Query psy11384
Match_columns 137
No_of_seqs 126 out of 182
Neff 3.3
Searched_HMMs 29240
Date Fri Aug 16 17:02:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11384.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11384hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_a 40S ribosomal protein S 100.0 4.4E-67 1.5E-71 394.0 5.8 112 1-112 1-113 (119)
2 2xzm_5 Ribosomal protein S26E 100.0 9E-64 3.1E-68 376.1 6.1 105 1-105 1-107 (119)
3 1m06_J J protein, small core p 50.0 8.6 0.00029 21.9 1.7 15 1-15 1-15 (26)
4 1lng_A SRP19, signal recogniti 41.1 5.6 0.00019 27.6 -0.0 22 26-47 16-37 (87)
5 3dlu_A SRP19, signal recogniti 38.8 6.4 0.00022 28.3 -0.0 21 27-47 20-40 (106)
6 3na7_A HP0958; flagellar bioge 38.7 10 0.00035 29.6 1.2 16 18-33 220-235 (256)
7 3mhs_C SAGA-associated factor 38.2 18 0.00061 26.2 2.2 16 16-31 66-81 (99)
8 1twf_J DNA-directed RNA polyme 36.1 10 0.00035 25.8 0.7 14 19-32 3-16 (70)
9 1kvn_A SRP19; RNA binding prot 34.6 8.9 0.00031 27.4 0.2 23 26-48 19-41 (104)
10 1ef4_A Subunit N, DNA-directed 31.5 12 0.00042 24.4 0.4 12 19-30 2-13 (55)
11 1jjd_A Metallothionein, SMTA; 31.1 17 0.00059 23.5 1.1 17 22-38 9-25 (55)
12 1jid_A Signal recognition part 30.3 11 0.00037 28.1 -0.0 22 26-47 31-52 (128)
13 4ayb_N DNA-directed RNA polyme 29.9 15 0.00052 24.8 0.7 12 19-30 3-14 (66)
14 1a6b_B Momulv, zinc finger pro 23.0 33 0.0011 20.6 1.2 14 15-28 5-18 (40)
15 2ecw_A Tripartite motif-contai 22.6 36 0.0012 20.8 1.4 27 20-46 59-85 (85)
16 2m0d_A Zinc finger and BTB dom 21.6 41 0.0014 15.4 1.3 14 19-32 2-15 (30)
17 2g84_A Cytidine and deoxycytid 20.8 28 0.00095 26.6 0.7 23 66-88 106-131 (197)
No 1
>3u5c_a 40S ribosomal protein S26-A, 40S ribosomal protein S25-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_a
Probab=100.00 E-value=4.4e-67 Score=394.04 Aligned_cols=112 Identities=60% Similarity=1.012 Sum_probs=96.9
Q ss_pred CCccccCCCCCCCCCCCccceeccCCCcccccccceeeceeecchhhHHhhhHHhhccccccccceeeEeEEEeeeeeee
Q psy11384 1 MTCKRRNGGRSKHGRGHVNPVRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDITEASYYQSYQLPKLYAKLHYCVSCAIH 80 (137)
Q Consensus 1 M~kKRrNnGR~KkgrGhv~~V~C~NCgrcvPKDKAIKrf~irNiVEaaavRDiseAsV~~~y~lPKlyvKl~YCVSCAIH 80 (137)
||+|||||||+|+|||||++|+|+|||+|||||||||+|+|+||||+||+|||+|||||++|+|||||+|+|||||||||
T Consensus 1 M~kKRrN~GR~KkgrGhv~~V~C~nCgr~vPKDKAIKrf~irNiVeaaavRDi~easv~~~y~lPKlyvKl~YCVSCAIH 80 (119)
T 3u5c_a 1 MPKKRASNGRNKKGRGHVKPVRCVNCSKSIPKDKAIKRMAIRNIVEAAAVRDLSEASVYPEYALPKTYNKLHYCVSCAIH 80 (119)
T ss_dssp -CCCCSSTTSCCCSCSCCCEEECTTTCCEEEGGGSCEEEEEECSSCSSTHHHHHHTCCSSSCCCCCEEEEEECCSHHHHH
T ss_pred CCcccccCCCCCCCCCCCccEeeccccccccccceeeEEeCcCcccHHHHHHHHhccchhhccccceeEEEEEeeeeeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcccccCccccccCCCCCCCCCCCCCC-Cccc
Q psy11384 81 SKVVRNRSKSDRRIRTPPQRNFPRSVSL-TEGT 112 (137)
Q Consensus 81 skVVRvRS~e~RK~R~pp~~~~~~~~~~-~~~~ 112 (137)
++||||||+|+||+|+||++|++....+ +|.+
T Consensus 81 skVVR~RS~e~Rk~r~pp~r~~~~~~~~~~p~~ 113 (119)
T 3u5c_a 81 ARIVRVRSREDRKNRAPPQRPRFNRENKVSPAD 113 (119)
T ss_dssp TSSCCCCCTTTTSCCCCC---------------
T ss_pred ccccccCChHHcccCCCCCccCcccCCccCHHH
Confidence 9999999999999999999999965554 4443
No 2
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Probab=100.00 E-value=9e-64 Score=376.08 Aligned_cols=105 Identities=52% Similarity=0.939 Sum_probs=95.8
Q ss_pred CCccccCCCCCCCCCCCccceeccCCCcccccccceeeceeecchhhHHhhhHHhhcccc--ccccceeeEeEEEeeeee
Q psy11384 1 MTCKRRNGGRSKHGRGHVNPVRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDITEASYYQ--SYQLPKLYAKLHYCVSCA 78 (137)
Q Consensus 1 M~kKRrNnGR~KkgrGhv~~V~C~NCgrcvPKDKAIKrf~irNiVEaaavRDiseAsV~~--~y~lPKlyvKl~YCVSCA 78 (137)
||+|||||||+|+|||||++|+|+|||+|||||||||+|+|+||||+|++|||+||+||+ +|+|||||+|+|||||||
T Consensus 1 M~kKRrN~GR~KkgrGhv~~V~C~nCgr~vPKDKAIKrf~irniVeaaavrDi~ea~v~~~~~y~lPKlyvK~~YCVSCA 80 (119)
T 2xzm_5 1 MPVKRRNAGRSQKNRGHTRTVPCTNCGRQVAKDKAVKRYTVRDMVDPSSKRDIQQKLAFENEKQGIPKLYVKLQYCISCA 80 (119)
T ss_dssp -CCCCSSTTCCCCSSSCCCEEECTTTCCEEETTTSEECCEEECSSCHHHHHHHHHSBCSCCCSCCSCCEEECCEECHHHH
T ss_pred CCcccccCCCCCCCCCCCccEeeCCccccCcccceeEEEEeccCccHHHHHHHHhccccccccccccceeeeEEEeeeee
Confidence 999999999999999999999999999999999999999999999999999999999999 999999999999999999
Q ss_pred eecCcccccCccccccCCCCCCCCCCC
Q psy11384 79 IHSKVVRNRSKSDRRIRTPPQRNFPRS 105 (137)
Q Consensus 79 IHskVVRvRS~e~RK~R~pp~~~~~~~ 105 (137)
||++||||||+|+||+|+||++|++.+
T Consensus 81 IH~kIVRvRs~e~Rk~r~pp~~~~~~~ 107 (119)
T 2xzm_5 81 IHSRVVRVRCAEDRRIRRPPIRNRKPQ 107 (119)
T ss_dssp HHTTSSCCCCTGGGGCCCC--------
T ss_pred eeccccccCCHHHcccCCCCCccccCC
Confidence 999999999999999999999987653
No 3
>1m06_J J protein, small core protein; bacteriophage, virion; HET: 3DR; 3.50A {Enterobacteria phage ALPHA3}
Probab=49.99 E-value=8.6 Score=21.86 Aligned_cols=15 Identities=40% Similarity=0.485 Sum_probs=13.2
Q ss_pred CCccccCCCCCCCCC
Q psy11384 1 MTCKRRNGGRSKHGR 15 (137)
Q Consensus 1 M~kKRrNnGR~Kkgr 15 (137)
|-+-||+.||+|+.|
T Consensus 1 mk~~rrs~~r~kgar 15 (26)
T 1m06_J 1 MKKARRSPSRRKGAR 15 (26)
T ss_dssp CCGGGSCCCCCSSSC
T ss_pred CcccccCCCcCCceE
Confidence 778899999999887
No 4
>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=41.15 E-value=5.6 Score=27.56 Aligned_cols=22 Identities=36% Similarity=0.480 Sum_probs=16.2
Q ss_pred CCcccccccceeeceeecchhh
Q psy11384 26 CARCVPKDKAIKKFVIRNIVEA 47 (137)
Q Consensus 26 CgrcvPKDKAIKrf~irNiVEa 47 (137)
=||-||+++|+..-.+.-|.|+
T Consensus 16 eGRrv~k~~aV~~P~~~EI~~a 37 (87)
T 1lng_A 16 EGRKVPEELAIEKPSLKDIEKA 37 (87)
T ss_dssp TTCCSCTTTCBSSCCHHHHHHH
T ss_pred hcCccCHHHhccCCCHHHHHHH
Confidence 3699999999886665555554
No 5
>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=38.81 E-value=6.4 Score=28.33 Aligned_cols=21 Identities=33% Similarity=0.506 Sum_probs=15.7
Q ss_pred Ccccccccceeeceeecchhh
Q psy11384 27 ARCVPKDKAIKKFVIRNIVEA 47 (137)
Q Consensus 27 grcvPKDKAIKrf~irNiVEa 47 (137)
||.|||++|+..-.+..|+|+
T Consensus 20 GRRV~k~~aV~nPt~~EI~~a 40 (106)
T 3dlu_A 20 GRIVPRSIAVESPRVEEIVRA 40 (106)
T ss_dssp TCCSCTTTSBSSCCHHHHHHH
T ss_pred cCccCHHHhccCCCHHHHHHH
Confidence 699999999886665555544
No 6
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}
Probab=38.65 E-value=10 Score=29.61 Aligned_cols=16 Identities=19% Similarity=0.546 Sum_probs=12.1
Q ss_pred ccceeccCCCcccccc
Q psy11384 18 VNPVRCTNCARCVPKD 33 (137)
Q Consensus 18 v~~V~C~NCgrcvPKD 33 (137)
-..|.|.||||.+=.+
T Consensus 220 ~~Iv~Cp~CgRIL~~~ 235 (256)
T 3na7_A 220 GDMITCPYCGRILYAE 235 (256)
T ss_dssp SSCEECTTTCCEEECS
T ss_pred CCEEECCCCCeeEEeC
Confidence 3579999999976443
No 7
>3mhs_C SAGA-associated factor 11; multi-protein complex, hydrolase-transcription regulator-Pro binding complex, acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae} PDB: 3m99_B 3mhh_C 4fjc_C 4fk5_C 4fip_C 2lo2_A 3kjl_E 3kik_E
Probab=38.16 E-value=18 Score=26.17 Aligned_cols=16 Identities=31% Similarity=0.663 Sum_probs=13.4
Q ss_pred CCccceeccCCCcccc
Q psy11384 16 GHVNPVRCTNCARCVP 31 (137)
Q Consensus 16 Ghv~~V~C~NCgrcvP 31 (137)
.-...+.|.||+|-|.
T Consensus 66 ~~s~~~~C~nC~R~va 81 (99)
T 3mhs_C 66 ESSQYIHCENCGRDVS 81 (99)
T ss_dssp TTSCEEECTTTCCEEE
T ss_pred cCCCeEECCCCCCCch
Confidence 5678899999999775
No 8
>1twf_J DNA-directed RNA polymerases I, II, and III 8.3 K polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.11.1 PDB: 1i3q_J 1i6h_J 1k83_J* 1nik_J 1nt9_J 1pqv_J 1r5u_J 1r9s_J* 1r9t_J* 1sfo_J* 1twa_J* 1twc_J* 1i50_J* 1twg_J* 1twh_J* 1wcm_J 1y1v_J 1y1w_J 1y1y_J 1y77_J* ...
Probab=36.08 E-value=10 Score=25.81 Aligned_cols=14 Identities=43% Similarity=0.968 Sum_probs=11.5
Q ss_pred cceeccCCCccccc
Q psy11384 19 NPVRCTNCARCVPK 32 (137)
Q Consensus 19 ~~V~C~NCgrcvPK 32 (137)
-||+|..||+.+--
T Consensus 3 iPVRCFTCGkvi~~ 16 (70)
T 1twf_J 3 VPVRCFSCGKVVGD 16 (70)
T ss_dssp CCSBCTTTCCBCTT
T ss_pred CCeecCCCCCChHH
Confidence 48999999987743
No 9
>1kvn_A SRP19; RNA binding protein; NMR {Archaeoglobus fulgidus} SCOP: d.201.1.1 PDB: 1kvv_A
Probab=34.57 E-value=8.9 Score=27.39 Aligned_cols=23 Identities=26% Similarity=0.457 Sum_probs=17.2
Q ss_pred CCcccccccceeeceeecchhhH
Q psy11384 26 CARCVPKDKAIKKFVIRNIVEAA 48 (137)
Q Consensus 26 CgrcvPKDKAIKrf~irNiVEaa 48 (137)
=||.||++.|+..-.+..|+|+.
T Consensus 19 eGRRv~k~~aV~nP~~~EI~~a~ 41 (104)
T 1kvn_A 19 EGRRIPRRFAVPNVKLHELVEAS 41 (104)
T ss_dssp TTCCSCGGGCCSSCCHHHHHHHH
T ss_pred hCCccCHHHhccCCCHHHHHHHH
Confidence 36999999998876666665553
No 10
>1ef4_A Subunit N, DNA-directed RNA polymerase; three helix bundle, zinc binding, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: a.4.11.1
Probab=31.52 E-value=12 Score=24.42 Aligned_cols=12 Identities=50% Similarity=1.082 Sum_probs=10.3
Q ss_pred cceeccCCCccc
Q psy11384 19 NPVRCTNCARCV 30 (137)
Q Consensus 19 ~~V~C~NCgrcv 30 (137)
-||||-.||..+
T Consensus 2 iPVRCFTCGkvi 13 (55)
T 1ef4_A 2 IPVRCLSCGKPV 13 (55)
T ss_dssp CSSSCSCTTSCC
T ss_pred CCeecCCCCCCh
Confidence 489999999876
No 11
>1jjd_A Metallothionein, SMTA; zinc finger, zinc cluster, metal binding PR; NMR {Synechococcus elongatus} SCOP: g.46.1.1
Probab=31.06 E-value=17 Score=23.54 Aligned_cols=17 Identities=35% Similarity=0.620 Sum_probs=15.2
Q ss_pred eccCCCcccccccceee
Q psy11384 22 RCTNCARCVPKDKAIKK 38 (137)
Q Consensus 22 ~C~NCgrcvPKDKAIKr 38 (137)
-|..|+-.|+.+.||.+
T Consensus 9 aC~~C~c~Vs~~eai~~ 25 (55)
T 1jjd_A 9 ACEPCLCNVDPSKAIDR 25 (55)
T ss_dssp SSTTCCCCBCTTTSEES
T ss_pred cCCCCeeEechHHhhhc
Confidence 48999999999999984
No 12
>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=30.26 E-value=11 Score=28.05 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=16.2
Q ss_pred CCcccccccceeeceeecchhh
Q psy11384 26 CARCVPKDKAIKKFVIRNIVEA 47 (137)
Q Consensus 26 CgrcvPKDKAIKrf~irNiVEa 47 (137)
=||.||+++|+..-.+.-|+|+
T Consensus 31 eGRRV~k~~aVenPt~~EI~~a 52 (128)
T 1jid_A 31 EGRRIPISKAVENPTATEIQDV 52 (128)
T ss_dssp TTCCSCTTTCBSSCCHHHHHHH
T ss_pred hcCccCHHHhccCCCHHHHHHH
Confidence 3699999999886665555554
No 13
>4ayb_N DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_N 2y0s_N 2waq_N 4b1o_N 4b1p_O 2pmz_N 3hkz_N
Probab=29.87 E-value=15 Score=24.76 Aligned_cols=12 Identities=33% Similarity=0.993 Sum_probs=10.4
Q ss_pred cceeccCCCccc
Q psy11384 19 NPVRCTNCARCV 30 (137)
Q Consensus 19 ~~V~C~NCgrcv 30 (137)
-||||-.||..+
T Consensus 3 IPVRCFTCGkvi 14 (66)
T 4ayb_N 3 IPIRCFTCGSLI 14 (66)
T ss_dssp CCSBCTTTCCBC
T ss_pred CCcccCCCcHhH
Confidence 389999999876
No 14
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=23.02 E-value=33 Score=20.59 Aligned_cols=14 Identities=21% Similarity=0.719 Sum_probs=12.1
Q ss_pred CCCccceeccCCCc
Q psy11384 15 RGHVNPVRCTNCAR 28 (137)
Q Consensus 15 rGhv~~V~C~NCgr 28 (137)
+++...+.|-|||.
T Consensus 5 ~~~~~~~~C~~Cgk 18 (40)
T 1a6b_B 5 RSQLDRDQCAYCKE 18 (40)
T ss_dssp CCSCCSSSCSSSCC
T ss_pred cCCCCCCeeeECCC
Confidence 68888899999985
No 15
>2ecw_A Tripartite motif-containing protein 30; metal binding protein, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=22.57 E-value=36 Score=20.75 Aligned_cols=27 Identities=26% Similarity=0.370 Sum_probs=22.1
Q ss_pred ceeccCCCcccccccceeeceeecchh
Q psy11384 20 PVRCTNCARCVPKDKAIKKFVIRNIVE 46 (137)
Q Consensus 20 ~V~C~NCgrcvPKDKAIKrf~irNiVE 46 (137)
...|..|..-+..+.-..-+.+.||||
T Consensus 59 ~~~CP~Cr~~~~~~~~~~n~~l~~~ve 85 (85)
T 2ecw_A 59 KGNCPVCRVPYPFGNLKPNLHVANIVE 85 (85)
T ss_dssp CBCCTTTCCCCCTTCCEECSCCCSSCC
T ss_pred CCCCCCCCCcCCHHhCCcCHHHHHhhC
Confidence 578999999998887777777888775
No 16
>2m0d_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}
Probab=21.63 E-value=41 Score=15.45 Aligned_cols=14 Identities=29% Similarity=0.873 Sum_probs=10.3
Q ss_pred cceeccCCCccccc
Q psy11384 19 NPVRCTNCARCVPK 32 (137)
Q Consensus 19 ~~V~C~NCgrcvPK 32 (137)
++..|+.||+....
T Consensus 2 k~~~C~~C~~~f~~ 15 (30)
T 2m0d_A 2 KPYQCDYCGRSFSD 15 (30)
T ss_dssp CCEECTTTCCEESC
T ss_pred cCccCCCCCcccCC
Confidence 46789999986543
No 17
>2g84_A Cytidine and deoxycytidylate deaminase zinc-bindi; zinc-binding region, structural genomics, PSI, protein structure initiative; 1.40A {Nitrosomonas europaea} SCOP: c.97.1.2
Probab=20.79 E-value=28 Score=26.56 Aligned_cols=23 Identities=30% Similarity=0.352 Sum_probs=19.6
Q ss_pred eeeEeEEEeeeee---eecCcccccC
Q psy11384 66 KLYAKLHYCVSCA---IHSKVVRNRS 88 (137)
Q Consensus 66 KlyvKl~YCVSCA---IHskVVRvRS 88 (137)
-||+++.=|..|| ||++|-|+=-
T Consensus 106 tlYvTlEPC~mCa~Aii~agI~rVv~ 131 (197)
T 2g84_A 106 ELVTSAEPCVMCFGAVIWSGVRSLVC 131 (197)
T ss_dssp EEEEEECCCHHHHHHHHHHCCSEEEE
T ss_pred EEEEeCCCCHHHHHHHHHhCcCEEEE
Confidence 5899999999997 8998887643
Done!