Query psy18005
Match_columns 135
No_of_seqs 104 out of 195
Neff 5.7
Searched_HMMs 46136
Date Fri Aug 16 19:52:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18005.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18005hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2337|consensus 100.0 4.3E-42 9.4E-47 298.8 8.1 125 10-135 6-132 (669)
2 TIGR01381 E1_like_apg7 E1-like 100.0 1.2E-41 2.6E-46 303.0 9.7 122 14-135 1-129 (664)
3 PRK11657 dsbG disulfide isomer 59.9 86 0.0019 25.2 8.5 93 27-132 28-126 (251)
4 COG2266 GTP:adenosylcobinamide 54.7 5.1 0.00011 31.4 0.5 17 77-93 147-163 (177)
5 PF03047 ComC: COMC family; I 49.1 3.5 7.6E-05 23.6 -0.9 25 83-107 4-28 (32)
6 PF13838 Clathrin_H_link: Clat 46.9 4.6 0.0001 26.8 -0.7 19 78-96 34-52 (66)
7 KOG2766|consensus 31.7 56 0.0012 27.7 3.3 32 80-111 176-212 (336)
8 PRK00317 mobA molybdopterin-gu 30.7 18 0.00038 27.1 0.1 17 78-94 174-190 (193)
9 TIGR03310 matur_ygfJ molybdenu 28.7 30 0.00065 25.2 1.1 15 78-92 173-187 (188)
10 PRK13688 hypothetical protein; 28.0 32 0.00069 25.7 1.1 17 77-93 4-20 (156)
11 KOG0394|consensus 27.8 51 0.0011 26.5 2.3 36 80-128 87-124 (210)
12 PRK00560 molybdopterin-guanine 27.6 22 0.00048 27.1 0.2 16 78-93 172-187 (196)
13 PRK00576 molybdopterin-guanine 22.3 35 0.00076 25.2 0.4 16 78-93 158-173 (178)
14 cd04182 GT_2_like_f GT_2_like_ 22.1 37 0.00079 24.5 0.5 14 78-91 173-186 (186)
No 1
>KOG2337|consensus
Probab=100.00 E-value=4.3e-42 Score=298.76 Aligned_cols=125 Identities=38% Similarity=0.657 Sum_probs=118.8
Q ss_pred cceeeeCCccCCChhHHHHHhhCccccccCCCCCeeeEEEeecCC--CceeEeccCCCCCCCCCCcceeeeeeeeeccch
Q psy18005 10 TILNFIPFVSSIEPTFWYKLSEIKLDEDKLKETPRPIQGYFNHNG--SCRLYINSSSFSSTSSESFDHFAEGTLLNLNSL 87 (135)
Q Consensus 10 ~~LqF~pf~S~vd~sFW~~Ls~~KLd~~KLde~~~~I~g~y~~~~--~~~l~ld~~SF~~~~~~~~~~~~~G~l~N~NTi 87 (135)
.+|||+||.|++|++|||+|+++|||+|||||+|+.|.|+|.+.+ .+++++++.+|++...+.. +++.|+|||+||+
T Consensus 6 ~~LqFaPf~S~lD~~FWhels~~KLd~~kLD~sP~~I~~~~~~~~~sg~~lsl~~~~~~~~~~~~~-~~a~Gtl~N~NT~ 84 (669)
T KOG2337|consen 6 IILQFAPFESFLDTGFWHELSELKLDKLKLDDSPKSITGHLTNRNASGCLLSLSYGAFNSLANTPG-CPAIGTLYNTNTL 84 (669)
T ss_pred ceeeecchhhhcchHHHHHHHhhhcchhcccCCcceeeceeccCCCccceEEEecccccccCCCCC-CccceeeeccccH
Confidence 589999999999999999999999999999999999999999877 5799999999997654444 8999999999999
Q ss_pred HHhhccCHHHHHHHHHHHHHHhhhcCCcccCcccccceeeeeeeccCC
Q psy18005 88 ESFKSYDKTELLLKRGQIILQAMEDGDIFENLKLLTSFFVLTFANLQK 135 (135)
Q Consensus 88 E~Fk~~DK~~ll~~~~~~i~~~i~sg~~~~dp~~L~~F~llsFaDLKk 135 (135)
|+||++||+.+++++|.+||++|++|.|++||++|++|+|||||||||
T Consensus 85 esFk~lDK~~ll~~ea~eiwesi~sG~aledP~lL~rFliisFADLKk 132 (669)
T KOG2337|consen 85 ESFKNLDKQLLLEQEAEEIWESIKSGKALEDPNLLSRFLIISFADLKK 132 (669)
T ss_pred HHHhhhhHHHHHHHHHHHHHHhhccCccccChhhhhhhhhhhhhhhhh
Confidence 999999999999999999999999999999999999999999999997
No 2
>TIGR01381 E1_like_apg7 E1-like protein-activating enzyme Gsa7p/Apg7p. This model represents a family of eukaryotic proteins found in animals, plants, and yeasts, including Apg7p (YHR171W) from Saccharomyces cerevisiae and GSA7 from Pichia pastoris. Members are about 650 to 700 residues in length and include a central domain of about 150 residues shared with the ThiF/MoeB/HesA family of proteins. A low level of similarity to ubiquitin-activating enzyme E1 is described in a paper on peroxisome autophagy mediated by GSA7, and is the basis of the name ubiquitin activating enzyme E1-like protein. Members of the family appear to be involved in protein lipidation events analogous to ubiquitination and required for membrane fusion events during autophagy.
Probab=100.00 E-value=1.2e-41 Score=302.99 Aligned_cols=122 Identities=35% Similarity=0.656 Sum_probs=116.5
Q ss_pred eeCCccCCChhHHHHHhhCccccccCCCCCeeeEEEeecCC----CceeEeccCCCCCCC---CCCcceeeeeeeeeccc
Q psy18005 14 FIPFVSSIEPTFWYKLSEIKLDEDKLKETPRPIQGYFNHNG----SCRLYINSSSFSSTS---SESFDHFAEGTLLNLNS 86 (135)
Q Consensus 14 F~pf~S~vd~sFW~~Ls~~KLd~~KLde~~~~I~g~y~~~~----~~~l~ld~~SF~~~~---~~~~~~~~~G~l~N~NT 86 (135)
|+||+|+||++|||+|+++|||+|||||+|++|+|+|++++ +++++||++||.+.. .+.+.++++|+|+|+||
T Consensus 1 f~pf~S~vd~~Fw~~Ls~~KL~~~kLdds~~~i~g~y~~~~~~~~~~~l~l~~~sf~~~~~~~~~~~~~~~~G~l~N~NT 80 (664)
T TIGR01381 1 FVPFVSCVDTGFWNEVSKLKLNKWKLDDTPKCISGQLSLHQTEGFKCHLSLSYDSLSSLESTTGTHAQLSVSGILLNYNT 80 (664)
T ss_pred CCCcccccCcHHHHHHHhhhcccccCCCCceeEEEEEeccCCCCCCceEEEehhhCCccccccCCCCceEEEEEEEeccc
Confidence 89999999999999999999999999999999999999976 689999999998543 55678999999999999
Q ss_pred hHHhhccCHHHHHHHHHHHHHHhhhcCCcccCcccccceeeeeeeccCC
Q psy18005 87 LESFKSYDKTELLLKRGQIILQAMEDGDIFENLKLLTSFFVLTFANLQK 135 (135)
Q Consensus 87 iE~Fk~~DK~~ll~~~~~~i~~~i~sg~~~~dp~~L~~F~llsFaDLKk 135 (135)
||+||++||++||+++|++||++|.+|+++++|++|++|+|||||||||
T Consensus 81 iE~Fk~~DK~~ll~~~~~~i~~~i~~g~~~~~pslL~~F~ilsfADLKk 129 (664)
T TIGR01381 81 VESFKKVDKSDLLRSEAEKIWESIQTRKWLQDPSLLSQFFIISFADLKK 129 (664)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHhcCCcccCHHHHHhhHhhhhhhccc
Confidence 9999999999999999999999999999999999999999999999998
No 3
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=59.88 E-value=86 Score=25.18 Aligned_cols=93 Identities=17% Similarity=0.223 Sum_probs=49.8
Q ss_pred HHHhhCccccccCCCCCeeeEEEeecCC--CceeEeccCCCCCCCCCCcceeeeeeeeeccchHHhhccCHHHHHHH---
Q psy18005 27 YKLSEIKLDEDKLKETPRPIQGYFNHNG--SCRLYINSSSFSSTSSESFDHFAEGTLLNLNSLESFKSYDKTELLLK--- 101 (135)
Q Consensus 27 ~~Ls~~KLd~~KLde~~~~I~g~y~~~~--~~~l~ld~~SF~~~~~~~~~~~~~G~l~N~NTiE~Fk~~DK~~ll~~--- 101 (135)
+.|.+.=+.+.+--+.|-+|.|+|.... +..+.++ +.+.+.+.|.|++.+. +++....+.+.
T Consensus 28 ~~l~~~g~~v~~~~~~p~~l~g~~~~~~~~~~i~Y~t---------~dg~y~i~G~l~d~~~----~nlT~~~~~~~~~~ 94 (251)
T PRK11657 28 KALEKQGITIIKTFDAPGGLKGYAAKYQDMGVTIYLT---------PDGKHAISGYMYDEKG----ENLSEALLEKEVYA 94 (251)
T ss_pred HHHHhCCCEEEEeecCCCCceEEEEEeCCCceEEEEc---------CCCCEEEEEEEEcCCC----CccCHHHHHHHhcC
Confidence 3444443444444345678888876543 2233322 2244688999999874 36665544432
Q ss_pred -HHHHHHHhhhcCCcccCcccccceeeeeeec
Q psy18005 102 -RGQIILQAMEDGDIFENLKLLTSFFVLTFAN 132 (135)
Q Consensus 102 -~~~~i~~~i~sg~~~~dp~~L~~F~llsFaD 132 (135)
.+++.|+.+....++...+.=.+-.|..|.|
T Consensus 95 ~~~~~~~~~l~~~~~i~~g~~~ak~~I~vFtD 126 (251)
T PRK11657 95 PMGREMWQRLEQSHWILDGKADAPRIVYVFAD 126 (251)
T ss_pred CccHHHHHHhhccCCccccCCCCCeEEEEEEC
Confidence 3446777765433333222223445666666
No 4
>COG2266 GTP:adenosylcobinamide-phosphate guanylyltransferase [Coenzyme metabolism]
Probab=54.69 E-value=5.1 Score=31.43 Aligned_cols=17 Identities=24% Similarity=0.266 Sum_probs=14.4
Q ss_pred eeeeeeeccchHHhhcc
Q psy18005 77 AEGTLLNLNSLESFKSY 93 (135)
Q Consensus 77 ~~G~l~N~NTiE~Fk~~ 93 (135)
-.+..+|.||.|+||.+
T Consensus 147 ~~~la~NVNT~eDl~~a 163 (177)
T COG2266 147 NPELAVNVNTPEDLKKA 163 (177)
T ss_pred ccceeEecCCHHHHHHH
Confidence 34889999999999864
No 5
>PF03047 ComC: COMC family; InterPro: IPR004288 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. This family consists of streptococcal competence stimulating peptide precursors, which are generally up to 50 amino acid residues long. In all the members of this family, the leader sequence is cleaved after two conserved glycine residues; thus the leader sequence is of the double- glycine type []. Competence stimulating peptides (CSP) are small (less than 25 amino acid residues) cationic peptides. The N-terminal amino acid residue is negatively charged, either glutamate or aspartate. The C-terminal end is positively charged. The third residue is also positively charged: a highly conserved arginine []. Some COMC proteins and their precursors (not included in this family) do not fully follow the above description. Functionally, CSP act as pheromones, stimulating competence for genetic transformation in streptococci. In streptococci, the (CSP mediated) competence response requires exponential cell growth at a critical density, a relatively simple requirement when compared to the stationary-phase requirement of Haemophilus, or the late-logarithmic- phase of Bacillus []. All bacteria induced to competence by a particular CSP are said to belong to the same pherotype, because each CSP is recognised by a specific receptor (the signalling domain of a histidine kinase ComD). Pherotypes are not necessarily species-specific. In addition, an organism may change pherotype. There are two possible mechanisms for pherotype switching: horizontal gene transfer, and accumulation of point mutations. The biological significance of pherotypes and pherotype switching is not definitively determined. Pherotype switching occurs frequently enough in naturally competent streptococci to suggest that it may be an important contributor to genetic exchange between different bacterial species []. This entry also includes proteins that form bacteriocin-like propetides with a glycine-glycine cleavage site. The bacteriocin is initially formed as a pre-propeptide and upon cleavage at the glycine-glycine cleavage site, a leader peptide and the propeptide would be formed. The propeptide then undergoes posttranslational modification before becoming functional [].; GO: 0005186 pheromone activity; PDB: 2I2J_A 2I2H_A 2A1C_A.
Probab=49.09 E-value=3.5 Score=23.62 Aligned_cols=25 Identities=28% Similarity=0.291 Sum_probs=0.5
Q ss_pred eccchHHhhccCHHHHHHHHHHHHH
Q psy18005 83 NLNSLESFKSYDKTELLLKRGQIIL 107 (135)
Q Consensus 83 N~NTiE~Fk~~DK~~ll~~~~~~i~ 107 (135)
+++++|.|+.++-.+|-+-.|...|
T Consensus 4 ~~~~L~~F~~lt~~eL~~I~GG~~~ 28 (32)
T PF03047_consen 4 NKKTLEQFEELTEEELQEIQGGDWR 28 (32)
T ss_dssp ------------------------S
T ss_pred hhhhHHHHhcCCHHHHhhccCCcee
Confidence 4789999999988888777776555
No 6
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=46.93 E-value=4.6 Score=26.76 Aligned_cols=19 Identities=21% Similarity=0.361 Sum_probs=13.9
Q ss_pred eeeeeeccchHHhhccCHH
Q psy18005 78 EGTLLNLNSLESFKSYDKT 96 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk~~DK~ 96 (135)
.|.|.|..||+.||++..+
T Consensus 34 ~giLRt~~Ti~rFk~~p~~ 52 (66)
T PF13838_consen 34 RGILRTPETINRFKQVPAQ 52 (66)
T ss_dssp GGTT-SHHHHHHHHTS---
T ss_pred cchhcCHHHHHHHHcCCCC
Confidence 4899999999999988654
No 7
>KOG2766|consensus
Probab=31.67 E-value=56 Score=27.74 Aligned_cols=32 Identities=38% Similarity=0.451 Sum_probs=24.7
Q ss_pred eeee-ccchHHh--hccCHHHHHHHHHH--HHHHhhh
Q psy18005 80 TLLN-LNSLESF--KSYDKTELLLKRGQ--IILQAME 111 (135)
Q Consensus 80 ~l~N-~NTiE~F--k~~DK~~ll~~~~~--~i~~~i~ 111 (135)
++|- -||-||| |++|+.++|.-.|- .|..+|+
T Consensus 176 TlYaVSNv~EEflvkn~d~~elm~~lgLfGaIIsaIQ 212 (336)
T KOG2766|consen 176 TLYAVSNVSEEFLVKNADRVELMGFLGLFGAIISAIQ 212 (336)
T ss_pred eeeeeccccHHHHHhcCcHHHHHHHHHHHHHHHHHHH
Confidence 5554 4999999 69999999988873 5666665
No 8
>PRK00317 mobA molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed
Probab=30.71 E-value=18 Score=27.05 Aligned_cols=17 Identities=18% Similarity=0.473 Sum_probs=14.2
Q ss_pred eeeeeeccchHHhhccC
Q psy18005 78 EGTLLNLNSLESFKSYD 94 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk~~D 94 (135)
.|.+.|.||.|+++.+-
T Consensus 174 ~~~~~dinTped~~~~~ 190 (193)
T PRK00317 174 KDAFFNINTPEDLAQLE 190 (193)
T ss_pred CCccCcCCCHHHHHHHH
Confidence 47899999999998653
No 9
>TIGR03310 matur_ygfJ molybdenum hydroxylase accessory protein, YgfJ family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes related to xanthine dehydrogenase. Comparative genomics suggests a role in the maturation of selenium-dependent molybdenum hydroxylases, although a tenuous alternative hypothesis is a role for this protein (with a requirement for SelD, the selenium donor protein in the selenocysteine and selenouridine biosynthesis pathways) metabolizing a selenium-containing substrate such as selenate.
Probab=28.73 E-value=30 Score=25.21 Aligned_cols=15 Identities=20% Similarity=0.660 Sum_probs=12.8
Q ss_pred eeeeeeccchHHhhc
Q psy18005 78 EGTLLNLNSLESFKS 92 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk~ 92 (135)
.+.++|.||.|++..
T Consensus 173 ~~~~~nint~~d~~~ 187 (188)
T TIGR03310 173 PGILFDIDTPEDYQA 187 (188)
T ss_pred CceeECCCCHHHHhh
Confidence 488999999999863
No 10
>PRK13688 hypothetical protein; Provisional
Probab=28.01 E-value=32 Score=25.71 Aligned_cols=17 Identities=35% Similarity=0.688 Sum_probs=14.5
Q ss_pred eeeeeeeccchHHhhcc
Q psy18005 77 AEGTLLNLNSLESFKSY 93 (135)
Q Consensus 77 ~~G~l~N~NTiE~Fk~~ 93 (135)
+.-.|.|+-|+|+||.+
T Consensus 4 ~~~~~~~~~~~~~~~~~ 20 (156)
T PRK13688 4 VKRLLINYKTLEEFKKF 20 (156)
T ss_pred eeEEEecchhHHHHHHH
Confidence 45678999999999976
No 11
>KOG0394|consensus
Probab=27.79 E-value=51 Score=26.52 Aligned_cols=36 Identities=19% Similarity=0.491 Sum_probs=25.9
Q ss_pred eeeeccchHHhhccC--HHHHHHHHHHHHHHhhhcCCcccCcccccceeee
Q psy18005 80 TLLNLNSLESFKSYD--KTELLLKRGQIILQAMEDGDIFENLKLLTSFFVL 128 (135)
Q Consensus 80 ~l~N~NTiE~Fk~~D--K~~ll~~~~~~i~~~i~sg~~~~dp~~L~~F~ll 128 (135)
..|++|..++|++++ |+++|..+. .++|..+ .|.|+
T Consensus 87 lvydv~~~~Sfe~L~~Wr~EFl~qa~------------~~~Pe~F-PFVil 124 (210)
T KOG0394|consen 87 LVYDVNNPKSFENLENWRKEFLIQAS------------PQDPETF-PFVIL 124 (210)
T ss_pred EEeecCChhhhccHHHHHHHHHHhcC------------CCCCCcc-cEEEE
Confidence 578999999999987 667766543 2467655 56654
No 12
>PRK00560 molybdopterin-guanine dinucleotide biosynthesis protein A; Provisional
Probab=27.59 E-value=22 Score=27.09 Aligned_cols=16 Identities=38% Similarity=0.615 Sum_probs=13.5
Q ss_pred eeeeeeccchHHhhcc
Q psy18005 78 EGTLLNLNSLESFKSY 93 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk~~ 93 (135)
.+.+.|.||.|+++.+
T Consensus 172 ~~~~~dinT~eDl~~~ 187 (196)
T PRK00560 172 EEEFLNLNTLKDYELA 187 (196)
T ss_pred CccccCCCCHHHHHHH
Confidence 3689999999999764
No 13
>PRK00576 molybdopterin-guanine dinucleotide biosynthesis protein A; Provisional
Probab=22.29 E-value=35 Score=25.22 Aligned_cols=16 Identities=19% Similarity=0.243 Sum_probs=13.3
Q ss_pred eeeeeeccchHHhhcc
Q psy18005 78 EGTLLNLNSLESFKSY 93 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk~~ 93 (135)
.+.+.|.||.|+++.+
T Consensus 158 ~~~f~ninTped~~~~ 173 (178)
T PRK00576 158 SRPLTNVNTAADLPAP 173 (178)
T ss_pred CCccccCCCHHHHHHh
Confidence 4789999999999653
No 14
>cd04182 GT_2_like_f GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=22.13 E-value=37 Score=24.45 Aligned_cols=14 Identities=21% Similarity=0.669 Sum_probs=11.8
Q ss_pred eeeeeeccchHHhh
Q psy18005 78 EGTLLNLNSLESFK 91 (135)
Q Consensus 78 ~G~l~N~NTiE~Fk 91 (135)
.+.++|.||.|++.
T Consensus 173 ~~~~~nint~~d~~ 186 (186)
T cd04182 173 PGVLIDIDTPEDLR 186 (186)
T ss_pred CCcccCCCCHHHhC
Confidence 47899999999873
Done!