Query 029719
Match_columns 189
No_of_seqs 123 out of 147
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 03:29:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029719.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029719hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2o35_A Hypothetical protein DU 42.5 6.8 0.00023 29.8 0.6 33 14-46 35-67 (105)
2 3fyb_A Protein of unknown func 38.7 7.8 0.00027 29.4 0.4 22 26-47 46-67 (104)
3 3szp_A Transcriptional regulat 12.8 1.2E+02 0.0042 22.8 2.6 48 31-98 18-65 (291)
4 2nly_A BH1492 protein, diverge 12.6 1.7E+02 0.006 24.3 3.7 50 83-141 153-206 (245)
5 1abv_A Delta subunit of the F1 12.4 74 0.0025 23.0 1.2 38 70-108 41-81 (134)
6 3hhg_A Transcriptional regulat 10.8 1.3E+02 0.0045 23.1 2.2 46 31-96 20-65 (306)
7 1ixc_A CBNR, LYSR-type regulat 10.7 1.5E+02 0.0053 22.5 2.6 46 31-96 18-63 (294)
8 3eab_G CHMP1B; spastin, MIT, E 10.4 1.1E+02 0.0038 19.7 1.4 20 28-47 3-22 (50)
9 3isp_A HTH-type transcriptiona 10.1 3.7E+02 0.012 20.6 4.6 28 70-98 42-69 (303)
10 4h62_V Mediator of RNA polymer 9.8 1.2E+02 0.0042 17.9 1.3 20 91-110 2-21 (31)
No 1
>2o35_A Hypothetical protein DUF1244; helix bundle, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.12A {Sinorhizobium meliloti} SCOP: a.293.1.1
Probab=42.52 E-value=6.8 Score=29.81 Aligned_cols=33 Identities=18% Similarity=0.292 Sum_probs=21.9
Q ss_pred HHHHHHHhhhhhhhhhHHHHHHHhcCccccCCc
Q 029719 14 IDKIMRKDSQEKAKKTWFERNAEAVELVVDNYD 46 (189)
Q Consensus 14 Idk~e~~~~k~k~e~sWlkkAAEeLgIdlDsDd 46 (189)
||=..++..=-+==..|+..||++.||++|.|+
T Consensus 35 IDLMnLAGFCRNCLskWy~~aA~e~G~~~~~d~ 67 (105)
T 2o35_A 35 IDLMNLAGFCRNCLSNWYREAAEASGVPMSKEE 67 (105)
T ss_dssp HHHHHHHSCCHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHH
Confidence 333333333333335799999999999998665
No 2
>3fyb_A Protein of unknown function (DUF1244); hydrocar degrading, structural genomics, PSI-2; HET: PEG; 1.80A {Alcanivorax borkumensis SK2}
Probab=38.71 E-value=7.8 Score=29.43 Aligned_cols=22 Identities=14% Similarity=0.241 Sum_probs=18.0
Q ss_pred hhhhHHHHHHHhcCccccCCcc
Q 029719 26 AKKTWFERNAEAVELVVDNYDS 47 (189)
Q Consensus 26 ~e~sWlkkAAEeLgIdlDsDd~ 47 (189)
==..|+..||++.||+++.|+.
T Consensus 46 CLskWy~~aA~~~G~~~~~d~A 67 (104)
T 3fyb_A 46 CLAKWLMEAATEQGVELDYDGA 67 (104)
T ss_dssp HHHHHHHHHHHHHTCCCCHHHH
T ss_pred HHHHHHHHHHHHcCCcCCHHHH
Confidence 3347999999999999987763
No 3
>3szp_A Transcriptional regulator, LYSR family; winged helix-turn helix, DNA-binding, transcription factor; 2.20A {Vibrio cholerae} PDB: 3t1b_B
Probab=12.80 E-value=1.2e+02 Score=22.79 Aligned_cols=48 Identities=15% Similarity=0.179 Sum_probs=31.3
Q ss_pred HHHHHHhcCccccCCcchHHHHHHHHHhHHhHHHHHHHHHHHHHHhCCCCCCCCCccccccCCCCchh
Q 029719 31 FERNAEAVELVVDNYDSEEEVVKNRKQKKATSMQLKKLQQELNAMLSRPLQPKTFSRHYLAGAGVSPL 98 (189)
Q Consensus 31 lkkAAEeLgIdlDsDd~e~e~~~~~Kq~k~~k~~lk~LraeLk~LLSqPL~~kg~S~kYlT~ggv~~l 98 (189)
|.+||+.|+| +.. .-...+ +.|.+-|..|||-++-++=.||..|...+
T Consensus 18 ~t~AA~~L~i------sq~----------avS~~i----~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~ 65 (291)
T 3szp_A 18 YTSTSKKTMI------PVA----------TITRRI----QALEDSLNLRLLNRHARKLTLTEAGERFY 65 (291)
T ss_dssp HHHHHHHHTC------CHH----------HHHHHH----HHHHHHHTCCCEEEETTEEEECHHHHHHH
T ss_pred HHHHHHHhCC------CHH----------HHHHHH----HHHHHHhCCceEeecCCCcccCHhHHHHH
Confidence 6788888887 210 112233 34666678999977777778888775443
No 4
>2nly_A BH1492 protein, divergent polysaccharide deacetylase hypothetical; PFAM04748, structural PSI, protein structure initiative; 2.50A {Bacillus halodurans} SCOP: c.6.2.7
Probab=12.63 E-value=1.7e+02 Score=24.34 Aligned_cols=50 Identities=14% Similarity=0.210 Sum_probs=34.8
Q ss_pred CCCccccccC-CCCchhhHHhHHHHHHhhcCCcchhhhhcccCceeecccccc---hhHHHHh
Q 029719 83 KTFSRHYLAG-AGVSPLLQRQLEEIAKEKLPDSKSAIENKRRKLVVIGQDCVE---PLQALRN 141 (189)
Q Consensus 83 kg~S~kYlT~-ggv~~l~~~~~~~L~~~~v~~~~~~~~~k~~~~~viGq~~Ve---~L~~Lr~ 141 (189)
...+..||.. ..-...+.+||+.++. -+.+.|.-..|||-..+ -+++|+.
T Consensus 153 ~~~rdvFLD~~~~~~~~I~~ql~~a~~---------~A~~~G~aIaIGhp~p~~~~Ti~aL~~ 206 (245)
T 2nly_A 153 YATRSIFLDNTHSSRKEVIKNMRKLAK---------KAKQGSEPIGIGHVGVRGDETYAGIRS 206 (245)
T ss_dssp EEECCEESCCTTCCHHHHHHHHHHHHH---------HHHTTSCCEEEEECSTTHHHHHHHHGG
T ss_pred eEEeeEECCCCCCCHHHHHHHHHHHHH---------HHhhcCcEEEEECCCCCchhHHHHHHH
Confidence 3445578877 5555677888888776 33368888999996665 6666654
No 5
>1abv_A Delta subunit of the F1F0-ATP synthase; ATP synthesis, F1-ATPase, spectroscopy; NMR {Escherichia coli} SCOP: a.70.1.1 PDB: 2a7u_B
Probab=12.36 E-value=74 Score=23.05 Aligned_cols=38 Identities=13% Similarity=0.122 Sum_probs=26.7
Q ss_pred HHHHHHhCCCCCCCCCcccccc---CCCCchhhHHhHHHHHH
Q 029719 70 QELNAMLSRPLQPKTFSRHYLA---GAGVSPLLQRQLEEIAK 108 (189)
Q Consensus 70 aeLk~LLSqPL~~kg~S~kYlT---~ggv~~l~~~~~~~L~~ 108 (189)
.+|..+|+ |.++..-....+. ++++++.+..-|.-|++
T Consensus 41 ~~l~~~l~-P~i~~~~K~~~l~~~~~~~~~~~~~nfl~ll~~ 81 (134)
T 1abv_A 41 EQMAELLS-GALAPETLAESFIAVCGEQLDENGQNLIRVMAE 81 (134)
T ss_dssp HHHHHHHT-CSSCHHHHHHHHHHHHCSCCCHHHHHHHHHHHH
T ss_pred HHHHHHHC-ccCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence 57899999 9887766655553 34677776666666666
No 6
>3hhg_A Transcriptional regulator, LYSR family; transcription factor, structur genomics, oxford protein production facility, OPPF; 3.20A {Neisseria meningitidis serogroup B}
Probab=10.79 E-value=1.3e+02 Score=23.07 Aligned_cols=46 Identities=26% Similarity=0.339 Sum_probs=29.9
Q ss_pred HHHHHHhcCccccCCcchHHHHHHHHHhHHhHHHHHHHHHHHHHHhCCCCCCCCCccccccCCCCc
Q 029719 31 FERNAEAVELVVDNYDSEEEVVKNRKQKKATSMQLKKLQQELNAMLSRPLQPKTFSRHYLAGAGVS 96 (189)
Q Consensus 31 lkkAAEeLgIdlDsDd~e~e~~~~~Kq~k~~k~~lk~LraeLk~LLSqPL~~kg~S~kYlT~ggv~ 96 (189)
|.+||+.|+| +.. .-.+.+ .+|.+-|..|||-++-++=.||..|..
T Consensus 20 ~t~AA~~L~i------sq~----------avS~~i----~~LE~~lg~~Lf~R~~~~~~lT~~G~~ 65 (306)
T 3hhg_A 20 FSRAAEQLAM------ANS----------AVSRIV----KRLEEKLGVNLLNRTTRQLSLTEEGAQ 65 (306)
T ss_dssp HHHHHHHHTC------CHH----------HHHHHH----HHHHHHHTSCCEETTSSSCEECHHHHH
T ss_pred HHHHHHHhCC------CHH----------HHHHHH----HHHHHHhCCeeEeecCCCeeECHhHHH
Confidence 6788888887 210 112333 345566788999777777788887643
No 7
>1ixc_A CBNR, LYSR-type regulatory protein; long alpha helix connecting DNA binding and regulatory domai binding protein; 2.20A {Cupriavidus necator} SCOP: a.4.5.37 c.94.1.1 PDB: 1iz1_A
Probab=10.70 E-value=1.5e+02 Score=22.49 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=26.4
Q ss_pred HHHHHHhcCccccCCcchHHHHHHHHHhHHhHHHHHHHHHHHHHHhCCCCCCCCCccccccCCCCc
Q 029719 31 FERNAEAVELVVDNYDSEEEVVKNRKQKKATSMQLKKLQQELNAMLSRPLQPKTFSRHYLAGAGVS 96 (189)
Q Consensus 31 lkkAAEeLgIdlDsDd~e~e~~~~~Kq~k~~k~~lk~LraeLk~LLSqPL~~kg~S~kYlT~ggv~ 96 (189)
|.+||+.|+| +.. .-...+ ++|.+-|..|||-++-++=.||..|..
T Consensus 18 ~s~AA~~L~i------sq~----------avS~~i----~~LE~~lg~~Lf~R~~~~~~lT~~G~~ 63 (294)
T 1ixc_A 18 MAAAAKRLHV------SQP----------PITRQM----QALEADLGVVLLERSHRGIELTAAGHA 63 (294)
T ss_dssp HHHHHHHHTC------CHH----------HHHHHH----HHHHHHHTSCCBC-----CCBCHHHHH
T ss_pred HHHHHHHhCC------Ccc----------hHHHHH----HHHHHHHCCEEEEeCCCCeeECHhHHH
Confidence 6788888887 210 112233 345666789999777777778887643
No 8
>3eab_G CHMP1B; spastin, MIT, ESCRT, alternative splicing, ATP- binding, cytoplasm, disease mutation, hereditary spastic paraplegia, nucleotide-binding; 2.50A {Homo sapiens}
Probab=10.37 E-value=1.1e+02 Score=19.74 Aligned_cols=20 Identities=10% Similarity=0.038 Sum_probs=12.2
Q ss_pred hhHHHHHHHhcCccccCCcc
Q 029719 28 KTWFERNAEAVELVVDNYDS 47 (189)
Q Consensus 28 ~sWlkkAAEeLgIdlDsDd~ 47 (189)
++-|.|.|++.||++.....
T Consensus 3 d~Lm~qVaDE~Glel~~~L~ 22 (50)
T 3eab_G 3 DMLLQEMADEAGLDLNMELP 22 (50)
T ss_dssp CHHHHHHHHHTTCC------
T ss_pred HHHHHHHHHHhCchHHhhcc
Confidence 45688999999999987654
No 9
>3isp_A HTH-type transcriptional regulator RV1985C/MT2039; ROD shaped structure, DNA binding domain, regulatory domain, DNA-binding; 2.70A {Mycobacterium tuberculosis}
Probab=10.06 E-value=3.7e+02 Score=20.62 Aligned_cols=28 Identities=18% Similarity=0.230 Sum_probs=19.8
Q ss_pred HHHHHHhCCCCCCCCCccccccCCCCchh
Q 029719 70 QELNAMLSRPLQPKTFSRHYLAGAGVSPL 98 (189)
Q Consensus 70 aeLk~LLSqPL~~kg~S~kYlT~ggv~~l 98 (189)
..|.+-|.-|||-++ ++-.||..|...+
T Consensus 42 ~~LE~~lg~~Lf~R~-~~~~lT~~G~~l~ 69 (303)
T 3isp_A 42 KSLEQQVGQVLVVRE-KPCRATTAGIPLL 69 (303)
T ss_dssp HHHHHHHTSCCEECS-SSCEECGGGHHHH
T ss_pred HHHHHHhCCeeEEcC-CCCeeCchHHHHH
Confidence 456666789999777 5777888775443
No 10
>4h62_V Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=9.78 E-value=1.2e+02 Score=17.93 Aligned_cols=20 Identities=35% Similarity=0.601 Sum_probs=9.8
Q ss_pred cCCCCchhhHHhHHHHHHhh
Q 029719 91 AGAGVSPLLQRQLEEIAKEK 110 (189)
Q Consensus 91 T~ggv~~l~~~~~~~L~~~~ 110 (189)
+|.||...-++|+++|+++-
T Consensus 2 agsgvtrfdekqieelldnc 21 (31)
T 4h62_V 2 AGSGVTRFDEKQIEELLDNC 21 (31)
T ss_dssp --------CHHHHHHHHHHH
T ss_pred CCCccccccHHHHHHHHHHH
Confidence 35677777889999998843
Done!