~~~d~GKFLLAARKrRrstts--lISlD~~Dl----~~yIG 184 (205)
.|+||||+|++|||+|+|||+|+ +||||++ .++++|||||||+|+++|+ |||+|++|| ++|||
T Consensus 4 fl~~P~P~~~~~qC~I~R~k~g~~~~~yp~y~l~~~-----~~~~~fLlaark~~~~~~s~YiIS~d~~dlsr~s~~yvG 78 (246)
T 3c5n_A 4 FVLRPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLD-----TEKKVFLLAGRKRKRSKTANYLISIDPTNLSRGGENFIG 78 (246)
T ss_dssp GGGSCCCTTCEEEEEEEECC------CCCEEEEEES-----SSSCCEEEEEEECTTCSSCEEEEESCTTC------CEEE
T ss_pred HcCCCCCCCceEEEEEEEeCCCCCCCCceEEEEEEe-----CCCcEEEEeeeeccCCCCceEEEEeCccccccCCceEEE
Confidence 48999999999999999999985 8999986 5678899999999999988 999999999 89999
Q ss_pred eec-c
Q 028711 185 RLT-M 188 (205)
Q Consensus 185 KLR-n 188 (205)
||| |
T Consensus 79 KLrsN 83 (246)
T 3c5n_A 79 KLRSN 83 (246)
T ss_dssp EEEEC
T ss_pred EEEEc
Confidence 999 7
No 2
>2fim_A Tubby related protein 1; tubby filled-barrel, beta-barrel, filled-beta-roll, 12-stran barrel, helix-filled-barrel, retinitis pigmentosa; HET: 3DP; 1.90A {Homo sapiens} PDB: 1s31_A*
Probab=99.87 E-value=8.7e-23 Score=179.13 Aligned_cols=68 Identities=32% Similarity=0.529 Sum_probs=59.5
Q ss_pred ccccCCCCCCCCeeeEEEecCCCc------eEEEeecCCCCCCCCCeEEEeccccCCCCee--EEeeCCCCc----cccc
Q 028711 116 SCLKQPGPREFPHQCLIRRNKKTS------TFYLYLALTPSFSEKGKFLLAARRYRRGAHI--LISLGQTLQ----FTTV 183 (205)
Q Consensus 116 ~sLkqPgPR~~~iQCfIkRdK~~~------tY~LyL~Ls~~~~d~GKFLLAARKrRrstts--lISlD~~Dl----~~yI 183 (205)
-.|+||||+|++|||+|+|||+|+ +|||||+ .|+|+|||||||+|+++|+ |||+|++|| ++||
T Consensus 27 ~fl~~P~P~~~~iqC~I~R~k~g~~~g~yp~y~L~l~-----~~~~~fLLaarK~k~~~ts~YiIS~d~~dlsr~s~~yv 101 (276)
T 2fim_A 27 EFVLRPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLD-----TEKKVFLLAGRKRKRSKTANYLISIDPTNLSRGGENFI 101 (276)
T ss_dssp TGGGSCCCTTCCEEEEEEEEC-------CCEEEEEEC-----SSSCEEEEEEEECTTCSSCEEEEESCTTC------CEE
T ss_pred HHhcCCCCCCCeEEEEEEEeCCCCCCCCceEEEEEEe-----CCCCEEEEEEEeccCCCCceEEEEecchhcccCCceEE
Confidence 459999999999999999999985 9999996 5789999999999999988 999999999 8999
Q ss_pred eeec-c
Q 028711 184 GRLT-M 188 (205)
Q Consensus 184 GKLR-n 188 (205)
|||| |
T Consensus 102 GKLrSN 107 (276)
T 2fim_A 102 GKLRSN 107 (276)
T ss_dssp EEEEEC
T ss_pred EEEEEc
Confidence 9999 7
No 3
>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB: 1ldk_E
Probab=98.53 E-value=2.2e-08 Score=65.64 Aligned_cols=40 Identities=30% Similarity=0.522 Sum_probs=33.1
Q ss_pred CCCCCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHH
Q 028711 53 SSGSWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITK 100 (205)
Q Consensus 53 ~~~~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~ 100 (205)
++..|+.||.|+|..|+.++ | .++++.|+.|||+|+.++.
T Consensus 5 ~~~~~~~LP~eil~~I~~~L-------~-~~dl~~~~~Vck~w~~~~~ 44 (53)
T 1fs1_A 5 PGVSWDSLPDELLLGIFSCL-------C-LPELLKVSGVCKRWYRLAS 44 (53)
T ss_dssp ----CCSSCHHHHHHHHTTS-------C-GGGHHHHHTTCHHHHHHHT
T ss_pred CCCCHHHCCHHHHHHHHHcC-------C-HHHHHHHHHHHHHHHHHhC
Confidence 35679999999999999999 4 3689999999999999884
No 4
>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A
Probab=97.71 E-value=9.1e-06 Score=66.29 Aligned_cols=40 Identities=30% Similarity=0.519 Sum_probs=34.3
Q ss_pred CCCCCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHH
Q 028711 53 SSGSWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITK 100 (205)
Q Consensus 53 ~~~~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~ 100 (205)
++..|.+||+|+|..|+.++ +.+ +++.|+.||++|++++.
T Consensus 5 ~~~~~~~LP~eil~~If~~L-------~~~-d~~~~~~vc~~W~~~~~ 44 (336)
T 2ast_B 5 PGVSWDSLPDELLLGIFSCL-------CLP-ELLKVSGVCKRWYRLAS 44 (336)
T ss_dssp --CCSSSSCHHHHHHHHTTS-------CHH-HHHHTTSSCHHHHHHHT
T ss_pred ccCChhhCCHHHHHHHHHhC-------CHH-HHHHHHHHHHHHHHHhc
Confidence 45789999999999999999 443 78999999999999983
No 5
>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*
Probab=97.56 E-value=1.5e-05 Score=69.74 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=30.9
Q ss_pred CCCCCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 53 SSGSWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 53 ~~~~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
+...|+.||+|+|..|+.+| |..+++++|+.|||+|+.+...
T Consensus 2 ~~d~~~~LPdevL~~If~~L-------~~~~d~~~~s~vck~W~~~~~~ 43 (594)
T 2p1m_B 2 QKRIALSFPEEVLEHVFSFI-------QLDKDRNSVSLVCKSWYEIERW 43 (594)
T ss_dssp --------CHHHHHHHHHTC-------CCHHHHHHHHTSCHHHHHHHHH
T ss_pred cccchhhCCHHHHHHHHhhc-------CCchhHHHHHHHHHHHHHhhhh
Confidence 45789999999999999999 7778999999999999998433
No 6
>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1; 2.40A {Mus musculus} PDB: 2e32_A
Probab=97.53 E-value=2.5e-05 Score=68.99 Aligned_cols=40 Identities=33% Similarity=0.628 Sum_probs=34.8
Q ss_pred CCCCCCCCHHHHHHHHhhhcccCCCCCCcccee-eeccccchHHHHHHH
Q 028711 54 SGSWAGLLPELLGEIIRRVETTEDSWPHRQNVV-ACACVCKRWREITKD 101 (205)
Q Consensus 54 ~~~Wa~lppELL~dii~rve~se~~wP~rk~vV-acA~VCr~WR~~~~e 101 (205)
......||+|||.+||.+| |.+ +++ .|++|||+||.++.+
T Consensus 48 ~~~~~~LP~ell~~Il~~L-------p~~-~L~~r~~~VCk~Wr~l~~~ 88 (297)
T 2e31_A 48 VEYLAELPEPLLLRVLAEL-------PAT-ELVQACRLVCLRWKELVDG 88 (297)
T ss_dssp CCCTTSSCHHHHHHHHHTS-------CHH-HHHHTGGGTCHHHHHHHTS
T ss_pred ccChhhCCHHHHHHHHHcC-------CHH-HHHHHHHHHhHHHHHHhcC
Confidence 3467899999999999999 774 688 999999999999753
No 7
>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double phosphorylation, transcription-C complex; HET: TPO; 2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB: 2ovp_B* 2ovq_B*
Probab=96.79 E-value=0.00035 Score=58.43 Aligned_cols=41 Identities=20% Similarity=0.335 Sum_probs=35.2
Q ss_pred CCCCCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 53 SSGSWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 53 ~~~~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
..+-.+.||+|++..||..| + -+++..|+.|||.|+.++.+
T Consensus 15 ~~d~~~~lp~e~~~~i~~~l-------~-~~~l~~~~~v~~~~~~~~~~ 55 (445)
T 2ovr_B 15 QRDFISLLPKELALYVLSFL-------E-PKDLLQAAQTCRYWRILAED 55 (445)
T ss_dssp CCSTTTSSCHHHHHHHHTTS-------C-HHHHHHHTTSCHHHHHHHTC
T ss_pred cCChhHHCCHHHHHHHHHhC-------C-HHHHHHHHHHhHHHHhhcCc
Confidence 45678999999999999999 3 36799999999999998753
No 8
>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide complex, E3 ubiquitin ligase, cell cycle, phospho binding protein, phosphorylation; HET: SEP; 2.31A {Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*
Probab=96.56 E-value=0.00045 Score=57.51 Aligned_cols=41 Identities=15% Similarity=0.289 Sum_probs=35.6
Q ss_pred CCCCCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 53 SSGSWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 53 ~~~~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
+.+-++.||+|+|..|+..| |. ++++.|+.|||.|+.++.+
T Consensus 11 ~~d~~~~lp~~~~~~i~~~l-------~~-~~l~~~~~v~~~w~~~~~~ 51 (464)
T 3v7d_B 11 KRDLITSLPFEISLKIFNYL-------QF-EDIINSLGVSQNWNKIIRK 51 (464)
T ss_dssp CCCHHHHSCHHHHHHHHTTS-------CH-HHHHHHHTTCHHHHHHHTT
T ss_pred ccCChHHCCHHHHHHHHhcC-------CH-HHHHHHHHHHHHHHHHHcC
Confidence 45568889999999999999 44 4899999999999998865
No 9
>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation, signaling protein; HET: SEP; 2.95A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1
Probab=96.09 E-value=0.0011 Score=55.58 Aligned_cols=40 Identities=23% Similarity=0.482 Sum_probs=33.3
Q ss_pred CCCCCCCCHH----HHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 54 SGSWAGLLPE----LLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 54 ~~~Wa~lppE----LL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
.+--+.||+| |+..|+..|+. +++..|+.|||+|+.++.+
T Consensus 8 ~d~~~~lp~e~~~~~~~~i~~~l~~--------~~l~~~~~v~~~w~~~~~~ 51 (435)
T 1p22_A 8 RDFITALPARGLDHIAENILSYLDA--------KSLCAAELVCKEWYRVTSD 51 (435)
T ss_dssp CCHHHHTGGGTCHHHHHHHHTTCCH--------HHHHHHHHHCHHHHHHHHH
T ss_pred cChHHHCCcchHHHHHHHHHhcCCH--------HHHHHHHHHHHHHHHHhcC
Confidence 3445679999 99999999943 6789999999999988853
No 10
>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*
Probab=95.98 E-value=0.0016 Score=57.05 Aligned_cols=38 Identities=13% Similarity=0.485 Sum_probs=33.2
Q ss_pred CCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 57 WAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 57 Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
.+.||+|+|..|+.+| +..+++++|+.|||+|+.+...
T Consensus 13 ~~~LPdeil~~I~~~L-------~~~~d~~~~s~vck~W~~~~~~ 50 (592)
T 3ogk_B 13 CVATVDDVIEQVMTYI-------TDPKDRDSASLVCRRWFKIDSE 50 (592)
T ss_dssp CCCCGGGTHHHHHTTC-------CCHHHHHHHTTSCHHHHHHHHH
T ss_pred cCCCCHHHHHHHHHhc-------CCHHHHHHHHHHhHHHHHhhhc
Confidence 4579999999999999 5568899999999999998543
No 11
>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}
Probab=95.93 E-value=0.00084 Score=60.37 Aligned_cols=38 Identities=13% Similarity=0.237 Sum_probs=33.5
Q ss_pred CCCCCCHHHHHHHHhhhcccCCCCCCccceeeeccccchHHHHHHH
Q 028711 56 SWAGLLPELLGEIIRRVETTEDSWPHRQNVVACACVCKRWREITKD 101 (205)
Q Consensus 56 ~Wa~lppELL~dii~rve~se~~wP~rk~vVacA~VCr~WR~~~~e 101 (205)
-|.+||.|++..|+..|+. +|+..||+|||.||.++.+
T Consensus 4 ~l~~LP~ei~l~IlsfL~p--------~DL~~l~~vcr~Wr~la~D 41 (312)
T 3l2o_B 4 TLTRLPIDVQLYILSFLSP--------HDLCQLGSTNHYWNETVRD 41 (312)
T ss_dssp HHHHSCHHHHHHHHHTSCH--------HHHHHHHTTCHHHHHHHTC
T ss_pred hhHhCCHHHHHHHHhcCCH--------HHHHHHHHHHHHHHHHhcc
Confidence 3778999999999999943 5799999999999999865
No 12
>3nct_A Protein PSIB; DNA binding protein, chaperone; 2.20A {Escherichia coli}
Probab=26.52 E-value=81 Score=25.65 Aligned_cols=30 Identities=27% Similarity=0.296 Sum_probs=21.4
Q ss_pred CCeeeEEEecCCCceEEEeecCCCCCCCCCeEE
Q 028711 126 FPHQCLIRRNKKTSTFYLYLALTPSFSEKGKFL 158 (205)
Q Consensus 126 ~~iQCfIkRdK~~~tY~LyL~Ls~~~~d~GKFL 158 (205)
.||||+|.=. +-.|+|+++ +++....++++
T Consensus 60 fPVq~RfsP~--~~~f~l~vC-SpG~~sP~W~~ 89 (144)
T 3nct_A 60 FPVQVRFTPA--HERFHLALC-SPGDVSQVWVL 89 (144)
T ss_dssp SSSEEEEEET--TCSEEEEEE-CSSSSCSSEEE
T ss_pred eeEEEEEcCC--CCceEEEEe-CCCCCCcceEE
Confidence 3799999984 368999997 55444556644
Done!