Query 029325
Match_columns 195
No_of_seqs 22 out of 24
Neff 2.1
Searched_HMMs 29240
Date Mon Mar 25 18:08:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029325.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029325hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2nqb_D Histone H2B; nucleosome 53.0 13 0.00044 29.1 3.7 25 92-116 53-77 (123)
2 2k9j_B Integrin beta-3; transm 49.0 18 0.00063 23.2 3.4 29 153-182 13-41 (43)
3 2a2f_X Exocyst complex compone 48.6 16 0.00053 31.5 3.9 59 81-141 208-278 (325)
4 1tzy_B Histone H2B; histone-fo 48.1 17 0.00059 28.5 3.7 25 92-116 56-80 (126)
5 3fnn_A TS, tsase, thymidylate 46.9 84 0.0029 26.1 8.0 34 111-145 170-203 (256)
6 4a8j_A Elongator complex prote 43.6 15 0.0005 32.6 3.0 72 99-170 200-279 (361)
7 3gwc_A TS, tsase, thymidylate 42.7 27 0.00093 29.1 4.4 34 111-145 164-197 (258)
8 2pv4_A Uncharacterized protein 35.5 23 0.0008 28.6 2.7 30 89-119 102-131 (145)
9 2knc_B Integrin beta-3; transm 32.9 30 0.001 24.5 2.7 26 153-179 14-39 (79)
10 2cfa_A THYX, thymidylate synth 30.8 58 0.002 25.8 4.3 44 101-145 135-180 (217)
11 4gt9_A TS, tsase, thymidylate 30.1 69 0.0024 26.0 4.8 32 113-145 153-184 (232)
12 2jy0_A Protease NS2-3; membran 29.6 36 0.0012 20.6 2.3 17 152-168 4-20 (27)
13 3n3y_A Thymidylate synthase TH 23.9 75 0.0026 25.4 3.9 32 113-145 149-180 (216)
14 3dv9_A Beta-phosphoglucomutase 23.5 79 0.0027 22.3 3.5 32 127-158 22-53 (247)
15 3aa0_A F-actin-capping protein 21.5 49 0.0017 27.9 2.4 23 102-124 242-264 (286)
16 1d7q_A Translation initiation 20.0 75 0.0026 25.0 3.1 15 72-86 120-134 (143)
No 1
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Probab=52.98 E-value=13 Score=29.07 Aligned_cols=25 Identities=12% Similarity=0.453 Sum_probs=21.6
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHH
Q 029325 92 MDSSVDLLIRFLQATFKKVSKRAKK 116 (195)
Q Consensus 92 ~d~SlDLLvrFl~s~fkKvSkRArK 116 (195)
...+++.+..|+..+|.+|+..|-+
T Consensus 53 SskAm~ImnSfvnDiferIA~EAs~ 77 (123)
T 2nqb_D 53 SSKAMSIMNSFVNDIFERIAAEASR 77 (123)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999999999999887755
No 2
>2k9j_B Integrin beta-3; transmembrane complex, cell adhesion, cleavage on basic residues, disease mutation, glycoprotein, pyrrolidone carboxylic acid; NMR {Homo sapiens} PDB: 2rmz_A 2rn0_A 2l91_A
Probab=49.05 E-value=18 Score=23.15 Aligned_cols=29 Identities=14% Similarity=0.434 Sum_probs=21.9
Q ss_pred HHHhcchHHHHHHHHHHHHHHHHHHHHhcC
Q 029325 153 VVCSIGGTVFVLILLLRFIWAAISYFQSSG 182 (195)
Q Consensus 153 VvCtlGs~VFv~ILl~R~iWs~vsy~q~~~ 182 (195)
|....|++|+++++++ .+|-...+++..|
T Consensus 13 v~gvi~~ivliGl~lL-liwk~~~~i~Drr 41 (43)
T 2k9j_B 13 LLSVMGAILLIGLAAL-LIWKLLITIHDRK 41 (43)
T ss_dssp HHHHHHHHHHHHHHHH-HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHheehhh
Confidence 3467788888888776 5788888887765
No 3
>2a2f_X Exocyst complex component SEC15; all helical structure, protein transport; 2.50A {Drosophila melanogaster}
Probab=48.57 E-value=16 Score=31.46 Aligned_cols=59 Identities=10% Similarity=0.182 Sum_probs=36.7
Q ss_pred cccCCCCCCcccchhHHHHHHHHHHHHH-----------HHHHHH-HHhhhhccCCccCcceeeEeehhHHHH
Q 029325 81 IMDDISDDEDDMDSSVDLLIRFLQATFK-----------KVSKRA-KKASRSILPAAISPKLVSFAVDGILLL 141 (195)
Q Consensus 81 ~~~~~~ddede~d~SlDLLvrFl~s~fk-----------KvSkRA-rKA~RsvLP~~is~~LV~FsVnGvllL 141 (195)
|+-.+- .++....+.=|++||+++|. ++-.+| +.++++++-...+|++-.|..+||-=+
T Consensus 208 W~~~~~--~~~ps~yi~dli~fL~~~f~sl~~LP~~v~~~~~~~a~~his~~l~~~Ll~~~vk~in~~av~~~ 278 (325)
T 2a2f_X 208 WLLVEP--PGIASAFITDMISYLKSTFDSFAFKLPHIAQAACRRTFEHIAEKIYSIMYDEDVKQISTGALTQI 278 (325)
T ss_dssp CC------CCSCCHHHHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHHHHHHTC------CCTTHHHH
T ss_pred CCCCCC--CCCccHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhcCcchhhcCHHHHHHH
Confidence 776555 55677889999999999993 444444 456788888888898888999887544
No 4
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB: 1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D 3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D 3azj_D 3azk_D 3azl_D 3azm_D ...
Probab=48.11 E-value=17 Score=28.49 Aligned_cols=25 Identities=12% Similarity=0.438 Sum_probs=21.5
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHH
Q 029325 92 MDSSVDLLIRFLQATFKKVSKRAKK 116 (195)
Q Consensus 92 ~d~SlDLLvrFl~s~fkKvSkRArK 116 (195)
...+++.+..|+..+|.+|+..|-+
T Consensus 56 SskAm~ImnSfvnDiferIA~EAs~ 80 (126)
T 1tzy_B 56 SSKAMGIMNSFVNDIFERIAGEASR 80 (126)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999999999999887755
No 5
>3fnn_A TS, tsase, thymidylate synthase THYX; FAD, flavoprotein, methyltransferase, nucleotide biosynthesis, transferase; HET: FAD; 2.30A {Corynebacterium glutamicum} PDB: 3ge9_A
Probab=46.94 E-value=84 Score=26.13 Aligned_cols=34 Identities=24% Similarity=0.338 Sum_probs=27.2
Q ss_pred HHHHHHhhhhccCCccCcceeeEeehhHHHHHHHH
Q 029325 111 SKRAKKASRSILPAAISPKLVSFAVDGILLLASLS 145 (195)
Q Consensus 111 SkRArKA~RsvLP~~is~~LV~FsVnGvllLa~L~ 145 (195)
.+.|+..||.|||.+.-+++| +..|.-=++-|+.
T Consensus 170 ~g~a~E~AR~vLP~a~~T~i~-~t~N~Rsl~hfi~ 203 (256)
T 3fnn_A 170 KKQARQAARAVLPNATESRIV-VSGNFRTWRHFIG 203 (256)
T ss_dssp CHHHHHHHGGGCCTTBEEEEE-EEEEHHHHHHHHH
T ss_pred cccCHHHHHHhCccCCceEEE-EEEeHHHHHHHHH
Confidence 356899999999999888875 7888777766665
No 6
>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A
Probab=43.60 E-value=15 Score=32.62 Aligned_cols=72 Identities=15% Similarity=0.271 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccCCccCcceeeEe-ehhHHHHHHHHHHHHHHHH-------HHhcchHHHHHHHHHHH
Q 029325 99 LIRFLQATFKKVSKRAKKASRSILPAAISPKLVSFA-VDGILLLASLSILKALLEV-------VCSIGGTVFVLILLLRF 170 (195)
Q Consensus 99 LvrFl~s~fkKvSkRArKA~RsvLP~~is~~LV~Fs-VnGvllLa~L~ilKAlLEV-------vCtlGs~VFv~ILl~R~ 170 (195)
+.++|+.+-+++.+..++..|-++|.-.||.+-.-. -+.--++-||--|||||-- +||+-+-.|---++-|.
T Consensus 200 y~~lL~~I~~~i~~~~~~ilRIvI~SLgSP~wy~~~~~~~~~ll~FL~~LRaLlR~~~~~~v~~iTlP~~l~~~~l~~rl 279 (361)
T 4a8j_A 200 VSTILSQIEQTIKRNDKKLIRIVIPSLLHPAMYPPKMFESSEIIGLMHGVRSLVKKYYERVVLFASISIDIITPPLLVLL 279 (361)
T ss_dssp HHHHHHHHHHHHHHTTTSEEEEEETTTTCTTTSCGGGGBHHHHHHHHHHHHHHHHHTTTTEEEEEEEECTTSCHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCCceEEEEecCCCCcccCCCcccCHHHHHHHHHHHHHHHhhcCCceEEEEEEChHHcChHHHHHH
Confidence 345555555566567889999999999999874332 2567789999999999972 23666655544333333
No 7
>3gwc_A TS, tsase, thymidylate synthase THYX; FAD, fdump, flavoprotein, methyltransferase, nucleotid biosynthesis, transferase; HET: FAD UFP; 1.90A {Mycobacterium tuberculosis} PDB: 3hzg_A* 2af6_A* 2gq2_A*
Probab=42.69 E-value=27 Score=29.14 Aligned_cols=34 Identities=24% Similarity=0.346 Sum_probs=26.6
Q ss_pred HHHHHHhhhhccCCccCcceeeEeehhHHHHHHHH
Q 029325 111 SKRAKKASRSILPAAISPKLVSFAVDGILLLASLS 145 (195)
Q Consensus 111 SkRArKA~RsvLP~~is~~LV~FsVnGvllLa~L~ 145 (195)
.|.|+..||.|||.+.-+++| +..|.--++-|+.
T Consensus 164 ~g~A~E~AR~vLP~a~~T~i~-~T~N~Rsl~hfi~ 197 (258)
T 3gwc_A 164 RKQARQAARAVLPNATETRIV-VTGNYRAWRHFIA 197 (258)
T ss_dssp HHHHHHHHGGGCBTTBEEEEE-EEEEHHHHHHHHH
T ss_pred cccCHHHHHHhCcccCceeEE-EEEeHHHHHHHHH
Confidence 357889999999999888875 7788766666554
No 8
>2pv4_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.95A {Shewanella amazonensis} SCOP: a.286.1.1
Probab=35.49 E-value=23 Score=28.62 Aligned_cols=30 Identities=30% Similarity=0.349 Sum_probs=23.1
Q ss_pred CcccchhHHHHHHHHHHHHHHHHHHHHHhhh
Q 029325 89 EDDMDSSVDLLIRFLQATFKKVSKRAKKASR 119 (195)
Q Consensus 89 ede~d~SlDLLvrFl~s~fkKvSkRArKA~R 119 (195)
++++|-.- +|-|.+++-.|...|.-|||=|
T Consensus 102 ~~~~EY~~-l~~rv~~~~lKe~vKkLKKARt 131 (145)
T 2pv4_A 102 IAEQEYSG-LYVRVAEAALKESVKKLKKART 131 (145)
T ss_dssp SCHHHHHH-HHHHHHHTHHHHHHHHHHHHTT
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHcc
Confidence 33333333 9999999999999999999854
No 9
>2knc_B Integrin beta-3; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=32.86 E-value=30 Score=24.50 Aligned_cols=26 Identities=15% Similarity=0.494 Sum_probs=16.5
Q ss_pred HHHhcchHHHHHHHHHHHHHHHHHHHH
Q 029325 153 VVCSIGGTVFVLILLLRFIWAAISYFQ 179 (195)
Q Consensus 153 VvCtlGs~VFv~ILl~R~iWs~vsy~q 179 (195)
|...+|++|.++++++ .+|-.+.+++
T Consensus 14 v~gvi~gilliGllll-liwk~~~~i~ 39 (79)
T 2knc_B 14 LLSVMGAILLIGLAAL-LIWKLLITIH 39 (79)
T ss_dssp HHHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 3456777777777665 5666666654
No 10
>2cfa_A THYX, thymidylate synthase; FDTS, TSCP, flavin dependent thymidylate synthase FAD, flavoprotein, nucleotide biosynthesis; HET: CME FAD; 2.3A {Paramecium bursaria chlorella virus 1} PDB: 2cfa_B*
Probab=30.84 E-value=58 Score=25.84 Aligned_cols=44 Identities=16% Similarity=0.111 Sum_probs=31.3
Q ss_pred HHHHHHHHHHH--HHHHHhhhhccCCccCcceeeEeehhHHHHHHHH
Q 029325 101 RFLQATFKKVS--KRAKKASRSILPAAISPKLVSFAVDGILLLASLS 145 (195)
Q Consensus 101 rFl~s~fkKvS--kRArKA~RsvLP~~is~~LV~FsVnGvllLa~L~ 145 (195)
+-....|+++- ..|+..||.+||.+.-+++| +.+|.-=++-|+.
T Consensus 135 ~~a~~~Y~~ll~~g~a~E~AR~vLP~a~~T~~~-~t~N~R~l~hf~~ 180 (217)
T 2cfa_A 135 AQSMELYNKALEKGIAKECARFILPLSTPTTIY-MSGTIRDWIHYIE 180 (217)
T ss_dssp HHHHHHHHHHHHTTCCHHHHGGGSCTTSEEEEE-EEEEHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHhCcccceeEEE-EEEeHHHHHHHHH
Confidence 34444555553 34688999999999888875 6788876666664
No 11
>4gt9_A TS, tsase, thymidylate synthase THYX; flavin-dependent thymidylate synthase, TM0449, FAD, DUMP, 5, methylenetetrahydrofolate, transferase; HET: FAD UMP MEF; 1.39A {Thermotoga maritima} PDB: 1kq4_A 1o25_A* 1o24_A* 1o27_A* 1o28_A* 1o29_A* 1o2a_A* 1o2b_A* 1o26_A* 4gta_A* 4gtb_A* 4gtl_A* 3g4a_A* 3g4c_A* 4gtd_A* 4gtc_A* 4gte_A* 4gtf_A* 3n0b_A* 3n0c_A*
Probab=30.11 E-value=69 Score=25.98 Aligned_cols=32 Identities=19% Similarity=0.415 Sum_probs=23.9
Q ss_pred HHHHhhhhccCCccCcceeeEeehhHHHHHHHH
Q 029325 113 RAKKASRSILPAAISPKLVSFAVDGILLLASLS 145 (195)
Q Consensus 113 RArKA~RsvLP~~is~~LV~FsVnGvllLa~L~ 145 (195)
.||..||.|||.+.-+++| +..|--=++=|+.
T Consensus 153 va~E~AR~vLP~a~~T~~~-~T~NlRsl~hfi~ 184 (232)
T 4gt9_A 153 VPREVARIVLPLNLYTRFF-WTVNARSLMNFLN 184 (232)
T ss_dssp CCHHHHGGGSCTTBEEEEE-EEEEHHHHHHHHH
T ss_pred CcHHHHHhhcccceEEEEE-EEEeHHHHHHHHH
Confidence 4678899999999988876 4666655555554
No 12
>2jy0_A Protease NS2-3; membrane segment, HCV NS2 protein, membrane protein, viral protein; NMR {Synthetic}
Probab=29.60 E-value=36 Score=20.60 Aligned_cols=17 Identities=53% Similarity=0.843 Sum_probs=14.0
Q ss_pred HHHHhcchHHHHHHHHH
Q 029325 152 EVVCSIGGTVFVLILLL 168 (195)
Q Consensus 152 EVvCtlGs~VFv~ILl~ 168 (195)
|.--++|..||+.|.++
T Consensus 4 e~aas~G~~vlv~lti~ 20 (27)
T 2jy0_A 4 EMAASAGGAVFVGLVLL 20 (27)
T ss_dssp HHHHTTSSHHHHHHHHH
T ss_pred HHHhhhhhHHHHHHHHH
Confidence 56678999999998765
No 13
>3n3y_A Thymidylate synthase THYX; transferase; HET: UMP FAD; 2.31A {Helicobacter pylori} PDB: 3ah5_A*
Probab=23.91 E-value=75 Score=25.41 Aligned_cols=32 Identities=13% Similarity=0.284 Sum_probs=26.0
Q ss_pred HHHHhhhhccCCccCcceeeEeehhHHHHHHHH
Q 029325 113 RAKKASRSILPAAISPKLVSFAVDGILLLASLS 145 (195)
Q Consensus 113 RArKA~RsvLP~~is~~LV~FsVnGvllLa~L~ 145 (195)
.|+..||.|||.+.-+++| +..|.--++=|+.
T Consensus 149 ~a~E~AR~vLP~a~~T~~~-~t~N~R~l~hf~~ 180 (216)
T 3n3y_A 149 IKNDLAKYAMPESYKTHLA-YSINARSLQNLLT 180 (216)
T ss_dssp CCHHHHGGGCBTTBEEEEE-EEEEHHHHHHHHH
T ss_pred CCHHHHHHhCcCCCceEEE-EEEeHHHHHHHHH
Confidence 5789999999999888876 6788777766665
No 14
>3dv9_A Beta-phosphoglucomutase; structural genomics, APC60149, PSI- protein structure initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.72A {Bacteroides vulgatus}
Probab=23.50 E-value=79 Score=22.29 Aligned_cols=32 Identities=22% Similarity=0.328 Sum_probs=21.1
Q ss_pred CcceeeEeehhHHHHHHHHHHHHHHHHHHhcc
Q 029325 127 SPKLVSFAVDGILLLASLSILKALLEVVCSIG 158 (195)
Q Consensus 127 s~~LV~FsVnGvllLa~L~ilKAlLEVvCtlG 158 (195)
..++|-|=+||+|+=.--.+.+++.+++-.+|
T Consensus 22 ~~k~i~fDlDGTL~d~~~~~~~~~~~~~~~~g 53 (247)
T 3dv9_A 22 DLKAVLFDMDGVLFDSMPNHAESWHKIMKRFG 53 (247)
T ss_dssp CCCEEEEESBTTTBCCHHHHHHHHHHHHHHTT
T ss_pred CCCEEEECCCCccCcCHHHHHHHHHHHHHHcC
Confidence 46899999999997554444455555443333
No 15
>3aa0_A F-actin-capping protein subunit alpha-1; actin capping protein, barbed END regulation, carmil family conformational change; 1.70A {Gallus gallus} PDB: 2kz7_A 1izn_A 3aa1_A* 3aa6_A 3aa7_A* 3aaa_A 3aae_A 3lk2_A 3lk3_A 3lk4_A 2kxp_A
Probab=21.52 E-value=49 Score=27.88 Aligned_cols=23 Identities=26% Similarity=0.394 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHhhhhccCC
Q 029325 102 FLQATFKKVSKRAKKASRSILPA 124 (195)
Q Consensus 102 Fl~s~fkKvSkRArKA~RsvLP~ 124 (195)
-|+.+|-.+++.+-|+.|+.||.
T Consensus 242 ~L~e~y~~ls~~~fk~LRR~LPv 264 (286)
T 3aa0_A 242 AISENYQTMSDTTFKALRRQLPV 264 (286)
T ss_dssp HHHHHHHHHHHTHHHHHCCSSCT
T ss_pred HHHHHHHHhhHHHHHHHhccCCc
Confidence 34567888899999999999996
No 16
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding protein, gene regulation; NMR {Homo sapiens} SCOP: b.40.4.5
Probab=20.01 E-value=75 Score=25.02 Aligned_cols=15 Identities=40% Similarity=0.601 Sum_probs=6.3
Q ss_pred cCCCCCCCCcccCCC
Q 029325 72 FDEGVDGGAIMDDIS 86 (195)
Q Consensus 72 fd~~~D~~~~~~~~~ 86 (195)
|+++.|++..+++++
T Consensus 120 ~~~~~~~~~~f~~~~ 134 (143)
T 1d7q_A 120 FGPGDDDEIQFDDIG 134 (143)
T ss_dssp SSCCCCCCCCCCCSC
T ss_pred ccCCCCccceeccCc
Confidence 443334444454433
Done!