Query psy13739
Match_columns 89
No_of_seqs 4 out of 6
Neff 1.8
Searched_HMMs 46136
Date Fri Aug 16 19:18:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13739.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13739hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03987 Autophagy_act_C: Auto 8.6 1.7E+02 0.0037 17.4 0.7 13 37-49 5-17 (62)
2 PF09300 Tecti-min-caps: Tecti 2.7 5.8E+02 0.013 17.5 0.3 18 18-35 12-29 (84)
3 PF07853 DUF1648: Protein of u 2.6 6.1E+02 0.013 14.3 0.3 9 38-46 18-26 (51)
4 PRK13747 putative mercury resi 2.1 4.8E+02 0.01 17.9 -0.7 11 46-56 25-35 (78)
5 PRK12301 bssS biofilm formatio 2.1 8.3E+02 0.018 16.9 0.4 9 11-19 31-39 (84)
6 PF03487 IL13: Interleukin-13; 1.9 7.6E+02 0.017 15.3 0.0 8 69-76 17-24 (43)
7 PF11319 DUF3121: Protein of u 1.9 1.8E+03 0.039 15.8 2.0 18 41-58 85-102 (183)
8 PF00756 Esterase: Putative es 1.8 1.3E+03 0.029 15.5 1.1 7 40-46 22-28 (251)
9 PF11936 DUF3454: Domain of un 1.8 1.2E+03 0.026 15.3 0.8 9 80-88 43-51 (63)
10 PF05052 MerE: MerE protein; 1.5 7.5E+02 0.016 16.8 -0.6 10 47-56 26-35 (75)
No 1
>PF03987 Autophagy_act_C: Autophagocytosis associated protein, active-site domain ; InterPro: IPR007135 Proteins in this entry belong to the Atg3 group of proteins and the Atg3 conjugation enzymes. Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. Atg3 is the E2 enzyme for the LC3 lipidation process []. It is essential for autophagocytosis. The super protein complex, the Atg16L complex, consists of multiple Atg12-Atg5 conjugates. Atg16L has an E3-like role in the LC3 lipidation reaction. The activated intermediate, LC3-Atg3 (E2), is recruited to the site where the lipidation takes place []. Atg3 catalyses the conjugation of Atg8 and phosphatidylethanolamine (PE). Atg3 has an alpha/beta-fold, and its core region is topologically similar to canonical E2 enzymes. Atg3 has two regions inserted in the core region and another with a long alpha-helical structure that protrudes from the core region as far as 30 A []. It interacts with atg8 through an intermediate thioester bond between Cys-288 and the C-terminal Gly of atg8. It also interacts with the C-terminal region of the E1-like atg7 enzyme. Autophagocytosis is a starvation-induced process responsible for transport of cytoplasmic proteins to the vacuole. The cysteine residue within the HPC motif is the putative active-site residue for recognition of the Apg5 subunit of the autophagosome complex [].; PDB: 2DYT_A.
Probab=8.61 E-value=1.7e+02 Score=17.36 Aligned_cols=13 Identities=38% Similarity=0.841 Sum_probs=8.8
Q ss_pred CCCCccceeeecC
Q psy13739 37 SSPYPVPIHYLSS 49 (89)
Q Consensus 37 ss~~pvP~lyLs~ 49 (89)
+-.+++|.||+..
T Consensus 5 s~~YqvP~L~f~~ 17 (62)
T PF03987_consen 5 SPSYQVPVLYFRG 17 (62)
T ss_dssp ETTTTEEEEEEEE
T ss_pred cCccCCCEEEEEE
Confidence 4467788887753
No 2
>PF09300 Tecti-min-caps: Tectiviridae, minor capsid; InterPro: IPR015379 Members of this family form the minor capsid protein of various Tectiviridae []. ; PDB: 1W8X_M.
Probab=2.72 E-value=5.8e+02 Score=17.51 Aligned_cols=18 Identities=33% Similarity=0.671 Sum_probs=2.5
Q ss_pred CCcCcCCCCCCCCccccC
Q psy13739 18 HPLPIQSPSTTHPVPTHY 35 (89)
Q Consensus 18 ~plP~~~ls~t~~vP~~y 35 (89)
.|+|+.-.+.|+-+|++-
T Consensus 12 gpvpipgpaptetmplln 29 (84)
T PF09300_consen 12 GPVPIPGPAPTETMPLLN 29 (84)
T ss_dssp SS--TT------------
T ss_pred CCCCCCCCCCcccccccc
Confidence 466777777777777653
No 3
>PF07853 DUF1648: Protein of unknown function (DUF1648); InterPro: IPR012867 This entry contains hypothetical proteins expressed by either bacterial or archaeal species. Some of these are annotated as being transmembrane proteins, and many contain a high proportion of hydrophobic residues.
Probab=2.58 E-value=6.1e+02 Score=14.34 Aligned_cols=9 Identities=33% Similarity=0.877 Sum_probs=4.8
Q ss_pred CCCccceee
Q psy13739 38 SPYPVPIHY 46 (89)
Q Consensus 38 s~~pvP~ly 46 (89)
=|+++|.||
T Consensus 18 LP~~ip~H~ 26 (51)
T PF07853_consen 18 LPDQIPTHF 26 (51)
T ss_pred CChhhceee
Confidence 355555555
No 4
>PRK13747 putative mercury resistance protein; Provisional
Probab=2.14 E-value=4.8e+02 Score=17.87 Aligned_cols=11 Identities=45% Similarity=0.718 Sum_probs=7.8
Q ss_pred eecCCCCcCcc
Q psy13739 46 YLSSPHPLPIQ 56 (89)
Q Consensus 46 yLs~~~plP~~ 56 (89)
-|.|||-||++
T Consensus 25 vLTCPCHLpiL 35 (78)
T PRK13747 25 VLTCPCHLPIL 35 (78)
T ss_pred HhcCcchHHHH
Confidence 36788888764
No 5
>PRK12301 bssS biofilm formation regulatory protein BssS; Reviewed
Probab=2.11 E-value=8.3e+02 Score=16.93 Aligned_cols=9 Identities=33% Similarity=0.626 Sum_probs=5.2
Q ss_pred eecccCCCC
Q psy13739 11 IHYLSSPHP 19 (89)
Q Consensus 11 ~~yLss~~p 19 (89)
++|||++.|
T Consensus 31 lhyLss~~Q 39 (84)
T PRK12301 31 LHYQSPNDQ 39 (84)
T ss_pred hhhcCCCCC
Confidence 456666554
No 6
>PF03487 IL13: Interleukin-13; InterPro: IPR020470 Interleukin-13 (IL-13) is a pleiotropic cytokine which may be important in the regulation of the inflammatory and immune responses []. It inhibits inflammatory cytokine production and synergises with IL-2 in regulating interferon-gamma synthesis. The sequences of IL-4 and IL-13 are distantly related.; PDB: 3G6D_A 3L5W_J 3BPO_A 1GA3_A 1IK0_A 3L5X_A 3L5Y_A 1IJZ_A 3LB6_B.
Probab=1.93 E-value=7.6e+02 Score=15.28 Aligned_cols=8 Identities=50% Similarity=0.891 Sum_probs=0.5
Q ss_pred CCCCCccc
Q psy13739 69 PSGPYPVP 76 (89)
Q Consensus 69 ls~~~pvp 76 (89)
+++|.|||
T Consensus 17 LasPgPvp 24 (43)
T PF03487_consen 17 LASPGPVP 24 (43)
T ss_dssp ------S-
T ss_pred cCCCCCCC
Confidence 34455554
No 7
>PF11319 DUF3121: Protein of unknown function (DUF3121); InterPro: IPR017738 Proteins in this entry, including VC_A0118 from Vibrio cholerae O1 biovar eltor str. N16961, are restricted to a subset of bacteria with the type VI secretion system, and are encoded among the type VI-associated pathogenicity islands. However, many species with type VI secretion lack a member of this family, suggesting that members of this family may be targets rather than components of the type VI secretion system.
Probab=1.91 E-value=1.8e+03 Score=15.77 Aligned_cols=18 Identities=22% Similarity=0.359 Sum_probs=7.5
Q ss_pred ccceeeecCCCCcCcccc
Q psy13739 41 PVPIHYLSSPHPLPIQSL 58 (89)
Q Consensus 41 pvP~lyLs~~~plP~~~L 58 (89)
+-|+|++||-+..==+.|
T Consensus 85 ~rpvL~isC~~niTr~~l 102 (183)
T PF11319_consen 85 PRPVLMISCIDNITRLQL 102 (183)
T ss_pred CCceEEeEeccCceEEEE
Confidence 334444444444333333
No 8
>PF00756 Esterase: Putative esterase; InterPro: IPR000801 This family contains several seemingly unrelated proteins, including human esterase D; mycobacterial antigen 85, which is responsible for the high affinity of mycobacteria to fibronectin; Corynebacterium glutamicum major secreted protein PS1; and hypothetical proteins from Escherichia coli, yeast, mycobacteria and Haemophilus influenzae.; PDB: 3LS2_A 1VA5_B 1DQZ_B 3HRH_A 1DQY_A 2GZR_A 2GZS_A 3GFF_A 1R88_A 3E4D_D ....
Probab=1.79 E-value=1.3e+03 Score=15.46 Aligned_cols=7 Identities=43% Similarity=0.999 Sum_probs=2.7
Q ss_pred Cccceee
Q psy13739 40 YPVPIHY 46 (89)
Q Consensus 40 ~pvP~ly 46 (89)
.+.|++|
T Consensus 22 ~~~Pvly 28 (251)
T PF00756_consen 22 KPYPVLY 28 (251)
T ss_dssp TTEEEEE
T ss_pred CCCEEEE
Confidence 3334443
No 9
>PF11936 DUF3454: Domain of unknown function (DUF3454); InterPro: IPR024600 This functionally uncharacterised domain is found in notch and notch-related proteins.
Probab=1.78 E-value=1.2e+03 Score=15.31 Aligned_cols=9 Identities=56% Similarity=0.649 Sum_probs=5.5
Q ss_pred ccCCCCCCC
Q psy13739 80 LSSPHPHSV 88 (89)
Q Consensus 80 ls~~~p~~~ 88 (89)
-|+++||+.
T Consensus 43 WSSsSPhS~ 51 (63)
T PF11936_consen 43 WSSSSPHSN 51 (63)
T ss_pred ccCCCCCcc
Confidence 466677763
No 10
>PF05052 MerE: MerE protein; InterPro: IPR007746 The prokaryotic MerE (or URF-1) protein is part of the mercury resistance operon often located on plasmids or transposons [, ]. It has been suggested that MerE is a broad mercury transporter mediating transport across the bacterial membrane [].
Probab=1.51 E-value=7.5e+02 Score=16.81 Aligned_cols=10 Identities=50% Similarity=0.826 Sum_probs=0.0
Q ss_pred ecCCCCcCcc
Q psy13739 47 LSSPHPLPIQ 56 (89)
Q Consensus 47 Ls~~~plP~~ 56 (89)
|.|||-||++
T Consensus 26 lTCPCHLpil 35 (75)
T PF05052_consen 26 LTCPCHLPIL 35 (75)
T ss_pred hhCcchHHHH
Done!