Query 000295
Match_columns 1711
No_of_seqs 194 out of 233
Neff 6.9
Searched_HMMs 29240
Date Tue Mar 26 15:55:50 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000295.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_75-78//hhsearch_pdb/000295hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3e98_A GAF domain of unknown f 1.0 1 1 12.2 0.0 23 829-852 31-53 (252)
2 3gs3_A Symplekin, LD45768P; he 1.0 1 1 10.4 9.6 14 1233-1246 206-219 (257)
3 1xqr_A HSPBP1 protein; armadil 1.0 1 1 9.2 5.6 11 1280-1290 206-216 (296)
4 3sk7_A Protein SEQA; sequestra 1.0 1 1 9.1 2.3 18 271-288 22-39 (116)
5 1sz9_A PCF11 protein; RNA poly 1.0 1 1 8.8 2.3 15 1254-1268 58-72 (144)
6 1vdy_A Hypothetical protein (R 1.0 1 1 8.7 10.0 58 792-854 45-102 (140)
7 1vsy_5 Proteasome activator BL 1.0 1 1 8.1 3.8 29 1399-1428 952-980 (997)
8 1w9c_A CRM1 protein, exportin 1.0 1 1 8.1 18.5 238 996-1325 5-248 (321)
9 3oae_A Late major capsid prote 1.0 1 1 8.0 -3.4 39 819-862 356-402 (428)
10 1v9v_A KIAA0561 protein; helix 1.0 1 1 7.9 1.4 40 182-221 33-79 (114)
No 1
>3e98_A GAF domain of unknown function; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 2.43A {Pseudomonas aeruginosa}
Probab=1.00 E-value=1 Score=12.20 Aligned_cols=23 Identities=30% Similarity=0.482 Sum_probs=11.0
Q ss_pred CCCHHHHHHHHCCCCCHHHHHHHH
Q ss_conf 985888999941201059985411
Q 000295 829 LTCGPTMDLLSNKKYQFFVKHLDA 852 (1711)
Q Consensus 829 ~TS~~vL~~LRs~~~dff~~~L~~ 852 (1711)
.|..-|..||+.++ |||.+|-.-
T Consensus 31 l~~~~V~~yL~~~P-dFf~~~~~L 53 (252)
T 3e98_A 31 LDAEQVAAYLSQHP-EFFVEHDEL 53 (252)
T ss_dssp ------------------------
T ss_pred CCHHHHHHHHHHCC-HHHHHCHHH
T ss_conf 99999999999697-787629999
No 2
>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop, transcription, protein binding; 2.40A {Drosophila melanogaster}
Probab=1.00 E-value=1 Score=10.41 Aligned_cols=14 Identities=36% Similarity=0.786 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHH
Q ss_conf 98624478898840
Q 000295 1233 LRKEAQAILDLFIK 1246 (1711)
Q Consensus 1233 I~~~ge~LidvIc~ 1246 (1711)
+...|.++++.+.+
T Consensus 206 Le~Ea~~lL~~LL~ 219 (257)
T 3gs3_A 206 LQEEGNNILDILLQ 219 (257)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
T ss_conf 99999999999999
No 3
>1xqr_A HSPBP1 protein; armadillo repeat, superhelical twist, chaperone; 2.10A {Homo sapiens} SCOP: a.118.1.21 PDB: 1xqs_A*
Probab=1.00 E-value=1 Score=9.16 Aligned_cols=11 Identities=18% Similarity=0.286 Sum_probs=3.7
Q ss_pred HHCCCHHHHHH
Q ss_conf 72193999999
Q 000295 1280 QSRGFLRSCLM 1290 (1711)
Q Consensus 1280 ~~~g~L~~li~ 1290 (1711)
...|.++.++.
T Consensus 206 v~~g~i~~Lv~ 216 (296)
T 1xqr_A 206 CSMGMVQQLVA 216 (296)
T ss_dssp HHTTHHHHHHH
T ss_pred HHCCCHHHHHH
T ss_conf 98687999999
No 4
>3sk7_A Protein SEQA; sequestration, negative regulator, DNA replication initiatio binding, replication inhibitor; HET: FME; 1.50A {Vibrio cholerae}
Probab=1.00 E-value=1 Score=9.08 Aligned_cols=18 Identities=6% Similarity=0.098 Sum_probs=7.8
Q ss_pred CCHHHHHHHHHHHHCCCC
Q ss_conf 768999999999813595
Q 000295 271 LPFVSLLEFVSEIYQKEP 288 (1711)
Q Consensus 271 ~~lE~fll~ia~~Y~~~P 288 (1711)
..-.|||.+.+.+|.-+|
T Consensus 22 kaV~RFl~iLs~Ly~~~p 39 (116)
T 3sk7_A 22 NAIDRFMLILSTLHRIDS 39 (116)
T ss_dssp SHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHCH
T ss_conf 269999999999998698
No 5
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm repeats, transcription; 2.10A {Saccharomyces cerevisiae} SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Probab=1.00 E-value=1 Score=8.76 Aligned_cols=15 Identities=27% Similarity=0.445 Sum_probs=5.3
Q ss_pred CHHHHHHHHHHHHHC
Q ss_conf 059999999999871
Q 000295 1254 PGKTLSLYVLDALIC 1268 (1711)
Q Consensus 1254 ~~r~~Al~lLd~Lv~ 1268 (1711)
.-|..+|+++|+++.
T Consensus 58 ~~KL~~LYL~DsIvk 72 (144)
T 1sz9_A 58 KQKLYAFYALDSICK 72 (144)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
T ss_conf 568999999999987
No 6
>1vdy_A Hypothetical protein (RAFL09-17-B18); structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Arabidopsis thaliana} PDB: 2dcp_A
Probab=1.00 E-value=1 Score=8.71 Aligned_cols=58 Identities=12% Similarity=0.061 Sum_probs=39.9
Q ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHCC
Q ss_conf 419999999983179897423799999999995229998588899994120105998541107
Q 000295 792 SCLKIILEILEKVSKPDVNALLHEFGFQLLYELCLDPLTCGPTMDLLSNKKYQFFVKHLDAIG 854 (1711)
Q Consensus 792 ScLhsIL~lL~~~~~~~~~p~L~e~~~~lL~~Lc~~p~TS~~vL~~LRs~~~dff~~~L~~~~ 854 (1711)
+.++-|.+.|.+... +..|+.+-+|++||-.||.+- |+.+.+.+|.+- ...+.+..-.
T Consensus 45 ~~~~eim~~L~kRL~-~k~~~vk~KaL~lL~yL~~~G--s~~f~~~~r~~~--~~Ik~l~~F~ 102 (140)
T 1vdy_A 45 SIVKEFSEFILKRLD-NKSPIVKQKALRLIKYAVGKS--GSEFRREMQRNS--VAVRNLFHYK 102 (140)
T ss_dssp HHHHHHHHHHHHHHT-SSSHHHHHHHHHHHHHHTTTS--CHHHHHHHHHTT--HHHHTTTTCC
T ss_pred HHHHHHHHHHHHHHC-CCCCCEEEHHHHHHHHHHHHC--CHHHHHHHHHHH--HHHHHHHHCC
T ss_conf 589999999999965-899652004999999999719--899999999809--9999999658
No 7
>1vsy_5 Proteasome activator BLM10; 20S proteasome BLM10, hydrolase, nucleus, phosphoprotein, PR proteasome, threonine protease; 3.00A {Saccharomyces cerevisiae} PDB: 3l5q_6
Probab=1.00 E-value=1 Score=8.13 Aligned_cols=29 Identities=10% Similarity=0.020 Sum_probs=17.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 214899999999999979999999830646
Q 000295 1399 EVKNKVVREVMDFIKGHQLLVDQVLQENIS 1428 (1711)
Q Consensus 1399 ~~n~~~~~qvl~FL~~H~~li~~iLr~~~~ 1428 (1711)
+-.+.+-.-.-+|-..|+|.-. .-|..-.
T Consensus 952 ~i~~tvk~tlseFkrTH~D~W~-~~k~~Ft 980 (997)
T 1vsy_5 952 MTGNAAKNTISEFKKVRADTWK-FDRASFN 980 (997)
T ss_dssp SHHHHTHHHHHHHHHHTSTTHH-HHGGGCC
T ss_pred CHHHHHHHHHHHHHHCCCHHHH-HHHHHCC
T ss_conf 4588999999998751503588-8887168
No 8
>1w9c_A CRM1 protein, exportin 1; nuclear protein, nuclear export complex; 2.3A {Homo sapiens} SCOP: a.118.1.19
Probab=1.00 E-value=1 Score=8.06 Aligned_cols=238 Identities=17% Similarity=0.098 Sum_probs=0.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 75131199799999975200155555778634465899999999999999835899999999989999999999983243
Q 000295 996 GDRLIDLSSFSDKLWKKLNIVYPQLSNFGSEAELNDVKEAIQQLLRWGWKYNKNLEEQAAQLHMLTGWSQVVEVSVSRRI 1075 (1711)
Q Consensus 996 g~~l~di~~L~~~L~~e~~~~~~~~~~~~~~~~~~~~~~Ei~~iL~~~~~~N~~~~~~~a~~~~L~aW~qLv~V~~s~~~ 1075 (1711)
|.-..|+..+|+..-+..+ +.+..-=..+++....|..+..|...|+ |++..+.+..
T Consensus 5 ~~iy~dml~lY~~~S~~Is-------------------~~va~~G~~~~k~~~vr~lR~vKkeiLk----Liet~i~~~~ 61 (321)
T 1w9c_A 5 GRIYLDMLNVYKCLSENIS-------------------AAIQANGEMVTKQPLIRSMRTVKRETLK----LISGWVSRSN 61 (321)
T ss_dssp GGGHHHHHHHHHHHHHHHH-------------------HHHHHHCSGGGGSHHHHHHHHHHHHHHH----HHHHHHTTCS
T ss_pred HHHHHHHHHHHHHHHHHHH-------------------HHHHHCCCHHHCCHHHHHHHHHHHHHHH----HHHHHHHCCC
T ss_conf 9999999999999999999-------------------9998279524336999998999999999----9999997079
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCCHHHHH
Q ss_conf 33045799999999997310289752648899999999999998101002389999998743013464200365103899
Q 000295 1076 SALGNRSEILYQILDACLGASASPDCSLRMAFILCQVALTCMAKLRDEKFLCPGGLNSDSVTFLDVIMVKQLSNGACHSL 1155 (1711)
Q Consensus 1076 ~~~~~r~~~Ild~L~~il~ki~~~~~~~~~a~~Ls~l~ltLl~~Lr~~~~~~~~~~~~~~~~~~d~~~~~~L~~~~~~~i 1155 (1711)
..-....+++=++++.++.+-.+...+.+.++.|+-.+. ++.|+.+. -....+.|.+.
T Consensus 62 d~~~v~~~~ippLl~~VL~DY~~~vp~aRepeVL~l~~t-ii~kl~~~-----------i~~~vp~Il~~---------- 119 (321)
T 1w9c_A 62 DPQMVAENFVPPLLDAVLIDYQRNVPAAREPEVLSTMAI-IVNKLGGH-----------ITAEIPQIFDA---------- 119 (321)
T ss_dssp CHHHHHHHTHHHHHHHHHHHHHTSCGGGCCTHHHHHHHH-HHHHHGGG-----------GGGGHHHHHHH----------
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH-HHHHHHHH-----------HHHHHHHHHHH----------
T ss_conf 999999987788899999988708811025999999999-99999887-----------14467999999----------
Q ss_pred HHHH-HHHHHCCC-CCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999-99985288-878999999999999999871026999842467764201245762124442368898579889999
Q 000295 1156 LFKL-IMAILRNE-SSEALRRRQYALLLSYFQYCQHMLAPDVPTTVLQYLLLDEQDGEDLDLQKIDKEQAELTHANFSTL 1233 (1711)
Q Consensus 1156 L~~l-l~~Il~~~-ss~~lR~~lY~~ll~yLq~~~~~~~~~~~~~~~~~ll~~~~~~~d~~~~~~~~~~~~l~~~~~~iI 1233 (1711)
+|.- ++-|.+-- .-+..|.++|..+-+..++|.... +
T Consensus 120 VFe~TL~MI~~df~eyPehR~~Ff~LL~ai~~~cF~al-----------------------------------------~ 158 (321)
T 1w9c_A 120 VFECTLNMINKDFEEYPEHRTNFFLLLQAVNSHCFPAF-----------------------------------------L 158 (321)
T ss_dssp HHHHHHHHHSSTTTCSHHHHHHHHHHHHHHHHHCTTHH-----------------------------------------H
T ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHH-----------------------------------------H
T ss_conf 99989998835611193989999999999999859999-----------------------------------------7
Q ss_pred HHHHHH---HHHHHHHCCCCCCCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf 862447---889884014689960599999999-9987126832599999721939999999535442102368431457
Q 000295 1234 RKEAQA---ILDLFIKDATQGSEPGKTLSLYVL-DALICIDHEKYFLNQLQSRGFLRSCLMNVSNVSYQDGKRSLDTLQR 1309 (1711)
Q Consensus 1234 ~~~ge~---LidvIc~DA~~G~~~~r~~Al~lL-d~Lv~ld~~~~il~~L~~~g~L~~li~sl~~~~L~~~~~~~~~l~~ 1309 (1711)
+...+. ++|.|+.-.-+-+..--.++|-+| +.|-.+.........+-+.-|+..+.+-+.-.. ++.....
T Consensus 159 ~lp~~~fklvidsiiWa~kH~~r~V~e~gL~il~~ll~n~~~~~~~~~~Fy~~fy~~il~~if~VlT------Ds~Hk~g 232 (321)
T 1w9c_A 159 AIPPTQFKLVLDSIIWAFKHTMRNVADTGLQILFTLLQNVAQEEAAAQSFYQTYFCDILQHIFSVVT------DTSHTAG 232 (321)
T ss_dssp HSCHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHH------SSSCCTT
T ss_pred CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHH------CCHHHCC
T ss_conf 5999999999999999807998368899999999999988647188999999999999999999984------7235314
Q ss_pred HHHHHHHHHHHHHHHH
Q ss_conf 8899999999998761
Q 000295 1310 ACTLEAELALLLRISH 1325 (1711)
Q Consensus 1310 L~~yea~laLLlRiAq 1325 (1711)
+...-..++-|.+++.
T Consensus 233 F~~q~~iL~~lf~~ve 248 (321)
T 1w9c_A 233 LTMHASILAYMFNLVE 248 (321)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
T ss_conf 8999999999999987
No 9
>3oae_A Late major capsid protein L1; jelly roll, receptor HSPG, virus capsid, VIR protein; HET: JHM IDS; 2.80A {Human papillomavirus} PDB: 2r5h_A 2r5j_A 2r5k_A
Probab=1.00 E-value=1 Score=7.96 Aligned_cols=39 Identities=15% Similarity=0.252 Sum_probs=0.0
Q ss_pred HHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHH--------CCCCCCCCCC
Q ss_conf 9999952299985888999941201059985411--------0788999999
Q 000295 819 QLLYELCLDPLTCGPTMDLLSNKKYQFFVKHLDA--------IGVAPLPKRN 862 (1711)
Q Consensus 819 ~lL~~Lc~~p~TS~~vL~~LRs~~~dff~~~L~~--------~~i~~lp~~~ 862 (1711)
++|.+||+=++ .+-||.||-+-+ ...|.. +|...+.||+
T Consensus 356 ~fIfQLCkV~L-t~evla~ih~Mn----p~ILE~Wnlg~ek~DPy~~~~FW~ 402 (428)
T 3oae_A 356 QFIFQLCKITL-TADVMTYIHSMN----STILEDWNGGSGGEDPLKKYTFWE 402 (428)
T ss_dssp EEEEEEEEEEC-CHHHHHHHHHHH----THHHHHCC-----CCTTTTSCCEE
T ss_pred EEEEEEEEEEC-CHHHHHHHHHCC----CHHHHHCCCCCCCCCCCCCCEEEE
T ss_conf 99989975157-999999987249----325531336887788555655415
No 10
>1v9v_A KIAA0561 protein; helix bundle, MAST205, microtubule-associated serine/threonine protein kinase, structural genomics; NMR {Homo sapiens} SCOP: a.29.10.1
Probab=1.00 E-value=1 Score=7.94 Aligned_cols=40 Identities=15% Similarity=0.236 Sum_probs=0.0
Q ss_pred HHCCCHHHHHHHHHHC-----CCCCCCCHHHHHHHHH--HHHHHHHH
Q ss_conf 8547179999999720-----2777773467999999--99999999
Q 000295 182 FSNNVFQFLLDKALRT-----AAYQNDDEDMVYMNNA--YLHKLITC 221 (1711)
Q Consensus 182 l~~~vF~Fl~~~ll~~-----~~~~~e~~~~~~f~~~--~lh~li~~ 221 (1711)
+.+||..|++.++++- .--+..-.+.+|||-. .++.++.+
T Consensus 33 laDgvl~FiHHQiiElARDCL~KSr~~LITsrYF~El~E~LEkLl~e 79 (114)
T 1v9v_A 33 LADGVLGFIHHQIVELARDCLAKSGENLVTSRYFLEMQEKLERLLQD 79 (114)
T ss_dssp CSCHHHHHHHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 12999988999999999999999871543899999999999999998
Done!