Query 028358
Match_columns 210
No_of_seqs 116 out of 177
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 16:54:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028358.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028358hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4gnt_B Carbohydrate-responsive 14.7 59 0.002 19.4 1.0 13 193-205 1-13 (26)
2 4ayb_H DNA-directed RNA polyme 7.9 1.2E+02 0.0039 22.2 0.8 12 158-169 14-25 (84)
3 2eqo_A TNF receptor-associated 7.6 1.5E+02 0.0051 23.9 1.4 18 193-210 40-57 (140)
4 3g63_A Pfluding; subatomic res 6.7 1.4E+02 0.0046 27.0 0.8 13 179-191 360-372 (381)
5 2c6a_A Ubiquitin-protein ligas 6.4 2.1E+02 0.007 19.2 1.3 20 29-48 3-22 (46)
6 2w2s_A Matrix protein; viral a 5.4 1.3E+02 0.0044 25.2 -0.1 10 158-167 30-39 (202)
7 1n1j_A NF-YB; histone-like PAI 5.2 1.1E+02 0.0038 21.9 -0.6 26 180-209 52-78 (93)
8 1wh9_A 40S ribosomal protein S 5.2 1.9E+02 0.0066 21.0 0.7 22 186-209 50-71 (92)
9 1hmj_A RPB5, protein (subunit 5.1 1.9E+02 0.0066 21.0 0.6 12 159-170 7-18 (78)
10 1eik_A RNA polymerase subunit 5.0 2E+02 0.0068 20.8 0.7 13 158-170 8-20 (77)
No 1
>4gnt_B Carbohydrate-responsive element-binding protein; protein-protein complex, alpha-alpha helical, protein-protei interaction, 14-3-3; 2.41A {Mus musculus}
Probab=14.70 E-value=59 Score=19.38 Aligned_cols=13 Identities=38% Similarity=0.851 Sum_probs=10.0
Q ss_pred chhhhhhhhhhhc
Q 028358 193 RDLRRVRDAVWSQ 205 (210)
Q Consensus 193 RDL~rVRNAVlr~ 205 (210)
||--|+-|||||-
T Consensus 1 rdkirlnnaiwra 13 (26)
T 4gnt_B 1 RDKIRLNNAIWRA 13 (26)
T ss_dssp CHHHHHHHHHHHH
T ss_pred CcchhhhhHHHHH
Confidence 4566788999983
No 2
>4ayb_H DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_H 2y0s_H 2waq_H 4b1o_H 4b1p_Z 2pmz_H 3hkz_H
Probab=7.91 E-value=1.2e+02 Score=22.24 Aligned_cols=12 Identities=33% Similarity=0.559 Sum_probs=9.8
Q ss_pred cCCCCCeeehhh
Q 028358 158 MEMIPPHEYLAR 169 (210)
Q Consensus 158 ~~~vPPHe~vaR 169 (210)
-.+||+|++|..
T Consensus 14 H~LVPkH~vLs~ 25 (84)
T 4ayb_H 14 HYLVPKHEVLSI 25 (84)
T ss_dssp SSSCCEEEECCH
T ss_pred cccCCCeEECCH
Confidence 478999999943
No 3
>2eqo_A TNF receptor-associated factor 3-interacting protein 1; STN_TRAF3IP1_ND domain, interleukin 13 receptor alpha 1-binding protein-1 [HOMO sapiens]; NMR {Homo sapiens}
Probab=7.59 E-value=1.5e+02 Score=23.87 Aligned_cols=18 Identities=33% Similarity=0.359 Sum_probs=14.9
Q ss_pred chhhhhhhhhhhccccCC
Q 028358 193 RDLRRVRDAVWSQTGFDG 210 (210)
Q Consensus 193 RDL~rVRNAVlr~TGFle 210 (210)
|=|..|-.+|.++|||.+
T Consensus 40 RFLhDIv~~v~~~TGf~~ 57 (140)
T 2eqo_A 40 RYLHDIITEVIRMTGFMK 57 (140)
T ss_dssp HHHHHHHHHHHHHTCSST
T ss_pred HHHHHHHHHHHHHhCCcc
Confidence 556678999999999974
No 4
>3g63_A Pfluding; subatomic resolution, phosphate binding, DING protein, hydrogen ATOM, phosphate binding protein; 0.88A {Pseudomonas fluorescens SBW25} SCOP: c.94.1.1 PDB: 3g62_A 4f1v_A 4f18_A 4f1u_A 4f19_A 2q9t_A 2v3q_A 2cap_A
Probab=6.73 E-value=1.4e+02 Score=27.03 Aligned_cols=13 Identities=38% Similarity=0.728 Sum_probs=10.8
Q ss_pred ccccccCCCCccc
Q 028358 179 GASVFEGVGRTLK 191 (210)
Q Consensus 179 afSV~eG~GRTLK 191 (210)
.-|||.|+||.|-
T Consensus 360 ~~~~~~~~~~~~~ 372 (381)
T 3g63_A 360 NTNVCNGIGRPLL 372 (381)
T ss_dssp CTTTTTTCSBCCC
T ss_pred ChhhhcccCchhh
Confidence 4689999999874
No 5
>2c6a_A Ubiquitin-protein ligase E3 MDM2; zinc finger, human MDM2, phosphorylation, alternative splicing, metal-binding, nuclear protein, proto- oncogene; NMR {Homo sapiens} SCOP: g.41.11.1 PDB: 2c6b_A
Probab=6.37 E-value=2.1e+02 Score=19.17 Aligned_cols=20 Identities=20% Similarity=0.219 Sum_probs=16.2
Q ss_pred CCCCCCCccccccccCCCCC
Q 028358 29 GGVSELGEEDVWSTVDDVED 48 (210)
Q Consensus 29 ~~~~El~EEDVW~v~~~~~~ 48 (210)
+++.|+.++|.|.-....+-
T Consensus 3 ~~D~di~~~D~WkC~~C~~~ 22 (46)
T 2c6a_A 3 EEDPEISLADYWKCTSCNEM 22 (46)
T ss_dssp CCCSSSCGGGCEECTTTCCE
T ss_pred ccCCccCccceEeccccccc
Confidence 46789999999998877654
No 6
>2w2s_A Matrix protein; viral assembly, viral morphogenesis, polymer, viral protein, VSV; 2.75A {Lagos bat virus}
Probab=5.37 E-value=1.3e+02 Score=25.21 Aligned_cols=10 Identities=40% Similarity=0.767 Sum_probs=6.6
Q ss_pred cCCCCCeeeh
Q 028358 158 MEMIPPHEYL 167 (210)
Q Consensus 158 ~~~vPPHe~v 167 (210)
+-|+||-|||
T Consensus 30 dlwlpppeyv 39 (202)
T 2w2s_A 30 DLWMPPPEYV 39 (202)
T ss_dssp CCEECCCC--
T ss_pred cccCCCcccc
Confidence 4789999988
No 7
>1n1j_A NF-YB; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens} SCOP: a.22.1.3
Probab=5.23 E-value=1.1e+02 Score=21.86 Aligned_cols=26 Identities=27% Similarity=0.395 Sum_probs=19.0
Q ss_pred cccccCCCC-ccccchhhhhhhhhhhccccC
Q 028358 180 ASVFEGVGR-TLKGRDLRRVRDAVWSQTGFD 209 (210)
Q Consensus 180 fSV~eG~GR-TLKGRDL~rVRNAVlr~TGFl 209 (210)
.-.|.-.+| |+++.|+..... ..||+
T Consensus 52 ~~~a~~~kRkTI~~~Dv~~Al~----~l~F~ 78 (93)
T 1n1j_A 52 SERCHQEKRKTINGEDILFAMS----TLGFD 78 (93)
T ss_dssp HHHHHHTTCSSBCHHHHHHHHH----HTTCG
T ss_pred HHHHHHcCCCccCHHHHHHHHH----HcCcH
Confidence 455666676 999999877653 77886
No 8
>1wh9_A 40S ribosomal protein S3; KH domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Homo sapiens} SCOP: d.52.3.1
Probab=5.20 E-value=1.9e+02 Score=20.98 Aligned_cols=22 Identities=36% Similarity=0.687 Sum_probs=18.6
Q ss_pred CCCccccchhhhhhhhhhhccccC
Q 028358 186 VGRTLKGRDLRRVRDAVWSQTGFD 209 (210)
Q Consensus 186 ~GRTLKGRDL~rVRNAVlr~TGFl 209 (210)
+|+ ||.++.++|.-|=++|||.
T Consensus 50 IGk--kG~~Ie~L~~~l~k~~~~~ 71 (92)
T 1wh9_A 50 LGE--KGRRIRELTAVVQKRFGFP 71 (92)
T ss_dssp HCG--GGHHHHHHHHHHHHHHCCC
T ss_pred EcC--CcHHHHHHHHHHHHHhCCC
Confidence 366 8999999999999888873
No 9
>1hmj_A RPB5, protein (subunit H); RNA polymerase, archaea; NMR {Methanocaldococcus jannaschii} SCOP: d.78.1.1
Probab=5.07 E-value=1.9e+02 Score=21.00 Aligned_cols=12 Identities=33% Similarity=0.764 Sum_probs=9.8
Q ss_pred CCCCCeeehhhh
Q 028358 159 EMIPPHEYLARE 170 (210)
Q Consensus 159 ~~vPPHe~vaRr 170 (210)
++||.|++|...
T Consensus 7 ~LVPkH~iLs~e 18 (78)
T 1hmj_A 7 ILVPKHEIVPKE 18 (78)
T ss_pred eeCCCeEECCHH
Confidence 689999999653
No 10
>1eik_A RNA polymerase subunit RPB5; RPBH, OCSP, NESG, protein structure initiative, structural genomics, PSI; NMR {Methanothermobacterthermautotrophicus} SCOP: d.78.1.1
Probab=5.04 E-value=2e+02 Score=20.82 Aligned_cols=13 Identities=23% Similarity=0.542 Sum_probs=10.2
Q ss_pred cCCCCCeeehhhh
Q 028358 158 MEMIPPHEYLARE 170 (210)
Q Consensus 158 ~~~vPPHe~vaRr 170 (210)
-++||.|++|...
T Consensus 8 H~LVPkH~iLs~e 20 (77)
T 1eik_A 8 HQLVPEHVILNES 20 (77)
T ss_dssp SSSCCEEEEECHH
T ss_pred ceecCCEEEcCHH
Confidence 3689999999553
Done!