Query T0549 CvR118A, , 84 residues
Match_columns 84
No_of_seqs 101 out of 205
Neff 5.7
Searched_HMMs 22458
Date Fri May 21 18:03:31 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/hhm/T0549.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pdb70_15May10_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pdb70search/hhm/T0549.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2kpm_A Uncharacterized protein 99.9 1.6E-25 7.2E-30 165.5 9.0 82 2-83 15-99 (105)
2 1uj8_A ORF3, hypothetical prot 83.1 0.82 3.7E-05 24.9 3.4 45 25-69 15-59 (77)
3 2rqp_A Heterochromatin protein 62.6 4.6 0.00021 20.7 3.0 56 8-64 11-69 (88)
4 1uhm_A Histone H1, histone HHO 62.3 9.2 0.00041 19.0 4.5 53 9-62 7-63 (78)
5 2i2x_A MTAB, methyltransferase 52.4 9.2 0.00041 19.0 3.1 41 9-50 421-461 (461)
6 1ust_A Histone H1; DNA binding 47.9 8.8 0.00039 19.1 2.4 53 9-63 10-66 (93)
7 1a4p_A S100A10; S100 family, E 40.9 11 0.00051 18.4 2.1 52 10-61 8-59 (96)
8 2fxt_A Import inner membrane t 38.6 18 0.00079 17.3 2.8 48 5-52 13-62 (192)
9 1uss_A Histone H1; DNA binding 29.4 33 0.0015 15.8 3.7 33 9-42 10-42 (88)
10 1wfx_A Probable RNA 2'-phospho 24.6 38 0.0017 15.5 2.6 59 4-66 4-67 (186)
11 1psr_A Psoriasin, S100A7; EF-h 23.7 32 0.0014 15.9 2.0 36 8-43 7-42 (100)
12 1k2h_A S100A1, S-100 protein, 21.8 34 0.0015 15.8 1.8 53 9-61 7-62 (93)
13 2cw9_A Translocase of inner mi 21.4 45 0.002 15.0 2.4 56 5-60 10-73 (194)
No 1
>2kpm_A Uncharacterized protein; methods development, structural genomics, PSI-2, protein structure initiative; NMR {Nitrosomonas europaea}
Probab=99.92 E-value=1.6e-25 Score=165.50 Aligned_cols=82 Identities=29% Similarity=0.560 Sum_probs=71.4
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHC-CCEEEEEECCCCCCEEE--E
Q ss_conf 88531578999999998730578806388899898741799983305722388999865-86136640289972478--8
Q T0549 2 PHKEKHPLQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSFDPRNWGHGRLSQMVKKL-DFLTVQESRNGSKLHSE--I 78 (84)
Q Consensus 2 p~~~~~~l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdFdpR~YG~~kls~li~a~-~~fei~~~~~~~~~~~~--i 78 (84)
|...+..++++|++|+++++|||||++||.||++|.+++||||||||||+||++||+++ ++||++++..++..+.. |
T Consensus 15 p~~~~~~~~~ll~~av~~~~dedGW~~lg~vg~~l~k~~PdFDpR~YG~~kls~Li~a~~~lfei~~~~~~~~~~~~iyv 94 (105)
T 2kpm_A 15 PETKQAFPRKFVLAALEQSSDDAGWANLGNFGNYLNKLQPDFDSRLYGYKKLSDLVKARTDLFVTEERQVPGSTQKALYL 94 (105)
T ss_dssp CCCCCCCCHHHHHHHHHHTBCTTSCEEHHHHHHHHHHHCTTCCGGGTTCSSHHHHHHHCTTTEEEEEEECTTCSSEEEEE
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCEEHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCEEEEEECCCCCCCEEEEE
T ss_conf 85430569999999999861776717599999999871899996336765699999845576899741279996258999
Q ss_pred EEECC
Q ss_conf 75237
Q T0549 79 RLRHD 83 (84)
Q Consensus 79 r~r~k 83 (84)
|+|.+
T Consensus 95 R~K~~ 99 (105)
T 2kpm_A 95 RAKLE 99 (105)
T ss_dssp EECCC
T ss_pred EEHHH
T ss_conf 86001
No 2
>1uj8_A ORF3, hypothetical protein YFHJ; iron-sulfur cluster, ISC, structural genomics, unknown function; 1.75A {Escherichia coli} SCOP: a.159.5.1 PDB: 2bzt_A
Probab=83.08 E-value=0.82 Score=24.94 Aligned_cols=45 Identities=18% Similarity=0.356 Sum_probs=40.3
Q ss_pred CEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCEEEEEEC
Q ss_conf 806388899898741799983305722388999865861366402
Q T0549 25 GWAELSAVGSYLAKNDPSFDPRNWGHGRLSQMVKKLDFLTVQESR 69 (84)
Q Consensus 25 GW~~l~~vG~~l~k~~PdFdpR~YG~~kls~li~a~~~fei~~~~ 69 (84)
-|...-.+.-.|.-++|+.||.+--|--|...|-+++-|+=+-..
T Consensus 15 kW~D~~dIAi~L~e~~PdvDP~~vrFtDL~~wV~~L~~FdDdp~~ 59 (77)
T 1uj8_A 15 KWTDSREIGEALYDAYPDLDPKTVRFTDMHQWICDLEDFDDDPQA 59 (77)
T ss_dssp CTTCHHHHHHHHHHHSTTSCGGGCCHHHHHHHHHTSTTBCSCGGG
T ss_pred CCCCHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHCCCCCCCCCCC
T ss_conf 646799999999987889897884159999999638787899664
No 3
>2rqp_A Heterochromatin protein 1-binding protein 3; histone H1, alternative splicing, chromosomal protein, DNA-binding, nucleus, phosphoprotein; NMR {Homo sapiens}
Probab=62.60 E-value=4.6 Score=20.68 Aligned_cols=56 Identities=23% Similarity=0.356 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCCCCCCCCC---HHHHHHHHHCCCEE
Q ss_conf 7899999999873057880638889989874179998330572---23889998658613
Q T0549 8 PLQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSFDPRNWGH---GRLSQMVKKLDFLT 64 (84)
Q Consensus 8 ~l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdFdpR~YG~---~kls~li~a~~~fe 64 (84)
....+|..||.++.+..| ++..++-.||..+||..|+.+.-+ ..|..+|+.=.+-.
T Consensus 11 ~y~~MI~eAI~al~er~G-sS~~AI~kyI~~~y~~~~~~~~~~~l~~aLk~~v~~G~l~q 69 (88)
T 2rqp_A 11 KMDAILTEAIKACFQKSG-ASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQ 69 (88)
T ss_dssp CHHHHHHHHHHHHHHHTC-CCHHHHHHHHHHHCSTHHHHTTTTTHHHHHHHHHHHHTTCC
T ss_pred CHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCEEE
T ss_conf 989999999998499999-69999999999886867888999999999999987596786
No 4
>1uhm_A Histone H1, histone HHO1P; winged helix-turn-helix, linker histone, riken structural genomics/proteomics initiative, RSGI; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13
Probab=62.29 E-value=9.2 Score=18.96 Aligned_cols=53 Identities=17% Similarity=0.334 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCC-CCCCCCCC---HHHHHHHHHCCC
Q ss_conf 8999999998730578806388899898741799-98330572---238899986586
Q T0549 9 LQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPS-FDPRNWGH---GRLSQMVKKLDF 62 (84)
Q Consensus 9 l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~Pd-FdpR~YG~---~kls~li~a~~~ 62 (84)
...+|..||.++.+..| ++..++-.||..++|. .|+.+.-. ..|..+|++=.+
T Consensus 7 Y~~MI~eAI~al~er~G-sS~~AI~KYI~~~y~~~~~~~~~~~~L~~aLk~~v~~G~l 63 (78)
T 1uhm_A 7 YRELIIEGLTALKERKG-SSRPALKKFIKENYPIVGSASNFDLYFNNAIKKGVEAGDF 63 (78)
T ss_dssp HHHHHHHHHHHHCCSSC-EEHHHHHHHHHTTSCTTTSSSTHHHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCE
T ss_conf 99999999997489899-7899999999988767777778999999999999877977
No 5
>2i2x_A MTAB, methyltransferase 1; TIM barrel and helix bundle (MTAB), rossman fold and helix bundle (MTAC); HET: B13; 2.50A {Methanosarcina barkeri}
Probab=52.37 E-value=9.2 Score=18.97 Aligned_cols=41 Identities=20% Similarity=0.237 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 899999999873057880638889989874179998330572
Q T0549 9 LQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSFDPRNWGH 50 (84)
Q Consensus 9 l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdFdpR~YG~ 50 (84)
-+.-+.+++++..||.+ -.++..-+-+.+.--.|+|.||||
T Consensus 421 ~L~~~~~~~e~L~Dd~d-~F~~~~~~ky~~~v~~f~P~~Yg~ 461 (461)
T 2i2x_A 421 ALADAKAALEALPDDMD-KFMDDCLTKYKSEVKVFKPENYGF 461 (461)
T ss_dssp HHHHHHHHHHTSCSCHH-HHHHHHHHHHHHHCTTCCGGGGTC
T ss_pred HHHHHHHHHHHCCCCHH-HHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 89999999874786488-999999999988987418120389
No 6
>1ust_A Histone H1; DNA binding protein, linker histone, DNA binding domain, winged helix fold; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13
Probab=47.88 E-value=8.8 Score=19.09 Aligned_cols=53 Identities=13% Similarity=0.273 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCC-CCCCCCCC---HHHHHHHHHCCCE
Q ss_conf 8999999998730578806388899898741799-98330572---2388999865861
Q T0549 9 LQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPS-FDPRNWGH---GRLSQMVKKLDFL 63 (84)
Q Consensus 9 l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~Pd-FdpR~YG~---~kls~li~a~~~f 63 (84)
-..+|..||.++.+..| +++.++-.||..+||- .|+.+.-+ ..|..+|++ +.|
T Consensus 10 y~~MI~eAI~~l~er~G-sS~~AI~KyI~~~y~~~~~~~~~~~~L~~aLk~~v~~-G~l 66 (93)
T 1ust_A 10 YRELIIEGLTALKERKG-SSRPALKKFIKENYPIVGSASNFDLYFNNAIKKGVEA-GDF 66 (93)
T ss_dssp HHHHHHHHHTTTTTTSC-EEHHHHHHHHHHHCHHHHTSTTHHHHHHHHHHHHHHT-TSE
T ss_pred HHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHC-CCE
T ss_conf 99999999997489899-7999999999988756677889999999999999876-977
No 7
>1a4p_A S100A10; S100 family, EF-hand protein, ligand of annexin II, calcium/phospholipid binding protein; 2.25A {Homo sapiens} SCOP: a.39.1.2 PDB: 1bt6_A
Probab=40.89 E-value=11 Score=18.45 Aligned_cols=52 Identities=17% Similarity=0.251 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf 9999999987305788063888998987417999833057223889998658
Q T0549 10 QDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSFDPRNWGHGRLSQMVKKLD 61 (84)
Q Consensus 10 ~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdFdpR~YG~~kls~li~a~~ 61 (84)
+..|..++...++++|-.+...+...|....|.|-...-.-..+..+++++|
T Consensus 8 ie~l~~~F~~yd~d~G~is~~El~~ll~~~~~~~~~~~~~~~~~~~~~~~lD 59 (96)
T 1a4p_A 8 METMMFTFHKFAGDKGYLTKEDLRVLMEKEFPGFLENQKDPLAVDKIMKDLD 59 (96)
T ss_dssp HHHHHHHHHHHHGGGCSBCHHHHHHHHHHHCHHHHHHSCCTTHHHHHHHHHC
T ss_pred HHHHHHHHHHHCCCCCEECHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHC
T ss_conf 9999999998859999685999999999863311467799999999999981
No 8
>2fxt_A Import inner membrane translocase subunit TIM44; mitochondrial translocase, protein transport; 3.20A {Saccharomyces cerevisiae} SCOP: d.17.4.13
Probab=38.57 E-value=18 Score=17.34 Aligned_cols=48 Identities=21% Similarity=0.180 Sum_probs=33.6
Q ss_pred CCHHHHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCCCCCCC--CCHH
Q ss_conf 31578999999998730578806388899898741799983305--7223
Q T0549 5 EKHPLQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSFDPRNW--GHGR 52 (84)
Q Consensus 5 ~~~~l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdFdpR~Y--G~~k 52 (84)
.+++++..++...+...+=-+-...+.+=..|++.+|+||...+ |.+.
T Consensus 13 sdnp~v~~~r~i~d~~~~~f~ete~~~~l~~ik~~Dp~Fd~~~Fl~~ak~ 62 (192)
T 2fxt_A 13 SENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLRE 62 (192)
T ss_dssp CSSHHHHHHHHHHTTTTCCBCCCCSHHHHHHHHHHCTTCCHHHHHHHHHH
T ss_pred CCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf 89821662000145446765766899999999977899998999999999
No 9
>1uss_A Histone H1; DNA binding protein, linker histone, DNA binding domain; NMR {Saccharomyces cerevisiae} SCOP: a.4.5.13 PDB: 1yqa_A
Probab=29.42 E-value=33 Score=15.85 Aligned_cols=33 Identities=12% Similarity=0.261 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCC
Q ss_conf 8999999998730578806388899898741799
Q T0549 9 LQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPS 42 (84)
Q Consensus 9 l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~Pd 42 (84)
-.++|..||.++.+..| +++-++-.||..+||-
T Consensus 10 y~~MI~eAI~~l~er~G-SS~~AI~KYI~~~y~~ 42 (88)
T 1uss_A 10 YKEMILKSMPQLNDGKG-SSRIVLKKYVKDTFSS 42 (88)
T ss_dssp HHHHHHHHHHHSCCTTS-BCHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHCCC
T ss_conf 99999999997388899-6899999999998777
No 10
>1wfx_A Probable RNA 2'-phosphotransferase; tRNA splicing, NAD, structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.80A {Aeropyrum pernix} SCOP: d.166.1.5
Probab=24.61 E-value=38 Score=15.47 Aligned_cols=59 Identities=14% Similarity=0.120 Sum_probs=37.2
Q ss_pred CCCHHHHHHHHHHHHH---HCCCCCEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHC--CCEEEE
Q ss_conf 5315789999999987---30578806388899898741799983305722388999865--861366
Q T0549 4 KEKHPLQDMFTSAIEA---VARDSGWAELSAVGSYLAKNDPSFDPRNWGHGRLSQMVKKL--DFLTVQ 66 (84)
Q Consensus 4 ~~~~~l~~ll~~Ai~~---~~dedGW~~l~~vG~~l~k~~PdFdpR~YG~~kls~li~a~--~~fei~ 66 (84)
+-.+.|--+||.+-+. .-|++||+.+.++=+.+... .|.- .--.-+..+|+.- ..||++
T Consensus 4 ~lSk~LS~lLRH~~~~~gL~~d~~G~v~v~~Ll~~~~~~--~~~~--~~~~~i~~vV~~d~K~Rfel~ 67 (186)
T 1wfx_A 4 RLSKTLAGILRHHPGRYGVRLTREGWARVSEVVEGLRKA--GWSW--VEEWHIVGVALHDPKGRYELR 67 (186)
T ss_dssp CHHHHHHHHHHTCTGGGTCCCCTTCCEEHHHHHHHHHHT--TCTT--CCHHHHHHHHHHCSSCCEEEE
T ss_pred HHHHHHHHHHCCCHHHCCCCCCCCCCEEHHHHHHHHHHC--CCCC--CCHHHHHHHHHCCCCCCCCCC
T ss_conf 599999999778975779971889869899999869872--8986--869999999853886453113
No 11
>1psr_A Psoriasin, S100A7; EF-hand protein, MAD phasing, psoriasis, S100 protein family; 1.05A {Homo sapiens} SCOP: a.39.1.2 PDB: 2psr_A 2wor_A* 2wos_A* 3psr_A 2wnd_A
Probab=23.66 E-value=32 Score=15.92 Aligned_cols=36 Identities=11% Similarity=0.086 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHCCCCCEEEHHHHHHHHHHCCCCC
Q ss_conf 789999999987305788063888998987417999
Q T0549 8 PLQDMFTSAIEAVARDSGWAELSAVGSYLAKNDPSF 43 (84)
Q Consensus 8 ~l~~ll~~Ai~~~~dedGW~~l~~vG~~l~k~~PdF 43 (84)
.-+..|...+...++.+|..+...+.+.|.+..|.|
T Consensus 7 ~~i~~l~~~F~ky~~~dG~i~~~El~~ll~~~~~~~ 42 (100)
T 1psr_A 7 RSIIGMIDMFHKYTRRDDKIDKPSLLTMMKENFPNF 42 (100)
T ss_dssp HHHHHHHHHHHHTCCTTSCBCHHHHHHHHHHHCHHH
T ss_pred HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf 999999999999679999382999999999976211
No 12
>1k2h_A S100A1, S-100 protein, alpha chain; non-covalent homodimer, X-type four-helix bundle, metal binding protein; NMR {Rattus norvegicus} SCOP: a.39.1.2 PDB: 1zfs_A 2k2f_A 2kbm_A 2jpt_A
Probab=21.82 E-value=34 Score=15.76 Aligned_cols=53 Identities=13% Similarity=0.104 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHCCC---CCEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf 899999999873057---88063888998987417999833057223889998658
Q T0549 9 LQDMFTSAIEAVARD---SGWAELSAVGSYLAKNDPSFDPRNWGHGRLSQMVKKLD 61 (84)
Q Consensus 9 l~~ll~~Ai~~~~de---dGW~~l~~vG~~l~k~~PdFdpR~YG~~kls~li~a~~ 61 (84)
-+..|..+....++. .|..+...+.+.|.+..|.|-...--=..+..+++.+|
T Consensus 7 ai~~l~~~F~~y~d~dG~~g~Is~~El~~~l~~~~~~~~~~~~~~~~~~~l~~~~D 62 (93)
T 1k2h_A 7 AMETLINVFHAHSGKEGDKYKLSKKELKDLLQTELSSFLDVQKDADAVDKIMKELD 62 (93)
T ss_dssp HHHHHHHHHHHHHTTSSCCSSCCHHHHHHHHHHHTHHHHHCCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCCCCCCEECHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHC
T ss_conf 99999999999816589989786999999999862212567799999999999866
No 13
>2cw9_A Translocase of inner mitochondrial membrane; structure genomics, TIM, structural genomics, NPPFSA, riken structural genomics/proteomics initiative; HET: 1PE; 1.90A {Homo sapiens} SCOP: d.17.4.13
Probab=21.44 E-value=45 Score=15.04 Aligned_cols=56 Identities=16% Similarity=0.306 Sum_probs=34.1
Q ss_pred CCHHHHHHHHHHHHHHCCC-CCE---EEHHHHHHHHHHCCCCCCCCCC--CCHH--HHHHHHHC
Q ss_conf 3157899999999873057-880---6388899898741799983305--7223--88999865
Q T0549 5 EKHPLQDMFTSAIEAVARD-SGW---AELSAVGSYLAKNDPSFDPRNW--GHGR--LSQMVKKL 60 (84)
Q Consensus 5 ~~~~l~~ll~~Ai~~~~de-dGW---~~l~~vG~~l~k~~PdFdpR~Y--G~~k--ls~li~a~ 60 (84)
.+.+++...+...+...+- +++ ..++.+=..|++.+|+||+..+ |.++ +..+++|+
T Consensus 10 sdn~~v~~~r~~~~~~~~~~~~~f~~te~~~~l~~ik~~Dp~Fd~~~Fl~gAk~~a~~~I~~A~ 73 (194)
T 2cw9_A 10 SDNAFIRASRALTDKVTDLLGGLFSKTEMSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAM 73 (194)
T ss_dssp --CHHHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHTHHHHHHHHH
T ss_pred CCCCCEEEHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 8771100022111221322256668888999999999768899989999999999999999999
Done!