Query 033782
Match_columns 111
No_of_seqs 114 out of 144
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 06:13:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033782.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033782hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03031 hypothetical protein; 100.0 1.2E-51 2.6E-56 293.5 8.0 102 1-107 1-102 (102)
2 TIGR03715 KxYKxGKxW KxYKxGKxW 64.8 0.52 1.1E-05 26.3 -2.5 12 16-27 9-20 (29)
3 COG3761 NADH:ubiquinone oxidor 24.5 53 0.0012 24.2 1.7 19 9-27 26-48 (118)
4 PF12221 HflK_N: Bacterial mem 22.1 46 0.001 20.2 0.9 13 96-108 20-32 (42)
5 PF10297 Hap4_Hap_bind: Minima 22.0 33 0.00072 17.6 0.2 6 17-22 2-7 (17)
6 PHA03417 E4 protein; Provision 21.6 86 0.0019 23.1 2.3 10 71-80 47-56 (118)
7 PF02395 Peptidase_S6: Immunog 20.6 50 0.0011 30.9 1.1 12 14-25 226-237 (769)
8 COG1834 N-Dimethylarginine dim 19.0 77 0.0017 26.2 1.8 24 11-34 121-144 (267)
9 PHA03416 hypothetical E4 prote 18.0 1.2E+02 0.0026 21.4 2.4 21 54-80 24-44 (92)
10 PF14509 GH97_C: Glycosyl-hydr 17.2 73 0.0016 22.3 1.1 11 16-26 25-35 (103)
No 1
>PLN03031 hypothetical protein; Provisional
Probab=100.00 E-value=1.2e-51 Score=293.51 Aligned_cols=102 Identities=69% Similarity=1.194 Sum_probs=94.2
Q ss_pred CCCCCCCcccCcccCCCcceEEecccccCCCCceeeCCCCCcccccCCCCcccCCcCCCCCCCCCCCCCCCCCCCCCCCC
Q 033782 1 MGLSGKPQVDGGLESEGKRWVIAGIPLRAPLKPIYTNPVPTAVDKEVDSGTDEELSTTPTSEDARIPAKLTCPAAPRKRK 80 (111)
Q Consensus 1 mg~s~k~q~~~~~~~~~kkwviagi~l~a~LkPi~t~~~~~~~~~~~~~~e~~~C~TTPts~e~rIP~~~~CPPAPRK~r 80 (111)
||||+|+||||+|||||||||||||+||||||||+|++... +. ++|+++|.+|||+++||||..++|||||||++
T Consensus 1 mg~s~k~q~~~~~~~~~kkwviagi~~ra~LkPi~t~~~~~----~~-~ee~~~c~~TPts~~~rIP~~~~CPPAPrK~r 75 (102)
T PLN03031 1 MGFSKKSQVDGGLESDGKKWVIAGISIRAPLKPISTKPVAK----EE-DEEEDECSTTPTAKEARIPERLPCPPAPRKRK 75 (102)
T ss_pred CCcCcccccccccccCCceEEEeccCcccccCceeccCCCc----cc-cccccccccCCCCccccCCCCCcCCCCCCCCC
Confidence 99999999999999999999999999999999999998873 22 67788995569999999999999999999999
Q ss_pred CcccccCCCCccccCCCchhHHhhhhc
Q 033782 81 SSLKCNYSGVREFFSPPDLESVFIRHV 107 (111)
Q Consensus 81 ~~~~c~~~~~~~FF~~PDLe~~F~~~~ 107 (111)
++.+|++++.++||++||||+||+.|+
T Consensus 76 ~~~kc~~~p~~~FF~pPDLEsvFv~r~ 102 (102)
T PLN03031 76 PSLKCNYNGVREFFTPPDLETVFIQRA 102 (102)
T ss_pred ccccccCCCCCCccCCCChhheeEecC
Confidence 999998888999999999999998874
No 2
>TIGR03715 KxYKxGKxW KxYKxGKxW signal peptide. This model describes a novel form of signal peptide that occurs as an N-terminal domain with a recognizable motif, reminiscent of the YSIRK and PEP-CTERM forms of signal peptide. This domain tends to occur on long, low-complexity (usually Serine-rich and heavily glycosylated) proteins of the Firmicutes, and (as with YSIRK) the majority of these proteins have the LPXTG cell wall-anchoring motif at the C-terminus.
Probab=64.77 E-value=0.52 Score=26.28 Aligned_cols=12 Identities=50% Similarity=0.994 Sum_probs=9.7
Q ss_pred CCcceEEecccc
Q 033782 16 EGKRWVIAGIPL 27 (111)
Q Consensus 16 ~~kkwviagi~l 27 (111)
.||.||+|+|..
T Consensus 9 sGK~Wv~a~~~~ 20 (29)
T TIGR03715 9 SGKQWVFAAITT 20 (29)
T ss_pred cccHHHHHHHHH
Confidence 489999999753
No 3
>COG3761 NADH:ubiquinone oxidoreductase 17.2 kD subunit [Energy production and conversion]
Probab=24.53 E-value=53 Score=24.23 Aligned_cols=19 Identities=47% Similarity=1.027 Sum_probs=13.8
Q ss_pred ccC-cccCCC--cceEE-ecccc
Q 033782 9 VDG-GLESEG--KRWVI-AGIPL 27 (111)
Q Consensus 9 ~~~-~~~~~~--kkwvi-agi~l 27 (111)
.|| +.||+| +.||| .|++=
T Consensus 26 ye~r~~ds~gr~RRwVIYngyaE 48 (118)
T COG3761 26 YEGRNIDSEGRTRRWVIYNGYAE 48 (118)
T ss_pred eeccCCccCCCeeeEEEEcCcch
Confidence 366 889886 78999 45543
No 4
>PF12221 HflK_N: Bacterial membrane protein N terminal; InterPro: IPR020980 HflK is a bacterial membrane protein which is thought, together with the HflC protein, to form a membrane protease complex whose activity is modulated by the GTPase HflX []. This entry represents the N-terminal, membrane-spanning, region of of HflK responsible for anchoring the protein in the bacterial membrane. It is often found in association with PF01145 from PFAM.
Probab=22.08 E-value=46 Score=20.25 Aligned_cols=13 Identities=38% Similarity=0.902 Sum_probs=10.0
Q ss_pred CCchhHHhhhhcc
Q 033782 96 PPDLESVFIRHVE 108 (111)
Q Consensus 96 ~PDLe~~F~~~~~ 108 (111)
|||||.+|..-..
T Consensus 20 PPDLdel~r~l~~ 32 (42)
T PF12221_consen 20 PPDLDELFRKLQD 32 (42)
T ss_pred CCCHHHHHHHHHH
Confidence 7899999975443
No 5
>PF10297 Hap4_Hap_bind: Minimal binding motif of Hap4 for binding to Hap2/3/5 ; InterPro: IPR018287 This entry represents an essential domain of the transcription activator Hap4 that allows it to associate with Hap2, Hap3 and Hap5 to form the Hap complex [, ]. In Saccharomyces cerevisiae (Baker's yeast), the haem-activated protein complex Hap2/3/4/5 plays a major role in the transcription of genes involved in respiration []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.97 E-value=33 Score=17.56 Aligned_cols=6 Identities=50% Similarity=1.348 Sum_probs=4.4
Q ss_pred CcceEE
Q 033782 17 GKRWVI 22 (111)
Q Consensus 17 ~kkwvi 22 (111)
+|+|||
T Consensus 2 Sk~Wvl 7 (17)
T PF10297_consen 2 SKNWVL 7 (17)
T ss_pred Cccccc
Confidence 477887
No 6
>PHA03417 E4 protein; Provisional
Probab=21.59 E-value=86 Score=23.11 Aligned_cols=10 Identities=40% Similarity=0.773 Sum_probs=8.1
Q ss_pred CCCCCCCCCC
Q 033782 71 TCPAAPRKRK 80 (111)
Q Consensus 71 ~CPPAPRK~r 80 (111)
.||+||||.+
T Consensus 47 ~~p~ap~k~~ 56 (118)
T PHA03417 47 LCPPAFQKNQ 56 (118)
T ss_pred CCCCCCCCCC
Confidence 4999999864
No 7
>PF02395 Peptidase_S6: Immunoglobulin A1 protease Serine protease Prosite pattern; InterPro: IPR000710 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S6 (clan PA(S)). The type sample being the IgA1-specific serine endopeptidase from Neisseria gonorrhoeae []. These cleave prolyl bonds in the hinge regions of immunoglobulin A heavy chains. Similar specificity is shown by the unrelated family of M26 metalloendopeptidases.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SZE_A 3H09_B 3SYJ_A 1WXR_A 3AK5_B.
Probab=20.60 E-value=50 Score=30.94 Aligned_cols=12 Identities=42% Similarity=1.149 Sum_probs=10.0
Q ss_pred cCCCcceEEecc
Q 033782 14 ESEGKRWVIAGI 25 (111)
Q Consensus 14 ~~~~kkwviagi 25 (111)
|.+.|||||+|.
T Consensus 226 D~~~kKWvl~Gv 237 (769)
T PF02395_consen 226 DKEKKKWVLVGV 237 (769)
T ss_dssp ETTTTEEEEEEE
T ss_pred EccCCeEEEEEE
Confidence 456799999997
No 8
>COG1834 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]
Probab=18.95 E-value=77 Score=26.22 Aligned_cols=24 Identities=29% Similarity=0.430 Sum_probs=17.6
Q ss_pred CcccCCCcceEEecccccCCCCce
Q 033782 11 GGLESEGKRWVIAGIPLRAPLKPI 34 (111)
Q Consensus 11 ~~~~~~~kkwviagi~l~a~LkPi 34 (111)
|.+-.++.+||++|++-|+.+.=|
T Consensus 121 GD~l~~~~~~v~iG~s~RTn~egi 144 (267)
T COG1834 121 GDVLMDGGDTVYIGYSFRTNLEGI 144 (267)
T ss_pred ccEEEeCCcEEEEEeccccchHHH
Confidence 444455699999999988765544
No 9
>PHA03416 hypothetical E4 protein; Provisional
Probab=17.96 E-value=1.2e+02 Score=21.35 Aligned_cols=21 Identities=19% Similarity=0.444 Sum_probs=12.1
Q ss_pred CCcCCCCCCCCCCCCCCCCCCCCCCCC
Q 033782 54 ELSTTPTSEDARIPAKLTCPAAPRKRK 80 (111)
Q Consensus 54 ~C~TTPts~e~rIP~~~~CPPAPRK~r 80 (111)
.|.| | ...||.. ||.||+|.+
T Consensus 24 ~~~t-P---p~ppP~p--~p~Ap~k~~ 44 (92)
T PHA03416 24 DCND-P---QRPTPTP--APCATKTGG 44 (92)
T ss_pred cCCC-C---CCCcCCC--CCCCCCCcc
Confidence 4654 6 3355544 777886643
No 10
>PF14509 GH97_C: Glycosyl-hydrolase 97 C-terminal, oligomerisation; PDB: 3A24_A 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A.
Probab=17.18 E-value=73 Score=22.32 Aligned_cols=11 Identities=36% Similarity=1.087 Sum_probs=9.3
Q ss_pred CCcceEEeccc
Q 033782 16 EGKRWVIAGIP 26 (111)
Q Consensus 16 ~~kkwviagi~ 26 (111)
||..|-|+||.
T Consensus 25 ~G~~Wyvg~in 35 (103)
T PF14509_consen 25 DGDDWYVGGIN 35 (103)
T ss_dssp TTTEEEEEEEE
T ss_pred CCCCEEEEEee
Confidence 47899999984
Done!