Query 010488
Match_columns 509
No_of_seqs 239 out of 886
Neff 7.0
Searched_HMMs 29240
Date Mon Mar 25 07:53:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010488.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/010488hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3rce_A Oligosaccharide transfe 92.9 8.6 0.00029 42.7 21.2 69 110-181 99-172 (724)
2 3ubt_Y Modification methylase 10.6 4.8E+02 0.016 24.8 6.9 80 420-504 62-160 (331)
3 3fov_A UPF0102 protein RPA0323 9.6 1.5E+02 0.0052 25.4 2.4 38 468-505 27-66 (134)
4 3dgp_B RNA polymerase II trans 7.7 18 0.00062 27.8 -3.8 51 422-482 8-64 (71)
5 1gef_A Holliday junction resol 7.5 3.2E+02 0.011 22.9 3.5 22 468-490 9-30 (123)
6 3p8c_D Wiskott-aldrich syndrom 6.1 1.8E+02 0.0062 28.2 1.3 28 422-449 125-159 (279)
7 1g70_B RSG-1.2 peptide; peptid 6.0 1.3E+02 0.0045 17.8 0.2 12 2-13 2-13 (26)
8 1ydl_A TFIIH, general transcri 5.9 35 0.0012 26.8 -3.1 59 415-480 10-74 (79)
9 1g55_A DNA cytosine methyltran 5.4 1.3E+03 0.044 22.2 7.3 49 457-506 111-168 (343)
10 4h0n_A DNMT2; SAH binding, tra 5.1 1.4E+03 0.047 22.1 7.3 70 434-507 92-169 (333)
No 1
>3rce_A Oligosaccharide transferase to N-glycosylate PROT; oligosaccharyltransferase, membrane protein, helical bundle, glycosylation, acceptor peptide, plasma membrane; HET: PPN; 3.40A {Campylobacter lari}
Probab=92.89 E-value=8.6 Score=42.73 Aligned_cols=69 Identities=16% Similarity=0.078 Sum_probs=50.1
Q ss_pred hHhHhHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHhhhhhhhhhhccccc-----hhHHHHHHHHHHHhhcc
Q 010488 110 MIKAPRLLQSLFSAVGDLYLYKFSRVLFGDHVAKWALFSQLANWFMFFCFNRTFS-----NSLETVLTLVGLYYWPT 181 (509)
Q Consensus 110 ~~~~pRl~~a~~s~~~d~~~~~l~~~~~g~~~a~~~l~l~~~s~~~~~~~tRtls-----Ns~e~~l~~~al~~~~~ 181 (509)
+..+.+.+-+++++++-.-+|-++++..|+.++..+.++.+.++.. ..||.. +++|..+.+++++.|.+
T Consensus 99 l~~v~~~lp~ifg~L~vi~~yll~~el~~~~aGl~AAll~ai~P~~---i~RS~aG~~D~e~l~i~~~ll~~~~~i~ 172 (724)
T 3rce_A 99 FESIILYMSTFFASLIVVPIILIAREYKLTTYGFIAALLGSIANSY---YNRTMSGYYDTDMLVLVLPMLILLTFIR 172 (724)
T ss_dssp HHHHHHHHHHHHGGGGHHHHHHHHHHTTCHHHHHHHHHHHTTSHHH---HHTSSTTCCSGGGGTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHH---HHHhccccccchhHHHHHHHHHHHHHHH
Confidence 4456777788888888888898899888888888888888887772 347655 34566666666666643
No 2
>3ubt_Y Modification methylase HAEIII; protein-DNA complex, DNA cytosine-5 methyltransferase, DNA B S-adenosyl methionine binding; HET: ATP 2PE; 2.50A {Haemophilus aegyptius} PDB: 1dct_A*
Probab=10.61 E-value=4.8e+02 Score=24.82 Aligned_cols=80 Identities=9% Similarity=-0.004 Sum_probs=48.3
Q ss_pred ccccccCCC--------CcCCCCChhhhhhcChHHHHHhhcCCCCCCCEEEEcch----------hHHHHHHhhhcCCcE
Q 010488 420 MRFLDCSPR--------EEKGILDESDRFMKDPVAFTSEITKNGSLPSHVVLFGS----------EEILLRDLLKSYSFR 481 (509)
Q Consensus 420 ~~fL~C~P~--------~~~~y~de~d~Fy~~p~~~l~~~~~~~~~P~~lv~f~~----------l~~~~~~~L~~~~y~ 481 (509)
...|...|| .+.+..|+....+.+-..++.+. -|.++|+=+. ..+.+.+-|++.||.
T Consensus 62 ~D~l~ggpPCQ~fS~ag~~~g~~d~R~~L~~~~~r~i~~~-----~Pk~~~~ENV~gl~~~~~~~~~~~i~~~l~~~GY~ 136 (331)
T 3ubt_Y 62 CDGIIGGPPSQSWSEGGSLRGIDDPRGKLFYEYIRILKQK-----KPIFFLAENVKGMMAQRHNKAVQEFIQEFDNAGYD 136 (331)
T ss_dssp CSEEECCCCGGGTEETTEECCTTCGGGHHHHHHHHHHHHH-----CCSEEEEEECCGGGGCTTSHHHHHHHHHHHHHTEE
T ss_pred ccEEEecCCCCCcCCCCCccCCCCchhHHHHHHHHHHhcc-----CCeEEEeeeecccccccccchhhhhhhhhccCCcE
Confidence 445666666 23455677766666667777654 3777665432 123455667788999
Q ss_pred EEEEecCCCCccCC-CCCCeEEEE
Q 010488 482 EIRRFFHAHFKVDR-DLQASVVVY 504 (509)
Q Consensus 482 ~~~~~f~s~~~~~~-~~~~~v~v~ 504 (509)
..++..|+.--.-+ +|++-++|=
T Consensus 137 v~~~vlna~~yGvPQ~R~Rvfivg 160 (331)
T 3ubt_Y 137 VHIILLNANDYGVAQDRKRVFYIG 160 (331)
T ss_dssp EEEEEEEGGGTTCSBCCEEEEEEE
T ss_pred EEEEecccccCCCCcccceEEEEE
Confidence 99999998533333 344444443
No 3
>3fov_A UPF0102 protein RPA0323; structural genomics, APC7380, PSI-2, protein structure initi midwest center for structural genomics, MCSG; 1.88A {Rhodopseudomonas palustris}
Probab=9.56 E-value=1.5e+02 Score=25.41 Aligned_cols=38 Identities=18% Similarity=0.264 Sum_probs=26.5
Q ss_pred HHHHHHhhhcCCcEEEEEecCCCCccCC--CCCCeEEEEe
Q 010488 468 EILLRDLLKSYSFREIRRFFHAHFKVDR--DLQASVVVYA 505 (509)
Q Consensus 468 ~~~~~~~L~~~~y~~~~~~f~s~~~~~~--~~~~~v~v~~ 505 (509)
|+....||+..||+...|=|.+..-|-+ -++|+++|+.
T Consensus 27 E~~A~~~L~~~Gy~Il~rN~r~~~GEIDiIa~~~~~LVFV 66 (134)
T 3fov_A 27 EASAADYLERQGYRILARRFKTRCGEIDLVAQRDALVAFV 66 (134)
T ss_dssp HHHHHHHHHHTTCEEEEEEEEETTEEEEEEEEETTEEEEE
T ss_pred HHHHHHHHHHCCCEEEeccccCCCCcEEEEEEECCEEEEE
Confidence 3456799999999999998888654422 1445666653
No 4
>3dgp_B RNA polymerase II transcription factor B subunit; protein-protein complex, beta-alpha-beta spilt, heterodimer, damage, DNA excision; 1.80A {Saccharomyces cerevisiae} SCOP: d.295.1.0 PDB: 3dom_B
Probab=7.71 E-value=18 Score=27.85 Aligned_cols=51 Identities=18% Similarity=0.238 Sum_probs=32.4
Q ss_pred ccccCCCCcC--CCCChhhhhhcChHHHHHhhcCCCCCCCEEEEcchhHH----HHHHhhhcCCcEE
Q 010488 422 FLDCSPREEK--GILDESDRFMKDPVAFTSEITKNGSLPSHVVLFGSEEI----LLRDLLKSYSFRE 482 (509)
Q Consensus 422 fL~C~P~~~~--~y~de~d~Fy~~p~~~l~~~~~~~~~P~~lv~f~~l~~----~~~~~L~~~~y~~ 482 (509)
+++|+|+-++ -+.||+ -.+|+-+.+. .+|+++=++..+ ++.++|.++.|..
T Consensus 8 Li~CDpa~Kq~il~lde~------~~~FIIedLD----dtHl~V~~~~v~~lk~~l~~~l~~n~~~~ 64 (71)
T 3dgp_B 8 LVQCDPSIKALILQIDAK------MSDIVLEELD----DTHLLVNPSKVEFVKHELNRLLSKNIYNP 64 (71)
T ss_dssp EEECCHHHHHHHHHHHHH------HCSSEEEEEE----TTEEEECGGGHHHHHHHHHHHHHSCSCC-
T ss_pred EEEcCHHHHHHHHHHcCC------CCCEEEEEcC----CceEEEcHHHHHHHHHHHHHHHHhcCCCC
Confidence 6899999221 134654 2346666665 389999877654 5777887776643
No 5
>1gef_A Holliday junction resolvase; HJC, hydrolase; 2.00A {Pyrococcus furiosus} SCOP: c.52.1.18 PDB: 1ipi_A
Probab=7.47 E-value=3.2e+02 Score=22.93 Aligned_cols=22 Identities=27% Similarity=0.236 Sum_probs=18.5
Q ss_pred HHHHHHhhhcCCcEEEEEecCCC
Q 010488 468 EILLRDLLKSYSFREIRRFFHAH 490 (509)
Q Consensus 468 ~~~~~~~L~~~~y~~~~~~f~s~ 490 (509)
|+...++|+..||+.. |-+.+.
T Consensus 9 E~~A~~~L~~~Gy~il-rn~r~~ 30 (123)
T 1gef_A 9 ERELIKLLEKHGFAVV-RSAGSK 30 (123)
T ss_dssp HHHHHHHHHHTTCEEE-EBGGGS
T ss_pred HHHHHHHHHHCCCEEE-EecCCC
Confidence 4567899999999999 878876
No 6
>3p8c_D Wiskott-aldrich syndrome protein family member 1; actin polymerization, protein binding; 2.29A {Homo sapiens}
Probab=6.07 E-value=1.8e+02 Score=28.21 Aligned_cols=28 Identities=21% Similarity=0.300 Sum_probs=18.8
Q ss_pred ccccCCC----CcCCCCC---hhhhhhcChHHHHH
Q 010488 422 FLDCSPR----EEKGILD---ESDRFMKDPVAFTS 449 (509)
Q Consensus 422 fL~C~P~----~~~~y~d---e~d~Fy~~p~~~l~ 449 (509)
+=+|.|| ...-|+| ++..||-||.-|..
T Consensus 125 Y~~C~~PP~L~lLd~yrdDgk~~LK~YTDPSfFfd 159 (279)
T 3p8c_D 125 YDVCEQPPPLNILTPYRDDGKEGLKFYTNPSYFFD 159 (279)
T ss_dssp HHHSBCCCCGGGGGGGCSSCCCGGGGTCCTTHHHH
T ss_pred HHhcCCCCCCccccccccCChhHHhcCCCcHHHHH
Confidence 4578888 1122333 48999999988754
No 7
>1g70_B RSG-1.2 peptide; peptide-RNA complex, non-canonical base pairs, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: j.9.3.1
Probab=6.04 E-value=1.3e+02 Score=17.78 Aligned_cols=12 Identities=17% Similarity=0.351 Sum_probs=6.3
Q ss_pred ccccccccCCCC
Q 010488 2 RQRHRAVNTNSN 13 (509)
Q Consensus 2 ~~~~~~~~~~~~ 13 (509)
|+||+++..+++
T Consensus 2 rrrrgsrpsgae 13 (26)
T 1g70_B 2 RRRRGSRPSGAE 13 (26)
T ss_pred ccccCCCCchHH
Confidence 556665554443
No 8
>1ydl_A TFIIH, general transcription factor IIH, polypeptide 5; alpha-beta protein, structural genomics, PSI, protein structure initiative; 2.30A {Homo sapiens} SCOP: d.295.1.1 PDB: 2jnj_A
Probab=5.89 E-value=35 Score=26.82 Aligned_cols=59 Identities=20% Similarity=0.298 Sum_probs=34.1
Q ss_pred ccCCcccccccCCCCcC--CCCChhhhhhcChHHHHHhhcCCCCCCCEEEEcchhHH----HHHHhhhcCCc
Q 010488 415 HRNLPMRFLDCSPREEK--GILDESDRFMKDPVAFTSEITKNGSLPSHVVLFGSEEI----LLRDLLKSYSF 480 (509)
Q Consensus 415 H~~i~~~fL~C~P~~~~--~y~de~d~Fy~~p~~~l~~~~~~~~~P~~lv~f~~l~~----~~~~~L~~~~y 480 (509)
|+-++--+++|+||-++ -+.||+- +...+|+-+.+. .+|+++=++..+ ++.++++++.|
T Consensus 10 ~~~~kGvLI~CDpa~Kq~Il~lde~~---~~~~kFIIedLD----dtHLfV~~~~v~~lk~~l~~~ld~ns~ 74 (79)
T 1ydl_A 10 HGTRKGMLIECDPAMKQFLLYLDESN---ALGKKFIIQDID----DTHVFVIAELVNVLQERVGELMDQNAF 74 (79)
T ss_dssp CCCCCCEEEECCHHHHHHHHHHHHTT---TTSSCCEEEECS----SSEEEECTTHHHHHHHHHHHTSCCCTT
T ss_pred cccccceEEEeCHHHHHHHHHHhccC---CcCCCEEEEEcC----CceEEEcHHHHHHHHHHHHHHHHhcCC
Confidence 44445559999999221 1234422 111346555554 489998877655 46677766655
No 9
>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase homologue; HET: DNA SAH; 1.80A {Homo sapiens} SCOP: c.66.1.26
Probab=5.36 E-value=1.3e+03 Score=22.18 Aligned_cols=49 Identities=14% Similarity=0.118 Sum_probs=29.6
Q ss_pred CCCEEEEcchh--------HHHHHHhhhcCCcEEEEEecCCCCccC-CCCCCeEEEEee
Q 010488 457 LPSHVVLFGSE--------EILLRDLLKSYSFREIRRFFHAHFKVD-RDLQASVVVYAL 506 (509)
Q Consensus 457 ~P~~lv~f~~l--------~~~~~~~L~~~~y~~~~~~f~s~~~~~-~~~~~~v~v~~~ 506 (509)
.|.++|+ |+. .+.+.+-|++.||+..++.-|+.--.- .+|.+-++|=.+
T Consensus 111 ~P~~~~~-ENV~~l~~~~~~~~i~~~l~~~GY~v~~~vl~a~~~GvPQ~R~R~~iv~~~ 168 (343)
T 1g55_A 111 LPKYILL-ENVKGFEVSSTRDLLIQTIENCGFQYQEFLLSPTSLGIPNSRLRYFLIAKL 168 (343)
T ss_dssp CCSEEEE-EEETTGGGSHHHHHHHHHHHHTTEEEEEEEECGGGGTCSCCCCEEEEEEEE
T ss_pred CCCEEEE-eCCccccCHHHHHHHHHHHHHCCCeeEEEEEEHHHCCCCCcccEEEEEEEe
Confidence 4787776 322 234667778899999998888732222 234444444333
No 10
>4h0n_A DNMT2; SAH binding, transferase; HET: SAH; 2.71A {Spodoptera frugiperda}
Probab=5.06 E-value=1.4e+03 Score=22.06 Aligned_cols=70 Identities=10% Similarity=-0.033 Sum_probs=38.6
Q ss_pred CChhhhhhcChHHHHHhhcCCCCCCCEEEEcch--h-----HHHHHHhhhcCCcEEEEEecCCC-CccCCCCCCeEEEEe
Q 010488 434 LDESDRFMKDPVAFTSEITKNGSLPSHVVLFGS--E-----EILLRDLLKSYSFREIRRFFHAH-FKVDRDLQASVVVYA 505 (509)
Q Consensus 434 ~de~d~Fy~~p~~~l~~~~~~~~~P~~lv~f~~--l-----~~~~~~~L~~~~y~~~~~~f~s~-~~~~~~~~~~v~v~~ 505 (509)
.|+....+.+-..++.+ .. -|.++|+=+. + .+.+.+-|++.||...++..|+. +-.-.+|.+-++|=.
T Consensus 92 ~d~r~~L~~~~~r~i~~-~~---~P~~~vlENV~gl~~~~~~~~i~~~l~~~GY~v~~~vl~a~~~GvPQ~R~R~fiva~ 167 (333)
T 4h0n_A 92 NDPRTNSFLYLIGILDQ-LD---NVDYILMENVKGFENSTVRNLFIDKLKECNFIYQEFLLCPSTVGVPNSRLRYYCTAR 167 (333)
T ss_dssp TCTTSCCHHHHHHHGGG-CT---TCCEEEEEECTTGGGSHHHHHHHHHHHHTTEEEEEEEECTTTTTCSCCCCEEEEEEE
T ss_pred cCcccccHHHHHHHHHH-hc---CCCEEEEecchhhhhhhHHHHHHHHHHhCCCeEEEEEecHHHcCCCccceEEEEEEE
Confidence 45543344344444433 11 1776665422 1 23566778889999999998884 322234555555544
Q ss_pred ec
Q 010488 506 LT 507 (509)
Q Consensus 506 ~~ 507 (509)
++
T Consensus 168 r~ 169 (333)
T 4h0n_A 168 RN 169 (333)
T ss_dssp ET
T ss_pred eC
Confidence 43
Done!