Query psy8508
Match_columns 246
No_of_seqs 106 out of 245
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 20:44:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8508.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8508hhsearch_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 1.7E-67 3.7E-72 456.5 21.7 194 35-239 1-194 (194)
2 KOG3034|consensus 100.0 7E-56 1.5E-60 398.7 21.3 223 15-241 31-265 (308)
3 PF02228 Gag_p19: Major core p 73.7 3.3 7.2E-05 31.6 2.7 33 46-78 38-74 (92)
4 PF13355 DUF4101: Protein of u 60.7 34 0.00074 27.2 6.3 64 126-211 3-66 (117)
5 PF15405 PH_5: Pleckstrin homo 36.0 21 0.00045 29.3 1.4 17 194-210 21-37 (135)
6 PF10305 Fmp27_SW: RNA pol II 32.1 44 0.00095 26.1 2.6 66 118-190 8-73 (103)
7 PRK11245 folX D-erythro-7,8-di 29.8 1.8E+02 0.0038 23.0 5.8 35 49-83 55-94 (120)
8 PF06478 Corona_RPol_N: Corona 22.4 55 0.0012 31.0 1.8 81 42-133 149-230 (355)
9 PRK11593 folB bifunctional dih 22.3 2.7E+02 0.0057 21.8 5.6 34 49-82 51-89 (119)
10 PHA02536 Q portal vertex prote 22.1 95 0.0021 29.5 3.4 37 148-189 195-231 (346)
11 PF13527 Acetyltransf_9: Acety 20.1 3.8E+02 0.0082 20.0 6.1 22 44-65 3-24 (127)
No 1
>PF13862 BCIP: p21-C-terminal region-binding protein
Probab=100.00 E-value=1.7e-67 Score=456.51 Aligned_cols=194 Identities=46% Similarity=0.797 Sum_probs=181.5
Q ss_pred ceEEEEEeecCCCCCcHHHHHHHHHHhhccCCCChhHHHHHHHcCCCcceEEEecCCCCCCCCCCCCCCCCCeEEEEEee
Q psy8508 35 EEIQVTFEGRSAIDSDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVVKQSTADEDMDDDDDESDVNDVFGITTVI 114 (246)
Q Consensus 35 e~v~vDFe~~dp~~~DfhgIk~LL~qlf~~~~idls~LadlIi~Q~~vGtvIK~~~~d~~~dd~dd~~~~~dv~g~~SvL 114 (246)
|+|||||+||||++.||||||+||+|||++++||+++|||+|++|++||||||++ || ++++||||+|||
T Consensus 1 e~V~vdFe~~dp~~~D~hgIk~LL~ql~~~~~~dl~~LadlIi~Q~~vGsvVK~~--d~---------~e~dvyg~~Svl 69 (194)
T PF13862_consen 1 EEVNVDFEFFDPNEIDFHGIKNLLQQLFLDAEIDLSELADLIIEQNNVGSVVKQA--DG---------DEDDVYGFLSVL 69 (194)
T ss_pred CeEEEEEEeeCCChhhHHHHHHHHHHhccccCcCHHHHHHHHHcCCCCceEEEec--CC---------CCCcceEEEEEE
Confidence 5799999999999999999999999999999999999999999999999999997 22 458999999999
Q ss_pred ecCCCCCchHHHHHHHHHHHHHHhhcCHHHHHHHHHHhcCCCCceEEEEecccccCCccchHHHHHHHHHHHHHHHhcCC
Q psy8508 115 NITNKKHIECVQQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQAKDKKM 194 (246)
Q Consensus 115 nl~~~k~~~~i~~l~~yll~k~~~~~~~~~~~~l~~lL~~~~~~vGLlinER~iNiP~ql~ppl~~~L~~ei~~a~~~~~ 194 (246)
||++|+..+||++|++||+++|++++++++.+.|+++|++++++|||||||||+|||+||+||||++|++||+||.++++
T Consensus 70 nl~~~k~~~~i~~l~~yl~~k~~~~~~~~~~~~l~~~l~~~~~~vGLlinER~iN~P~ql~ppl~~~L~~ei~~a~~~~~ 149 (194)
T PF13862_consen 70 NLTQHKDHPCIKQLRKYLLSKCSKSADKEVKKKLEKLLSSSNKNVGLLINERFINIPPQLAPPLYKMLLEEIEWAQEDEK 149 (194)
T ss_pred EcccccccHHHHHHHHHHHHHhhhccChhHHHHHHHHHhccCCCeEEEEehhhhcCCHHHHHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999988899999999999999999999999999999999999999
Q ss_pred CCCCcEEEEEEeeEeecCCcccccccCCCCCCCccccchhhhhHh
Q psy8508 195 PYDFQHYILISKLYKSDGSKKKKNKVTGQTDPDILFSNAEEEVFD 239 (246)
Q Consensus 195 ~~~F~~~L~isk~y~~~~~~~~kkkk~~~~~~~~~y~~~EdE~~~ 239 (246)
+|+|+|||+|||+|++..+.++|+||++....+++|+|||||+|+
T Consensus 150 ~~~f~~yL~isk~y~~~~~~~~~~~~~~~~~~~~~~~~~Ede~~~ 194 (194)
T PF13862_consen 150 PFKFTHYLIISKVYKEKKKKKRKKKKKKKKKDEIIYFNPEDEIFH 194 (194)
T ss_pred CCCCeEEEEEEEEEeeccccccccccccCCcccceeCChhhhhcC
Confidence 999999999999999876555555555666688999999999985
No 2
>KOG3034|consensus
Probab=100.00 E-value=7e-56 Score=398.74 Aligned_cols=223 Identities=35% Similarity=0.605 Sum_probs=190.0
Q ss_pred CCCCCCCCCCcc----cccCCCCCceEEEEEeecCCCCCcHHHHHHHHHHhhccCCCChhHHHHHHHcCCCcceEEEecC
Q psy8508 15 NESSGSEYDSDA----EEEGYTGGEEIQVTFEGRSAIDSDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVVKQST 90 (246)
Q Consensus 15 ~~~~~~~~~~~~----~~~~~~~~e~v~vDFe~~dp~~~DfhgIk~LL~qlf~~~~idls~LadlIi~Q~~vGtvIK~~~ 90 (246)
++++-++.++|+ ++++..++++||+||||++|.+.||||||+||+|+|++++||+++|||+||+|+.+|+|||+..
T Consensus 31 ~v~~~~edddD~d~~~eeek~~e~e~vnidFE~~~p~d~D~~giknLL~Qlfl~~~Vnla~laDlii~q~~~gsvikq~~ 110 (308)
T KOG3034|consen 31 DVEDESEDDDDEDKENEEEKEVEDEEVNIDFEAYSPSDVDADGIKNLLQQLFLRAHVNLAALADLIIAQNHIGSVIKQDD 110 (308)
T ss_pred cccccccCcccccccchhhhccccceEeccccccCCCCcchHHHHHHHHHHhccccccHHHhHHHHhhcccccceeEecc
Confidence 444444444433 5555567899999999999999999999999999999999999999999999999999999975
Q ss_pred CCCCCCCCCCCCCCCCeEEEEEeeecCCCCCchHHHHHHHHHHHHHHhhcCHHHHHHHHHHhcCCCCceEEEEecccccC
Q psy8508 91 ADEDMDDDDDESDVNDVFGITTVINITNKKHIECVQQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIINERFVNI 170 (246)
Q Consensus 91 ~d~~~dd~dd~~~~~dv~g~~SvLnl~~~k~~~~i~~l~~yll~k~~~~~~~~~~~~l~~lL~~~~~~vGLlinER~iNi 170 (246)
+++.+ +|+| .+|+||++|+||++..+..+||++|.+|++.+|+++|++++.++|+.+|.+++++||||||||||||
T Consensus 111 ~~e~~---~d~m-~~D~~~~~s~lnl~~~~~~~~ikqL~~yvL~r~~k~~~k~v~~~lk~ll~s~~k~vgLlvsERliN~ 186 (308)
T KOG3034|consen 111 DSETE---NDDM-DEDPFGFLSFLNLTARKDTKCIKQLQEYVLRRCKKNAEKEVVEQLKLLLDSGTKPVGLLVSERLINM 186 (308)
T ss_pred ccccc---cccc-ccCCceEEEEeehhhhccchHHHHHHHHHHHHHhhcCCHHHHHHHHHHHhcCCCceeEEeehhhhcC
Confidence 44322 2233 2456999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeeEeecCCccc----cccc----CCCCCCCccccchhhhhHhhh
Q psy8508 171 PPQISVPLLQGLSKEIQQAKDKKMPYDFQHYILISKLYKSDGSKKK----KNKV----TGQTDPDILFSNAEEEVFDEV 241 (246)
Q Consensus 171 P~ql~ppl~~~L~~ei~~a~~~~~~~~F~~~L~isk~y~~~~~~~~----kkkk----~~~~~~~~~y~~~EdE~~~~~ 241 (246)
|+||+||||++|++||.||..++++|.|.||+++.|.|....++.+ +.|| .....+++.|+||||++|...
T Consensus 187 P~qv~pPly~~l~eEla~A~~~~kp~~f~~~lll~~~y~~eakk~~~s~~~~kk~~~a~~~~~aE~~ff~eed~~~e~~ 265 (308)
T KOG3034|consen 187 PPQVVPPLYQSLQEELAGAHRENKPYDFCYFLLLVKTYFVEAKKGKSSEKPSKKKKAALLVANAEVEFFYEEDRFFELK 265 (308)
T ss_pred CchhhhHHHHHHHHHHHHHhccCCccceEEEEEEEEEeeehhccCCCcccccccHHHHhhhccchhhccchHhhhhhhh
Confidence 9999999999999999999999999999999999999986643221 1111 125778999999999955443
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=73.75 E-value=3.3 Score=31.58 Aligned_cols=33 Identities=30% Similarity=0.392 Sum_probs=24.2
Q ss_pred CCCCcHHHHHHHHHHhhcc----CCCChhHHHHHHHc
Q psy8508 46 AIDSDFHGVKQLLKQLFLK----AHINLSELTDVIIS 78 (246)
Q Consensus 46 p~~~DfhgIk~LL~qlf~~----~~idls~LadlIi~ 78 (246)
|++.|||-+|++|.-.+.. .+||.|=||.+|-.
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 6789999999999866554 68999999987644
No 4
>PF13355 DUF4101: Protein of unknown function (DUF4101)
Probab=60.68 E-value=34 Score=27.23 Aligned_cols=64 Identities=20% Similarity=0.208 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHhcCCCCceEEEEecccccCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEE
Q psy8508 126 QQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQAKDKKMPYDFQHYILIS 205 (246)
Q Consensus 126 ~~l~~yll~k~~~~~~~~~~~~l~~lL~~~~~~vGLlinER~iNiP~ql~ppl~~~L~~ei~~a~~~~~~~~F~~~L~is 205 (246)
+=|..||-.|+..-+++-....|.++|. +||++...+...|....+..|.|+|-+=|.
T Consensus 3 ~lv~~Wl~~Ka~alg~~~~~~~L~~vl~----------------------g~ll~~w~~~a~~~~~~g~y~~y~~~~~I~ 60 (117)
T PF13355_consen 3 QLVQRWLSAKAQALGPPHDIDSLSEVLT----------------------GPLLSQWQDRAQWLKANGWYWEYDHKLKID 60 (117)
T ss_pred HHHHHHHHHHHHHhCCCcchhHHHHHhh----------------------HHHHHHHHHHHHHHHHcCCeEEEeeeeEEE
Confidence 3467899999988777655678888875 799999999999998888878988888777
Q ss_pred eeEeec
Q psy8508 206 KLYKSD 211 (246)
Q Consensus 206 k~y~~~ 211 (246)
.+-...
T Consensus 61 sv~~~~ 66 (117)
T PF13355_consen 61 SVEVFS 66 (117)
T ss_pred EEEEcC
Confidence 776554
No 5
>PF15405 PH_5: Pleckstrin homology domain; PDB: 2Z0Q_A.
Probab=36.00 E-value=21 Score=29.31 Aligned_cols=17 Identities=41% Similarity=0.677 Sum_probs=13.7
Q ss_pred CCCCCcEEEEEEeeEee
Q psy8508 194 MPYDFQHYILISKLYKS 210 (246)
Q Consensus 194 ~~~~F~~~L~isk~y~~ 210 (246)
.-|-|||||+|+|.-..
T Consensus 21 ~~~LFDh~Lll~K~k~~ 37 (135)
T PF15405_consen 21 HVYLFDHYLLLTKPKKV 37 (135)
T ss_dssp EEEEESSEEEEEEEEEE
T ss_pred EEEeeccEEEEEEEEec
Confidence 45789999999998543
No 6
>PF10305 Fmp27_SW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019415 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a conserved region within FMP27 that contains characteristic SW and GKG sequence motifs.
Probab=32.06 E-value=44 Score=26.14 Aligned_cols=66 Identities=15% Similarity=0.238 Sum_probs=44.3
Q ss_pred CCCCchHHHHHHHHHHHHHHhhcCHHHHHHHHHHhcCCCCceEEEEecccccCCccchHHHHHHHHHHHHHHH
Q psy8508 118 NKKHIECVQQLRSLLSELAEEHADDRIKAFVNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQAK 190 (246)
Q Consensus 118 ~~k~~~~i~~l~~yll~k~~~~~~~~~~~~l~~lL~~~~~~vGLlinER~iNiP~ql~ppl~~~L~~ei~~a~ 190 (246)
++-..++|+.+..+-..+. .........++.....+...-.+++++..| ..|||+..+++++....
T Consensus 8 ~~~S~SWi~ri~~~k~~~~-----~~~~~~~~~~~G~~~~~~~~~~~~~il~~~--~~ppL~~~~~~~l~l~i 73 (103)
T PF10305_consen 8 ENNSTSWIRRIRKAKRTQK-----RRIKENRSYLWGNDDVPDDIDENENILPYP--QRPPLMRAIFEDLDLTI 73 (103)
T ss_pred HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhhCCCCCCCccccCcccccCC--CCcHhHHHHHhcccEEE
Confidence 3344567777777665544 233445556666554667777888888665 47999999999987543
No 7
>PRK11245 folX D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional
Probab=29.75 E-value=1.8e+02 Score=23.03 Aligned_cols=35 Identities=9% Similarity=0.196 Sum_probs=28.2
Q ss_pred CcHHHHHHHHHHhhccCCCCh-----hHHHHHHHcCCCcc
Q psy8508 49 SDFHGVKQLLKQLFLKAHINL-----SELTDVIISQSNIG 83 (246)
Q Consensus 49 ~DfhgIk~LL~qlf~~~~idl-----s~LadlIi~Q~~vG 83 (246)
.||..|-..+.++.....+.+ ..++++|+.+..+.
T Consensus 55 idY~~v~~~i~~~v~~~~~~llE~la~~Ia~~i~~~~~v~ 94 (120)
T PRK11245 55 LNYRTITKNIIQHVENNRFSLLEKLTQDVLDIAREHPWVT 94 (120)
T ss_pred cCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHccCCcc
Confidence 589999999999998888875 57777777765543
No 8
>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=22.40 E-value=55 Score=31.02 Aligned_cols=81 Identities=12% Similarity=0.238 Sum_probs=57.1
Q ss_pred eecCCCC-CcHHHHHHHHHHhhccCCCChhHHHHHHHcCCCcceEEEecCCCCCCCCCCCCCCCCCeEEEEEeeecCCCC
Q psy8508 42 EGRSAID-SDFHGVKQLLKQLFLKAHINLSELTDVIISQSNIGSVVKQSTADEDMDDDDDESDVNDVFGITTVINITNKK 120 (246)
Q Consensus 42 e~~dp~~-~DfhgIk~LL~qlf~~~~idls~LadlIi~Q~~vGtvIK~~~~d~~~dd~dd~~~~~dv~g~~SvLnl~~~k 120 (246)
.|+||-| .|+|.+=+-|-..+.++-++.-.++|.++++.-||-+-- |. .| =.+..|-|=-.+--...-
T Consensus 149 ~WyDpVEN~di~~vy~kLG~iv~~a~L~~v~f~d~mv~~G~VGVlTl----DN----QD---LnG~~YDFGDFv~t~pG~ 217 (355)
T PF06478_consen 149 DWYDPVENPDIHRVYAKLGPIVNRAMLKAVKFCDAMVEKGLVGVLTL----DN----QD---LNGQFYDFGDFVQTQPGM 217 (355)
T ss_pred cCcCCccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCeeEEEcc----Cc----cc---cCCceecccceeecCCCC
Confidence 4899986 699999999999999999999999999999998884432 21 11 124555444444333444
Q ss_pred CchHHHHHHHHHH
Q psy8508 121 HIECVQQLRSLLS 133 (246)
Q Consensus 121 ~~~~i~~l~~yll 133 (246)
+.+++.....|+.
T Consensus 218 Gv~~~~SYYSYmM 230 (355)
T PF06478_consen 218 GVPVCDSYYSYMM 230 (355)
T ss_pred CceeehhHHHHHh
Confidence 5566677777775
No 9
>PRK11593 folB bifunctional dihydroneopterin aldolase/dihydroneopterin triphosphate 2'-epimerase; Provisional
Probab=22.28 E-value=2.7e+02 Score=21.82 Aligned_cols=34 Identities=12% Similarity=0.256 Sum_probs=28.0
Q ss_pred CcHHHHHHHHHHhhccCCCCh-----hHHHHHHHcCCCc
Q psy8508 49 SDFHGVKQLLKQLFLKAHINL-----SELTDVIISQSNI 82 (246)
Q Consensus 49 ~DfhgIk~LL~qlf~~~~idl-----s~LadlIi~Q~~v 82 (246)
.||..|-..+..+..+.+++| .++|+.|+.+-++
T Consensus 51 idY~~v~~~I~~~~~~~~~~LlE~la~~ia~~i~~~~~~ 89 (119)
T PRK11593 51 LSYADIAETVISHVEGARFALVERVAEEVAELLLARFNS 89 (119)
T ss_pred cCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHhhCCC
Confidence 489999999999998888885 6777778777554
No 10
>PHA02536 Q portal vertex protein; Provisional
Probab=22.13 E-value=95 Score=29.50 Aligned_cols=37 Identities=14% Similarity=0.146 Sum_probs=24.1
Q ss_pred HHHHhcCCCCceEEEEecccccCCccchHHHHHHHHHHHHHH
Q psy8508 148 VNKILTDDTQNVGLIINERFVNIPPQISVPLLQGLSKEIQQA 189 (246)
Q Consensus 148 l~~lL~~~~~~vGLlinER~iNiP~ql~ppl~~~L~~ei~~a 189 (246)
..++..+ +.+.|++| .--|+.+.+-.++.|.+.++.+
T Consensus 195 ~~~yf~N-Ga~~g~il----y~td~~l~~e~~~~lr~~~~~~ 231 (346)
T PHA02536 195 RRKYYLN-GAHAGFIL----YMTDAAQKEEDEENLREAIKNS 231 (346)
T ss_pred HHHHHhC-CCCCCEEE----EeCCCCCCHHHHHHHHHHHHhc
Confidence 3455554 45777655 3455677788888888877654
No 11
>PF13527 Acetyltransf_9: Acetyltransferase (GNAT) domain; PDB: 3SXN_C 2I00_D 1M4D_B 1M44_A 1M4G_B 1M4I_A 2OZG_A 2HV2_F 3N7Z_A 3RYO_B ....
Probab=20.13 E-value=3.8e+02 Score=19.98 Aligned_cols=22 Identities=27% Similarity=0.508 Sum_probs=17.2
Q ss_pred cCCCCCcHHHHHHHHHHhhccC
Q psy8508 44 RSAIDSDFHGVKQLLKQLFLKA 65 (246)
Q Consensus 44 ~dp~~~DfhgIk~LL~qlf~~~ 65 (246)
+...+.|+..|..|+...|...
T Consensus 3 R~~~~~d~~~i~~l~~~~F~~~ 24 (127)
T PF13527_consen 3 RPLTESDFEQIIELFNEAFGDS 24 (127)
T ss_dssp EEE-GGGHHHHHHHHHHHTTT-
T ss_pred eECCHHHHHHHHHHHHHHCCCC
Confidence 3456889999999999999764
Done!