Query 024777
Match_columns 262
No_of_seqs 132 out of 244
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 07:20:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024777.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024777hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13862 BCIP: p21-C-terminal 100.0 1E-59 2.2E-64 412.9 20.3 179 52-236 1-188 (194)
2 KOG3034 Isoamyl acetate-hydrol 100.0 8E-53 1.7E-57 386.7 18.8 209 5-219 2-226 (308)
3 PF02228 Gag_p19: Major core p 65.5 6.5 0.00014 31.1 2.8 33 63-95 38-74 (92)
4 PF06478 Corona_RPol_N: Corona 39.9 16 0.00036 35.3 1.6 42 59-100 149-191 (355)
5 PF09026 CENP-B_dimeris: Centr 34.3 13 0.00029 30.2 0.0 10 76-85 57-66 (101)
6 PF03286 Pox_Ag35: Pox virus A 27.7 50 0.0011 29.9 2.5 12 1-12 45-56 (200)
7 KOG0772 Uncharacterized conser 27.5 47 0.001 34.5 2.6 10 119-128 258-267 (641)
8 KOG3034 Isoamyl acetate-hydrol 24.1 36 0.00077 32.8 0.9 31 205-235 219-249 (308)
9 KOG0943 Predicted ubiquitin-pr 24.1 48 0.0011 38.1 2.0 17 51-67 1762-1778(3015)
10 PF15405 PH_5: Pleckstrin homo 23.8 41 0.00088 28.2 1.1 16 203-218 21-36 (135)
11 KOG1834 Calsyntenin [Extracell 23.1 57 0.0012 34.9 2.2 9 3-11 856-864 (952)
No 1
>PF13862 BCIP: p21-C-terminal region-binding protein
Probab=100.00 E-value=1e-59 Score=412.91 Aligned_cols=179 Identities=43% Similarity=0.770 Sum_probs=164.1
Q ss_pred ceEEEEEeecCCCCCcHHHHHHHHHHhhccCCCChhhHHHHHHcCCCcceEEEecCCCCCCceEEEEeeeCccccCchhH
Q 024777 52 GVVQADFVFFDPKPDDFHGVKILLQTYLDDTQWDLSGFVDLILAQTTVGTVVKMEGDDDDTPFSIVTALNLGRYKDHKCI 131 (262)
Q Consensus 52 e~VnVDFeffdp~e~DfhgIK~LL~qlf~~~~idlseLaDlIi~Q~~vGSVIK~~ddedddvfg~~SvLNL~~~k~~~~i 131 (262)
|+|||||+||||+|.||||||+||+|||++++||+++|||+|++|++||||||++|+++++||||+|||||++|++++|+
T Consensus 1 e~V~vdFe~~dp~~~D~hgIk~LL~ql~~~~~~dl~~LadlIi~Q~~vGsvVK~~d~~e~dvyg~~Svlnl~~~k~~~~i 80 (194)
T PF13862_consen 1 EEVNVDFEFFDPNEIDFHGIKNLLQQLFLDAEIDLSELADLIIEQNNVGSVVKQADGDEDDVYGFLSVLNLTQHKDHPCI 80 (194)
T ss_pred CeEEEEEEeeCCChhhHHHHHHHHHHhccccCcCHHHHHHHHHcCCCCceEEEecCCCCCcceEEEEEEEcccccccHHH
Confidence 57999999999999999999999999999999999999999999999999999965566789999999999999999999
Q ss_pred HHHHHHHHHhcc---cchhHHHHHHHhcCCCCceEEEEeccccCCCchhhHHHHHHHHHHHHHhhhCCCchhccCCccCc
Q 024777 132 KELKEFLLKVCQ---EKDVIRDLRLLMGEQAHDVGLLVSQRVVNLPPQLLPPLHDALFDEVSWATEDEPTAELRNSFRFK 208 (262)
Q Consensus 132 ~~L~~yLl~~~~---~~~~~~~L~~lL~~~~~~vGLLInER~IN~P~ql~ppL~~~L~eEI~wA~e~~~~ee~r~~f~F~ 208 (262)
++|++||+++|+ .+++.+.|+++|++++++|||||||||+|||+||+||||++|++||+||.+++ ++|+|+
T Consensus 81 ~~l~~yl~~k~~~~~~~~~~~~l~~~l~~~~~~vGLlinER~iN~P~ql~ppl~~~L~~ei~~a~~~~------~~~~f~ 154 (194)
T PF13862_consen 81 KQLRKYLLSKCSKSADKEVKKKLEKLLSSSNKNVGLLINERFINIPPQLAPPLYKMLLEEIEWAQEDE------KPFKFT 154 (194)
T ss_pred HHHHHHHHHHhhhccChhHHHHHHHHHhccCCCeEEEEehhhhcCCHHHHHHHHHHHHHHHHHHHhcC------CCCCCe
Confidence 999999999886 56788999999999889999999999999999999999999999999999876 789999
Q ss_pred EEEEEeeEEEeecC------CCCCCCCceeehhh
Q 024777 209 CYLLVSKIYKVFLS------WHLSTAPYILIINF 236 (262)
Q Consensus 209 ~yLliSK~y~~~~~------~s~~~~~~~~~~n~ 236 (262)
|||+|||+|++.+. ...+++.+++|.|.
T Consensus 155 ~yL~isk~y~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (194)
T PF13862_consen 155 HYLIISKVYKEKKKKKRKKKKKKKKKDEIIYFNP 188 (194)
T ss_pred EEEEEEEEEeeccccccccccccCCcccceeCCh
Confidence 99999999997542 23334688888874
No 2
>KOG3034 consensus Isoamyl acetate-hydrolyzing esterase and related enzymes [General function prediction only]
Probab=100.00 E-value=8e-53 Score=386.66 Aligned_cols=209 Identities=36% Similarity=0.616 Sum_probs=182.6
Q ss_pred CChhhhccccccCCCCCCCCCCCCCCCCCCcCCCCCCC--CCCcCCC----CCceEEEEEeecCCCCCcHHHHHHHHHHh
Q 024777 5 PTRDKRRTYKSKDQKGFPLSSKDKGIPKHTLEGKSDLS--GSSEEEG----SEGVVQADFVFFDPKPDDFHGVKILLQTY 78 (262)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~sd~e~----~~e~VnVDFeffdp~e~DfhgIK~LL~ql 78 (262)
++|++|||+.|+-++.+-++.++..++..+++.+.+++ ++.+.|+ .+++||+|||||+|+|.||||||+||||+
T Consensus 2 ~~~~~~~~~~s~~k~~~l~~~~r~~~e~~~v~~~~edddD~d~~~eeek~~e~e~vnidFE~~~p~d~D~~giknLL~Ql 81 (308)
T KOG3034|consen 2 ASRSKRRAVESKYKQLPLPPFQRDEEEEEDVEDESEDDDDEDKENEEEKEVEDEEVNIDFEAYSPSDVDADGIKNLLQQL 81 (308)
T ss_pred CCcccchhhhhcCCCCCCcchhccccccccccccccCcccccccchhhhccccceEeccccccCCCCcchHHHHHHHHHH
Confidence 56778888899998888888776555544444443333 2222222 56899999999999999999999999999
Q ss_pred hccCCCChhhHHHHHHcCCCcceEEEecCCC-------CCCceEEEEeeeCccccCchhHHHHHHHHHHhcc---cchhH
Q 024777 79 LDDTQWDLSGFVDLILAQTTVGTVVKMEGDD-------DDTPFSIVTALNLGRYKDHKCIKELKEFLLKVCQ---EKDVI 148 (262)
Q Consensus 79 f~~~~idlseLaDlIi~Q~~vGSVIK~~dde-------dddvfg~~SvLNL~~~k~~~~i~~L~~yLl~~~~---~~~~~ 148 (262)
|.+++||+++|||+||+|+++|+|||+++++ ++|+||++|+||++..++.+||++|.+|++++|+ ++.+.
T Consensus 82 fl~~~Vnla~laDlii~q~~~gsvikq~~~~e~~~d~m~~D~~~~~s~lnl~~~~~~~~ikqL~~yvL~r~~k~~~k~v~ 161 (308)
T KOG3034|consen 82 FLRAHVNLAALADLIIAQNHIGSVIKQDDDSETENDDMDEDPFGFLSFLNLTARKDTKCIKQLQEYVLRRCKKNAEKEVV 161 (308)
T ss_pred hccccccHHHhHHHHhhcccccceeEecccccccccccccCCceEEEEeehhhhccchHHHHHHHHHHHHHhhcCCHHHH
Confidence 9999999999999999999999999999865 1467999999999999999999999999999887 57899
Q ss_pred HHHHHHhcCCCCceEEEEeccccCCCchhhHHHHHHHHHHHHHhhhCCCchhccCCccCcEEEEEeeEEEe
Q 024777 149 RDLRLLMGEQAHDVGLLVSQRVVNLPPQLLPPLHDALFDEVSWATEDEPTAELRNSFRFKCYLLVSKIYKV 219 (262)
Q Consensus 149 ~~L~~lL~~~~~~vGLLInER~IN~P~ql~ppL~~~L~eEI~wA~e~~~~ee~r~~f~F~~yLliSK~y~~ 219 (262)
++|+.++.+++++|||||||||||||+||+||||++|++||+||..++ ++|.|.||+++.|.|..
T Consensus 162 ~~lk~ll~s~~k~vgLlvsERliN~P~qv~pPly~~l~eEla~A~~~~------kp~~f~~~lll~~~y~~ 226 (308)
T KOG3034|consen 162 EQLKLLLDSGTKPVGLLVSERLINMPPQVVPPLYQSLQEELAGAHREN------KPYDFCYFLLLVKTYFV 226 (308)
T ss_pred HHHHHHHhcCCCceeEEeehhhhcCCchhhhHHHHHHHHHHHHHhccC------CccceEEEEEEEEEeee
Confidence 999999999999999999999999999999999999999999999665 78999999999999975
No 3
>PF02228 Gag_p19: Major core protein p19; InterPro: IPR003139 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from delta-retroviruses such as Human T-lymphotropic virus 1 and Human T-cell leukemia virus 2 (HTLV-2), both members of the human oncovirus subclass of retroviruses [, ].; GO: 0005198 structural molecule activity, 0019013 viral nucleocapsid; PDB: 1JVR_A.
Probab=65.49 E-value=6.5 Score=31.06 Aligned_cols=33 Identities=27% Similarity=0.374 Sum_probs=24.2
Q ss_pred CCCCcHHHHHHHHHHhhcc----CCCChhhHHHHHHc
Q 024777 63 PKPDDFHGVKILLQTYLDD----TQWDLSGFVDLILA 95 (262)
Q Consensus 63 p~e~DfhgIK~LL~qlf~~----~~idlseLaDlIi~ 95 (262)
|++-|||-+|++|+-.+.. +++|.|-||.+|=.
T Consensus 38 PS~~DF~qLr~flk~alkTpvwl~pi~yslla~lipk 74 (92)
T PF02228_consen 38 PSSFDFHQLRNFLKLALKTPVWLNPINYSLLASLIPK 74 (92)
T ss_dssp -STTTHHHHHHHHHHHHT-TTSTTTT-TTTHHHHS-S
T ss_pred CCcccHHHHHHHHHHHHcCCeeeccccHHHHHHHccC
Confidence 5566999999999877654 68999999988754
No 4
>PF06478 Corona_RPol_N: Coronavirus RPol N-terminus; InterPro: IPR009469 This domain represents the N-terminal region of the coronavirus RNA-directed RNA Polymerase.; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0005524 ATP binding, 0006351 transcription, DNA-dependent
Probab=39.91 E-value=16 Score=35.29 Aligned_cols=42 Identities=24% Similarity=0.424 Sum_probs=39.3
Q ss_pred eecCCCCC-cHHHHHHHHHHhhccCCCChhhHHHHHHcCCCcc
Q 024777 59 VFFDPKPD-DFHGVKILLQTYLDDTQWDLSGFVDLILAQTTVG 100 (262)
Q Consensus 59 effdp~e~-DfhgIK~LL~qlf~~~~idlseLaDlIi~Q~~vG 100 (262)
.||||-|+ |+|.+=+-|...+..+-++.-+++|++.++.-||
T Consensus 149 ~WyDpVEN~di~~vy~kLG~iv~~a~L~~v~f~d~mv~~G~VG 191 (355)
T PF06478_consen 149 DWYDPVENPDIHRVYAKLGPIVNRAMLKAVKFCDAMVEKGLVG 191 (355)
T ss_pred cCcCCccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCeeE
Confidence 58999998 9999999999999999999999999999998887
No 5
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=34.30 E-value=13 Score=30.20 Aligned_cols=10 Identities=30% Similarity=0.471 Sum_probs=3.3
Q ss_pred HHhhccCCCC
Q 024777 76 QTYLDDTQWD 85 (262)
Q Consensus 76 ~qlf~~~~id 85 (262)
..|+-..+++
T Consensus 57 ~rYltSf~id 66 (101)
T PF09026_consen 57 KRYLTSFPID 66 (101)
T ss_dssp HHHHCTS---
T ss_pred hhhhhccchh
Confidence 4454444444
No 6
>PF03286 Pox_Ag35: Pox virus Ag35 surface protein; InterPro: IPR004966 The Pox virus Ag35 surface protein is an evelope protein known as protein H5.; GO: 0019031 viral envelope
Probab=27.73 E-value=50 Score=29.92 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=5.9
Q ss_pred CCCCCChhhhcc
Q 024777 1 MPRGPTRDKRRT 12 (262)
Q Consensus 1 ~~~~~~~~~~~~ 12 (262)
||++|...++.+
T Consensus 45 IP~~~k~~~~~~ 56 (200)
T PF03286_consen 45 IPVSPKQPKKKR 56 (200)
T ss_pred CCCCCCCCCCCC
Confidence 565555444443
No 7
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=27.53 E-value=47 Score=34.45 Aligned_cols=10 Identities=20% Similarity=0.192 Sum_probs=4.2
Q ss_pred eeeCccccCc
Q 024777 119 ALNLGRYKDH 128 (262)
Q Consensus 119 vLNL~~~k~~ 128 (262)
+.||..-|.|
T Consensus 258 I~Dm~nTKGH 267 (641)
T KOG0772|consen 258 IRDMYNTKGH 267 (641)
T ss_pred hhhhhccCCc
Confidence 3444444443
No 8
>KOG3034 consensus Isoamyl acetate-hydrolyzing esterase and related enzymes [General function prediction only]
Probab=24.15 E-value=36 Score=32.76 Aligned_cols=31 Identities=19% Similarity=0.117 Sum_probs=18.1
Q ss_pred ccCcEEEEEeeEEEeecCCCCCCCCceeehh
Q 024777 205 FRFKCYLLVSKIYKVFLSWHLSTAPYILIIN 235 (262)
Q Consensus 205 f~F~~yLliSK~y~~~~~~s~~~~~~~~~~n 235 (262)
+.+..|.+++|.++..+.++..++...+++|
T Consensus 219 ll~~~y~~eakk~~~s~~~~kk~~~a~~~~~ 249 (308)
T KOG3034|consen 219 LLVKTYFVEAKKGKSSEKPSKKKKAALLVAN 249 (308)
T ss_pred EEEEEeeehhccCCCcccccccHHHHhhhcc
Confidence 3556666777777666655555544444444
No 9
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=24.13 E-value=48 Score=38.07 Aligned_cols=17 Identities=12% Similarity=0.057 Sum_probs=7.1
Q ss_pred CceEEEEEeecCCCCCc
Q 024777 51 EGVVQADFVFFDPKPDD 67 (262)
Q Consensus 51 ~e~VnVDFeffdp~e~D 67 (262)
++..+.|-+..--.+.|
T Consensus 1762 deD~d~~aea~aEdEe~ 1778 (3015)
T KOG0943|consen 1762 DEDMDLDAEAAAEDEED 1778 (3015)
T ss_pred ccccccchhhhhccccc
Confidence 34444444444333333
No 10
>PF15405 PH_5: Pleckstrin homology domain; PDB: 2Z0Q_A.
Probab=23.76 E-value=41 Score=28.18 Aligned_cols=16 Identities=38% Similarity=0.627 Sum_probs=13.2
Q ss_pred CCccCcEEEEEeeEEE
Q 024777 203 NSFRFKCYLLVSKIYK 218 (262)
Q Consensus 203 ~~f~F~~yLliSK~y~ 218 (262)
..|=|||||+++|.-+
T Consensus 21 ~~~LFDh~Lll~K~k~ 36 (135)
T PF15405_consen 21 HVYLFDHYLLLTKPKK 36 (135)
T ss_dssp EEEEESSEEEEEEEEE
T ss_pred EEEeeccEEEEEEEEe
Confidence 4578999999999843
No 11
>KOG1834 consensus Calsyntenin [Extracellular structures]
Probab=23.08 E-value=57 Score=34.92 Aligned_cols=9 Identities=33% Similarity=0.590 Sum_probs=3.4
Q ss_pred CCCChhhhc
Q 024777 3 RGPTRDKRR 11 (262)
Q Consensus 3 ~~~~~~~~~ 11 (262)
||.+||.+|
T Consensus 856 ~~~~r~q~~ 864 (952)
T KOG1834|consen 856 RRRRRRQKR 864 (952)
T ss_pred chhhhhhcc
Confidence 333333333
Done!