Query 008307
Match_columns 570
No_of_seqs 240 out of 850
Neff 6.7
Searched_HMMs 29240
Date Mon Mar 25 23:06:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008307.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/008307hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3rce_A Oligosaccharide transfe 95.7 1.1 3.8E-05 50.8 22.7 82 112-196 89-172 (724)
2 1g70_B RSG-1.2 peptide; peptid 9.1 89 0.003 19.0 0.5 13 5-17 2-14 (26)
3 2k1a_A Integrin alpha-IIB; sin 7.9 5.8E+02 0.02 17.7 4.4 17 280-296 2-18 (42)
4 4hn1_A Putative 3-epimerase in 5.7 3.6E+02 0.012 25.3 3.2 36 502-551 78-113 (201)
5 2knc_A Integrin alpha-IIB; tra 5.2 8.1E+02 0.028 18.0 4.2 12 285-296 9-20 (54)
6 1nxm_A DTDP-6-deoxy-D-XYLO-4-h 3.9 6.3E+02 0.021 23.4 3.4 32 503-551 92-123 (197)
7 2l8s_A Integrin alpha-1; trans 3.8 1.2E+03 0.043 17.0 4.2 12 285-296 6-17 (54)
8 3ryk_A DTDP-4-dehydrorhamnose 3.6 7.1E+02 0.024 23.2 3.6 36 502-551 104-139 (205)
9 1dzr_A DTDP-4-dehydrorhamnose 3.4 8.1E+02 0.028 22.3 3.6 36 502-551 81-116 (183)
10 1ep0_A DTDP-6-deoxy-D-XYLO-4-h 3.3 8.2E+02 0.028 22.3 3.6 36 502-551 81-116 (185)
No 1
>3rce_A Oligosaccharide transferase to N-glycosylate PROT; oligosaccharyltransferase, membrane protein, helical bundle, glycosylation, acceptor peptide, plasma membrane; HET: PPN; 3.40A {Campylobacter lari}
Probab=95.71 E-value=1.1 Score=50.83 Aligned_cols=82 Identities=4% Similarity=-0.086 Sum_probs=52.5
Q ss_pred HHHHHhhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhHHHHHHHHHhhccceeeecc--cCchHHHHHHHHH
Q 008307 112 RPASWLFAEDKVRVFYAVRLFLGLLSVTTDAVLVVALSRKYGRRLASYTLAMLCLTSGCFFASTS--FLPSSFSMYAISL 189 (570)
Q Consensus 112 ~~~~~~l~~~~~~~~~~~Rl~lal~s~~~d~~~~~~~~~~~g~~~a~~~ll~~~~s~~~~~~str--tlpnsf~~~~~~~ 189 (570)
..+.+++|.+ ...+.+.+-+++++++-..+|-.+++..|...|....++.+.+++...=++. .=.++++..+.++
T Consensus 89 a~l~~i~g~s---l~~v~~~lp~ifg~L~vi~~yll~~el~~~~aGl~AAll~ai~P~~i~RS~aG~~D~e~l~i~~~ll 165 (724)
T 3rce_A 89 YWLYSILPFS---FESIILYMSTFFASLIVVPIILIAREYKLTTYGFIAALLGSIANSYYNRTMSGYYDTDMLVLVLPML 165 (724)
T ss_dssp HHHHHSCSSC---HHHHHHHHHHHHGGGGHHHHHHHHHHTTCHHHHHHHHHHHTTSHHHHHTSSTTCCSGGGGTTHHHHH
T ss_pred HHHHHHcCCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHH
Confidence 3344456655 3355677777888887788888888888888888888888888873222211 2344455555555
Q ss_pred HHHHHhc
Q 008307 190 ASGFFLL 196 (570)
Q Consensus 190 al~~~l~ 196 (570)
+++.|.+
T Consensus 166 ~~~~~i~ 172 (724)
T 3rce_A 166 ILLTFIR 172 (724)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5555543
No 2
>1g70_B RSG-1.2 peptide; peptide-RNA complex, non-canonical base pairs, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: j.9.3.1
Probab=9.10 E-value=89 Score=19.04 Aligned_cols=13 Identities=31% Similarity=0.429 Sum_probs=8.6
Q ss_pred ccccCCCCCCCCC
Q 008307 5 TRQRRPLPSDPPP 17 (570)
Q Consensus 5 ~~~~~~~~~~~~~ 17 (570)
||||+++++++..
T Consensus 2 rrrrgsrpsgaer 14 (26)
T 1g70_B 2 RRRRGSRPSGAER 14 (26)
T ss_pred ccccCCCCchHHH
Confidence 5677777766554
No 3
>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A
Probab=7.86 E-value=5.8e+02 Score=17.75 Aligned_cols=17 Identities=6% Similarity=-0.158 Sum_probs=10.3
Q ss_pred CccccccchhHHHHhhh
Q 008307 280 SHLYGIEGPLYYLRNAF 296 (570)
Q Consensus 280 s~~yGt~Pw~~Y~~~~l 296 (570)
++.....||+-++...+
T Consensus 2 ~~~~~~vp~wiIi~s~l 18 (42)
T 2k1a_A 2 ALEERAIPIWWVLVGVL 18 (42)
T ss_dssp CSSCCCCCHHHHHHHHH
T ss_pred CCCcCCcchHHHHHHHH
Confidence 44455678887766554
No 4
>4hn1_A Putative 3-epimerase in D-allose pathway; 3'-monoepimerase, natural product, deoxysugar, chalcomycin, mycinose, cupin fold; HET: TYD THM; 1.60A {Streptomyces bikiniensis} PDB: 4hmz_A* 4hn0_A
Probab=5.75 E-value=3.6e+02 Score=25.29 Aligned_cols=36 Identities=17% Similarity=0.450 Sum_probs=25.3
Q ss_pred CCccEEEEccCCCCCCCCCCCCCCceEeeeeccccCCCCCcceeeeEecc
Q 008307 502 EACTFLVELQLNRPYPSRGSDLSKWEPIAALPYLDREFSPPLYRSFFIPY 551 (570)
Q Consensus 502 ~~Cdy~vd~~~~~~~~~~~~~~~~W~~v~~~~fld~~~s~~~~R~~yiP~ 551 (570)
+-+|.+||+..+ .|.+ ++|+.+ .|++++ .|.+|||-
T Consensus 78 ~v~DV~VDlR~~--SpTf----G~w~~v----~Ls~en----~~~l~IP~ 113 (201)
T 4hn1_A 78 AGLDVVVDVRIG--SPTF----GRWEIV----PMDAER----NTAVYLTA 113 (201)
T ss_dssp EEEEEEECCCBT--CTTT----TCEEEE----EEETTT----CCEEEECT
T ss_pred eEEEEEEECCCC--CCCC----CeEEEE----EecCCC----CCEEEeCC
Confidence 559999998653 2333 579876 466654 59999997
No 5
>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=5.23 E-value=8.1e+02 Score=17.98 Aligned_cols=12 Identities=8% Similarity=-0.022 Sum_probs=7.5
Q ss_pred ccchhHHHHhhh
Q 008307 285 IEGPLYYLRNAF 296 (570)
Q Consensus 285 t~Pw~~Y~~~~l 296 (570)
.-||+.++...+
T Consensus 9 ~vp~wiIi~svl 20 (54)
T 2knc_A 9 AIPIWWVLVGVL 20 (54)
T ss_dssp TCCHHHHHHHHH
T ss_pred CcchHHHHHHHH
Confidence 457777666554
No 6
>1nxm_A DTDP-6-deoxy-D-XYLO-4-hexulose 3,5-epimerase; jelly roll-like structure, beta sheet, isomerase; 1.30A {Streptococcus suis} SCOP: b.82.1.1 PDB: 1nyw_A* 1nzc_A* 2ixl_A*
Probab=3.86 E-value=6.3e+02 Score=23.43 Aligned_cols=32 Identities=19% Similarity=0.250 Sum_probs=22.6
Q ss_pred CccEEEEccCCCCCCCCCCCCCCceEeeeeccccCCCCCcceeeeEecc
Q 008307 503 ACTFLVELQLNRPYPSRGSDLSKWEPIAALPYLDREFSPPLYRSFFIPY 551 (570)
Q Consensus 503 ~Cdy~vd~~~~~~~~~~~~~~~~W~~v~~~~fld~~~s~~~~R~~yiP~ 551 (570)
-+|.+||.. +. |.+ ++|+.+ .|++ .|.+|||-
T Consensus 92 v~dV~VDlR-~S--pTf----g~~~~v----~Ls~------~~~L~IP~ 123 (197)
T 1nxm_A 92 VLGTWVDLR-EG--ETF----GNTYQT----VIDA------SKSIFVPR 123 (197)
T ss_dssp EEEEEEECB-SS--TTT----TCEEEE----EECT------TEEEEECT
T ss_pred EEEEEEECC-CC--CCC----CeEEEE----EeCC------CcEEEeCC
Confidence 389999987 42 332 578776 3552 69999997
No 7
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=3.78 E-value=1.2e+03 Score=17.00 Aligned_cols=12 Identities=25% Similarity=0.041 Sum_probs=7.3
Q ss_pred ccchhHHHHhhh
Q 008307 285 IEGPLYYLRNAF 296 (570)
Q Consensus 285 t~Pw~~Y~~~~l 296 (570)
.-||+.++...+
T Consensus 6 ~vp~WiIi~svl 17 (54)
T 2l8s_A 6 RVPLWVILLSAF 17 (54)
T ss_dssp CCCTHHHHHHHH
T ss_pred cCchHHHHHHHH
Confidence 457777665554
No 8
>3ryk_A DTDP-4-dehydrorhamnose 3,5-epimerase; rhamnose pathway, STRU genomics, infectious diseases; HET: TYD; 1.63A {Bacillus anthracis str}
Probab=3.63 E-value=7.1e+02 Score=23.22 Aligned_cols=36 Identities=19% Similarity=0.457 Sum_probs=24.4
Q ss_pred CCccEEEEccCCCCCCCCCCCCCCceEeeeeccccCCCCCcceeeeEecc
Q 008307 502 EACTFLVELQLNRPYPSRGSDLSKWEPIAALPYLDREFSPPLYRSFFIPY 551 (570)
Q Consensus 502 ~~Cdy~vd~~~~~~~~~~~~~~~~W~~v~~~~fld~~~s~~~~R~~yiP~ 551 (570)
+-+|.+||+..+ .|.+ ++|+.+ .|++++ .|.+|||-
T Consensus 104 ~v~DV~VDlR~~--SpTf----g~~~~~----~Ls~~n----~~~L~IP~ 139 (205)
T 3ryk_A 104 AIYDVIVDLRKD--SPTF----KQWRGY----ILSADN----HRQLLVPK 139 (205)
T ss_dssp EEEEEEEECCTT--STTT----TCEEEE----EEETTT----CCEEEECT
T ss_pred eEEEEEEECCCC--CCCC----CeEEEE----EecCCC----CCEEEeCC
Confidence 558999997642 2222 578866 466654 48999997
No 9
>1dzr_A DTDP-4-dehydrorhamnose 3\,5-epimerase; isomerase, 3\,5-hexulose epimerase; 2.17A {Salmonella typhimurium} SCOP: b.82.1.1 PDB: 1dzt_A*
Probab=3.35 E-value=8.1e+02 Score=22.27 Aligned_cols=36 Identities=25% Similarity=0.473 Sum_probs=24.6
Q ss_pred CCccEEEEccCCCCCCCCCCCCCCceEeeeeccccCCCCCcceeeeEecc
Q 008307 502 EACTFLVELQLNRPYPSRGSDLSKWEPIAALPYLDREFSPPLYRSFFIPY 551 (570)
Q Consensus 502 ~~Cdy~vd~~~~~~~~~~~~~~~~W~~v~~~~fld~~~s~~~~R~~yiP~ 551 (570)
+-+|.+||+..+ .|.+ ++|+.+ .|++++ .|.+|||-
T Consensus 81 ~v~dV~VD~R~~--SpTf----g~~~~~----~Ls~~n----~~~L~IP~ 116 (183)
T 1dzr_A 81 EVFDVAVDIRKE--SPTF----GQWVGV----NLSAEN----KRQLWIPE 116 (183)
T ss_dssp EEEEEEEECCTT--CTTT----TCEEEE----EEETTT----CCEEEECT
T ss_pred eEEEEEEECCCC--CCCC----CeEEEE----EecCCC----CCEEEeCC
Confidence 336999997542 2333 478876 577764 48899997
No 10
>1ep0_A DTDP-6-deoxy-D-XYLO-4-hexulose 3,5-epimerase; racemase, DTDP-4-dehydrorhamnose epimerase, structural genomics, PSI; 1.50A {Methanothermobacterthermautotrophicus} SCOP: b.82.1.1 PDB: 1epz_A*
Probab=3.31 E-value=8.2e+02 Score=22.28 Aligned_cols=36 Identities=33% Similarity=0.532 Sum_probs=24.8
Q ss_pred CCccEEEEccCCCCCCCCCCCCCCceEeeeeccccCCCCCcceeeeEecc
Q 008307 502 EACTFLVELQLNRPYPSRGSDLSKWEPIAALPYLDREFSPPLYRSFFIPY 551 (570)
Q Consensus 502 ~~Cdy~vd~~~~~~~~~~~~~~~~W~~v~~~~fld~~~s~~~~R~~yiP~ 551 (570)
+-+|.+||+..+ .|.+ ++|+.+ .|++++ .|.+|||-
T Consensus 81 ~v~dV~VD~R~~--SpTf----g~~~~~----~Ls~~n----~~~L~IP~ 116 (185)
T 1ep0_A 81 EIFDVAVDLRKN--SDTY----GEWTGV----RLSDEN----RREFFIPE 116 (185)
T ss_dssp EEEEEEEECCTT--CTTT----TCEEEE----EEETTT----CCEEEECT
T ss_pred eEEEEEEECCCC--CCCC----CeEEEE----EecCCC----CCEEEeCC
Confidence 346999997642 2333 578876 577764 48899997
Done!