Query 020339
Match_columns 327
No_of_seqs 62 out of 64
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 08:57:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020339.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020339hhsearch_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 19.1 73 0.0016 22.5 1.5 17 258-274 21-37 (39)
2 PF08756 YfkB: YfkB-like domai 18.6 53 0.0011 30.0 0.8 21 62-83 28-48 (153)
3 cd04412 NDPk7B Nucleoside diph 9.3 1.7E+02 0.0036 25.1 1.2 23 257-280 4-26 (134)
4 PF06744 DUF1215: Protein of u 9.3 1.8E+02 0.0039 24.3 1.4 20 255-278 55-74 (125)
5 PF03785 Peptidase_C25_C: Pept 8.6 1.9E+02 0.0041 24.0 1.2 24 301-324 46-69 (81)
6 TIGR00214 lipB lipoate-protein 8.4 1.7E+02 0.0038 26.9 1.0 20 256-275 142-163 (184)
7 PF11397 GlcNAc: Glycosyltrans 8.0 1.3E+02 0.0028 30.1 -0.0 48 35-87 113-160 (343)
8 COG3889 Predicted solute bindi 7.4 2.7E+02 0.0058 31.6 2.0 30 247-278 483-513 (872)
9 PF03471 CorC_HlyC: Transporte 6.7 2.5E+02 0.0053 21.5 1.0 17 265-281 10-26 (81)
10 PF07640 QPP: QPP; InterPro: 6.7 2.6E+02 0.0055 20.2 1.0 12 72-83 3-14 (36)
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=19.07 E-value=73 Score=22.49 Aligned_cols=17 Identities=29% Similarity=0.468 Sum_probs=15.5
Q ss_pred eeeccCCccCCcchHhh
Q 020339 258 AFIKPCGIHGDVTLNDI 274 (327)
Q Consensus 258 ~~vKP~g~~gd~TL~DI 274 (327)
+-|++.|.+|-||..||
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 47899999999999998
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=18.61 E-value=53 Score=29.97 Aligned_cols=21 Identities=29% Similarity=0.373 Sum_probs=17.0
Q ss_pred ccccccccccCCCCcccccCcc
Q 020339 62 NEEDLSYMLDDETTPVKSCGDL 83 (327)
Q Consensus 62 ndeD~s~~m~~~tTPik~c~df 83 (327)
--+.+.||||| |-|+..|..-
T Consensus 28 ~Rd~~~WMLFG-TLPfy~Cs~~ 48 (153)
T PF08756_consen 28 IRDPNVWMLFG-TLPFYPCSDD 48 (153)
T ss_pred ccCCCeeEEec-ccccccCCCC
Confidence 34556899999 8899999764
No 3
>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=9.28 E-value=1.7e+02 Score=25.06 Aligned_cols=23 Identities=30% Similarity=0.447 Sum_probs=16.1
Q ss_pred eeeeccCCccCCcchHhhhhhhcC
Q 020339 257 FAFIKPCGIHGDVTLNDINQRIHS 280 (327)
Q Consensus 257 F~~vKP~g~~gd~TL~DIN~ri~~ 280 (327)
|++|||+++.-. -+-.|-++|..
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 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=9.26 E-value=1.8e+02 Score=24.31 Aligned_cols=20 Identities=35% Similarity=0.569 Sum_probs=15.6
Q ss_pred eeeeeeccCCccCCcchHhhhhhh
Q 020339 255 YPFAFIKPCGIHGDVTLNDINQRI 278 (327)
Q Consensus 255 yPF~~vKP~g~~gd~TL~DIN~ri 278 (327)
|||+ -...-||+|.|+++-.
T Consensus 55 YPF~----~~s~~dv~l~Df~~fF 74 (125)
T PF06744_consen 55 YPFD----PDSSRDVSLADFARFF 74 (125)
T ss_pred CCCC----CCCcccCCHHHHHHHh
Confidence 9998 3556789999998654
No 5
>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=8.55 E-value=1.9e+02 Score=23.98 Aligned_cols=24 Identities=29% Similarity=0.364 Sum_probs=14.7
Q ss_pred CCCcceeeeeeeeCCCcceEEEEe
Q 020339 301 SGKPVVGKTKIHTEGGKGSITIMR 324 (327)
Q Consensus 301 SGK~Vv~~tri~T~gg~Gtiti~r 324 (327)
||++++.+++.-|+.|-=++||+|
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 999999999766754555666665
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=8.38 E-value=1.7e+02 Score=26.92 Aligned_cols=20 Identities=45% Similarity=0.929 Sum_probs=16.5
Q ss_pred eeeeeccCCccCC--cchHhhh
Q 020339 256 PFAFIKPCGIHGD--VTLNDIN 275 (327)
Q Consensus 256 PF~~vKP~g~~gd--~TL~DIN 275 (327)
||..|.|||+.|- ++|+++.
T Consensus 142 ~F~~I~PCGl~~~~vTSl~~~~ 163 (184)
T TIGR00214 142 PFSHINPCGYAGREMGSLNQFL 163 (184)
T ss_pred HhccEEcCCCCCCcEeeHHHHc
Confidence 6999999999987 5777754
No 7
>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=7.98 E-value=1.3e+02 Score=30.07 Aligned_cols=48 Identities=19% Similarity=0.313 Sum_probs=30.1
Q ss_pred ccccccccccCCCCCCcccccchhcccccccccccccCCCCcccccCcccccc
Q 020339 35 NWQGEEFCLQKGSNFDMSGSQFNEVILNEEDLSYMLDDETTPVKSCGDLAYQA 87 (327)
Q Consensus 35 dWQ~~e~~l~~ds~~d~s~~lWd~~~~ndeD~s~~m~~~tTPik~c~df~~~~ 87 (327)
.|++++|+||-|++...++. ||+++-+.-.. ..+.-||-.+---.|+.
T Consensus 113 l~~gE~y~LqiDSH~rF~~~-WD~~li~~~~~----~~~~~aVLS~YP~~~~~ 160 (343)
T PF11397_consen 113 LYRGEDYYLQIDSHMRFVPG-WDEILIEMLKS----LRNPKAVLSTYPPGYEP 160 (343)
T ss_pred HhCCCeEEEEEeccceeecc-HHHHHHHHHHh----cCCCCeEEecCCCCccc
Confidence 57999999999988877664 98854433221 23444555554444444
No 8
>COG3889 Predicted solute binding protein [General function prediction only]
Probab=7.38 E-value=2.7e+02 Score=31.61 Aligned_cols=30 Identities=40% Similarity=0.478 Sum_probs=24.8
Q ss_pred ccccceeeeeeeeeccCCccCC-cchHhhhhhh
Q 020339 247 TKLASSVAYPFAFIKPCGIHGD-VTLNDINQRI 278 (327)
Q Consensus 247 ~~~~~~vayPF~~vKP~g~~gd-~TL~DIN~ri 278 (327)
.|...+|.|||-.-| +.+|- +||+||=.-|
T Consensus 483 ekAk~kV~~~~~~~k--WhDGq~itlaDil~~~ 513 (872)
T COG3889 483 EKAKIKVTYPFLDAK--WHDGQPITLADILKLI 513 (872)
T ss_pred CeeeeEEEEEecccc--ccCCCccCHHHHHHHH
Confidence 677889999987766 89998 9999996544
No 9
>PF03471 CorC_HlyC: Transporter associated domain; InterPro: IPR005170 This small domain is found in a family of proteins with the CBS IPR002550 from INTERPRO domain and two CBS domains with this domain found at the C terminus of the proteins, the domain is also found at the C terminus of some Na+/H+ antiporters. This domain is also found in CorC that is involved in Magnesium and cobalt efflux. The function of this domain is uncertain but might be involved in modulating transport of ion substrates.; PDB: 3DED_F 2PLI_C 2R2Z_A 2P4P_A 2O3G_A 2P3H_A 3LLB_A 3LAE_A 2P13_B 2NQW_A ....
Probab=6.70 E-value=2.5e+02 Score=21.53 Aligned_cols=17 Identities=24% Similarity=0.505 Sum_probs=14.5
Q ss_pred ccCCcchHhhhhhhcCC
Q 020339 265 IHGDVTLNDINQRIHSP 281 (327)
Q Consensus 265 ~~gd~TL~DIN~ri~~~ 281 (327)
+.|.++|.|+|+.+-..
T Consensus 10 v~G~~~l~~l~~~~~~~ 26 (81)
T PF03471_consen 10 VSGSTPLDDLNELLGLD 26 (81)
T ss_dssp EETTSBHHHHHHHHTS-
T ss_pred EEecCCHHHHHHHHCcC
Confidence 57999999999998775
No 10
>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=6.70 E-value=2.6e+02 Score=20.18 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=10.4
Q ss_pred CCCCcccccCcc
Q 020339 72 DETTPVKSCGDL 83 (327)
Q Consensus 72 ~~tTPik~c~df 83 (327)
-+|+|+..|+.|
T Consensus 3 SnQPPLTRcGSi 14 (36)
T PF07640_consen 3 SNQPPLTRCGSI 14 (36)
T ss_pred CCCCCccccccc
Confidence 469999999988
Done!