Query 000403
Match_columns 1563
No_of_seqs 60 out of 62
Neff 3.2
Searched_HMMs 29240
Date Tue Mar 26 16:00:27 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000403.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_183-186//hhsearch_pdb/000403hhsearch_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 1133-1266 10-114 (149)
2 3oc3_A Helicase MOT1, MOT1; re 1.0 1 1 15.8 3.0 29 468-496 54-82 (800)
3 1tzv_A NUSB protein, N utiliza 1.0 1 1 15.0 1.3 102 1133-1266 10-113 (142)
4 1x4p_A Putative splicing facto 1.0 1 1 14.7 -1.1 19 472-490 6-24 (66)
5 2kpa_A ARNO(375-400); hydrolas 1.0 1 1 14.3 0.6 12 276-287 2-13 (26)
6 2a7w_A PRA-PH, phosphoribosyl- 1.0 1 1 14.3 -2.8 16 1493-1508 64-80 (116)
7 1yvw_A PRA-PH, phosphoribosyl- 1.0 1 1 14.2 -2.8 14 1493-1506 63-77 (115)
8 2lnd_A De novo designed protei 1.0 1 1 13.8 2.6 24 1021-1044 87-110 (112)
9 3dnx_A Uncharacterized protein 1.0 1 1 13.5 -3.0 13 646-658 111-123 (153)
10 1yxb_A PRA-PH, phosphoribosyl- 1.0 1 1 13.3 -0.7 26 1493-1532 65-91 (98)
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=18.82 Aligned_cols=104 Identities=15% Similarity=0.140 Sum_probs=61.3
Q ss_pred HHHHHHHHHCCCCCCCCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 79999983114689888930001003999988999578999999998600444446898888665566788999998778
Q 000403 1133 KLIVRILNVFDLSKIPFSESFPQHISSSNPVMCPPLDYFATLLLGLVNNVIPALNYNSKSGSTMDASLRAPHNKSPMTSQ 1212 (1563)
Q Consensus 1133 kLV~~Ilg~Ld~~r~plSEsF~~y~~~~~~~~~P~~~Yy~~LI~RLvnnvlp~~~~~~~~~~~~~~s~~~~~~~~p~~s~ 1212 (1563)
.++..++-+.+.....+.+.+.++....+..-..+-.|+.+|+.+.+.+. ...|....
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 000403 1213 SGPSNVSEGRKEFYQNQDPGTYTQLVLETAVIEILSL-PVSASQIVSSLVQIVVN 1266 (1563)
Q Consensus 1213 ~~p~~~s~~DwrF~EfpnPga~al~vL~tacIELLsL-Pvsp~~Vv~aLIdvvv~ 1266 (1563)
.+. .+|.+..++ |...+++. .++-|++-+ .+|+..++|--|+++-+
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=15.77 Aligned_cols=29 Identities=28% Similarity=0.322 Sum_probs=19.0
Q ss_pred CCCCCHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf 02666799899999752059854333204
Q 000403 468 SGCIDFVDFVDKLVSRLQDGDNHILRTNH 496 (1563)
Q Consensus 468 ~~~~df~~~i~kL~~r~~~gd~~~~~~nh 496 (1563)
+.+.||--||.|-+-|+--|.+.+-|.|-
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=15.00 Aligned_cols=102 Identities=10% Similarity=0.091 Sum_probs=59.5
Q ss_pred HHHHHHHHHCCCCCC-CCCCCHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 799999831146898-8893000100399998899957899999999860044444689888866556678899999877
Q 000403 1133 KLIVRILNVFDLSKI-PFSESFPQHISSSNPVMCPPLDYFATLLLGLVNNVIPALNYNSKSGSTMDASLRAPHNKSPMTS 1211 (1563)
Q Consensus 1133 kLV~~Ilg~Ld~~r~-plSEsF~~y~~~~~~~~~P~~~Yy~~LI~RLvnnvlp~~~~~~~~~~~~~~s~~~~~~~~p~~s 1211 (1563)
..+..++-+.+.... ...+....+.. ...-..|-.|+..|+.+...+. ...|.-..
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 000403 1212 QSGPSNVSEGRKEFYQNQDPGTYTQLVLETAVIEILSLP-VSASQIVSSLVQIVVN 1266 (1563)
Q Consensus 1212 ~~~p~~~s~~DwrF~EfpnPga~al~vL~tacIELLsLP-vsp~~Vv~aLIdvvv~ 1266 (1563)
.+. ..|.+...+ |.-.+++. .++-|++-++ +|+..++|--|+++-+
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
>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=14.75 Aligned_cols=19 Identities=32% Similarity=0.433 Sum_probs=11.0
Q ss_pred CHHHHHHHHHHHHCCCCCC
Q ss_conf 6799899999752059854
Q 000403 472 DFVDFVDKLVSRLQDGDNH 490 (1563)
Q Consensus 472 df~~~i~kL~~r~~~gd~~ 490 (1563)
+-+++||||+.+.++|.+.
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 5
>2kpa_A ARNO(375-400); hydrolase; NMR {Synthetic} PDB: 2kpb_A
Probab=1.00 E-value=1 Score=14.28 Aligned_cols=12 Identities=42% Similarity=0.750 Sum_probs=8.1
Q ss_pred CCCCHHHHHHCC
Q ss_conf 655169986202
Q 000403 276 CRVPFYELLRTG 287 (1563)
Q Consensus 276 ~rvpfy~l~~~~ 287 (1563)
.+.|||++|...
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 6
>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=14.26 Aligned_cols=16 Identities=25% Similarity=0.287 Sum_probs=7.0
Q ss_pred HHHHHCEE-EEEECCCC
Q ss_conf 55130104-67720587
Q 000403 1493 LIDFLHHV-VHYEGQGG 1508 (1563)
Q Consensus 1493 ICDFLyHI-YMFvG~g~ 1508 (1563)
++|++||+ ++.+-+|.
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 7
>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=14.16 Aligned_cols=14 Identities=21% Similarity=0.446 Sum_probs=5.6
Q ss_pred HHHHHCEE-EEEECC
Q ss_conf 55130104-677205
Q 000403 1493 LIDFLHHV-VHYEGQ 1506 (1563)
Q Consensus 1493 ICDFLyHI-YMFvG~ 1506 (1563)
++|++||+ ++.+-+
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
No 8
>2lnd_A De novo designed protein, PFK fold; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=1.00 E-value=1 Score=13.84 Aligned_cols=24 Identities=38% Similarity=0.491 Sum_probs=19.7
Q ss_pred CCHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 928999999999972799995432
Q 000403 1021 DRQELQQRVKLYCMNRGPPEHWLY 1044 (1563)
Q Consensus 1021 ~~~EFqqRV~~Fv~~~~spEHW~~ 1044 (1563)
++.|+-|||++|++.-++-||-.+
T Consensus 87 dpeeltqrvreflktagslehhhh 110 (112)
T 2lnd_A 87 DPEELTQRVREFLKTAGSLEHHHH 110 (112)
T ss_dssp CHHHHHHHHHHHHHHTTSCCCCCC
T ss_pred CHHHHHHHHHHHHHHCCCCHHCCC
T ss_conf 989999999999984444101024
No 9
>3dnx_A Uncharacterized protein SPO1766; structural genomics, APC88088, protein of unknown function, protein structure initiative; HET: MSE; 1.94A {Silicibacter pomeroyi}
Probab=1.00 E-value=1 Score=13.50 Aligned_cols=13 Identities=15% Similarity=0.176 Sum_probs=5.6
Q ss_pred CCCCCCCCCCCHH
Q ss_conf 0013456655311
Q 000403 646 LMVMREVNPLPMS 658 (1563)
Q Consensus 646 i~a~~~~~PLpms 658 (1563)
+.-..+..||+-.
T Consensus 111 IlR~ape~~La~a 123 (153)
T 3dnx_A 111 IVRMAPEQKLAPA 123 (153)
T ss_dssp EEECCCCCCCCHH
T ss_pred EEECCCCCCCCCC
T ss_conf 9735987868731
No 10
>1yxb_A PRA-PH, phosphoribosyl-ATP pyrophosphatase; structural genomics, PSI, protein structure initiative; 2.60A {Streptomyces coelicolor} SCOP: a.204.1.4
Probab=1.00 E-value=1 Score=13.32 Aligned_cols=26 Identities=23% Similarity=0.240 Sum_probs=0.0
Q ss_pred HHHHHCEE-EEEECCCCCCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf 55130104-67720587777888895145544557664079
Q 000403 1493 LIDFLHHV-VHYEGQGGPVQASSKPRPEVLVLTGRAAESLR 1532 (1563)
Q Consensus 1493 ICDFLyHI-YMFvG~g~~~~d~~K~~vE~~~~~~~iI~~Lr 1532 (1563)
++|++||. ++.+-+|. .++ .|.+-|+
T Consensus 65 ~ADLlYHllVlL~~~gv--------~l~------dV~~eL~ 91 (98)
T 1yxb_A 65 ISQLLYHVQVMMVARGI--------SLD------DVYAHLL 91 (98)
T ss_dssp HHHHHHHHHHHHHHTTC--------CHH------HHHHHCC
T ss_pred HHHHHHHHHHHHHHCCC--------CHH------HHHHHHH
T ss_conf 99999999999998699--------999------9999999
Done!