Query psy4671
Match_columns 104
No_of_seqs 139 out of 802
Neff 6.9
Searched_HMMs 29240
Date Fri Aug 16 22:50:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4671.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/4671hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1kqf_C FDH-N gamma, formate de 73.3 19 0.00065 24.5 12.7 83 9-91 49-168 (217)
2 2knc_A Integrin alpha-IIB; tra 62.2 16 0.00055 20.4 4.2 29 68-96 8-36 (54)
3 2l8s_A Integrin alpha-1; trans 59.1 15 0.00051 20.6 3.7 28 69-96 6-33 (54)
4 4gd3_A NI/Fe-hydrogenase 1 B-t 58.5 42 0.0014 23.1 9.1 46 47-92 132-198 (235)
5 2k1a_A Integrin alpha-IIB; sin 54.9 22 0.00075 18.8 4.5 29 69-97 7-35 (42)
6 1mot_A Glycine receptor alpha- 25.2 51 0.0018 15.2 2.0 13 57-69 3-15 (28)
7 1q16_C Cytochrome B-NR, respir 20.5 2.1E+02 0.0071 19.4 6.5 21 47-67 125-145 (225)
8 1pp9_C Cytochrome B; cytochrom 20.1 2.9E+02 0.01 20.9 8.1 52 12-63 78-131 (379)
9 2ks1_B Epidermal growth factor 18.9 1.2E+02 0.0041 15.9 3.1 8 94-101 33-40 (44)
10 3tij_A NUPC family protein; me 13.8 3.1E+02 0.011 21.3 5.1 19 50-68 37-55 (424)
No 1
>1kqf_C FDH-N gamma, formate dehydrogenase, nitrate-inducible, cytochr B556(FDN) subunit; oxidoreductase, selenium, selenocysteine, seCys, molybdenum; HET: MGD HEM CDL; 1.60A {Escherichia coli} SCOP: f.21.1.1 PDB: 1kqg_C*
Probab=73.30 E-value=19 Score=24.49 Aligned_cols=83 Identities=14% Similarity=0.200 Sum_probs=51.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--Cc---------------------------hhHHHHHHHHHHHHHHHH
Q psy4671 9 NPTTVQFDHRVLGISVFSLLTAQYWMGRKLK--LP---------------------------GRANLALACVTGMAYMQV 59 (104)
Q Consensus 9 ~~~~vqf~HR~~A~l~~~~~~~l~~~~~r~~--~~---------------------------~~~r~~~~~l~~lv~~Qv 59 (104)
++...-..|+..++++++.++...++.+|.. .+ +-.+.....+..++++|.
T Consensus 49 ~~~~~~~~H~~~G~~~~~l~~~r~~r~~r~~~p~~~~~~~~~~~~~yl~~~~~~~p~~~~~n~~~~~~~~~l~~l~~~~~ 128 (217)
T 1kqf_C 49 TPQMGRILHPFFGIAIFVALMFMFVRFVHHNIPDKKDIPWLLNIVEVLKGNEHKVADVGKYNAGQKMMFWSIMSMIFVLL 128 (217)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHGGGSCCCGGGHHHHHSHHHHHTTCHHHHCCCCSSCHHHHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 4455677999999999887765444222221 10 112233345667889999
Q ss_pred HHHHHHHHh--h--h----hHHHHHHHHHHHHHHHHHHHH
Q psy4671 60 ALGITTLLT--Y--V----PVSIAALHQSGSLILLSMALW 91 (104)
Q Consensus 60 ~lGi~tv~~--~--v----p~~la~~Hq~~a~~Ll~~~~~ 91 (104)
++|...... + . .-.....|...+.++++..+.
T Consensus 129 ~TG~~~~~~~~~~~~~~~~~~~~~~iH~~~a~~l~~~v~~ 168 (217)
T 1kqf_C 129 VTGVIIWRPYFAQYFPMQVVRYSLLIHAAAGIILIHAILI 168 (217)
T ss_dssp HHHHHTCTTTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999986531 1 2 234577899888877766554
No 2
>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=62.23 E-value=16 Score=20.40 Aligned_cols=29 Identities=17% Similarity=0.313 Sum_probs=24.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy4671 68 TYVPVSIAALHQSGSLILLSMALWLSHEM 96 (104)
Q Consensus 68 ~~vp~~la~~Hq~~a~~Ll~~~~~~~~~~ 96 (104)
..+|.|+-..=..++.++++.+++..+.+
T Consensus 8 ~~vp~wiIi~svl~GLllL~li~~~LwK~ 36 (54)
T 2knc_A 8 RAIPIWWVLVGVLGGLLLLTILVLAMWKV 36 (54)
T ss_dssp TTCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 36889998888999999999888887743
No 3
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=59.15 E-value=15 Score=20.57 Aligned_cols=28 Identities=21% Similarity=0.325 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy4671 69 YVPVSIAALHQSGSLILLSMALWLSHEM 96 (104)
Q Consensus 69 ~vp~~la~~Hq~~a~~Ll~~~~~~~~~~ 96 (104)
++|.|+-..=..++.++++.+++..+.+
T Consensus 6 ~vp~WiIi~svl~GLLLL~Lii~~LwK~ 33 (54)
T 2l8s_A 6 RVPLWVILLSAFAGLLLLMLLILALWKI 33 (54)
T ss_dssp CCCTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 5788888888889999999888887743
No 4
>4gd3_A NI/Fe-hydrogenase 1 B-type cytochrome subunit; O2-tolerant H2:quinone oxidoreductase, membrane-bound, NI-Fe hydrogenase-cytochrome B complex; HET: LMT HEM; 3.30A {Escherichia coli}
Probab=58.47 E-value=42 Score=23.13 Aligned_cols=46 Identities=13% Similarity=0.125 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh--hh----------h---------HHHHHHHHHHHHHHHHHHHHH
Q psy4671 47 ALACVTGMAYMQVALGITTLLT--YV----------P---------VSIAALHQSGSLILLSMALWL 92 (104)
Q Consensus 47 ~~~~l~~lv~~Qv~lGi~tv~~--~v----------p---------~~la~~Hq~~a~~Ll~~~~~~ 92 (104)
....+.+++++|.++|...... +. + -.+...|...+-++++..+..
T Consensus 132 ~~~~l~~ll~~~~ltG~~~~~~~~~~~~f~~~~~~~~~f~~~~~~~~~~~~iH~~~a~~l~~~v~lH 198 (235)
T 4gd3_A 132 AMFGYFLMSVFMIITGFALYSEHSQYAIFAPFRYVVEFFYWTGGNSMDIHSWHRLGMWLIGAFVIGH 198 (235)
T ss_dssp THHHHHHHHHHHHHHHHHHHTTTTCCSSCGGGHHHHHHHHHHTSCTHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccCCcccchhhHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHH
Confidence 3446777899999999986532 11 1 245668998887777665543
No 5
>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=54.93 E-value=22 Score=18.77 Aligned_cols=29 Identities=17% Similarity=0.303 Sum_probs=24.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy4671 69 YVPVSIAALHQSGSLILLSMALWLSHEMK 97 (104)
Q Consensus 69 ~vp~~la~~Hq~~a~~Ll~~~~~~~~~~~ 97 (104)
++|.++-..=..++.++++.+++..+.+.
T Consensus 7 ~vp~wiIi~s~l~GLllL~li~~~LwK~G 35 (42)
T 2k1a_A 7 AIPIWWVLVGVLGGLLLLTILVLAMWKVG 35 (42)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 57888888888999999999988877553
No 6
>1mot_A Glycine receptor alpha-1 chain; second transmembrane domain, micelles, membrane protein; NMR {Homo sapiens} SCOP: j.35.1.1
Probab=25.21 E-value=51 Score=15.21 Aligned_cols=13 Identities=62% Similarity=0.830 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHhh
Q psy4671 57 MQVALGITTLLTY 69 (104)
Q Consensus 57 ~Qv~lGi~tv~~~ 69 (104)
..+.+||.++++.
T Consensus 3 aRv~LGittvLt~ 15 (28)
T 1mot_A 3 ARVGLGITTVLTM 15 (28)
T ss_dssp HHHHHHHHHHHHH
T ss_pred ceEEEcchhHHHH
Confidence 3567888888753
No 7
>1q16_C Cytochrome B-NR, respiratory nitrate reductase 1 gamma chain; membrane protein, electron-transfer, oxidoreductase; HET: FME MD1 HEM AGA 3PH; 1.90A {Escherichia coli} SCOP: f.21.3.1 PDB: 1siw_C* 1y4z_C* 3ir5_C* 3ir6_C* 3ir7_C* 1y5l_C* 1y5i_C* 1y5n_C* 3egw_C*
Probab=20.48 E-value=2.1e+02 Score=19.40 Aligned_cols=21 Identities=29% Similarity=0.343 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy4671 47 ALACVTGMAYMQVALGITTLL 67 (104)
Q Consensus 47 ~~~~l~~lv~~Qv~lGi~tv~ 67 (104)
.-.....++..++.+|..+-.
T Consensus 125 ~d~~il~ll~~i~~tGl~~~~ 145 (225)
T 1q16_C 125 ADILILSLLVIQCALGLLTIP 145 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445778899999999987744
No 8
>1pp9_C Cytochrome B; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: f.32.1.1 f.21.1.2 PDB: 1bgy_C* 1be3_C* 1l0n_C* 1ntk_C* 1ntm_C* 1ntz_C* 1nu1_C* 1l0l_C* 1ppj_C* 1sqb_C* 1sqp_C* 1sqq_C* 1sqv_C* 1sqx_C* 2a06_C* 2fyu_C* 2ybb_C* 1qcr_C* 3l70_C* 2bcc_C* ...
Probab=20.05 E-value=2.9e+02 Score=20.95 Aligned_cols=52 Identities=10% Similarity=-0.127 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh--ccCchhHHHHHHHHHHHHHHHHHHHH
Q psy4671 12 TVQFDHRVLGISVFSLLTAQYWMGRK--LKLPGRANLALACVTGMAYMQVALGI 63 (104)
Q Consensus 12 ~vqf~HR~~A~l~~~~~~~l~~~~~r--~~~~~~~r~~~~~l~~lv~~Qv~lGi 63 (104)
.+...|+.+|...++.+-....+..- +-+.++....+..+..++...+.+|.
T Consensus 78 liR~~H~~gAs~ffi~~ylHi~Rglyygsy~~~~~W~~Gv~l~ll~m~~aF~GY 131 (379)
T 1pp9_C 78 IIRYMHANGASMFFICLYMHVGRGLYYGSYTFLETWNIGVILLLTVMATAFMGY 131 (379)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTGGGSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHheecCcceehhhHHHHHHHHHHHheee
Confidence 57789999999988887665554321 21223344445556667777777764
No 9
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=18.86 E-value=1.2e+02 Score=15.95 Aligned_cols=8 Identities=13% Similarity=-0.081 Sum_probs=3.5
Q ss_pred HHhccccc
Q psy4671 94 HEMKHVKR 101 (104)
Q Consensus 94 ~~~~~~~~ 101 (104)
+.+|+++.
T Consensus 33 ~~~RRr~~ 40 (44)
T 2ks1_B 33 LFMRRRHI 40 (44)
T ss_dssp HHHHTTTC
T ss_pred HHhhhhHh
Confidence 34444443
No 10
>3tij_A NUPC family protein; membrane transporter, nucleoside transporter, drug transport uridine, nucleosides, membrane protein; HET: URI DMU; 2.44A {Vibrio cholerae}
Probab=13.75 E-value=3.1e+02 Score=21.29 Aligned_cols=19 Identities=32% Similarity=0.363 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy4671 50 CVTGMAYMQVALGITTLLT 68 (104)
Q Consensus 50 ~l~~lv~~Qv~lGi~tv~~ 68 (104)
.+...+.+|..+|...+.+
T Consensus 37 ~V~~gl~lQ~~la~~vL~~ 55 (424)
T 3tij_A 37 TVGGAFAIQFSLGAFILYV 55 (424)
T ss_dssp HHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 4667889999999988764
Done!