Query 031940
Match_columns 150
No_of_seqs 80 out of 101
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 11:45:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031940.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/031940hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1oo0_A MAGO nashi protein; RNA 100.0 4E-102 1E-106 608.7 13.8 145 6-150 3-147 (147)
2 3cqn_A Violaxanthin DE-epoxida 48.6 16 0.00054 29.1 3.6 60 5-85 113-178 (185)
3 3omy_A Protein TRAM; DNA bindi 38.5 9.6 0.00033 25.2 0.8 23 49-71 1-23 (52)
4 3on0_A Protein TRAM; DNA bindi 32.4 31 0.0011 26.4 2.9 23 49-71 1-23 (127)
5 2l7y_A Putative endo-beta-N-ac 27.9 66 0.0022 23.2 3.8 22 84-105 58-79 (98)
6 2avt_A DNA polymerase III beta 24.7 2.9E+02 0.01 22.7 8.6 38 53-107 200-237 (378)
7 1dp3_A TRAM protein; helix-loo 22.5 17 0.00059 24.2 -0.1 20 51-70 2-21 (55)
8 3f1p_B ARYL hydrocarbon recept 19.7 68 0.0023 19.7 2.3 25 28-52 16-45 (121)
9 2l7q_A Conserved protein found 19.2 84 0.0029 23.9 3.0 29 6-48 43-71 (124)
10 2l3b_A Conserved protein found 19.0 66 0.0023 24.6 2.4 29 6-48 44-72 (130)
No 1
>1oo0_A MAGO nashi protein; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.232.1.1 PDB: 1rk8_B 2x1g_B 1hl6_B 2j0s_C* 2j0q_C* 2hyi_A* 2xb2_C* 3ex7_A* 1p27_A
Probab=100.00 E-value=3.7e-102 Score=608.66 Aligned_cols=145 Identities=82% Similarity=1.337 Sum_probs=143.2
Q ss_pred CcceEEEEeecCCCccceeeEEEEEcCCCceEeeccCCCCCcceEEEEEeeCHHHHHHHHHHhhhcccccccCCCCCCCC
Q 031940 6 DGEFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEVFLTPAVLRECRRIISESEIMKEDDNNWPEPD 85 (150)
Q Consensus 6 ~~~FYlRYY~Gh~GkfGHEFLEfEf~~dG~lRYaNNSnYKnd~~IrKe~~vs~~v~~E~krII~~SeI~kEdD~~WP~pd 85 (150)
+++||||||+||+||||||||||||||||+||||||||||||+||||||+||++||+|+||||.+|||++|||++||+||
T Consensus 3 ~~~fYlRYY~GH~GkfGhEfLEfEfr~dG~lrYaNnSnYknd~~IrKe~~vs~~v~~E~krII~~SeI~kEdD~~WP~pd 82 (147)
T 1oo0_A 3 TEDFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEAFVHQSVMEELKRIIIDSEIMQEDDLPWPPPD 82 (147)
T ss_dssp -CCEEEEEEEEEEETTEEEEEEEEECTTSEEEEEEECCTTSSCCEEEEEEECHHHHHHHHHHHHHHTGGGCCCTTSCCCC
T ss_pred CCcEEEEEEecccCcccceEEEEEecCCCeEEEeccCCCcCCeeEEEEEEecHHHHHHHHHHHHHhcccccccccCCCCC
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeEEEEECCeEEEEEecCeeeeeeccCCCCccchhhhhHHHHhHHHHHHHHhhhceeeecC
Q 031940 86 RVGRQELEIVMGNEHISFTTSKIGSLVDVQSSKDPEGLRIFYYLVQDLKCFVFSLISLHFKIKPI 150 (150)
Q Consensus 86 ~~GrQELEI~~g~~HisF~tsKiGSl~dv~~S~DPeGLr~FyYLvqDLkclvfsLi~lHfkikpi 150 (150)
++|||||||+|||+||||+|||||||+|||+|+||+|||+||||||||||||||||+||||||||
T Consensus 83 ~~GrQELEI~~g~~HisF~tskigSl~dv~~S~DPeGLr~FyYLvqDLKclvfsLi~lHFkikpi 147 (147)
T 1oo0_A 83 RVGRQELEIVIGDEHISFTTSKTGSLVDVNRSKDPEGLRCFYYLVQDLKCLVFSLIGLHFKIKPI 147 (147)
T ss_dssp SSEEEEEEEEETTEEEEEEECCCCCHHHHHHSSCHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCC
T ss_pred CcCceeEEEEECCEEEEEEecCcccHHHhccCCCccHHHHHHHHHHHHHHHHHHHHHhheeeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999998
No 2
>3cqn_A Violaxanthin DE-epoxidase, chloroplast; lipocalin, enzyme, xanthophyll cycle, non photochemical quenching, NPQ, antheraxanthin, zeaxanthin; 2.00A {Arabidopsis thaliana} PDB: 3cqr_A
Probab=48.60 E-value=16 Score=29.08 Aligned_cols=60 Identities=17% Similarity=0.378 Sum_probs=40.3
Q ss_pred CCcceEEEEeecCCC-ccceeeEEEEEcCCCceEeeccCCCCCcceEEEEEeeCHHHHHHHHHHhhhc-----ccccccC
Q 031940 5 EDGEFYLRYYVGHKG-KFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEVFLTPAVLRECRRIISES-----EIMKEDD 78 (150)
Q Consensus 5 ~~~~FYlRYY~Gh~G-kfGHEFLEfEf~~dG~lRYaNNSnYKnd~~IrKe~~vs~~v~~E~krII~~S-----eI~kEdD 78 (150)
+-++||+=||-|+.+ .- .|..-.+.=+.-.+++++++|++++...- .|+.-|+
T Consensus 113 ~~~dy~~VYy~G~~~~~~---------------------~y~ga~LY~Rsp~l~peale~f~~fa~~~Gl~~e~~~~~dn 171 (185)
T 3cqn_A 113 KPEDYIFVYYRGRNDAWD---------------------GYGGAVVYTRSSVLPNSIIPELEKAAKSIGRDFSTFIRTDN 171 (185)
T ss_dssp STTCEEEEEEEEEEETTE---------------------EEEEEEEEESSSSCCGGGHHHHHHHHHHTTCCGGGSEECCC
T ss_pred CCCCEEEEEEEeecCCCc---------------------eeeeEEEEeCCCCCCHHHHHHHHHHHHHcCCCHHHEEEecC
Confidence 456788888887754 21 13334566667789999999999998764 4777788
Q ss_pred CCCCCCC
Q 031940 79 NNWPEPD 85 (150)
Q Consensus 79 ~~WP~pd 85 (150)
+.=|+|-
T Consensus 172 ~c~~~~~ 178 (185)
T 3cqn_A 172 TCGPEPR 178 (185)
T ss_dssp CCC----
T ss_pred CCCCCCc
Confidence 8877764
No 3
>3omy_A Protein TRAM; DNA binding protein, dimer, bacterial conjugation, ribbon-HE helix, transcriptional repressor, DNA; 1.30A {Escherichia coli} SCOP: a.55.1.0
Probab=38.54 E-value=9.6 Score=25.25 Aligned_cols=23 Identities=9% Similarity=0.271 Sum_probs=19.0
Q ss_pred eEEEEEeeCHHHHHHHHHHhhhc
Q 031940 49 MIRKEVFLTPAVLRECRRIISES 71 (150)
Q Consensus 49 ~IrKe~~vs~~v~~E~krII~~S 71 (150)
|=|..+|+|..|.++|..|+++-
T Consensus 1 M~rvq~Y~s~~v~~~I~~iVe~r 23 (52)
T 3omy_A 1 MPKIQTYVNNNVYEQITDLVTIR 23 (52)
T ss_dssp -CCCCCCCCHHHHHHHHHHHHHH
T ss_pred CCceeeeechHHHHHHHHHHHHH
Confidence 34678999999999999998763
No 4
>3on0_A Protein TRAM; DNA binding protein, DNA protein-DNA complex, tetramer, COOP binding, unwinding of DNA, kinking of DNA; 2.87A {Escherichia coli}
Probab=32.43 E-value=31 Score=26.36 Aligned_cols=23 Identities=9% Similarity=0.271 Sum_probs=19.6
Q ss_pred eEEEEEeeCHHHHHHHHHHhhhc
Q 031940 49 MIRKEVFLTPAVLRECRRIISES 71 (150)
Q Consensus 49 ~IrKe~~vs~~v~~E~krII~~S 71 (150)
|=|..+|||..|.++|..|+.+-
T Consensus 1 M~riq~Yvs~~v~~~I~~iVe~r 23 (127)
T 3on0_A 1 MPKIQTYVNNNVYEQITDLVTIR 23 (127)
T ss_dssp -CEEEEECCHHHHHHHHHHHHHH
T ss_pred CCchhhhhhHHHHHHHHHHHHHH
Confidence 45889999999999999998763
No 5
>2l7y_A Putative endo-beta-N-acetylglucosaminidase; putative surface protein, structural protein; NMR {Streptococcus pneumoniae}
Probab=27.85 E-value=66 Score=23.17 Aligned_cols=22 Identities=27% Similarity=0.528 Sum_probs=19.1
Q ss_pred CCCCCceeEEEEECCeEEEEEe
Q 031940 84 PDRVGRQELEIVMGNEHISFTT 105 (150)
Q Consensus 84 pd~~GrQELEI~~g~~HisF~t 105 (150)
+.+.|+|.|-|.+++.-.+|+.
T Consensus 58 s~~~G~QtlTVtY~G~t~~f~V 79 (98)
T 2l7y_A 58 AQKTGRQTLTLHYQGHEVSFDV 79 (98)
T ss_dssp TTSCSSEEEEEEETTEEEEEEE
T ss_pred CCCCCcEEEEEEECCEEEEEEE
Confidence 4457999999999999999875
No 6
>2avt_A DNA polymerase III beta subunit; beta clamp, sliding clamp, replication, transferase; HET: DNA; 2.00A {Streptococcus pyogenes} PDB: 2awa_A*
Probab=24.73 E-value=2.9e+02 Score=22.71 Aligned_cols=38 Identities=21% Similarity=0.399 Sum_probs=29.6
Q ss_pred EEeeCHHHHHHHHHHhhhcccccccCCCCCCCCCCCceeEEEEECCeEEEEEecC
Q 031940 53 EVFLTPAVLRECRRIISESEIMKEDDNNWPEPDRVGRQELEIVMGNEHISFTTSK 107 (150)
Q Consensus 53 e~~vs~~v~~E~krII~~SeI~kEdD~~WP~pd~~GrQELEI~~g~~HisF~tsK 107 (150)
++-|..-.+.|++|++.++ ..+++|.+++.++.|.+..
T Consensus 200 ~~iiP~k~l~el~kll~~~-----------------~~~v~i~~~~~~i~f~~~~ 237 (378)
T 2avt_A 200 MVVLPSKSLREFSAVFTDD-----------------IETVEVFFSPSQILFRSEH 237 (378)
T ss_dssp EEEEEHHHHHHHHHHSCTT-----------------CCEEEEEECSSEEEEECSS
T ss_pred EEEEEhHHHHHHHHhcccC-----------------CceEEEEEcCCEEEEEECC
Confidence 5677888999999998421 1458888899999998765
No 7
>1dp3_A TRAM protein; helix-loop-helix, DNA binding protein; NMR {Escherichia coli} SCOP: a.55.1.2
Probab=22.48 E-value=17 Score=24.24 Aligned_cols=20 Identities=5% Similarity=0.408 Sum_probs=17.6
Q ss_pred EEEEeeCHHHHHHHHHHhhh
Q 031940 51 RKEVFLTPAVLRECRRIISE 70 (150)
Q Consensus 51 rKe~~vs~~v~~E~krII~~ 70 (150)
|..+|||..+.++|..|+++
T Consensus 2 rvq~Yvs~~v~~~I~~ive~ 21 (55)
T 1dp3_A 2 KVQAYVSDEIVYKINKIVER 21 (55)
T ss_dssp CCSSCCCCTHHHHHHHHHHH
T ss_pred cceeehhhHHHHHHHHHHHH
Confidence 45689999999999999976
No 8
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.0 PDB: 3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 4h6j_B 2b02_A* 2k7s_A 2a24_B
Probab=19.74 E-value=68 Score=19.72 Aligned_cols=25 Identities=12% Similarity=0.372 Sum_probs=18.5
Q ss_pred EEEcCCCceEeeccCC-----CCCcceEEE
Q 031940 28 FEFRPDGKLRYANNSN-----YKNDTMIRK 52 (150)
Q Consensus 28 fEf~~dG~lRYaNNSn-----YKnd~~IrK 52 (150)
+.+.+||++.|+|.+- |..+.++-+
T Consensus 16 ~~~d~~g~i~~~n~~~~~~~G~~~~el~g~ 45 (121)
T 3f1p_B 16 SRHNIEGIFTFVDHRCVATVGYQPQELLGK 45 (121)
T ss_dssp EEECTTSBEEEECTTHHHHHSCCGGGTTTS
T ss_pred EEECCCceEEEECcchhhhhCCChHHHcCC
Confidence 4577999999999873 666666544
No 9
>2l7q_A Conserved protein found in conjugate transposon; NESG, structural genomics, PSI-biology; NMR {Bacteroides vulgatus}
Probab=19.20 E-value=84 Score=23.89 Aligned_cols=29 Identities=21% Similarity=0.401 Sum_probs=20.4
Q ss_pred CcceEEEEeecCCCccceeeEEEEEcCCCceEeeccCCCCCcc
Q 031940 6 DGEFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDT 48 (150)
Q Consensus 6 ~~~FYlRYY~Gh~GkfGHEFLEfEf~~dG~lRYaNNSnYKnd~ 48 (150)
...|++||+- +...|.||+.|..-+++..
T Consensus 43 ~t~Y~IRYFQ--------------~dGkG~L~~~~Gtvl~PND 71 (124)
T 2l7q_A 43 GTVYTLRYFQ--------------PDGKGSLKMEDGTVLKPND 71 (124)
T ss_dssp CCCCEEEEEC--------------CSSCEEEEETTSCBCCTTC
T ss_pred ccEEEEEEEe--------------ecCCeeEEecCCcEecccc
Confidence 3457788765 4455569999998888764
No 10
>2l3b_A Conserved protein found in conjugate transposon; beta, structural genomics, PSI-biology; NMR {Bacteroides thetaiotaomicron}
Probab=19.01 E-value=66 Score=24.64 Aligned_cols=29 Identities=14% Similarity=0.476 Sum_probs=20.3
Q ss_pred CcceEEEEeecCCCccceeeEEEEEcCCCceEeeccCCCCCcc
Q 031940 6 DGEFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDT 48 (150)
Q Consensus 6 ~~~FYlRYY~Gh~GkfGHEFLEfEf~~dG~lRYaNNSnYKnd~ 48 (150)
...|++||+- +...|.||+.|..-+++..
T Consensus 44 ~t~Y~IRYFQ--------------~dGkG~L~~~dg~~l~PND 72 (130)
T 2l3b_A 44 ETKYFIRYFQ--------------PDGAGTLKMSDGTVLLPND 72 (130)
T ss_dssp SCCCEEEEEC--------------SSCCCEEEETTSCEECTTS
T ss_pred ccEEEEEEEe--------------ecCCeeEEeCCCCEecCCc
Confidence 3457788765 4456669999888877654
Done!