Query 023523
Match_columns 281
No_of_seqs 125 out of 160
Neff 2.5
Searched_HMMs 29240
Date Mon Mar 25 08:16:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023523.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023523hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1nh2_B Transcription initiatio 99.9 7.7E-24 2.6E-28 152.4 5.8 53 2-54 1-53 (53)
2 1nvp_B Transcription initiatio 99.9 9.4E-23 3.2E-27 148.8 5.6 51 2-52 5-55 (57)
3 1rm1_C Transcription initiatio 99.8 3E-20 1E-24 170.2 6.1 60 1-60 1-61 (286)
4 4egx_A Kinesin-like protein KI 65.3 5.2 0.00018 33.7 3.7 20 31-50 17-36 (184)
5 2kzc_A Uncharacterized protein 63.5 5.7 0.0002 30.9 3.3 31 15-49 47-77 (85)
6 1x4t_A Hypothetical protein LO 51.8 43 0.0015 26.5 6.6 47 5-52 25-81 (92)
7 3vej_A Ubiquitin-like protein 36.9 14 0.00047 25.7 1.4 22 23-44 17-39 (41)
8 1orj_A Flagellar protein FLIS; 36.7 10 0.00034 30.7 0.8 41 6-47 82-122 (130)
9 2v8f_C MDIA1, profilin IIA; al 31.9 30 0.001 22.0 2.2 17 111-127 6-22 (26)
10 2gm6_A Cysteine dioxygenase ty 28.2 46 0.0016 28.2 3.5 48 1-48 2-50 (208)
11 1pp9_B Ubiquinol-cytochrome C 24.4 1.3E+02 0.0043 25.6 5.6 24 25-48 347-370 (439)
12 3r46_A Coiled coil helix L24D; 24.1 66 0.0023 21.4 2.9 18 34-51 14-32 (35)
13 3l1n_A MP1P, cell WALL antigen 23.4 72 0.0025 27.2 3.9 29 12-41 125-153 (194)
14 3d3y_A Uncharacterized protein 22.2 1.5E+02 0.0052 24.8 5.6 25 24-48 339-363 (425)
15 2lnz_A Ubiquitin-like protein 20.9 46 0.0016 25.0 1.9 13 32-44 50-62 (64)
16 2ll0_A Uncharacterized protein 20.5 48 0.0016 26.6 2.0 30 15-48 66-95 (104)
No 1
>1nh2_B Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: a.32.1.1 PDB: 1ytf_B*
Probab=99.89 E-value=7.7e-24 Score=152.43 Aligned_cols=53 Identities=30% Similarity=0.586 Sum_probs=45.6
Q ss_pred CCChhhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHHhccccc
Q 023523 2 ATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIID 54 (281)
Q Consensus 2 SNs~VskVYrsVIEDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQSgAaif 54 (281)
||+.|++||++||+|||++||++|+++||||+||+|||++||+||+|+||+.|
T Consensus 1 sn~~v~~vY~~VI~dVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~va~F 53 (53)
T 1nh2_B 1 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTF 53 (53)
T ss_dssp -CHHHHHHHHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHHHHHC------
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHcCCCCC
Confidence 68899999999999999999999999999999999999999999999999865
No 2
>1nvp_B Transcription initiation factor IIA alpha chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1
Probab=99.87 E-value=9.4e-23 Score=148.75 Aligned_cols=51 Identities=43% Similarity=0.721 Sum_probs=42.8
Q ss_pred CCChhhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHHhccc
Q 023523 2 ATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVI 52 (281)
Q Consensus 2 SNs~VskVYrsVIEDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQSgAa 52 (281)
+|+.|++||++||+|||++||++|+++||||+||+|||++||+||+|+||+
T Consensus 5 ~~~~v~~vY~~VIedVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~a~ 55 (57)
T 1nvp_B 5 NTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAV 55 (57)
T ss_dssp ---CHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC-----
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCC
Confidence 478899999999999999999999999999999999999999999999987
No 3
>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae}
Probab=99.80 E-value=3e-20 Score=170.17 Aligned_cols=60 Identities=28% Similarity=0.528 Sum_probs=55.5
Q ss_pred CCCChhhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHHhcccccC-CCCCC
Q 023523 1 MATSATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQAGVIIDR-TSAPK 60 (281)
Q Consensus 1 MSNs~VskVYrsVIEDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQSgAaifp-d~AP~ 60 (281)
|||..|++||++||+|||++||++|+++||||+||+|||++||+||+|+||++|+ ++++.
T Consensus 1 MSn~~vskvY~~VIedVI~~VR~dF~deGVDE~VL~ELk~~We~KL~qsgv~~f~~dp~~~ 61 (286)
T 1rm1_C 1 MSNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFSWDNQFN 61 (286)
T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHTSSCCTTGGGGC
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHhcCcccCCCCcCcc
Confidence 9999999999999999999999999999999999999999999999999999887 44443
No 4
>4egx_A Kinesin-like protein KIF1A; FHA domain, transport protein; 2.51A {Homo sapiens}
Probab=65.26 E-value=5.2 Score=33.69 Aligned_cols=20 Identities=30% Similarity=0.597 Sum_probs=16.9
Q ss_pred ChHHHHHHHHHHHHHHHHhc
Q 023523 31 GESVLNELQGIWEMKMIQAG 50 (281)
Q Consensus 31 DEqVLqELKqlWE~KLsQSg 50 (281)
.|.-++||++.|++||.++.
T Consensus 17 ~e~l~~el~~tWeeKl~~te 36 (184)
T 4egx_A 17 TEKIIAELNETWEEKLRRTE 36 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHH
Confidence 47889999999999997653
No 5
>2kzc_A Uncharacterized protein; DUF1476, JCSG, structutral genomics, PSI-biology, protein ST initiative, structural genomics; NMR {Jannaschia SP}
Probab=63.51 E-value=5.7 Score=30.91 Aligned_cols=31 Identities=32% Similarity=0.397 Sum_probs=23.9
Q ss_pred HHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHHh
Q 023523 15 EDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQA 49 (281)
Q Consensus 15 EDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQS 49 (281)
+|||++|+.||...|+ ..+|+..-.+.|.+.
T Consensus 47 edV~rKv~~DL~a~gv----e~~iR~km~e~l~~A 77 (85)
T 2kzc_A 47 EDVMRKVLGDLDGKRP----EAEVRAKYEGLMAVA 77 (85)
T ss_dssp SHHHHHHHHHHTTSSC----HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCc----HHHHHHHHHHHHHHH
Confidence 6999999999999999 555665555555554
No 6
>1x4t_A Hypothetical protein LOC57905; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.2.15.1
Probab=51.84 E-value=43 Score=26.48 Aligned_cols=47 Identities=26% Similarity=0.442 Sum_probs=37.6
Q ss_pred hhhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHH----------HHHHHHHHHHhccc
Q 023523 5 ATGMVYIRVIEDVISKVRDEFVNNGPGESVLNEL----------QGIWEMKMIQAGVI 52 (281)
Q Consensus 5 ~VskVYrsVIEDVIn~VReDFeeeGVDEqVLqEL----------KqlWE~KLsQSgAa 52 (281)
++-+..+.||.|+-++|.. -.|.|+.|..+.|| |..||.++.++|=.
T Consensus 25 ~AekWR~qvikEIs~Kv~~-Iqn~~L~E~~IRdLNDEINkL~rEK~~WE~rI~eLGGp 81 (92)
T 1x4t_A 25 KAEKWRRQIIGEISKKVAQ-IQNAGLGEFRIRDLNDEINKLLREKGHWEVRIKELGGP 81 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHH-HHHCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred HHHHHHHHHHHHHHHHHHH-hhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3446778899999888865 47889999988877 55899999998865
No 7
>3vej_A Ubiquitin-like protein MDY2; alpha helical, dimerization, homodimerization, protein bindi; 1.23A {Saccharomyces cerevisiae}
Probab=36.95 E-value=14 Score=25.67 Aligned_cols=22 Identities=27% Similarity=0.613 Sum_probs=15.7
Q ss_pred HHHHhCCCC-hHHHHHHHHHHHH
Q 023523 23 DEFVNNGPG-ESVLNELQGIWEM 44 (281)
Q Consensus 23 eDFeeeGVD-EqVLqELKqlWE~ 44 (281)
..|.|..-- +.+|+.||+.|+-
T Consensus 17 ~~~~d~~~a~~~~L~RLqkGWel 39 (41)
T 3vej_A 17 NNFENDQAAVRQVMERLQKGWSL 39 (41)
T ss_dssp HHTTTCHHHHHHHHHHHHHHHHH
T ss_pred HHhcChHHHHHHHHHHHHhcccc
Confidence 345555533 4899999999983
No 8
>1orj_A Flagellar protein FLIS; flagellin, flagellar export, chaperone, flagellum, four HELI; 2.25A {Aquifex aeolicus} SCOP: a.24.19.1 PDB: 1ory_A
Probab=36.70 E-value=10 Score=30.67 Aligned_cols=41 Identities=17% Similarity=0.242 Sum_probs=29.4
Q ss_pred hhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHH
Q 023523 6 TGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMI 47 (281)
Q Consensus 6 VskVYrsVIEDVIn~VReDFeeeGVDEqVLqELKqlWE~KLs 47 (281)
..++|..++..+ .+++.|-+.----..+|.+|+..|++=..
T Consensus 82 L~~LY~y~~~~L-An~~~d~~~l~ev~~ll~~lreaW~~i~~ 122 (130)
T 1orj_A 82 LDTIYTIILNTL-VKVDKTKEELQKILEILKDLREAWEEVKK 122 (130)
T ss_dssp HHHHHHHHHHHH-HCTTCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH-hcccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 458999999999 88776633222224689999999987543
No 9
>2v8f_C MDIA1, profilin IIA; alternative splicing, protein-binding, cytoplasm, acetylation, cytoskeleton, actin-binding; 1.1A {Mus musculus}
Probab=31.94 E-value=30 Score=22.03 Aligned_cols=17 Identities=53% Similarity=1.122 Sum_probs=9.9
Q ss_pred CCCCCCCCCCCCCCCCC
Q 023523 111 PLPGSTPLPGSTPLPGT 127 (281)
Q Consensus 111 ~~~~~~~~~~~~~~~g~ 127 (281)
||||...+|-..||||.
T Consensus 6 plPg~~giPpPpplPg~ 22 (26)
T 2v8f_C 6 PLPGVASIPPPPPLPGX 22 (26)
T ss_pred CCCCCCCCCCCCCCCCc
Confidence 44555555666666663
No 10
>2gm6_A Cysteine dioxygenase type I; structural genomics, J center for structural genomics, JCSG, protein structure INI PSI-2, oxidoreductase; 1.84A {Ralstonia eutropha} SCOP: b.82.1.19
Probab=28.16 E-value=46 Score=28.23 Aligned_cols=48 Identities=13% Similarity=0.171 Sum_probs=30.4
Q ss_pred CCCC-hhhHhHHHHHHHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHH
Q 023523 1 MATS-ATGMVYIRVIEDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQ 48 (281)
Q Consensus 1 MSNs-~VskVYrsVIEDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQ 48 (281)
||.+ +.+..=..-+++.|..+|..|.+...+..+|++|+.+=++=+..
T Consensus 2 ~~~~~~~~~~~~~~l~~fi~~l~~~~~~~~~~~~~l~~l~~ll~~l~~~ 50 (208)
T 2gm6_A 2 MSESPTAGRASLAPLREFITGLSALLDEQPGEARILREGGALLARLVAR 50 (208)
T ss_dssp ----------CCHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHS
T ss_pred CcCCCCcCcCCcHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHhcC
Confidence 5553 33333335689999999999996557778889999887775544
No 11
>1pp9_B Ubiquinol-cytochrome C reductase complex core Pro mitochondrial; cytochrome BC1, membrane protein, heme protein, rieske iron protein, cytochrome B, complex III; HET: BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP: d.185.1.1 d.185.1.1 PDB: 1bgy_B* 1be3_B* 1l0n_B* 1ntk_B* 1ntm_B* 1ntz_B* 1nu1_B* 1l0l_B* 1ppj_B* 1sqq_B* 1sqv_B* 1sqx_B* 2a06_B* 2fyu_B* 2ybb_B* 1sqb_B* 1sqp_B* 1qcr_B* 2bcc_B* 3bcc_B* ...
Probab=24.38 E-value=1.3e+02 Score=25.60 Aligned_cols=24 Identities=0% Similarity=0.010 Sum_probs=19.4
Q ss_pred HHhCCCChHHHHHHHHHHHHHHHH
Q 023523 25 FVNNGPGESVLNELQGIWEMKMIQ 48 (281)
Q Consensus 25 FeeeGVDEqVLqELKqlWE~KLsQ 48 (281)
+.+.|++++-|++.|+.+...+..
T Consensus 347 l~~~~~t~~el~~ak~~~~~~~~~ 370 (439)
T 1pp9_B 347 IAQGNLSNPDVQAAKNKLKAGYLM 370 (439)
T ss_dssp HHTTCCCHHHHHHHHHHHHHHHHH
T ss_pred HhcCCCCHHHHHHHHHHHHHHHHH
Confidence 345799999999999988777654
No 12
>3r46_A Coiled coil helix L24D; coiled coil domain, parallel hexamer, KIH interactions, HYDR channel, synthetic biology, de novo protein; 1.75A {Synthetic} PDB: 3r48_A 3r47_A 3r3k_A* 3r48_B 3r4a_A
Probab=24.08 E-value=66 Score=21.43 Aligned_cols=18 Identities=44% Similarity=0.813 Sum_probs=13.3
Q ss_pred HHHHHHHH-HHHHHHHhcc
Q 023523 34 VLNELQGI-WEMKMIQAGV 51 (281)
Q Consensus 34 VLqELKql-WE~KLsQSgA 51 (281)
+-.|||.+ ||.|-...|+
T Consensus 14 iakelkaiawedkaiaqga 32 (35)
T 3r46_A 14 IAKELKAIAWEDKAIAQGA 32 (35)
T ss_dssp HHHHHHHHHHHHHHHHHC-
T ss_pred HHHHHHHHHhhHHHHHccc
Confidence 45677765 9999988775
No 13
>3l1n_A MP1P, cell WALL antigen; helix-turn-helix, protein-ligand complex, lipid binding PROT; HET: PLM; 1.30A {Penicillium marneffei}
Probab=23.45 E-value=72 Score=27.23 Aligned_cols=29 Identities=31% Similarity=0.491 Sum_probs=22.4
Q ss_pred HHHHHHHHhhHHHHHhCCCChHHHHHHHHH
Q 023523 12 RVIEDVISKVRDEFVNNGPGESVLNELQGI 41 (281)
Q Consensus 12 sVIEDVIn~VReDFeeeGVDEqVLqELKql 41 (281)
..|+++|++ |..|+..|++..|+..|+++
T Consensus 125 ~~l~~Li~K-K~~f~~~G~~~~V~~~L~~q 153 (194)
T 3l1n_A 125 LAIQNLIDK-KEPLVQAGFGGKVENNLRQQ 153 (194)
T ss_dssp HHHHHHHHT-HHHHHHTTCHHHHHHHHHHH
T ss_pred HHHHHHHHh-HHHHHHcCCCHHHHHHHHHH
Confidence 344444443 77899999999999999975
No 14
>3d3y_A Uncharacterized protein; APC29635, conserved protein, enterococcus faecalis V583, STR genomics, PSI-2, protein structure initiative; 1.95A {Enterococcus faecalis}
Probab=22.18 E-value=1.5e+02 Score=24.82 Aligned_cols=25 Identities=8% Similarity=0.040 Sum_probs=19.9
Q ss_pred HHHhCCCChHHHHHHHHHHHHHHHH
Q 023523 24 EFVNNGPGESVLNELQGIWEMKMIQ 48 (281)
Q Consensus 24 DFeeeGVDEqVLqELKqlWE~KLsQ 48 (281)
.+.+.|+++.-|+..|+.....+..
T Consensus 339 ~l~~~~~~~~el~~ak~~~~~~~~~ 363 (425)
T 3d3y_A 339 NIRLGKIRELEIEQTKAMLKNQYIL 363 (425)
T ss_dssp HHHTTCCCHHHHHHHHHHHHHHHHH
T ss_pred HHHcCCCCHHHHHHHHHHHHHhHHh
Confidence 3455799999999999988777654
No 15
>2lnz_A Ubiquitin-like protein MDY2; dimerization, homodimerization, protein binding; NMR {Saccharomyces cerevisiae}
Probab=20.93 E-value=46 Score=24.99 Aligned_cols=13 Identities=31% Similarity=0.677 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHHH
Q 023523 32 ESVLNELQGIWEM 44 (281)
Q Consensus 32 EqVLqELKqlWE~ 44 (281)
-.+|+.||+.|+-
T Consensus 50 ~~~LqRLQKGWeL 62 (64)
T 2lnz_A 50 RQVMERLQKGWSL 62 (64)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhcc
Confidence 3789999999973
No 16
>2ll0_A Uncharacterized protein; structural genomics, joint center for structural genomics, J unknown function; NMR {Paracoccus denitrificans}
Probab=20.54 E-value=48 Score=26.61 Aligned_cols=30 Identities=13% Similarity=0.070 Sum_probs=19.3
Q ss_pred HHHHHhhHHHHHhCCCChHHHHHHHHHHHHHHHH
Q 023523 15 EDVISKVRDEFVNNGPGESVLNELQGIWEMKMIQ 48 (281)
Q Consensus 15 EDVIn~VReDFeeeGVDEqVLqELKqlWE~KLsQ 48 (281)
+|||++|+.|| |++. ...+|+..-.+.|.+
T Consensus 66 edv~rkv~~DL---g~~~-se~~iR~km~e~l~~ 95 (104)
T 2ll0_A 66 EDVFRKLAADL---EGKA-DEETIRAKMVELRAT 95 (104)
T ss_dssp THHHHHHHHHH---TTTC-CHHHHHHHHHHTHHH
T ss_pred HHHHHHHHHHh---CCcc-CHHHHHHHHHHHHHH
Confidence 68999999999 7632 234555544444443
Done!