Query psy8730
Match_columns 287
No_of_seqs 155 out of 721
Neff 4.3
Searched_HMMs 29240
Date Fri Aug 16 17:46:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8730.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8730hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4dve_A Biotin transporter BIOY 52.6 13 0.00045 32.5 4.2 56 28-87 63-120 (198)
2 1lng_A SRP19, signal recogniti 25.8 12 0.00042 28.8 -0.4 24 242-265 5-28 (87)
3 1kvn_A SRP19; RNA binding prot 24.9 15 0.0005 29.3 -0.1 24 242-265 8-31 (104)
4 2v2f_A Penicillin binding prot 18.1 46 0.0016 19.4 1.2 13 246-258 6-18 (26)
5 2bkf_A Zinc-finger protein NBR 17.6 45 0.0015 25.9 1.3 25 246-270 47-77 (87)
6 1jid_A Signal recognition part 16.6 26 0.0009 28.9 -0.3 25 241-265 19-43 (128)
7 3dlu_A SRP19, signal recogniti 15.9 24 0.00081 28.2 -0.7 33 242-278 8-40 (106)
8 3bo0_B Preprotein translocase 14.8 1.8E+02 0.0062 20.3 3.9 34 210-244 21-54 (65)
9 1wj6_A KIAA0049 protein, RSGI 14.6 55 0.0019 26.1 1.1 23 246-268 55-83 (101)
10 3v67_A Sensor protein CPXA; PA 14.1 55 0.0019 26.9 1.0 22 249-270 60-88 (138)
No 1
>4dve_A Biotin transporter BIOY; ECF-transport, ligand-binding domain, biotin binding, membra transport protein; HET: BTN BNG; 2.09A {Lactococcus lactis subsp}
Probab=52.62 E-value=13 Score=32.54 Aligned_cols=56 Identities=20% Similarity=0.262 Sum_probs=39.4
Q ss_pred CCccHHHHHHHHHHhhhcccceeecCCchhHHHHHH--hhhhhhhHHHHHHHHHhhhhhHhh
Q psy8730 28 AEKSLYITYLLWLVGGIFGVHHFYLGRDIQGFLWWC--TLGGYFGFGWLRDIFHIQNYVADA 87 (287)
Q Consensus 28 ~~Ks~~vAylLwlflG~fG~HrFYLGr~~~gil~l~--T~gGlfgIgwliD~f~I~~~V~~~ 87 (287)
..|.-..+.++++++|..|+-=|==|+- |+-+++ |. | +.+|+++-.+.+....++.
T Consensus 63 G~r~G~lsv~lYlllG~~GlPVFagg~g--G~~~l~gPTg-G-YLiGF~~aA~v~G~l~~~~ 120 (198)
T 4dve_A 63 GPKYGTISVGAFLALALIGLPVLTGGNG--GAASFLGPSG-G-YRIAWLFTPFLIGFFLKKL 120 (198)
T ss_dssp HHHHHHHHHHHHHHHHHHTCCCBTTTBC--CSGGGGSTTH-H-HHHHHHHHHHHHHHHHHHT
T ss_pred ChhHHHHHHHHHHHHHHHcCccccCCCC--chhHHhcchh-H-HHHHHHHHHHHHHHHHHHc
Confidence 3566688889999999999999976664 444444 44 6 5688887777766555443
No 2
>1lng_A SRP19, signal recognition particle 19 kDa protein; protein-RNA complex, signaling protein/RNA complex; 2.30A {Methanocaldococcus jannaschii} SCOP: d.201.1.1 PDB: 2v3c_A 3ndb_A 1l9a_A*
Probab=25.76 E-value=12 Score=28.76 Aligned_cols=24 Identities=29% Similarity=0.444 Sum_probs=20.9
Q ss_pred HhhhcceEecCCCCccchhHHHhh
Q psy8730 242 YLYFNAKITDGEGEEIPLNEAIHH 265 (287)
Q Consensus 242 ~~yfN~~iT~~~g~ev~~~ea~~~ 265 (287)
=.|||++.|-+||-.||-..|+.|
T Consensus 5 P~Y~ds~~tr~eGRrv~k~~aV~~ 28 (87)
T 1lng_A 5 PSYIDKKKSRREGRKVPEELAIEK 28 (87)
T ss_dssp GGGTBTTSCTTTTCCSCTTTCBSS
T ss_pred cccccCCCChhhcCccCHHHhccC
Confidence 369999999999999998888754
No 3
>1kvn_A SRP19; RNA binding protein; NMR {Archaeoglobus fulgidus} SCOP: d.201.1.1 PDB: 1kvv_A
Probab=24.95 E-value=15 Score=29.30 Aligned_cols=24 Identities=25% Similarity=0.404 Sum_probs=20.9
Q ss_pred HhhhcceEecCCCCccchhHHHhh
Q psy8730 242 YLYFNAKITDGEGEEIPLNEAIHH 265 (287)
Q Consensus 242 ~~yfN~~iT~~~g~ev~~~ea~~~ 265 (287)
=.|||++.|-+||-.||-..|+.|
T Consensus 8 P~Y~Ds~~tr~eGRRv~k~~aV~n 31 (104)
T 1kvn_A 8 TVNLDSKKSRAEGRRIPRRFAVPN 31 (104)
T ss_dssp TTTTCSSSCTTTTCCSCGGGCCSS
T ss_pred eccccCCCChhhCCccCHHHhccC
Confidence 369999999999999999888754
No 4
>2v2f_A Penicillin binding protein 1A; transpeptidase activity, peptidoglycan synthesis, transferase, hydrolase; HET: MES; 1.9A {Streptococcus pneumoniae} PDB: 2zc5_A* 2zc6_A*
Probab=18.13 E-value=46 Score=19.39 Aligned_cols=13 Identities=31% Similarity=0.442 Sum_probs=10.9
Q ss_pred cceEecCCCCccc
Q psy8730 246 NAKITDGEGEEIP 258 (287)
Q Consensus 246 N~~iT~~~g~ev~ 258 (287)
+++|.|.||++|.
T Consensus 6 ss~IYD~~g~~i~ 18 (26)
T 2v2f_A 6 SSKIYDNKNQLIA 18 (26)
T ss_pred CCEEEeCCCCEee
Confidence 5789999999875
No 5
>2bkf_A Zinc-finger protein NBR1 (NEXT to breast cancer 1; PB1 domain, interaction domain, Z finger; 1.56A {Homo sapiens} SCOP: d.15.2.2 PDB: 2g4s_A
Probab=17.64 E-value=45 Score=25.94 Aligned_cols=25 Identities=32% Similarity=0.416 Sum_probs=17.9
Q ss_pred cceEecCCCCccch------hHHHhhhhcch
Q psy8730 246 NAKITDGEGEEIPL------NEAIHHFFKSP 270 (287)
Q Consensus 246 N~~iT~~~g~ev~~------~ea~~~f~~Sp 270 (287)
.-+=+|+|||+|.| .||++-+.+.|
T Consensus 47 ~ikY~DEenD~v~i~Sq~E~eEAlkva~k~~ 77 (87)
T 2bkf_A 47 QIKYLDEENEEVSINSQGEYEEALKMAVKQG 77 (87)
T ss_dssp EEEEECTTSCEEEECSHHHHHHHHHHHHHTT
T ss_pred EEEEEcCCCCEEEEecHHHHHHHHHHhccCC
Confidence 55668999999986 47776555443
No 6
>1jid_A Signal recognition particle 19 kDa protein; signal recognition particle (SRP), protein-RNA complex, GGAG tetraloop, signaling protein/RNA complex; HET: 5BU A23; 1.80A {Homo sapiens} SCOP: d.201.1.1 PDB: 3ktv_B* 1mfq_B* 1ry1_B* 2go5_B 2j37_B
Probab=16.63 E-value=26 Score=28.88 Aligned_cols=25 Identities=36% Similarity=0.561 Sum_probs=21.1
Q ss_pred HHhhhcceEecCCCCccchhHHHhh
Q psy8730 241 SYLYFNAKITDGEGEEIPLNEAIHH 265 (287)
Q Consensus 241 ~~~yfN~~iT~~~g~ev~~~ea~~~ 265 (287)
+=.|||.+.|-+||..||..-|+.|
T Consensus 19 yP~Y~Ds~~tr~eGRRV~k~~aVen 43 (128)
T 1jid_A 19 YPAYLNNKKTIAEGRRIPISKAVEN 43 (128)
T ss_dssp CGGGGBTTSCTTTTCCSCTTTCBSS
T ss_pred CcccccCCCChhhcCccCHHHhccC
Confidence 3479999999999999998877654
No 7
>3dlu_A SRP19, signal recognition particle 19 kDa protein; protein-RNA, cytoplasm, ribonucleoprotein, RNA-binding, RNA binding protein; 1.80A {Pyrococcus furiosus} PDB: 3dlv_B
Probab=15.86 E-value=24 Score=28.22 Aligned_cols=33 Identities=12% Similarity=0.257 Sum_probs=25.1
Q ss_pred HhhhcceEecCCCCccchhHHHhhhhcchhhhhhhhh
Q psy8730 242 YLYFNAKITDGEGEEIPLNEAIHHFFKSPWWVDLLAV 278 (287)
Q Consensus 242 ~~yfN~~iT~~~g~ev~~~ea~~~f~~Sp~W~d~k~~ 278 (287)
=.|||++.|-+||-.||-..|+.| |-=.|+.++
T Consensus 8 P~Y~Ds~~sr~eGRRV~k~~aV~n----Pt~~EI~~a 40 (106)
T 3dlu_A 8 PSELDSRLSRKYGRIVPRSIAVES----PRVEEIVRA 40 (106)
T ss_dssp GGGGBTTSCGGGTCCSCTTTSBSS----CCHHHHHHH
T ss_pred eccccCCCChhhcCccCHHHhccC----CCHHHHHHH
Confidence 469999999999999999888764 444444443
No 8
>3bo0_B Preprotein translocase SECE subunit; ribosome-SECY complex, protein translocation; 9.60A {Escherichia coli} PDB: 3bo1_B 3kcr_B
Probab=14.81 E-value=1.8e+02 Score=20.29 Aligned_cols=34 Identities=12% Similarity=0.281 Sum_probs=21.5
Q ss_pred ccccCCCCCccchhhHHHHHHHHHHHHHHHHHHhh
Q psy8730 210 RWQTKPKPRKRFLRRCLTIGACALLYSSLWGSYLY 244 (287)
Q Consensus 210 ~wr~~~~~~~~~~~R~~~l~~a~l~y~~l~~~~~y 244 (287)
-|..+.|-++++ .+.....+.+++++++.+.+++
T Consensus 21 ~wptrKp~~~e~-~~v~~~t~vv~~~v~~i~~~i~ 54 (65)
T 3bo0_B 21 IWPTRKPTKDEY-LAVAKVTALGISLLGIIGYIIH 54 (65)
T ss_dssp SCTTTTTCTTHH-HHHHHHHHHHHHHHHHHHHHHT
T ss_pred eccCCCCCHHHH-HHHHHHHHhhhhHHHHHHHHHH
Confidence 344444444432 3455778888888888887765
No 9
>1wj6_A KIAA0049 protein, RSGI RUH-024; PB1 domain, protein binding, structural genomics, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: d.15.2.2
Probab=14.56 E-value=55 Score=26.11 Aligned_cols=23 Identities=35% Similarity=0.472 Sum_probs=16.4
Q ss_pred cceEecCCCCccch------hHHHhhhhc
Q psy8730 246 NAKITDGEGEEIPL------NEAIHHFFK 268 (287)
Q Consensus 246 N~~iT~~~g~ev~~------~ea~~~f~~ 268 (287)
.-+=+|+|||+|.| .||++-+.+
T Consensus 55 ~IkY~DEenD~V~i~Sq~E~eEAlkva~k 83 (101)
T 1wj6_A 55 QIKYLDEENEEVSINSQGEYEEALKMAVK 83 (101)
T ss_dssp CCEEECTTSCEECCCSHHHHHHHHHHHHH
T ss_pred EEEEecCCCCEEEEecHHHHHHHHHHhcc
Confidence 55678999999986 456654443
No 10
>3v67_A Sensor protein CPXA; PAS fold, signal sensing, signaling protein, merohedral twin; 2.30A {Vibrio parahaemolyticus}
Probab=14.11 E-value=55 Score=26.88 Aligned_cols=22 Identities=23% Similarity=0.425 Sum_probs=17.5
Q ss_pred EecCCCCccchh-------HHHhhhhcch
Q psy8730 249 ITDGEGEEIPLN-------EAIHHFFKSP 270 (287)
Q Consensus 249 iT~~~g~ev~~~-------ea~~~f~~Sp 270 (287)
+||+||+-|.-+ -||+||.++.
T Consensus 60 l~d~eG~Il~~~~~~~~~~ralrnFi~~s 88 (138)
T 3v67_A 60 FSDYNGNVLTTDKRSNFQLRAMQNFVTSI 88 (138)
T ss_dssp EECTTSCEECCCCSCHHHHHHHHHHHHHC
T ss_pred EEcCCCCEecCCcccchhHHHHHHHHHhc
Confidence 689999888754 5899998763
Done!