Query 004928
Match_columns 723
No_of_seqs 44 out of 46
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 10:04:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004928.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004928hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1v5o_A 1700011N24RIK protein; 18.0 45 0.0015 28.5 1.5 17 17-33 78-94 (102)
2 3hdf_A Lysozyme; antimicrobial 17.0 43 0.0015 30.8 1.2 20 504-523 9-29 (140)
3 2dii_A TFIIH basal transcripti 14.6 53 0.0018 27.4 1.0 14 349-362 40-53 (61)
4 4b0z_A RPN12, 26S proteasome r 12.1 88 0.003 30.7 1.9 19 366-384 50-68 (229)
5 1jlp_A PSI-conotoxin PIIIF; mu 10.2 89 0.0031 21.9 0.9 10 520-530 5-14 (26)
6 1z7s_1 Human coxsackievirus A2 9.7 3E+02 0.01 28.8 5.0 61 481-554 172-234 (298)
7 3pgw_B SM B; protein-RNA compl 8.9 5.5E+02 0.019 26.1 6.5 14 510-523 181-194 (231)
8 3hde_A Lysozyme; antimicrobial 7.1 1.4E+02 0.0048 28.3 1.2 21 503-523 33-54 (165)
9 2b8i_A PAS factor; four helix 5.8 1.4E+02 0.0047 25.9 0.3 9 37-45 30-38 (77)
10 3gg7_A Uncharacterized metallo 5.7 99 0.0034 30.9 -0.8 27 348-374 84-110 (254)
No 1
>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.15.1.1
Probab=18.02 E-value=45 Score=28.53 Aligned_cols=17 Identities=24% Similarity=0.362 Sum_probs=15.5
Q ss_pred ccccCCCCCCCCCCCCC
Q 004928 17 RLHVNDTEKGGPRAPPR 33 (723)
Q Consensus 17 RLHVNDaeKGGPRAPPR 33 (723)
.|||.+..+|||++||+
T Consensus 78 ~l~l~~~~~gg~~~~~~ 94 (102)
T 1v5o_A 78 MVVLLQKDNVGLRTPGR 94 (102)
T ss_dssp EEEECBCCCCCCSSCCC
T ss_pred EEEEEECCCCCCCCCCC
Confidence 58999999999999986
No 2
>3hdf_A Lysozyme; antimicrobial, bacteriolytic enzyme, glycosid hydrolase, late protein; 1.70A {Enterobacteria phage P21}
Probab=16.98 E-value=43 Score=30.83 Aligned_cols=20 Identities=35% Similarity=0.601 Sum_probs=16.5
Q ss_pred CCcccccCCCCC-CCCccccC
Q 004928 504 SEGLIYKPYPGP-GFMGTVCG 523 (723)
Q Consensus 504 SEGLVYKPypGP-gf~~p~yg 523 (723)
.||+.++||.-| |+.+=.||
T Consensus 9 ~EG~~~~~Y~D~~G~~TIGyG 29 (140)
T 3hdf_A 9 LEGVSYIPYKDIVGVWTVCHG 29 (140)
T ss_dssp CTTCEEEEEECTTSCEEEETT
T ss_pred ccCCcccceeCCCCCeEEEec
Confidence 699999999987 66666666
No 3
>2dii_A TFIIH basal transcription factor complex P62 subunit; BTF2-P62, general transcription factor IIH polypeptide 1, nuclear protein; NMR {Homo sapiens} SCOP: a.240.1.1
Probab=14.65 E-value=53 Score=27.44 Aligned_cols=14 Identities=29% Similarity=0.714 Sum_probs=12.0
Q ss_pred hhhchhhhHHHHHH
Q 004928 349 GIIGHKHFWKARRA 362 (723)
Q Consensus 349 ~~iG~k~FWKarr~ 362 (723)
++|+..+||-.|+.
T Consensus 40 ~vIse~eFW~~r~~ 53 (61)
T 2dii_A 40 QVISAEEFWANRLN 53 (61)
T ss_dssp TSSCHHHHHHHHCS
T ss_pred CcCCHHHHHHHHHH
Confidence 49999999998864
No 4
>4b0z_A RPN12, 26S proteasome regulatory subunit RPN12; protein binding, proteasome ubitquitin; HET: SGM GOL; 1.58A {Schizosaccharomyces pombe}
Probab=12.10 E-value=88 Score=30.73 Aligned_cols=19 Identities=37% Similarity=0.585 Sum_probs=15.7
Q ss_pred hhhhhhhhHHhhHHHHHHH
Q 004928 366 QQRVFAVQVFELHRLIKVQ 384 (723)
Q Consensus 366 QQrvFa~QVFELHRLikVQ 384 (723)
++-.||++|+|+|+++-+|
T Consensus 50 ~~~~~ar~vyE~~a~~al~ 68 (229)
T 4b0z_A 50 EKASFARNVFEYGVLVSIQ 68 (229)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3556999999999998765
No 5
>1jlp_A PSI-conotoxin PIIIF; multiple disulfide bonds, amidated C-terminus; HET: HYP; NMR {Synthetic} SCOP: j.30.1.4
Probab=10.18 E-value=89 Score=21.89 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=7.8
Q ss_pred cccCCCCCCCC
Q 004928 520 TVCGGGCSPFG 530 (723)
Q Consensus 520 p~yg~~cgP~~ 530 (723)
-+|| +|.||-
T Consensus 5 clyg-scrpfp 14 (26)
T 1jlp_A 5 CLYG-SCRPFP 14 (26)
T ss_dssp CSTT-SCCCCT
T ss_pred eeec-cccCCC
Confidence 4788 999884
No 6
>1z7s_1 Human coxsackievirus A21; picornavirus, capsid protein, viral protein, icosahedral virus; HET: MYR G; 3.20A {Human coxsackievirus A21} PDB: 1z7z_1*
Probab=9.66 E-value=3e+02 Score=28.75 Aligned_cols=61 Identities=15% Similarity=0.012 Sum_probs=32.6
Q ss_pred CCCCccccCCCC--CCceeeeecCCCCcccccCCCCCCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 004928 481 SRMAHWCFHQSP--GQQWLIPVMSPSEGLIYKPYPGPGFMGTVCGGGCSPFGPAPLTGNFMHPDYGITSPIPLQGN 554 (723)
Q Consensus 481 ~k~~~wc~~ppp--gnQWLvPVMSPSEGLVYKPypGPgf~~p~yg~~cgP~~~~p~~g~fmn~~Ygvp~~~~h~g~ 554 (723)
+..||-.|...+ -.+-=||.|||- +.++.||- |+.=|+..+..++--+..||+.... +.|.
T Consensus 172 s~tNPSvf~~~~~~~~rfsIPf~sp~-----------say~~fYd-G~~~~~~~~~~~~~~~~~YG~~~~n-dmGt 234 (298)
T 1z7s_1 172 SSSNPSIFYMYGNAPPRMSIPYVGIA-----------NAYSHFYD-GFARVPLEGENTDAGDTFYGLVSIN-DFGV 234 (298)
T ss_dssp CSSSCEEEEETTSCCCEEEECCCCSS-----------SSEESCCC-BBSSCCBSSSCTTTTTTSBSGGGTC-CCCE
T ss_pred cCCCCEEEEeCCCCcceEEecccCcc-----------ccceeEEc-cccccCcccccccccccccCccccC-CCEE
Confidence 334455553332 245666666542 66678999 5545655443322224568887654 5443
No 7
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A
Probab=8.95 E-value=5.5e+02 Score=26.13 Aligned_cols=14 Identities=43% Similarity=0.795 Sum_probs=9.2
Q ss_pred cCCCCCCCCccccC
Q 004928 510 KPYPGPGFMGTVCG 523 (723)
Q Consensus 510 KPypGPgf~~p~yg 523 (723)
-..+-||.|+|-+|
T Consensus 181 ~~~~~~g~~~p~~g 194 (231)
T 3pgw_B 181 RGAPPPGMMGPPPG 194 (231)
T ss_pred cCCCCCcccCCCCC
Confidence 34445588877777
No 8
>3hde_A Lysozyme; antimicrobial, bacteriolytic enzyme, glycosidase, hydrolase, late protein; 1.95A {Enterobacteria phage P21}
Probab=7.15 E-value=1.4e+02 Score=28.26 Aligned_cols=21 Identities=33% Similarity=0.547 Sum_probs=17.1
Q ss_pred CCCcccccCCCCC-CCCccccC
Q 004928 503 PSEGLIYKPYPGP-GFMGTVCG 523 (723)
Q Consensus 503 PSEGLVYKPypGP-gf~~p~yg 523 (723)
-.||+.++||.-| |+.+=.||
T Consensus 33 ~~EG~~~~~Y~D~~Gv~TIGyG 54 (165)
T 3hde_A 33 GLEGVSYIPYKDIVGVWTVCHG 54 (165)
T ss_dssp SSSCCEEEEEECTTSCEEEETT
T ss_pred cccCCCccceeCCCCCeEEEEc
Confidence 4799999999987 67666666
No 9
>2b8i_A PAS factor; four helix bundle, lipid binding protein; 1.80A {Vibrio vulnificus}
Probab=5.85 E-value=1.4e+02 Score=25.94 Aligned_cols=9 Identities=67% Similarity=1.209 Sum_probs=6.6
Q ss_pred hhhhhcCcC
Q 004928 37 ALYEQLSIP 45 (723)
Q Consensus 37 ALYEQfSIP 45 (723)
-|||||.+|
T Consensus 30 ~LYeqL~Lp 38 (77)
T 2b8i_A 30 NLYEQLDLP 38 (77)
T ss_dssp HHHHHHCCC
T ss_pred HHHHHcCCc
Confidence 478888776
No 10
>3gg7_A Uncharacterized metalloprotein; structural genomics, unknown function, plasmid, PSI-2, protein structure initiative; 1.50A {Deinococcus radiodurans} SCOP: c.1.9.0
Probab=5.73 E-value=99 Score=30.92 Aligned_cols=27 Identities=26% Similarity=0.201 Sum_probs=19.9
Q ss_pred hhhhchhhhHHHHHHHHhhhhhhhhhH
Q 004928 348 VGIIGHKHFWKARRAIVNQQRVFAVQV 374 (723)
Q Consensus 348 v~~iG~k~FWKarr~i~~QQrvFa~QV 374 (723)
||=||...||......-.|+++|..|+
T Consensus 84 IGEiGLD~~~~~~~~~~~Q~~~F~~ql 110 (254)
T 3gg7_A 84 VGEVGLDGSPSLRGTWTQQFAVFQHIL 110 (254)
T ss_dssp EEEEECCCCGGGGGGHHHHHHHHHHHH
T ss_pred EEEEecCCCcccCCCHHHHHHHHHHHH
Confidence 455899999974344567889998886
Done!