Query 036142
Match_columns 114
No_of_seqs 110 out of 145
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 09:51:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036142.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036142hhsearch_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 3.6E-50 7.9E-55 287.5 7.2 101 1-110 1-102 (102)
2 TIGR03715 KxYKxGKxW KxYKxGKxW 67.4 0.48 1E-05 26.6 -2.3 12 16-27 9-20 (29)
3 PF10297 Hap4_Hap_bind: Minima 26.8 23 0.00051 18.3 0.1 6 17-22 2-7 (17)
4 COG3761 NADH:ubiquinone oxidor 23.1 56 0.0012 24.3 1.6 19 9-27 26-48 (118)
5 COG1834 N-Dimethylarginine dim 22.0 60 0.0013 27.0 1.7 27 11-37 121-147 (267)
6 PF12221 HflK_N: Bacterial mem 20.2 55 0.0012 20.0 0.9 14 99-112 20-33 (42)
7 PF02395 Peptidase_S6: Immunog 19.4 56 0.0012 30.8 1.2 13 14-26 226-238 (769)
8 COG5042 NUP Purine nucleoside 18.9 55 0.0012 28.3 0.9 20 8-27 102-121 (349)
9 PF14509 GH97_C: Glycosyl-hydr 18.1 69 0.0015 22.6 1.2 12 16-27 25-36 (103)
10 PF04767 Pox_F17: DNA-binding 15.9 2.3E+02 0.005 20.5 3.4 46 63-112 47-92 (98)
No 1
>PLN03031 hypothetical protein; Provisional
Probab=100.00 E-value=3.6e-50 Score=287.47 Aligned_cols=101 Identities=75% Similarity=1.200 Sum_probs=91.5
Q ss_pred CCCCCcccccCCccCCCcceEEeccccccccCCeeecccCCCcCCCCCchhhhhcCCCCCCCCCCCCCCCCCCCCCCCCC
Q 036142 1 MGFSKKSQTDGGLESENKKWVIAGIAIRASLKPIKTTKTRGGRESEGDYEDEEEAGLSTTPTAKEARIPERLPCPPAPRK 80 (114)
Q Consensus 1 mg~s~k~q~~~~~~~~~kkwviagi~l~~~LkPi~t~~~~~~~~~e~~~~~~e~~~C~TTPts~~~rIP~~~~CPPAPRK 80 (114)
||||+|+||||+||+||||||||||+||+|||||+|++.+.+. ++|+++|.+|||+++|+||..++|||||||
T Consensus 1 mg~s~k~q~~~~~~~~~kkwviagi~~ra~LkPi~t~~~~~~~-------~ee~~~c~~TPts~~~rIP~~~~CPPAPrK 73 (102)
T PLN03031 1 MGFSKKSQVDGGLESDGKKWVIAGISIRAPLKPISTKPVAKEE-------DEEEDECSTTPTAKEARIPERLPCPPAPRK 73 (102)
T ss_pred CCcCcccccccccccCCceEEEeccCcccccCceeccCCCccc-------cccccccccCCCCccccCCCCCcCCCCCCC
Confidence 9999999999999999999999999999999999999887543 556789955699999999999999999999
Q ss_pred CCCC-CCCCCCCCCcCccCCCchHHHHhhhc
Q 036142 81 RRPS-RCNFNNGATREFFTPPDLETVFKLHV 110 (114)
Q Consensus 81 ~r~~-k~~~~~~~~~~FF~~PDLesvF~~~~ 110 (114)
++++ +|+++ ++++||++||||+||+.|+
T Consensus 74 ~r~~~kc~~~--p~~~FF~pPDLEsvFv~r~ 102 (102)
T PLN03031 74 RKPSLKCNYN--GVREFFTPPDLETVFIQRA 102 (102)
T ss_pred CCccccccCC--CCCCccCCCChhheeEecC
Confidence 9987 76664 6889999999999998764
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=67.43 E-value=0.48 Score=26.58 Aligned_cols=12 Identities=42% Similarity=0.855 Sum_probs=10.0
Q ss_pred CCcceEEecccc
Q 036142 16 ENKKWVIAGIAI 27 (114)
Q Consensus 16 ~~kkwviagi~l 27 (114)
.||.||+|+|..
T Consensus 9 sGK~Wv~a~~~~ 20 (29)
T TIGR03715 9 SGKQWVFAAITT 20 (29)
T ss_pred cccHHHHHHHHH
Confidence 589999999764
No 3
>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=26.76 E-value=23 Score=18.26 Aligned_cols=6 Identities=50% Similarity=1.403 Sum_probs=4.5
Q ss_pred CcceEE
Q 036142 17 NKKWVI 22 (114)
Q Consensus 17 ~kkwvi 22 (114)
+|+|||
T Consensus 2 Sk~Wvl 7 (17)
T PF10297_consen 2 SKNWVL 7 (17)
T ss_pred Cccccc
Confidence 578887
No 4
>COG3761 NADH:ubiquinone oxidoreductase 17.2 kD subunit [Energy production and conversion]
Probab=23.14 E-value=56 Score=24.30 Aligned_cols=19 Identities=42% Similarity=0.908 Sum_probs=14.0
Q ss_pred ccC-CccCCC--cceEE-ecccc
Q 036142 9 TDG-GLESEN--KKWVI-AGIAI 27 (114)
Q Consensus 9 ~~~-~~~~~~--kkwvi-agi~l 27 (114)
.|| +.||+| +.||| .|++=
T Consensus 26 ye~r~~ds~gr~RRwVIYngyaE 48 (118)
T COG3761 26 YEGRNIDSEGRTRRWVIYNGYAE 48 (118)
T ss_pred eeccCCccCCCeeeEEEEcCcch
Confidence 466 888887 78999 55544
No 5
>COG1834 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]
Probab=21.97 E-value=60 Score=27.01 Aligned_cols=27 Identities=22% Similarity=0.334 Sum_probs=19.3
Q ss_pred CCccCCCcceEEeccccccccCCeeec
Q 036142 11 GGLESENKKWVIAGIAIRASLKPIKTT 37 (114)
Q Consensus 11 ~~~~~~~kkwviagi~l~~~LkPi~t~ 37 (114)
|.+-.++.+||++|++-|+.+.=|..-
T Consensus 121 GD~l~~~~~~v~iG~s~RTn~egi~~l 147 (267)
T COG1834 121 GDVLMDGGDTVYIGYSFRTNLEGIEQL 147 (267)
T ss_pred ccEEEeCCcEEEEEeccccchHHHHHH
Confidence 444455699999999998876655443
No 6
>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=20.22 E-value=55 Score=20.05 Aligned_cols=14 Identities=43% Similarity=0.914 Sum_probs=10.3
Q ss_pred CCchHHHHhhhccc
Q 036142 99 PPDLETVFKLHVEK 112 (114)
Q Consensus 99 ~PDLesvF~~~~~~ 112 (114)
+||||.+|..-..|
T Consensus 20 PPDLdel~r~l~~k 33 (42)
T PF12221_consen 20 PPDLDELFRKLQDK 33 (42)
T ss_pred CCCHHHHHHHHHHH
Confidence 78999999754443
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=19.40 E-value=56 Score=30.79 Aligned_cols=13 Identities=46% Similarity=1.091 Sum_probs=10.1
Q ss_pred cCCCcceEEeccc
Q 036142 14 ESENKKWVIAGIA 26 (114)
Q Consensus 14 ~~~~kkwviagi~ 26 (114)
|...|||||+|..
T Consensus 226 D~~~kKWvl~Gv~ 238 (769)
T PF02395_consen 226 DKEKKKWVLVGVL 238 (769)
T ss_dssp ETTTTEEEEEEEE
T ss_pred EccCCeEEEEEEE
Confidence 3457999999974
No 8
>COG5042 NUP Purine nucleoside permease [Nucleotide transport and metabolism]
Probab=18.89 E-value=55 Score=28.31 Aligned_cols=20 Identities=25% Similarity=0.285 Sum_probs=16.1
Q ss_pred cccCCccCCCcceEEecccc
Q 036142 8 QTDGGLESENKKWVIAGIAI 27 (114)
Q Consensus 8 q~~~~~~~~~kkwviagi~l 27 (114)
-.++.||...--|+||||+=
T Consensus 102 ~ls~kfdlt~tyfLiAGIAG 121 (349)
T COG5042 102 LLSKKFDLTKTYFLIAGIAG 121 (349)
T ss_pred HhccccCcceeeeeeeeccc
Confidence 34788888888999999953
No 9
>PF14509 GH97_C: Glycosyl-hydrolase 97 C-terminal, oligomerisation; PDB: 3A24_A 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A.
Probab=18.14 E-value=69 Score=22.57 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=9.4
Q ss_pred CCcceEEecccc
Q 036142 16 ENKKWVIAGIAI 27 (114)
Q Consensus 16 ~~kkwviagi~l 27 (114)
||..|.|+||.=
T Consensus 25 ~G~~Wyvg~in~ 36 (103)
T PF14509_consen 25 DGDDWYVGGING 36 (103)
T ss_dssp TTTEEEEEEEE-
T ss_pred CCCCEEEEEeeC
Confidence 478999999854
No 10
>PF04767 Pox_F17: DNA-binding 11 kDa phosphoprotein; InterPro: IPR006854 This is a family of poxvirus proteins required for virus morphogenesis. This protein is necessary for proteolytic processing of the major viral structural proteins, P4a and P4b [].; GO: 0003677 DNA binding, 0019082 viral protein processing
Probab=15.86 E-value=2.3e+02 Score=20.54 Aligned_cols=46 Identities=20% Similarity=0.364 Sum_probs=27.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCccCCCchHHHHhhhccc
Q 036142 63 AKEARIPERLPCPPAPRKRRPSRCNFNNGATREFFTPPDLETVFKLHVEK 112 (114)
Q Consensus 63 s~~~rIP~~~~CPPAPRK~r~~k~~~~~~~~~~FF~~PDLesvF~~~~~~ 112 (114)
+.-|.+.....||.+++...+. +.+ ....|-..-=|+.+|....+.
T Consensus 47 ~s~C~r~~~~p~p~c~~~s~P~--R~~--~~vpFMrT~mL~~lf~~nrn~ 92 (98)
T PF04767_consen 47 SSPCERRSSSPCPRCPMRSPPG--RQP--PQVPFMRTNMLESLFANNRNV 92 (98)
T ss_pred CCCCcCCCCCCCCcccccCCCC--CCC--CcCceehhhHHHHHHHhhhhH
Confidence 4445554556677777663333 121 345677777899999765543
Done!