Query 032409
Match_columns 141
No_of_seqs 120 out of 128
Neff 2.4
Searched_HMMs 29240
Date Mon Mar 25 22:31:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032409.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032409hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ddl_A Xanthorhodopsin; carote 30.9 29 0.001 27.8 2.7 45 5-54 18-62 (273)
2 3olj_A Ribonucleoside-diphosph 25.9 27 0.00092 27.8 1.6 36 10-50 105-140 (286)
3 2o1z_A Ribonucleotide reductas 23.4 30 0.001 27.9 1.5 35 11-50 130-164 (311)
4 1h0o_A Ribonucleoside-diphosph 18.4 35 0.0012 28.7 0.9 35 11-50 171-205 (390)
5 4a58_A Ribonucleoside-diphosph 17.2 70 0.0024 26.0 2.4 39 8-50 111-149 (324)
6 2k5c_A Uncharacterized protein 17.0 43 0.0015 24.3 0.9 22 24-47 61-82 (95)
7 4dr0_A Ribonucleoside-diphosph 15.9 48 0.0016 27.3 1.1 34 11-50 120-153 (350)
8 1jk0_A RNR Y2, ribonucleoside- 15.9 53 0.0018 28.1 1.4 35 11-50 197-231 (419)
9 2h1c_A Trafficking protein B; 15.5 1.1E+02 0.0038 19.5 2.6 30 14-47 103-132 (139)
10 3u5s_A FAD-linked sulfhydryl o 14.6 41 0.0014 24.2 0.3 32 19-52 32-63 (126)
No 1
>3ddl_A Xanthorhodopsin; carotenoid, ION pump, light-harvesting, antenna, retinal, transport protein; HET: SXN UNL RET PX4 PCW; 1.90A {Salinibacter ruber}
Probab=30.87 E-value=29 Score=27.80 Aligned_cols=45 Identities=13% Similarity=0.197 Sum_probs=32.7
Q ss_pred chhhhhhhhcchHHHHHHHHhhccccCCccchhHHHHHhhcccceeeeec
Q 032409 5 DWLSLVAVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIFEVVT 54 (141)
Q Consensus 5 DWLSLVAVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~Evvt 54 (141)
|||.++.+ .=+++..||+..++ ....++|+|-.+.-+.|..-.+.
T Consensus 18 ~~lw~~~a---~m~~atl~F~~~~~--~v~~~~R~~~~v~~lit~IAai~ 62 (273)
T 3ddl_A 18 NMFSFTVA---TMTASFVFFVLARN--NVAPKYRISMMVSALVVFIAGYH 62 (273)
T ss_dssp HHHHHHHH---HHHHHHHHHHHGGG--GSCGGGHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH---HHHHHHHHHHHHHc--cCCcceehhhHHHHHHHHHHHHH
Confidence 56665554 34566678888777 78899999999988888765543
No 2
>3olj_A Ribonucleoside-diphosphate reductase subunit M2; metal-binding, HRRM2, oxidoreductase; 2.10A {Homo sapiens} PDB: 4djn_A
Probab=25.93 E-value=27 Score=27.75 Aligned_cols=36 Identities=28% Similarity=0.495 Sum_probs=27.7
Q ss_pred hhhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 10 VAVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 10 VAVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
=+||+.+.-.-+--|+ -|+.+|.++|+.+.+.|.|-
T Consensus 105 E~iHs~sYs~il~tl~-----~d~~e~~~~f~~~~~~p~l~ 140 (286)
T 3olj_A 105 ENIHSEMYSLLIDTYI-----KDPKEREFLFNAIETMPCVK 140 (286)
T ss_dssp HHHHHHHHHHHHHHHC-----CCHHHHHHHHTHHHHCGGGH
T ss_pred HHHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHhCHHHH
Confidence 4689998766555443 38889999999999999864
No 3
>2o1z_A Ribonucleotide reductase subunit R2; small subunit ribonucleotide reductase, oxidoreductase, DNA replication, iron, DIIRON, radical, R2 subunit; 2.40A {Plasmodium vivax}
Probab=23.39 E-value=30 Score=27.91 Aligned_cols=35 Identities=26% Similarity=0.536 Sum_probs=27.1
Q ss_pred hhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 11 AVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 11 AVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
|||+.+.-.-+-- ++-|..+|.++|+.+.+.|.+.
T Consensus 130 ~iHs~sYs~il~t-----l~~d~~e~~~~f~~~~~~p~l~ 164 (311)
T 2o1z_A 130 NIHSETYSLLIDN-----YIKDEKERMNLFHAIENIPAVK 164 (311)
T ss_dssp HHHHHHHHHHHHH-----HCCCHHHHHHHHHHHTTSHHHH
T ss_pred HHHHHHHHHHHHH-----HCCCHHHHHHHHHHHhcCHHHH
Confidence 7899987665544 3337889999999999999875
No 4
>1h0o_A Ribonucleoside-diphosphate reductase; oxidoreductase, ribonucleotide reductase, dinuclear metal-cluster; 2.2A {Mus musculus} SCOP: a.25.1.2 PDB: 1h0n_A 1w68_A 1w69_A 1xsm_A 2uw2_A 3hf1_A 2vux_A
Probab=18.41 E-value=35 Score=28.74 Aligned_cols=35 Identities=26% Similarity=0.461 Sum_probs=26.8
Q ss_pred hhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 11 AVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 11 AVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
|||+.+.-.-+-- |+-|..+|.++|..+...|.|.
T Consensus 171 aiHsesYS~il~t-----l~~d~~e~~~if~~~~~~p~l~ 205 (390)
T 1h0o_A 171 NIHSEMYSLLIDT-----YIKDPKEREYLFNAIETMPCVK 205 (390)
T ss_dssp HHHHHHHHHHHHH-----HCCCHHHHHHHHTHHHHCHHHH
T ss_pred HHHHHHHHHHHHH-----hCCCHHHHHHHHHHHHhCHHHH
Confidence 7899887655443 4447888999999999999764
No 5
>4a58_A Ribonucleoside-diphosphate reductase small chain; oxidoreductase, epstein-BARR virus, R2 subunit; 1.68A {Human herpesvirus 4} PDB: 4a5c_A 4a5d_A 4a5e_A 4a5f_A 4a5h_A 4a5i_A 4a5j_A
Probab=17.21 E-value=70 Score=25.98 Aligned_cols=39 Identities=10% Similarity=0.154 Sum_probs=28.1
Q ss_pred hhhhhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 8 SLVAVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 8 SLVAVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
..=+||+.+.-.-+--++. =|+.+|.++|+.+.+.|.|-
T Consensus 111 ~~E~iHs~sYs~il~tl~~----~d~~e~~~~f~~~~~~p~l~ 149 (324)
T 4a58_A 111 AMENVHGETYANILNMLFD----GDRAAMNAYAEAIMTDEALQ 149 (324)
T ss_dssp HHHHHHHHHHHHHHHHHTT----TCHHHHHHHHHHHHTCGGGH
T ss_pred HHHHHHHHHHHHHHHHhcC----CCHHHHHHHHHHHHhCHHHH
Confidence 3447899987666554432 26678899999999999764
No 6
>2k5c_A Uncharacterized protein PF0385; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Pyrococcus furiosus}
Probab=16.98 E-value=43 Score=24.31 Aligned_cols=22 Identities=27% Similarity=0.803 Sum_probs=19.3
Q ss_pred HhhccccCCccchhHHHHHhhccc
Q 032409 24 YFGARFGFGKNERKKLFQMINDLP 47 (141)
Q Consensus 24 yfgAr~GFd~~~RkrLF~mIN~lP 47 (141)
|||..| .+++-...|.++||.-
T Consensus 61 FyG~~L--p~~EaeKVFELLNdFk 82 (95)
T 2k5c_A 61 FYGKTL--PRREAEKVFELLNDFK 82 (95)
T ss_dssp EETTSS--CTTTHHHHHHHHHSCS
T ss_pred HhcccC--ChHHHHHHHHHHHHcc
Confidence 688888 8999999999999963
No 7
>4dr0_A Ribonucleoside-diphosphate reductase subunit beta; ribonucleotide reductase, manganese, oxidoreductase; 1.90A {Bacillus subtilis}
Probab=15.95 E-value=48 Score=27.31 Aligned_cols=34 Identities=15% Similarity=0.165 Sum_probs=25.7
Q ss_pred hhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 11 AVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 11 AVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
|||+.+.-.-+--| . +.++|.++|+.|.+.|.|-
T Consensus 120 aiHs~sYs~il~tl----~--~~~e~~~~f~~~~~~p~l~ 153 (350)
T 4dr0_A 120 AVHAKSYSNIFMTL----A--PTETINEVFEWVKQNKYLQ 153 (350)
T ss_dssp HTHHHHHHHHHHHH----S--CHHHHHHHHHHHHHCHHHH
T ss_pred HHHHHHHHHHHHHH----c--CchhHHHHHHHHhcCHHHH
Confidence 39998876665544 2 5678899999999998764
No 8
>1jk0_A RNR Y2, ribonucleoside-diphosphate reductase small chain 1; ribonucleotide reductase, oxidoreductase; 2.80A {Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1smq_A
Probab=15.86 E-value=53 Score=28.08 Aligned_cols=35 Identities=29% Similarity=0.453 Sum_probs=26.5
Q ss_pred hhhcchHHHHHHHHhhccccCCccchhHHHHHhhccccee
Q 032409 11 AVHSDSWLLAVAFYFGARFGFGKNERKKLFQMINDLPTIF 50 (141)
Q Consensus 11 AVHSDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~ 50 (141)
|||+.+.-.-+--| +-|+.+|.++|+.|.+.|.|.
T Consensus 197 aIHsesYS~il~tl-----~~d~~e~~~iF~~i~~~p~L~ 231 (419)
T 1jk0_A 197 NIHSETYSLLIDTY-----IKDPKESEFLFNAIHTIPEIG 231 (419)
T ss_dssp HHHHHHHHHHHHHH-----CCCHHHHHHHHHHHTTCHHHH
T ss_pred HHHHHHHHHHHHHh-----CCCHHHHHHHHHHHhhCHHHH
Confidence 78998876554443 236888999999999999774
No 9
>2h1c_A Trafficking protein B; DNA binding, PIN domain, RHH domain, gene regulation; 1.80A {Neisseria gonorrhoeae} SCOP: c.120.1.1 PDB: 2bsq_A* 2h1o_A*
Probab=15.50 E-value=1.1e+02 Score=19.52 Aligned_cols=30 Identities=17% Similarity=0.208 Sum_probs=19.9
Q ss_pred cchHHHHHHHHhhccccCCccchhHHHHHhhccc
Q 032409 14 SDSWLLAVAFYFGARFGFGKNERKKLFQMINDLP 47 (141)
Q Consensus 14 SDsWLlsVAFyfgAr~GFd~~~RkrLF~mIN~lP 47 (141)
.|+|+.+.|..+|..+ +..|. +=|..+ +++
T Consensus 103 ~D~liaA~A~~~~~~l-vT~d~--~df~~~-~l~ 132 (139)
T 2h1c_A 103 ADGYIAATAKQHSLTV-ATRDT--GSFFAA-DVA 132 (139)
T ss_dssp HHHHHHHHHHHHTCEE-ECSCC--HHHHHT-TCC
T ss_pred cHHHHHHHHHHcCCeE-EECCH--HHHhhC-CCe
Confidence 5999999999999875 23331 225555 454
No 10
>3u5s_A FAD-linked sulfhydryl oxidase ALR; flavin, liver, oxidoreductase; HET: FAD; 1.50A {Homo sapiens} PDB: 3mbg_A* 3tk0_A* 3o55_A* 3u2m_A* 3u2l_A* 3r7c_A* 1oqc_A*
Probab=14.61 E-value=41 Score=24.17 Aligned_cols=32 Identities=13% Similarity=0.255 Sum_probs=26.6
Q ss_pred HHHHHHhhccccCCccchhHHHHHhhcccceeee
Q 032409 19 LAVAFYFGARFGFGKNERKKLFQMINDLPTIFEV 52 (141)
Q Consensus 19 lsVAFyfgAr~GFd~~~RkrLF~mIN~lPTv~Ev 52 (141)
=++|++|-..- ...+++.+.+.|..|+.+|=.
T Consensus 32 Htia~~yP~~P--t~~~k~~~~~fi~~l~~~lPC 63 (126)
T 3u5s_A 32 HTLAAYYPDLP--TPEQQQDMAQFIHLFSKFYPX 63 (126)
T ss_dssp HHHHHTSCSSC--CHHHHHHHHHHHHHHHHHCSS
T ss_pred HHHHhhCCCCC--CHHHHHHHHHHHHHHHHhCCc
Confidence 36888887776 889999999999999888743
Done!