Query 004949
Match_columns 722
No_of_seqs 120 out of 141
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 10:45:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004949.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004949hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3vmt_A Monofunctional glycosyl 66.0 4.5 0.00015 41.8 4.1 27 59-85 34-60 (263)
2 3tzt_A Glycosyl transferase fa 45.7 6.9 0.00024 39.2 1.4 48 537-586 88-136 (276)
3 1g9r_A Glycosyl transferase; a 41.4 10 0.00035 38.2 1.9 109 537-679 84-198 (311)
4 3j1r_A Archaeal adhesion filam 31.0 51 0.0017 23.5 3.5 15 71-85 12-26 (26)
5 2a9h_A Voltage-gated potassium 30.5 28 0.00095 32.6 2.8 18 70-87 59-76 (155)
6 4g1u_A Hemin transport system 29.7 29 0.00099 36.8 3.1 9 18-26 7-15 (357)
7 1ypf_A GMP reductase; GUAC, pu 29.6 13 0.00044 38.3 0.4 18 14-31 1-18 (336)
8 2jwa_A Receptor tyrosine-prote 29.2 45 0.0015 26.2 3.3 28 59-86 10-37 (44)
9 3vis_A Esterase; alpha/beta-hy 26.8 14 0.00046 35.8 0.0 12 17-28 1-12 (306)
10 2iai_A Putative transcriptiona 26.7 39 0.0013 31.0 3.0 11 14-24 2-12 (230)
11 2ks1_B Epidermal growth factor 26.5 54 0.0018 25.6 3.3 29 60-88 10-39 (44)
12 2qrj_A Saccharopine dehydrogen 24.8 25 0.00086 37.9 1.6 41 424-469 264-306 (394)
13 2kse_A Sensor protein QSEC; me 24.7 52 0.0018 28.5 3.3 31 59-89 12-42 (186)
14 1iij_A ERBB-2 receptor protein 23.4 11 0.00039 28.3 -0.9 26 59-84 6-31 (35)
15 2kxn_B Transformer-2 protein h 22.8 27 0.00093 30.8 1.2 21 14-34 2-22 (129)
16 3un6_A Hypothetical protein sa 22.3 19 0.00063 35.7 0.0 8 14-21 2-9 (341)
No 1
>3vmt_A Monofunctional glycosyltransferase; transmembrane, bacterial cell WALL SYNT membrane; HET: LHI; 2.30A {Staphylococcus aureus} PDB: 3vmr_A* 3vms_A 3vmq_A*
Probab=66.01 E-value=4.5 Score=41.77 Aligned_cols=27 Identities=15% Similarity=0.426 Sum_probs=12.7
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHhhc
Q 004949 59 RRLSIGSVIFVLLLVLLATVLAYLYIS 85 (722)
Q Consensus 59 ~~~~~~~~~~~~~~~l~~~v~~~~~~s 85 (722)
+++-.+.++++|.+++++..++|.+..
T Consensus 34 ~~~~~~~~~~~l~~~~~~~~~~~~~~~ 60 (263)
T 3vmt_A 34 KRILLKILLTILIIIALFIGIMYFLST 60 (263)
T ss_dssp -CCTTHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 445555555555555544444444433
No 2
>3tzt_A Glycosyl transferase family 8; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, putative glycosyl transferase; HET: MSE CIT; 2.10A {Anaerococcus prevotii} SCOP: c.68.1.0
Probab=45.73 E-value=6.9 Score=39.15 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=39.4
Q ss_pred ccccccccCCC-CCCEEEEEeCceeEecCHHHHHHHHHhcCCCeEEEecCC
Q 004949 537 IPKLLPHRLFP-SARYSIWLDSKLRLQRDPLLILEYFLWRKGYEYAISNHY 586 (722)
Q Consensus 537 ipKiLpHRLFP-nyrYSIWIDgKIqL~~DPllLLE~fLwr~n~~fAIskHp 586 (722)
+.|++...||| +++--||||+-+.+..|+..|.+.-+ ++..+|+..+.
T Consensus 88 ~~rl~~~~l~p~~~~kvlylD~D~iv~~di~~L~~~dl--~~~~~aav~d~ 136 (276)
T 3tzt_A 88 YYRLLAGEFLPENLGEILYLDPDMLVINPLDDLLRTDI--SDYILAAASHT 136 (276)
T ss_dssp HHHHTHHHHSCTTCCEEEEECSSEEECSCSHHHHTCCC--TTSSEEEEEC-
T ss_pred HHHHHHHHHcccccCeEEEEeCCeeecCCHHHHhhcCC--CCCeEEEEEec
Confidence 57888999999 69999999999999999998887432 55678888763
No 3
>1g9r_A Glycosyl transferase; alpha-beta structure; HET: UPF; 2.00A {Neisseria meningitidis} SCOP: c.68.1.4 PDB: 1ga8_A* 1ss9_A*
Probab=41.43 E-value=10 Score=38.18 Aligned_cols=109 Identities=12% Similarity=0.086 Sum_probs=66.3
Q ss_pred ccccccccCCCCCCEEEEEeCceeEecCHHHHHHHHHhcCCCeEEEecCCCCCcHHHHHHHHHHhccCChHHHHHHHHHH
Q 004949 537 IPKLLPHRLFPSARYSIWLDSKLRLQRDPLLILEYFLWRKGYEYAISNHYDRHCVWEEVAQNKKLNKYNHTVIDQQFAFY 616 (722)
Q Consensus 537 ipKiLpHRLFPnyrYSIWIDgKIqL~~DPllLLE~fLwr~n~~fAIskHp~R~CVYEEAeackrl~K~~~~~Id~Qme~Y 616 (722)
+.|++...+||+++-.||||+=+.+..|+..|.+.-+ ++..+|+..+ |.. + .. ....
T Consensus 84 y~Rl~l~~ll~~~~kvlyLD~D~iv~~di~eL~~~~l--~~~~~aav~d----~~~-~------~~----------~~~~ 140 (311)
T 1g9r_A 84 YARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDL--GDNWLGASID----LFV-E------RQ----------EGYK 140 (311)
T ss_dssp GGGGGHHHHCCSCSCEEEECSSEEECSCCHHHHTCCC--TTCSEEEEEC----HHH-H------TS----------TTHH
T ss_pred HHHHHHHHHhhhcCEEEEEcCCeEeccCHHHHhccCC--CCcEEEEEec----cch-h------hh----------HHHH
Confidence 5677778889999999999999999999998887422 5566777654 321 1 00 0112
Q ss_pred HHcCCCCCCCCCCCCCCCCCCCCceEEEccCC-----cchhhhHHHHHHHH-hcCCCCCcchHHHHHHH
Q 004949 617 QADGLKRFDPSDPDRLLPSNVPEGSFIVRAHT-----PMSNLFSCLWFNEV-DRFTSRDQLSFAYTYQK 679 (722)
Q Consensus 617 k~eGLp~~~~sdp~kl~pSdLpEgnVIVReHt-----p~sNlFmCLWFNEV-~rFS~RDQLSFaYVlwK 679 (722)
...|+++. ...+-++|+|=+-. ..... .-.|.++. .++.--||=-++.++..
T Consensus 141 ~~~~~~~~----------~~yfNsGv~linl~~~r~~~~~~~-~~~~~~~~~~~~~~~DQd~lN~~f~~ 198 (311)
T 1g9r_A 141 QKIGMADG----------EYYFNAGVLLINLKKWRRHDIFKM-SSEWVEQYKDVMQYQDQDILNGLFKG 198 (311)
T ss_dssp HHTTCCTT----------SCCEEEEEEEECHHHHTTSCHHHH-HHHHHHHHTTTCSSHHHHHHHHHHTT
T ss_pred HhcCCCCC----------CceEeeeeeeeeHHHHHhcchHHH-HHHHHHhccCcCccCCcCHHHHHHcC
Confidence 34465432 13567788765432 11121 12344443 23555799888887753
No 4
>3j1r_A Archaeal adhesion filament core; helical polymer, flagellar filament, cell adhesion, structur protein; 7.50A {Ignicoccus hospitalis}
Probab=31.04 E-value=51 Score=23.51 Aligned_cols=15 Identities=40% Similarity=0.724 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHhhc
Q 004949 71 LLVLLATVLAYLYIS 85 (722)
Q Consensus 71 ~~~l~~~v~~~~~~s 85 (722)
.+...++|++|.++|
T Consensus 12 viav~aaVllylW~s 26 (26)
T 3j1r_A 12 LIAVAAAVLLYTWVS 26 (26)
T ss_dssp HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHhC
Confidence 334456788898876
No 5
>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA, structure, membrane protein, metal transport; HET: PCA; NMR {Streptomyces lividans} SCOP: f.14.1.1
Probab=30.51 E-value=28 Score=32.55 Aligned_cols=18 Identities=28% Similarity=0.244 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHhhcCC
Q 004949 70 LLLVLLATVLAYLYISGY 87 (722)
Q Consensus 70 ~~~~l~~~v~~~~~~s~~ 87 (722)
+++++++..++|+++-+.
T Consensus 59 ~~~~i~~~a~~~~~~E~~ 76 (155)
T 2a9h_A 59 LVIVLLAGSYLAVLAERG 76 (155)
T ss_dssp HHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 334444455556676554
No 6
>4g1u_A Hemin transport system permease protein HMUU; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}
Probab=29.70 E-value=29 Score=36.84 Aligned_cols=9 Identities=67% Similarity=1.335 Sum_probs=0.0
Q ss_pred ccCCCCCCC
Q 004949 18 HHHNHNSNG 26 (722)
Q Consensus 18 ~~~~~~~~~ 26 (722)
|||+|++.|
T Consensus 7 ~~~~~~~~~ 15 (357)
T 4g1u_A 7 HHHHHHSSG 15 (357)
T ss_dssp ---------
T ss_pred ccccccCCC
Confidence 334444444
No 7
>1ypf_A GMP reductase; GUAC, purines, pyrimidines, nucleosides, nucleotides, nucleo nucleoside interconversions, spine, structural genomics; 1.80A {Bacillus anthracis} PDB: 2a1y_A*
Probab=29.58 E-value=13 Score=38.29 Aligned_cols=18 Identities=44% Similarity=0.824 Sum_probs=5.7
Q ss_pred ccccccCCCCCCCCCCCC
Q 004949 14 GALHHHHNHNSNGTSFND 31 (722)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~ 31 (722)
|..||||+|..|+..|.|
T Consensus 1 ~~~~~~~~~~~~~~~fd~ 18 (336)
T 1ypf_A 1 GSSHHHHHHMGNVFDYED 18 (336)
T ss_dssp -----------CCCCGGG
T ss_pred CCcccccccccccCCcce
Confidence 567999999999999854
No 8
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=29.18 E-value=45 Score=26.21 Aligned_cols=28 Identities=29% Similarity=0.237 Sum_probs=13.5
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHhhcC
Q 004949 59 RRLSIGSVIFVLLLVLLATVLAYLYISG 86 (722)
Q Consensus 59 ~~~~~~~~~~~~~~~l~~~v~~~~~~s~ 86 (722)
..++|++.++.+.+++++.+....|+-+
T Consensus 10 ~~~~Ia~~vVGvll~vi~~l~~~~~~RR 37 (44)
T 2jwa_A 10 PLTSIISAVVGILLVVVLGVVFGILIKR 37 (44)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccchHHHHHHHHHHHHHHHHHHhheeh
Confidence 4455666555544444444433444443
No 9
>3vis_A Esterase; alpha/beta-hydrolase fold, polyethylene terephthal hydrolase; HET: PE4; 1.76A {Thermobifida alba}
Probab=26.77 E-value=14 Score=35.81 Aligned_cols=12 Identities=58% Similarity=0.855 Sum_probs=0.0
Q ss_pred cccCCCCCCCCC
Q 004949 17 HHHHNHNSNGTS 28 (722)
Q Consensus 17 ~~~~~~~~~~~~ 28 (722)
||||.|-.++..
T Consensus 1 ~~~~~~~~~~~~ 12 (306)
T 3vis_A 1 HHHHHHMSVTTP 12 (306)
T ss_dssp ------------
T ss_pred CCccccccccCc
Confidence 566666555543
No 10
>2iai_A Putative transcriptional regulator SCO3833; structural genomics, TETR, unknow function, PSI-2, protein structure initiative; 1.65A {Streptomyces coelicolor}
Probab=26.66 E-value=39 Score=30.98 Aligned_cols=11 Identities=64% Similarity=1.208 Sum_probs=0.0
Q ss_pred ccccccCCCCC
Q 004949 14 GALHHHHNHNS 24 (722)
Q Consensus 14 ~~~~~~~~~~~ 24 (722)
|..||||||-.
T Consensus 2 ~~~~~~~~~~~ 12 (230)
T 2iai_A 2 GSSHHHHHHSS 12 (230)
T ss_dssp -----------
T ss_pred CCccccccccc
Confidence 66788887743
No 11
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=26.50 E-value=54 Score=25.62 Aligned_cols=29 Identities=24% Similarity=0.241 Sum_probs=15.2
Q ss_pred ccchhHHHHH-HHHHHHHHHHHHHhhcCCC
Q 004949 60 RLSIGSVIFV-LLLVLLATVLAYLYISGYS 88 (722)
Q Consensus 60 ~~~~~~~~~~-~~~~l~~~v~~~~~~s~~~ 88 (722)
..+|++.|+. +++++++.++.+.|+.+-.
T Consensus 10 ~~~IA~gVVgGv~~~~ii~~~~~~~~RRr~ 39 (44)
T 2ks1_B 10 IPSIATGMVGALLLLLVVALGIGLFMRRRH 39 (44)
T ss_dssp SSSSTHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred cceEEeehhHHHHHHHHHHHHHHHHhhhhH
Confidence 3455555554 4444444445567776654
No 12
>2qrj_A Saccharopine dehydrogenase, NAD+, L-lysine- forming; sulfate, rossmann fold, alpha-aminoadipate pathway, fungal lysine biosynthesis; 1.60A {Saccharomyces cerevisiae} PDB: 2qrk_A* 2qrl_A* 2q99_A 3ugk_A 3uh1_A* 3uha_A*
Probab=24.81 E-value=25 Score=37.95 Aligned_cols=41 Identities=22% Similarity=0.165 Sum_probs=27.5
Q ss_pred cCcccccccccCCCCCCCCCCcCCHhhHhhh-ccCcEEE-EeeeeCCC
Q 004949 424 RDQKINCGFVKAPEGYPSTGFDLAEDDANYN-SRCHIAV-ISCIFGNS 469 (722)
Q Consensus 424 ~~~~vhCGF~~gp~~~~~~GFdi~e~D~~~M-~~CKIVV-YTAIFGnY 469 (722)
.+.-|.|-++ +. +.| .=|.+++.+.| ++-.||| .+|=.|+-
T Consensus 264 aDivIn~vli-g~-~aP---~Lvt~e~v~~m~k~gsVIVDVA~D~GG~ 306 (394)
T 2qrj_A 264 ADIFINCIYL-SK-PIA---PFTNMEKLNNPNRRLRTVVDVSADTTNP 306 (394)
T ss_dssp SSEEEECCCC-CS-SCC---CSCCHHHHCCTTCCCCEEEETTCCTTCT
T ss_pred CCEEEECcCc-CC-CCC---cccCHHHHhcCcCCCeEEEEEecCCCCC
Confidence 4568899998 43 233 35799999999 5444666 57766654
No 13
>2kse_A Sensor protein QSEC; methods development, histidine kinase receptor, membrane domain, two-helical hairpin, cell-free synthesis, ATP- binding; NMR {Escherichia coli}
Probab=24.68 E-value=52 Score=28.53 Aligned_cols=31 Identities=19% Similarity=0.253 Sum_probs=18.9
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHhhcCCCC
Q 004949 59 RRLSIGSVIFVLLLVLLATVLAYLYISGYSN 89 (722)
Q Consensus 59 ~~~~~~~~~~~~~~~l~~~v~~~~~~s~~~~ 89 (722)
.|+.+..+++++++++++++++|..+...-+
T Consensus 12 ~RL~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (186)
T 2kse_A 12 VRLTLIFLILASVTWLLSSFVAWKQTTDNVD 42 (186)
T ss_dssp CCSHHHHHHHHHHHHHHHHHHHSCCCSCC--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666677777776655544
No 14
>1iij_A ERBB-2 receptor protein-tyrosine kinase; alpha-helix-PI-bulge-alpha-helix, signaling protein; NMR {Synthetic} SCOP: j.35.1.1
Probab=23.38 E-value=11 Score=28.34 Aligned_cols=26 Identities=23% Similarity=0.221 Sum_probs=14.9
Q ss_pred CccchhHHHHHHHHHHHHHHHHHHhh
Q 004949 59 RRLSIGSVIFVLLLVLLATVLAYLYI 84 (722)
Q Consensus 59 ~~~~~~~~~~~~~~~l~~~v~~~~~~ 84 (722)
+.++|+|.++.+++++++.+...-||
T Consensus 6 ~~~sIaagVvglll~vii~l~~~~~i 31 (35)
T 1iij_A 6 PVTFIIATVVGVLLFLILVVVVGILI 31 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTTTHHH
T ss_pred CCcEeHHHHHHHHHHHHHHHHhheEE
Confidence 45677777766555555444444444
No 15
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Probab=22.84 E-value=27 Score=30.79 Aligned_cols=21 Identities=38% Similarity=0.678 Sum_probs=0.0
Q ss_pred ccccccCCCCCCCCCCCCceE
Q 004949 14 GALHHHHNHNSNGTSFNDHVS 34 (722)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~ 34 (722)
|..||||.|...--.+..|.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~h~~ 22 (129)
T 2kxn_B 2 GSSHHHHHHSSGLVPRGSHMA 22 (129)
T ss_dssp ---------------------
T ss_pred Cccccccccccccccchhccc
Confidence 556766655544355556653
No 16
>3un6_A Hypothetical protein saouhsc_00137; structural genomics, center for structural genomics of infec diseases, csgid; 2.01A {Staphylococcus aureus subsp}
Probab=22.29 E-value=19 Score=35.70 Aligned_cols=8 Identities=63% Similarity=1.282 Sum_probs=0.0
Q ss_pred ccccccCC
Q 004949 14 GALHHHHN 21 (722)
Q Consensus 14 ~~~~~~~~ 21 (722)
|..||||+
T Consensus 2 ~~~~~~~~ 9 (341)
T 3un6_A 2 GSSHHHHH 9 (341)
T ss_dssp --------
T ss_pred CCcccccc
Confidence 44455543
Done!