Query 035538
Match_columns 171
No_of_seqs 20 out of 22
Neff 2.2
Searched_HMMs 29240
Date Mon Mar 25 05:46:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035538.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/035538hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2knc_B Integrin beta-3; transm 92.1 0.13 4.4E-06 36.3 3.4 41 100-143 12-52 (79)
2 1s4x_A Integrin beta-3; cell a 60.6 3.1 0.00011 28.9 1.2 30 111-143 11-40 (67)
3 3arc_T Photosystem II reaction 32.1 7.9 0.00027 24.0 -0.4 18 109-126 4-21 (32)
4 1pd7_B MAD1; PAH2, SIN3, eukar 30.2 20 0.00068 21.4 1.2 10 127-136 12-21 (26)
5 3ogk_Q JAZ1 incomplete degron 29.4 16 0.00054 21.0 0.6 11 125-135 4-14 (22)
6 3eff_K Voltage-gated potassium 27.7 71 0.0024 22.6 4.0 33 102-134 69-101 (139)
7 2bn5_B U1 small nuclear ribonu 24.3 24 0.00082 20.9 0.8 11 6-16 8-18 (26)
8 2kse_A Sensor protein QSEC; me 24.2 19 0.00063 24.4 0.3 27 111-137 22-48 (186)
9 3ogl_Q JAZ1 incomplete degron 24.2 20 0.0007 20.4 0.4 10 125-134 9-18 (21)
10 2i68_A Protein EMRE; transmemb 23.4 26 0.0009 26.1 1.0 16 111-126 88-103 (137)
11 4f4l_A ION transport protein; 22.5 59 0.002 22.9 2.7 25 99-124 71-95 (112)
12 2knc_B Integrin beta-3; transm 22.4 77 0.0026 22.0 3.2 37 113-149 18-55 (79)
13 2jwa_A Receptor tyrosine-prote 20.4 42 0.0014 21.7 1.4 7 130-136 34-40 (44)
No 1
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=92.06 E-value=0.13 Score=36.33 Aligned_cols=41 Identities=29% Similarity=0.374 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHhhheeeeeehhhhhhhHHHHHHHHHHH
Q 035538 100 SSVISVLLFAAFIALSILTIGVVYIGVTDFLQKREREKFEKEEA 143 (171)
Q Consensus 100 a~vis~LlfvAfvgLsilTiGViYL~VtdFlqKRe~EkfeKeEa 143 (171)
+.+..++..+..+||.+|-+ +--++.+-++||-+|||||-.
T Consensus 12 ~Iv~gvi~gilliGllllli---wk~~~~i~DrrE~~kFEkE~~ 52 (79)
T 2knc_B 12 VVLLSVMGAILLIGLAALLI---WKLLITIHDRKEFAKFEEERA 52 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
Confidence 34445555556666665543 444577889999999998833
No 2
>1s4x_A Integrin beta-3; cell adhesion; NMR {Homo sapiens} SCOP: j.60.1.1 PDB: 2ljd_A* 2lje_A* 2ljf_A*
Probab=60.64 E-value=3.1 Score=28.88 Aligned_cols=30 Identities=20% Similarity=0.127 Sum_probs=15.2
Q ss_pred HHHHHHhhheeeeeehhhhhhhHHHHHHHHHHH
Q 035538 111 FIALSILTIGVVYIGVTDFLQKREREKFEKEEA 143 (171)
Q Consensus 111 fvgLsilTiGViYL~VtdFlqKRe~EkfeKeEa 143 (171)
+|||.+|-|--+ +...-++||=.|||+|..
T Consensus 11 liGl~lLliwKl---l~~i~DrrEyakFE~Er~ 40 (67)
T 1s4x_A 11 SGLVPRGSHMKL---LITIHDRKEFAKFEEERA 40 (67)
T ss_dssp ----------CH---HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHH---HHhhhhHHHHHHHHHHHH
Confidence 456666554433 466778999999999854
No 3
>3arc_T Photosystem II reaction center protein T; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_T* 2axt_T* 3bz1_T* 3bz2_T* 3kzi_T* 3prq_T* 3prr_T* 3a0b_T* 3a0h_T*
Probab=32.12 E-value=7.9 Score=24.01 Aligned_cols=18 Identities=6% Similarity=0.351 Sum_probs=12.0
Q ss_pred HHHHHHHHhhheeeeeeh
Q 035538 109 AAFIALSILTIGVVYIGV 126 (171)
Q Consensus 109 vAfvgLsilTiGViYL~V 126 (171)
++++-|.+.|+||++.+|
T Consensus 4 ~vYt~ll~~tlgiiFFAI 21 (32)
T 3arc_T 4 ITYVFIFACIIALFFFAI 21 (32)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 345556677778777665
No 4
>1pd7_B MAD1; PAH2, SIN3, eukaryotic transcriptional regulation, protein-protein interactions; NMR {Mus musculus}
Probab=30.18 E-value=20 Score=21.40 Aligned_cols=10 Identities=60% Similarity=1.179 Sum_probs=8.2
Q ss_pred hhhhhhHHHH
Q 035538 127 TDFLQKRERE 136 (171)
Q Consensus 127 tdFlqKRe~E 136 (171)
.+||++||+|
T Consensus 12 AeyLErrEre 21 (26)
T 1pd7_B 12 ADYLERRERE 21 (26)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHh
Confidence 4899999984
No 5
>3ogk_Q JAZ1 incomplete degron peptide; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana}
Probab=29.36 E-value=16 Score=20.97 Aligned_cols=11 Identities=36% Similarity=0.700 Sum_probs=8.5
Q ss_pred ehhhhhhhHHH
Q 035538 125 GVTDFLQKRER 135 (171)
Q Consensus 125 ~VtdFlqKRe~ 135 (171)
+++-|||||..
T Consensus 4 SLqRFleKRk~ 14 (22)
T 3ogk_Q 4 SLHRFLEKRKD 14 (26)
T ss_pred hHHHHHHHHHH
Confidence 57889999854
No 6
>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix, cell membrane, ION transport, ionic channel, membrane, transmembrane; 3.80A {Streptomyces lividans}
Probab=27.66 E-value=71 Score=22.58 Aligned_cols=33 Identities=18% Similarity=0.096 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHhhheeeeeehhhhhhhHH
Q 035538 102 VISVLLFAAFIALSILTIGVVYIGVTDFLQKRE 134 (171)
Q Consensus 102 vis~LlfvAfvgLsilTiGViYL~VtdFlqKRe 134 (171)
+++.++.+.-+++..+.+|++.-.+.+..++|.
T Consensus 69 ~~~~~~~~~G~~~~~~~~~~i~~~~~~~~~~~~ 101 (139)
T 3eff_K 69 LVAVVVMVAGITSFGLVTAALATWFVGREQERR 101 (139)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTTTTHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333334445554444555555543
No 7
>2bn5_B U1 small nuclear ribonucleoprotein 70 kDa; nuclear protein, splicing, protein-protein interaction, structure, proline-rich peptide; NMR {Drosophila melanogaster}
Probab=24.27 E-value=24 Score=20.92 Aligned_cols=11 Identities=36% Similarity=0.733 Sum_probs=8.8
Q ss_pred CceecCCCCcc
Q 035538 6 PSISLSRPPII 16 (171)
Q Consensus 6 ~~isl~~~p~~ 16 (171)
.|.|.+||||+
T Consensus 8 nmfsvppppi~ 18 (26)
T 2bn5_B 8 NMFSVPPPPIL 18 (26)
T ss_dssp CCCSCCCCSCC
T ss_pred ceecCCCCCcc
Confidence 57899999954
No 8
>2kse_A Sensor protein QSEC; methods development, histidine kinase receptor, membrane domain, two-helical hairpin, cell-free synthesis, ATP- binding; NMR {Escherichia coli}
Probab=24.23 E-value=19 Score=24.37 Aligned_cols=27 Identities=15% Similarity=0.005 Sum_probs=11.2
Q ss_pred HHHHHHhhheeeeeehhhhhhhHHHHH
Q 035538 111 FIALSILTIGVVYIGVTDFLQKREREK 137 (171)
Q Consensus 111 fvgLsilTiGViYL~VtdFlqKRe~Ek 137 (171)
++.+.++...++|..+.+.++.+-.+.
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~d~~ 48 (186)
T 2kse_A 22 ASVTWLLSSFVAWKQTTDNVDELFDTQ 48 (186)
T ss_dssp HHHHHHHHHHHHSCCCSCC--------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344445567877777776655444
No 9
>3ogl_Q JAZ1 incomplete degron peptide; leucine-rich repeats, ubiquitin ligase, SCF, protein binding; HET: 7JA; 3.18A {Arabidopsis thaliana} PDB: 3ogm_Q*
Probab=24.21 E-value=20 Score=20.38 Aligned_cols=10 Identities=40% Similarity=0.780 Sum_probs=8.0
Q ss_pred ehhhhhhhHH
Q 035538 125 GVTDFLQKRE 134 (171)
Q Consensus 125 ~VtdFlqKRe 134 (171)
+++-|||||.
T Consensus 9 SLqRFleKRk 18 (21)
T 3ogl_Q 9 SLHRFLEKRK 18 (26)
T ss_pred HHHHHHHHhh
Confidence 5778999985
No 10
>2i68_A Protein EMRE; transmembrane protein, small-multidrug resistance, transporter, homodimer, dual topology, transport protein; NMR {Escherichia coli}
Probab=23.43 E-value=26 Score=26.06 Aligned_cols=16 Identities=25% Similarity=0.594 Sum_probs=10.9
Q ss_pred HHHHHHhhheeeeeeh
Q 035538 111 FIALSILTIGVVYIGV 126 (171)
Q Consensus 111 fvgLsilTiGViYL~V 126 (171)
++|+.++.+||+-+..
T Consensus 88 ~~Gi~LIi~GV~ll~~ 103 (137)
T 2i68_A 88 IIGMMLICAGVLIINL 103 (137)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhc
Confidence 4677777778776653
No 11
>4f4l_A ION transport protein; alpha helical membrane protein, voltage-gated sodium channel membrane, metal transport; 3.49A {Magnetococcus marinus}
Probab=22.49 E-value=59 Score=22.87 Aligned_cols=25 Identities=20% Similarity=0.494 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHHHHHHHHhhheeeee
Q 035538 99 LSSVISVLLFAAFIALSILTIGVVYI 124 (171)
Q Consensus 99 ~a~vis~LlfvAfvgLsilTiGViYL 124 (171)
.-++|+.+++..|+.|-++ +|||.=
T Consensus 71 ~iyFi~fi~i~~fi~lNLf-iaVi~~ 95 (112)
T 4f4l_A 71 WVFFIPFIMLTTFTVLNLF-IGIIVD 95 (112)
T ss_dssp HHHHHHHHHHHHHHHHHHH-TTTC--
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 4567777777777777654 577753
No 12
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=22.36 E-value=77 Score=21.96 Aligned_cols=37 Identities=24% Similarity=0.356 Sum_probs=21.0
Q ss_pred HHHHhhheeeeeehhh-hhhhHHHHHHHHHHHHhhhhh
Q 035538 113 ALSILTIGVVYIGVTD-FLQKREREKFEKEEAATKKKK 149 (171)
Q Consensus 113 gLsilTiGViYL~Vtd-FlqKRe~EkfeKeEaak~kkk 149 (171)
...||-||++-|.+=- +..=..+.+++|-|.++++.+
T Consensus 18 i~gilliGllllliwk~~~~i~DrrE~~kFEkE~~~~~ 55 (79)
T 2knc_B 18 MGAILLIGLAALLIWKLLITIHDRKEFAKFEEERARAK 55 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3345556655554444 444456667777787766553
No 13
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=20.45 E-value=42 Score=21.69 Aligned_cols=7 Identities=43% Similarity=0.648 Sum_probs=2.9
Q ss_pred hhhHHHH
Q 035538 130 LQKRERE 136 (171)
Q Consensus 130 lqKRe~E 136 (171)
+=+|.++
T Consensus 34 ~~RRR~~ 40 (44)
T 2jwa_A 34 LIKRRQQ 40 (44)
T ss_dssp HHHHHCS
T ss_pred heehhhh
Confidence 3344433
Done!