Query 000368
Match_columns 1611
No_of_seqs 60 out of 62
Neff 3.2
Searched_HMMs 29240
Date Tue Mar 26 18:03:16 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000368.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_145-149//hhsearch_pdb/000368hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3r2d_A Protein NUSB, N utiliza 1.0 1 1 18.8 -1.2 104 1181-1314 10-114 (149)
2 3oc3_A Helicase MOT1, MOT1; re 1.0 1 1 15.7 2.8 29 516-544 54-82 (800)
3 1tzv_A NUSB protein, N utiliza 1.0 1 1 15.0 1.3 102 1181-1314 10-113 (142)
4 3h47_A Ca, capsid protein P24; 1.0 1 1 14.9 -2.4 11 409-419 42-52 (231)
5 1x4p_A Putative splicing facto 1.0 1 1 14.6 -1.1 19 520-538 6-24 (66)
6 3gv2_A Ca, fusion protein cons 1.0 1 1 14.3 -1.9 41 381-421 12-54 (342)
7 2kpa_A ARNO(375-400); hydrolas 1.0 1 1 14.2 0.6 12 324-335 2-13 (26)
8 2a7w_A PRA-PH, phosphoribosyl- 1.0 1 1 14.2 -2.8 16 1541-1556 64-80 (116)
9 2pyq_A Uncharacterized protein 1.0 1 1 14.1 3.8 44 281-335 61-106 (114)
10 1yvw_A PRA-PH, phosphoribosyl- 1.0 1 1 14.1 -2.8 14 1541-1554 63-77 (115)
No 1
>3r2d_A Protein NUSB, N utilization substance protein B; cross species NUSB-NUSE-RNA interaction; 2.20A {Aquifex aeolicus} PDB: 2jr0_A 3r2c_A* 4eya_A
Probab=1.00 E-value=1 Score=18.77 Aligned_cols=104 Identities=15% Similarity=0.140 Sum_probs=61.1
Q ss_pred HHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 79999983114689888930001003999988999568999999998600444446898888665566788999988778
Q 000368 1181 KLIVRILNVFDLSKIPFSESFPQHISSSNPVMCPPLDYFATLLLGLVNNVIPALNYNSKSGSTMDASLRAPHNKSPMTSQ 1260 (1611)
Q Consensus 1181 kLV~~ILg~Ld~~r~plSEsF~~y~~~~~~~~~P~~~Yy~~LI~RLvnnvlp~~~~~~~~~~~~dgs~~~~~~~~p~~s~ 1260 (1611)
.++..++-+.+.....+.+.+.++....+..-..+-.|+.+|+.+.+.+. ...|....
T Consensus 10 ~~A~q~L~~~~~~~~~~~~~l~~~~~~~~~~~~~dr~~~~~lv~gvl~~~-----------~~lD~~i~----------- 67 (149)
T 3r2d_A 10 DTAFLVLYRWDLRGENPGELFKEVVEEKNIKNKDAYEYAKKLVDTAVRHI-----------EEIDSIIE----------- 67 (149)
T ss_dssp HHHHHHHHHHHHHCCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHTH-----------HHHHHHHH-----------
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHH-----------HHHHHHHH-----------
T ss_conf 99999999998549999999999997532378899999999999999969-----------99999999-----------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCHHHHHHHCCEEECCCC-CCCHHHHHHHHHHHHHC
Q ss_conf 9999888889421237997303666530010010158-88978999888876440
Q 000368 1261 SGPSNVSEGRKEFYQNQDPGTYTQLVLETAVIEILSL-PVSASQIVSSLVQIVVN 1314 (1611)
Q Consensus 1261 ~~p~~~s~~DwrF~EfpnPga~al~vL~tacIELLsL-Pvsp~~Vv~aLIdvvv~ 1314 (1611)
.+. .+|.+..++ |...+++. .++-|++-+ .+|+..++|--|+++-+
T Consensus 68 ----~~l-~~w~~~rl~-~~~r~iLr--la~yEl~~~~~iP~~vaInEaVelaK~ 114 (149)
T 3r2d_A 68 ----KHL-KGWSIDRLG-YVERNALR--LGVAELIFLKSKEPGRVFIDIVDLVKK 114 (149)
T ss_dssp ----TTC----CGGGSC-HHHHHHHH--HHHHHHTTSCCSCHHHHHHHHHHHHHH
T ss_pred ----HHH-CCCCCCCCC-HHHHHHHH--HHHHHHHHCCCCCCEEHHHHHHHHHHH
T ss_conf ----983-279933158-99999999--999999986899972129999999987
No 2
>3oc3_A Helicase MOT1, MOT1; regulation of transcription, hydrolase-transc complex; HET: MES; 3.10A {Encephalitozoon cuniculi}
Probab=1.00 E-value=1 Score=15.71 Aligned_cols=29 Identities=28% Similarity=0.322 Sum_probs=19.1
Q ss_pred CCCCCHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf 02666799899999752059854333204
Q 000368 516 SGCIDFVDFVDKLVSRLQDGDNHILRTNH 544 (1611)
Q Consensus 516 ~~~~df~~fi~kL~~r~~~gd~~~~~~nh 544 (1611)
+.+.||--||.|-+-|+--|.+.+-|.|-
T Consensus 54 ~ey~df~~~i~~~~y~ll~~~~~~~r~~g 82 (800)
T 3oc3_A 54 KEYVDFTPYILKQTYRLLCGQASEDRRNG 82 (800)
T ss_dssp HHHCCCCSSCCHHHHHHHTCSCHHHHHHH
T ss_pred HHHHCCHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf 88735024999999999818763002326
No 3
>1tzv_A NUSB protein, N utilization substance protein B homolog; RNA-protein interaction, transcriptional antitermination, transcription regulation; 1.35A {Thermotoga maritima} SCOP: a.79.1.1 PDB: 1tzu_A 1tzt_A 1tzw_A 1tzx_A*
Probab=1.00 E-value=1 Score=14.96 Aligned_cols=102 Identities=10% Similarity=0.091 Sum_probs=59.4
Q ss_pred HHHHHHHHHCCCCCC-CCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 799999831146898-8893000100399998899956899999999860044444689888866556678899998877
Q 000368 1181 KLIVRILNVFDLSKI-PFSESFPQHISSSNPVMCPPLDYFATLLLGLVNNVIPALNYNSKSGSTMDASLRAPHNKSPMTS 1259 (1611)
Q Consensus 1181 kLV~~ILg~Ld~~r~-plSEsF~~y~~~~~~~~~P~~~Yy~~LI~RLvnnvlp~~~~~~~~~~~~dgs~~~~~~~~p~~s 1259 (1611)
..+..++-+.+.... ...+....+.. ...-..|..|+..|+.+...+. ...|.-..
T Consensus 10 ~~A~~~L~~~~~~~~~~~~~~l~~~~~--~~l~~~d~~~~~~Lv~gvl~~~-----------~~lD~~I~---------- 66 (142)
T 1tzv_A 10 LAVFKALFQHEFRRDEDLEQILEEILD--ETYDKKAKEDARRYIRGIKENL-----------SMIDDLIS---------- 66 (142)
T ss_dssp HHHHHHHHHHTTCTTSCHHHHHHHHCC--TTSCHHHHHHHHHHHHHHHHTH-----------HHHHHHHH----------
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHHHH-----------HHHHHHHH----------
T ss_conf 999999999985599989999999988--5578889999999999999979-----------99999999----------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCEEECCCCC-CCHHHHHHHHHHHHHC
Q ss_conf 899998888894212379973036665300100101588-8978999888876440
Q 000368 1260 QSGPSNVSEGRKEFYQNQDPGTYTQLVLETAVIEILSLP-VSASQIVSSLVQIVVN 1314 (1611)
Q Consensus 1260 ~~~p~~~s~~DwrF~EfpnPga~al~vL~tacIELLsLP-vsp~~Vv~aLIdvvv~ 1314 (1611)
.+. ..|.+...+ |.-.+++. .++-|++-++ +|+..++|--|+++-+
T Consensus 67 -----~~l-~~w~l~rl~-~~~r~iLr--la~yEl~~~~~iP~~vaInEaVelaK~ 113 (142)
T 1tzv_A 67 -----RYL-EKWSLNRLS-VVDRNVLR--LATYELLFEKDIPIEVTIDEAIEIAKR 113 (142)
T ss_dssp -----TTC-SSSCGGGSC-HHHHHHHH--HHHHHHHHCTTSCHHHHHHHHHHHHHH
T ss_pred -----HHC-CCCCHHHCC-HHHHHHHH--HHHHHHHHCCCCCCHHHHHHHHHHHHH
T ss_conf -----872-799967778-99999999--999999866799940489999999999
No 4
>3h47_A Ca, capsid protein P24; hexamer, engineered disulfide bonds, viral protein; 1.90A {Human immunodeficiency virus type 1} PDB: 3h4e_A 2lf4_A 3mge_A 3p05_A 3p0a_A 3dik_A 3nte_A 1e6j_P
Probab=1.00 E-value=1 Score=14.93 Aligned_cols=11 Identities=27% Similarity=0.220 Sum_probs=3.6
Q ss_pred CCCCCCCHHHH
Q ss_conf 44887650233
Q 000368 409 VLGEPLHGEDL 419 (1611)
Q Consensus 409 ~~ge~l~ge~~ 419 (1611)
+|-|-+.-+|+
T Consensus 42 alse~~tp~D~ 52 (231)
T 3h47_A 42 ALSCGATPQDL 52 (231)
T ss_dssp HHTTTCCHHHH
T ss_pred HHHCCCCHHHH
T ss_conf 86079987999
No 5
>1x4p_A Putative splicing factor, arginine/serine-rich 14; SURP domain, SFRS14 protein, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.217.1.1
Probab=1.00 E-value=1 Score=14.63 Aligned_cols=19 Identities=32% Similarity=0.433 Sum_probs=10.8
Q ss_pred CHHHHHHHHHHHHCCCCCC
Q ss_conf 6799899999752059854
Q 000368 520 DFVDFVDKLVSRLQDGDNH 538 (1611)
Q Consensus 520 df~~fi~kL~~r~~~gd~~ 538 (1611)
+-+++||||+.+.++|.+.
T Consensus 6 ~~~~~ieKLa~fVaeGgpe 24 (66)
T 1x4p_A 6 SGVGTIDQLVKRVIEGSLS 24 (66)
T ss_dssp CSSHHHHHHHHHHHHTCSC
T ss_pred HHHHHHHHHHHHHHCCCCC
T ss_conf 6999999999999846974
No 6
>3gv2_A Ca, fusion protein consisting of capsid protein P24, carbon dioxide-concentrating mechanism...; hexameric retroviral capsid; 7.00A {Human immunodeficiency virus type 1}
Probab=1.00 E-value=1 Score=14.31 Aligned_cols=41 Identities=32% Similarity=0.325 Sum_probs=13.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCHHHHHH
Q ss_conf 2222456765302001244335654--7744488765023331
Q 000368 381 HRILSQTTPNISVEAAGNLRYSPIT--YPSVLGEPLHGEDLAT 421 (1611)
Q Consensus 381 ~~~~~~~~~~~~~~~~~~lr~s~~t--y~~~~ge~l~ge~~a~ 421 (1611)
|+-+|+.+-|.=++.|..--+||-+ +-++|-|.+.-+|+.+
T Consensus 12 h~plsPrtl~awvk~veek~f~pevip~f~alse~~tp~Din~ 54 (342)
T 3gv2_A 12 HQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNT 54 (342)
T ss_dssp ECCCCHHHHHHHHHHHHHHCSCTTHHHHHHHHTTTCCHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCHHHHHH
T ss_conf 6789930599999999852799103368997148998699999
No 7
>2kpa_A ARNO(375-400); hydrolase; NMR {Synthetic} PDB: 2kpb_A
Probab=1.00 E-value=1 Score=14.23 Aligned_cols=12 Identities=42% Similarity=0.750 Sum_probs=8.1
Q ss_pred CCCCHHHHHHCC
Q ss_conf 654169986202
Q 000368 324 CRVPFYELLRTG 335 (1611)
Q Consensus 324 ~rvpfy~l~~~~ 335 (1611)
.+.|||++|...
T Consensus 2 s~dPFYdml~~R 13 (26)
T 2kpa_A 2 SVDPFYEMLAAR 13 (26)
T ss_dssp CSHHHHHHHTCT
T ss_pred CCCHHHHHHHHH
T ss_conf 856089999999
No 8
>2a7w_A PRA-PH, phosphoribosyl-ATP pyrophosphatase; structural genomics, PSI, protein structure initiative; 2.80A {Chromobacterium violaceum} SCOP: a.204.1.4
Probab=1.00 E-value=1 Score=14.17 Aligned_cols=16 Identities=25% Similarity=0.287 Sum_probs=7.0
Q ss_pred HHHHHCEE-EEEECCCC
Q ss_conf 55130104-67720587
Q 000368 1541 LIDFLHHV-VHYEGQGG 1556 (1611)
Q Consensus 1541 ICDFLyHI-YMFVG~g~ 1556 (1611)
++|++||+ ++.+-+|.
T Consensus 64 ~ADLlYHllVlL~~~gv 80 (116)
T 2a7w_A 64 VADLWFHTMVLLTYHGL 80 (116)
T ss_dssp HHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHHHHHHCCC
T ss_conf 99999999999998699
No 9
>2pyq_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: MSE; 1.50A {Jannaschia SP} SCOP: a.279.1.1
Probab=1.00 E-value=1 Score=14.13 Aligned_cols=44 Identities=20% Similarity=0.333 Sum_probs=26.1
Q ss_pred HHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH--HCCCCCCCCHHHHHHCC
Q ss_conf 71001124877567864410157999999889998887--53997654169986202
Q 000368 281 VTWDQKQQGIDESDGKSWRLDKALIEWLHSCLDVIWLL--VDEDRCRVPFYELLRTG 335 (1611)
Q Consensus 281 ~~wd~~~~g~~~~~~~~~~~~~~~~~w~~~c~~vi~~l--v~e~~~rvpfy~l~~~~ 335 (1611)
.||=++..|.+|++ .++.+ +. .|+=.. -+-+|+|+.||-||--.
T Consensus 61 ~nfl~KKLGl~d~~----~ld~a----I~---~V~e~mgks~rnK~R~~~YYllak~ 106 (114)
T 2pyq_A 61 KNFLMKKLGLADSE----SLMGG----IQ---SVIETYGRSERNKYRAVVYYMLTKH 106 (114)
T ss_dssp HHTTTTTSCCCSSH----HHHHH----HH---HHHHHHCTTCSCCBHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCCH----HHHHH----HH---HHHHHHHCCCCCCCEEHHHHHHHHH
T ss_conf 82899970899857----69999----99---9999983256776301038899998
No 10
>1yvw_A PRA-PH, phosphoribosyl-ATP pyrophosphatase; helix bundle, histidine biosynthesis, structural genomics, PSI, protein structure initiative; 2.60A {Bacillus cereus} SCOP: a.204.1.4
Probab=1.00 E-value=1 Score=14.07 Aligned_cols=14 Identities=21% Similarity=0.446 Sum_probs=5.6
Q ss_pred HHHHHCEE-EEEECC
Q ss_conf 55130104-677205
Q 000368 1541 LIDFLHHV-VHYEGQ 1554 (1611)
Q Consensus 1541 ICDFLyHI-YMFVG~ 1554 (1611)
++|++||+ ++.+-+
T Consensus 63 ~ADLlYHllVlL~~~ 77 (115)
T 1yvw_A 63 MVDVFYHCFVLLAEK 77 (115)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHC
T ss_conf 999999999999986
Done!