Query 020543
Match_columns 325
No_of_seqs 60 out of 62
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 03:13:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020543.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020543hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02817 E3_binding: e3 bindin 19.2 72 0.0016 22.5 1.5 17 256-272 21-37 (39)
2 PF08756 YfkB: YfkB-like domai 13.1 90 0.0019 28.5 0.8 21 62-83 28-48 (153)
3 PF07640 QPP: QPP; InterPro: 10.1 1.4E+02 0.0031 21.4 0.9 12 72-83 3-14 (36)
4 PF06744 DUF1215: Protein of u 9.4 1.8E+02 0.0038 24.3 1.4 21 252-276 54-74 (125)
5 cd04412 NDPk7B Nucleoside diph 9.2 1.6E+02 0.0036 25.0 1.1 23 255-278 4-26 (134)
6 TIGR00214 lipB lipoate-protein 8.7 1.6E+02 0.0036 27.0 1.0 20 254-273 142-163 (184)
7 PF03785 Peptidase_C25_C: Pept 8.5 1.9E+02 0.0041 24.0 1.2 24 299-322 46-69 (81)
8 PF15279 SOBP: Sine oculis-bin 8.2 97 0.0021 30.8 -0.8 17 167-183 68-84 (306)
9 PRK09784 hypothetical protein; 7.4 2.3E+02 0.005 28.5 1.4 37 171-207 150-188 (417)
10 PF11397 GlcNAc: Glycosyltrans 7.3 1.5E+02 0.0031 29.6 -0.0 26 35-61 113-138 (343)
No 1
>PF02817 E3_binding: e3 binding domain; InterPro: IPR004167 A small domain of the E2 subunit of 2-oxo-acid dehydrogenases that is responsible for the binding of the E3 subunit. Proteins containing this domain include the branched-chain alpha-keto acid dehydrogenase complex of bacteria, which catalyses the overall conversion of alpha-keto acids to acyl-CoA and carbon dioxide; and the E-3 binding protein of eukaryotic pyruvate dehydrogenase.; GO: 0016746 transferase activity, transferring acyl groups, 0008152 metabolic process; PDB: 1BBL_A 1W4H_A 1BAL_A 2WXC_A 2BTH_A 2BTG_A 2CYU_A 2EQ7_C 2EQ8_C 3RNM_E ....
Probab=19.20 E-value=72 Score=22.49 Aligned_cols=17 Identities=29% Similarity=0.468 Sum_probs=15.6
Q ss_pred eeeccCCccCCcchHhh
Q 020543 256 AFIKPCGIHGDVTLNDI 272 (325)
Q Consensus 256 ~lvKP~g~~Gd~TL~DI 272 (325)
+-|++.|.+|-||..||
T Consensus 21 ~~v~gtG~~GrI~k~Dv 37 (39)
T PF02817_consen 21 SQVKGTGPGGRITKEDV 37 (39)
T ss_dssp GGSSSSSTTSBBCHHHH
T ss_pred ccccccCCCCcEeHHHh
Confidence 47999999999999998
No 2
>PF08756 YfkB: YfkB-like domain; InterPro: IPR014866 YfkB is adjacent to YfkA in Bacillus subtilis. In other bacterial species, it is fused to this protein. As YfkA contains a Radical SAM domain it suggests this domain is interacts with them.
Probab=13.09 E-value=90 Score=28.52 Aligned_cols=21 Identities=29% Similarity=0.373 Sum_probs=17.1
Q ss_pred ccccccccccCCCCcccccccc
Q 020543 62 NEEDLSYMLDDETTPVKSCGDL 83 (325)
Q Consensus 62 nded~~~~lfdetTPik~C~df 83 (325)
--+.+.||||| |-|.-.|..-
T Consensus 28 ~Rd~~~WMLFG-TLPfy~Cs~~ 48 (153)
T PF08756_consen 28 IRDPNVWMLFG-TLPFYPCSDD 48 (153)
T ss_pred ccCCCeeEEec-ccccccCCCC
Confidence 34566899999 8899999765
No 3
>PF07640 QPP: QPP; InterPro: IPR011507 These Rhodopirellula baltica proteins share a highly conserved sequence, centred around an invariant QPP motif, at their N termini. This motif may represent an export signal.
Probab=10.14 E-value=1.4e+02 Score=21.43 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=10.7
Q ss_pred CCCCcccccccc
Q 020543 72 DETTPVKSCGDL 83 (325)
Q Consensus 72 detTPik~C~df 83 (325)
-+|+|+..|+.|
T Consensus 3 SnQPPLTRcGSi 14 (36)
T PF07640_consen 3 SNQPPLTRCGSI 14 (36)
T ss_pred CCCCCccccccc
Confidence 469999999998
No 4
>PF06744 DUF1215: Protein of unknown function (DUF1215); InterPro: IPR010623 This domain represents a conserved region situated towards the C-terminal end of several hypothetical bacterial proteins of unknown function. A few members resemble the ImcF protein, which has been proposed [] to be involved in Vibrio cholerae cell surface reorganisation that results in increased adherence to epithelial cells line and increased conjugation frequency.
Probab=9.43 E-value=1.8e+02 Score=24.31 Aligned_cols=21 Identities=33% Similarity=0.532 Sum_probs=16.0
Q ss_pred eeeeeeeccCCccCCcchHhhhhhh
Q 020543 252 AYPFAFIKPCGIHGDVTLNDINQRI 276 (325)
Q Consensus 252 ayPF~lvKP~g~~Gd~TL~DIN~ri 276 (325)
=|||+ -...-||+|.|+++-.
T Consensus 54 RYPF~----~~s~~dv~l~Df~~fF 74 (125)
T PF06744_consen 54 RYPFD----PDSSRDVSLADFARFF 74 (125)
T ss_pred CCCCC----CCCcccCCHHHHHHHh
Confidence 39998 3566789999998654
No 5
>cd04412 NDPk7B Nucleoside diphosphate kinase 7 domain B (NDPk7B): The nm23-H7 class of nucleoside diphosphate kinase (NDPk7) consists of an N-terminal DM10 domain and two functional catalytic NDPk modules, NDPk7A and NDPk7B. The function of the DM10 domain, which also occurs in multiple copies in other proteins, is unknown. NDPk7 is predominantly expressed in testes, although appreciable amount are also found in liver, heart, brain, ovary, small intestine and spleen. The nm23-H7 gene is located in or near the hereditary prostrate cancer susceptibility locus. Nm23-H7 may be involved in the development of colon and gastric carcinoma, the latter possibly in a type-specific manner.
Probab=9.22 E-value=1.6e+02 Score=25.01 Aligned_cols=23 Identities=30% Similarity=0.447 Sum_probs=16.0
Q ss_pred eeeeccCCccCCcchHhhhhhhcC
Q 020543 255 FAFIKPCGIHGDVTLNDINQRIHS 278 (325)
Q Consensus 255 F~lvKP~g~~Gd~TL~DIN~ril~ 278 (325)
|++|||+++.-. -+-.|-++|..
T Consensus 4 l~lIKPda~~~~-~~g~Ii~~i~~ 26 (134)
T cd04412 4 VCIIKPHAVSHG-LLGEILQQILD 26 (134)
T ss_pred EEEECchHhhcC-chHHHHHHHHH
Confidence 789999998754 23566666653
No 6
>TIGR00214 lipB lipoate-protein ligase B. Involved in lipoate biosynthesis as the main determinant of the lipoyl-protein ligase activity required for lipoylation of enzymes such as alpha-ketoacid dehydrogenases. Involved in activation and re-activation (following denaturation) of lipoyl-protein ligases (calcium ion-dependant process).
Probab=8.73 E-value=1.6e+02 Score=27.02 Aligned_cols=20 Identities=45% Similarity=0.929 Sum_probs=16.6
Q ss_pred eeeeeccCCccCC--cchHhhh
Q 020543 254 PFAFIKPCGIHGD--VTLNDIN 273 (325)
Q Consensus 254 PF~lvKP~g~~Gd--~TL~DIN 273 (325)
||..|.|||+.|- ++|++++
T Consensus 142 ~F~~I~PCGl~~~~vTSl~~~~ 163 (184)
T TIGR00214 142 PFSHINPCGYAGREMGSLNQFL 163 (184)
T ss_pred HhccEEcCCCCCCcEeeHHHHc
Confidence 6999999999987 5787754
No 7
>PF03785 Peptidase_C25_C: Peptidase family C25, C terminal ig-like domain; InterPro: IPR005536 This domain is found in almost all members of MEROPS peptidase family C25, (clan CD). Peptidase family C25 is a protein family found in the bacteria Porphyromonas gingivalis (Bacteroides gingivalis) a Gram-negative anaerobic bacterial species strongly associated with adult periodontitis. One of its distinguishing characteristics and putative virulence properties is the ability to agglutinate erythrocytes []. It is a highly proteolytic organism which metabolises small peptides and amino acids. Indirect evidence suggests that the proteases produced by this microorganism constitute an important virulence factor []. Protease-encoding genes have been shown to contain multiple copies of repeated nucleotide sequences. These conserved sequences have also been found in haemagglutinin genes [].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 1CVR_A.
Probab=8.51 E-value=1.9e+02 Score=23.95 Aligned_cols=24 Identities=29% Similarity=0.364 Sum_probs=14.7
Q ss_pred CCCcceeeeeeeeCCCcceEEEEe
Q 020543 299 SGKPVVGKTKIHTEGGKGSITIMR 322 (325)
Q Consensus 299 SGK~Vv~~Tri~T~gg~GtItI~r 322 (325)
||++++.+++.-|+.|-=++||+|
T Consensus 46 sG~ati~l~~~it~~~~~tlTit~ 69 (81)
T PF03785_consen 46 SGNATINLTNPITDEGTLTLTITA 69 (81)
T ss_dssp TTEEEEE-SS--TT-SEEEEEEE-
T ss_pred CceEEEECCcccCCCceEEEEEEE
Confidence 999999999776754555666665
No 8
>PF15279 SOBP: Sine oculis-binding protein
Probab=8.22 E-value=97 Score=30.80 Aligned_cols=17 Identities=24% Similarity=0.448 Sum_probs=12.7
Q ss_pred CCCccchhhhhhcCCCC
Q 020543 167 GLDSFEGWIAECLNDPE 183 (325)
Q Consensus 167 gld~~e~wl~~C~~d~e 183 (325)
.|-++|-||.+|--...
T Consensus 68 ~LiTPelWl~~~~s~s~ 84 (306)
T PF15279_consen 68 QLITPELWLRNCRSPSP 84 (306)
T ss_pred ccccccccccccccCCC
Confidence 56689999998875443
No 9
>PRK09784 hypothetical protein; Provisional
Probab=7.43 E-value=2.3e+02 Score=28.48 Aligned_cols=37 Identities=27% Similarity=0.510 Sum_probs=29.5
Q ss_pred cchhhhhhcCCCCCCcCCCCCCCcccccccc--cccccc
Q 020543 171 FEGWIAECLNDPEMTFTPDDMNFSEASDIQI--DISEFC 207 (325)
Q Consensus 171 ~e~wl~~C~~d~e~~~~Pd~~~~s~~~~~Q~--~iS~~~ 207 (325)
++.+.+-|..+..|.+.|+.+|.|++++... |.|+.+
T Consensus 150 ddvfseycld~enmsiqp~~intpgisdldsgidlsgis 188 (417)
T PRK09784 150 DDVFSEYCLDDENMSIQPEQINTPGISDLDSGIDLSGIS 188 (417)
T ss_pred hHHHHHhccCCccCccCHhhcCCCCccccccCcCcccch
Confidence 3478889999999999999999999996544 455543
No 10
>PF11397 GlcNAc: Glycosyltransferase (GlcNAc); InterPro: IPR021067 GlcNAc is an enzyme that carries out the first glycosylation step of hydroxylated Skp1; it is found in the cytoplasm and results in a pentasaccharide-linked 'HyPro-143[, ].
Probab=7.29 E-value=1.5e+02 Score=29.63 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=20.8
Q ss_pred ccccccccccCCCCCCcccccchhccc
Q 020543 35 NWQGEEFCLQKGSNFDMSGSQFNEVIL 61 (325)
Q Consensus 35 dWQ~~e~~l~~ds~~d~s~~lWd~v~~ 61 (325)
.|++++|+||-|++...++. ||+++-
T Consensus 113 l~~gE~y~LqiDSH~rF~~~-WD~~li 138 (343)
T PF11397_consen 113 LYRGEDYYLQIDSHMRFVPG-WDEILI 138 (343)
T ss_pred HhCCCeEEEEEeccceeecc-HHHHHH
Confidence 57999999999988877664 888443
Done!