Query psy9508
Match_columns 511
No_of_seqs 83 out of 85
Neff 3.8
Searched_HMMs 29240
Date Fri Aug 16 21:19:26 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9508.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/9508hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xpn_B SPT6, chromatin structu 1.8 8.4E+02 0.029 16.3 1.1 12 2-13 8-19 (26)
2 1xok_C Coat protein; protein-R 1.6 6.9E+02 0.024 16.5 0.3 10 19-28 12-21 (26)
3 2e6z_A Transcription elongatio 0.9 2.1E+03 0.072 16.0 1.7 17 86-102 6-23 (59)
4 2klu_A T-cell surface glycopro 0.7 1.5E+03 0.053 18.3 -0.0 9 50-58 40-48 (70)
5 1ejp_A Syndecan-4; symmetric-p 0.7 3.1E+03 0.11 13.8 1.5 15 183-197 5-19 (28)
6 2rqh_A G1 to S phase transitio 0.6 2.9E+03 0.099 13.7 1.1 17 35-51 4-20 (26)
7 1pyl_A Ribonuclease; alpha-bet 0.6 4E+03 0.14 16.5 2.3 30 9-38 55-84 (97)
8 2rh2_A Dihydrofolate reductase 0.6 2.4E+03 0.081 16.3 0.7 9 208-216 31-39 (62)
9 3uky_C Nuclear CAP-binding pro 0.6 4.2E+03 0.14 13.4 1.9 19 328-346 5-24 (32)
10 1d0d_A TAP, anticoagulant prot 0.6 2.6E+03 0.089 16.2 0.7 9 19-30 6-14 (60)
No 1
>2xpn_B SPT6, chromatin structure modulator; transcription, elongation, histone chaperone, RNA polymerase mRNA export; 1.95A {Encephalitozoon cuniculi} PDB: 2xpo_B
Probab=1.83 E-value=8.4e+02 Score=16.30 Aligned_cols=12 Identities=25% Similarity=0.307 Sum_probs=9.6
Q ss_pred ceeeccceeeee
Q psy9508 2 IFVTSAHEEFTE 13 (511)
Q Consensus 2 ~~~~~~~~~~~~ 13 (511)
||-+-++|.|+.
T Consensus 8 IFGtG~EYrYil 19 (26)
T 2xpn_B 8 IFGTGEEYRYVL 19 (26)
T ss_pred EecCCceEEEEe
Confidence 688889999953
No 2
>1xok_C Coat protein; protein-RNA complex, alpha helix, atypical RNA duplex, viral RNA complex; 3.00A {Synthetic} SCOP: j.9.7.1
Probab=1.57 E-value=6.9e+02 Score=16.52 Aligned_cols=10 Identities=30% Similarity=0.308 Sum_probs=7.3
Q ss_pred cccccccccc
Q psy9508 19 VKPQRRRTWT 28 (511)
Q Consensus 19 ~~~~~~~~~~ 28 (511)
-||+.|++|.
T Consensus 12 gkptkrsqny 21 (26)
T 1xok_C 12 GKPTKRSQNY 21 (26)
T ss_pred CCCcccchhh
Confidence 3788888874
No 3
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=0.95 E-value=2.1e+03 Score=15.95 Aligned_cols=17 Identities=29% Similarity=0.483 Sum_probs=11.4
Q ss_pred CCCCCCCCCc-CCCCCCC
Q psy9508 86 KQQKPKDNLR-PEGDFER 102 (511)
Q Consensus 86 ~~~rp~DNL~-peG~F~~ 102 (511)
....++|+++ .+|+|.+
T Consensus 6 ~~f~~GD~V~V~~Gpf~g 23 (59)
T 2e6z_A 6 SGFQPGDNVEVCEGELIN 23 (59)
T ss_dssp SSCCTTSEEEECSSTTTT
T ss_pred ccCCCCCEEEEeecCCCC
Confidence 3456677777 4777766
No 4
>2klu_A T-cell surface glycoprotein CD4; cell membrane, disulfide bond, HOST- virus interaction, immune response, immunoglobulin domain, lipoprotein; NMR {Homo sapiens}
Probab=0.69 E-value=1.5e+03 Score=18.27 Aligned_cols=9 Identities=22% Similarity=0.379 Sum_probs=6.1
Q ss_pred cccccCccc
Q psy9508 50 TDLRQAQVR 58 (511)
Q Consensus 50 ~~eRp~~vr 58 (511)
-|||.+|+|
T Consensus 40 qAeRMSQik 48 (70)
T 2klu_A 40 QAERMSQIK 48 (70)
T ss_dssp SCTTSSHHH
T ss_pred HHHHHHHHH
Confidence 577777765
No 5
>1ejp_A Syndecan-4; symmetric-parallel-interwinded dimer, signaling protein; NMR {Synthetic} SCOP: j.80.1.1 PDB: 1ejq_A
Probab=0.69 E-value=3.1e+03 Score=13.81 Aligned_cols=15 Identities=27% Similarity=0.485 Sum_probs=9.4
Q ss_pred cCCCCcccCCccccc
Q psy9508 183 YPEGDFERPEHQEYK 197 (511)
Q Consensus 183 kpEG~F~~~ek~~y~ 197 (511)
+.||+...-+++.|.
T Consensus 5 KDEGSY~Lde~p~Y~ 19 (28)
T 1ejp_A 5 KDEGSYDLGKKPIYK 19 (28)
T ss_dssp CCCCCCCCCSCCCCC
T ss_pred ccccccccCCCcccc
Confidence 457777766665554
No 6
>2rqh_A G1 to S phase transition 1; protein-protein complex, GTP-binding, nucleotide-binding, Al splicing, cytoplasm, methylation, mRNA processing; NMR {Mus musculus}
Probab=0.63 E-value=2.9e+03 Score=13.71 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=11.0
Q ss_pred eecccCccccccCCCcc
Q psy9508 35 YFQTTSATEFTEHSTTD 51 (511)
Q Consensus 35 ~~~~~~~~ef~~~~~~~ 51 (511)
|++.-++.||.+-|..|
T Consensus 4 FVPnv~a~eFvpsfl~g 20 (26)
T 2rqh_A 4 FVPNVHAAEFVPSFLRG 20 (26)
T ss_dssp SCCCTTCCCSSCCCSCS
T ss_pred ccCcchHHHhhHhhccC
Confidence 34555677887777654
No 7
>1pyl_A Ribonuclease; alpha-beta structure, hydrolase; 1.51A {Streptomyces aureofaciens} SCOP: d.1.1.2 PDB: 1py3_A 3d4a_A* 3d5g_A 3d5i_A* 3dgy_A* 3dh2_A*
Probab=0.62 E-value=4e+03 Score=16.47 Aligned_cols=30 Identities=37% Similarity=0.441 Sum_probs=19.1
Q ss_pred eeeeeeCCccccccccccccccCCceeecc
Q psy9508 9 EEFTEKTPERVKPQRRRTWTKQDGEIYFQT 38 (511)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 38 (511)
++|+|.+|..-.--.|+-+.-.+|+.|.-.
T Consensus 55 ~E~dV~tp~~~~RGa~RIV~g~~g~~YyT~ 84 (97)
T 1pyl_A 55 HEFTVVTPGSNDRGTRRVVTGGYGEQYWSP 84 (97)
T ss_dssp EEEECCCTTCSSCCSCEEEECTTSCEEEES
T ss_pred EEEEeCCCCCCCCCCCEEEECCCCCEEECC
Confidence 578877776444444555666678877655
No 8
>2rh2_A Dihydrofolate reductase type 2; folate metabolism, plasmid-encoded R67 DHFR, TMP-resistant DHFR, antibiotic resistance, methotrexate resistance; 0.96A {Escherichia coli} SCOP: b.34.4.1 PDB: 1vif_A* 1vie_A 2gqv_A 2rk1_A* 2rk2_A* 3sfm_A 2p4t_A*
Probab=0.60 E-value=2.4e+03 Score=16.34 Aligned_cols=9 Identities=56% Similarity=0.804 Sum_probs=6.6
Q ss_pred CCCCCCCCc
Q psy9508 208 HDNLKPEGE 216 (511)
Q Consensus 208 ~DNL~pEGe 216 (511)
+.||+|||-
T Consensus 31 ct~ltpegy 39 (62)
T 2rh2_A 31 CTNLTPEGY 39 (62)
T ss_dssp CCSSCSSEE
T ss_pred Eccccccce
Confidence 578888873
No 9
>3uky_C Nuclear CAP-binding protein complex subunit 1; arm repeat, armadillo repeat, nuclear transport, nuclear LOC signal binding; 2.35A {Saccharomyces cerevisiae}
Probab=0.60 E-value=4.2e+03 Score=13.44 Aligned_cols=19 Identities=32% Similarity=0.725 Sum_probs=9.1
Q ss_pred CCCccccccCCCC-CCCCCC
Q psy9508 328 NLKPEGEFEGRPK-DDYGPK 346 (511)
Q Consensus 328 NLkpEGef~~~~k-~dy~pk 346 (511)
|.|-.|+|+--.. .||+|+
T Consensus 5 ~~KRr~dfd~ddgYrDfrPR 24 (32)
T 3uky_C 5 NRKRRGDFDEDENYRDFRPR 24 (32)
T ss_pred cccccccCcccccccccccc
Confidence 3455566663221 455553
No 10
>1d0d_A TAP, anticoagulant protein; factor XA inhibitor, kunitz inhibitor, blood clotting inhibitor; 1.62A {Ornithodoros moubata} SCOP: g.8.1.2 PDB: 1kig_I 1tap_A 1tcp_A
Probab=0.57 E-value=2.6e+03 Score=16.22 Aligned_cols=9 Identities=33% Similarity=1.143 Sum_probs=5.4
Q ss_pred cccccccccccc
Q psy9508 19 VKPQRRRTWTKQ 30 (511)
Q Consensus 19 ~~~~~~~~~~~~ 30 (511)
|||+| |++.
T Consensus 6 ikp~d---~~~~ 14 (60)
T 1d0d_A 6 IKPRD---WIDE 14 (60)
T ss_dssp SCCTT---CCCC
T ss_pred cChHH---hHhh
Confidence 56666 5554
Done!