Query 039013
Match_columns 77
No_of_seqs 32 out of 34
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 05:28:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039013.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039013hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06806 DUF1233: Putative exc 83.3 1 2.2E-05 28.5 2.0 38 37-74 13-51 (72)
2 PF15027 DUF4525: Domain of un 70.3 7 0.00015 27.6 3.4 37 32-74 35-71 (138)
3 PF12273 RCR: Chitin synthesis 67.3 4.3 9.2E-05 26.9 1.8 17 4-20 10-26 (130)
4 PF07172 GRP: Glycine rich pro 63.2 4.1 8.8E-05 26.6 1.1 17 2-18 7-23 (95)
5 PF15240 Pro-rich: Proline-ric 54.9 9.2 0.0002 27.9 1.9 23 1-23 1-23 (179)
6 KOG4319 DNA-binding nuclear pr 50.0 7.9 0.00017 24.5 0.8 9 63-71 38-46 (70)
7 PHA02099 hypothetical protein 39.8 14 0.0003 23.9 0.7 10 63-72 24-33 (84)
8 PF06404 PSK: Phytosulfokine p 33.7 18 0.00039 23.0 0.5 15 13-27 10-24 (81)
9 PF04648 MF_alpha: Yeast matin 31.4 24 0.00052 15.8 0.6 7 66-72 5-11 (13)
10 COG4536 CorB Putative Mg2+ and 30.6 36 0.00078 28.0 1.9 20 2-21 8-27 (423)
11 PF15284 PAGK: Phage-encoded v 24.0 67 0.0015 19.8 1.8 15 2-16 9-23 (61)
12 PF01454 MAGE: MAGE family; I 22.0 1.2E+02 0.0027 20.8 3.1 12 37-48 127-138 (195)
13 PF02817 E3_binding: e3 bindin 21.5 84 0.0018 17.2 1.8 18 36-53 9-26 (39)
14 KOG4761 Proteasome formation i 21.3 52 0.0011 25.5 1.2 14 63-76 242-255 (266)
15 PF10028 DUF2270: Predicted in 20.6 90 0.0019 22.9 2.2 24 2-25 46-69 (185)
16 TIGR02242 tail_TIGR02242 phage 20.6 74 0.0016 21.6 1.7 36 38-74 94-130 (130)
No 1
>PF06806 DUF1233: Putative excisionase (DUF1233); InterPro: IPR009634 This family consists of several putative phage and prophage excisionase proteins of around 80 residues in length.; PDB: 2KVV_A.
Probab=83.34 E-value=1 Score=28.54 Aligned_cols=38 Identities=34% Similarity=0.573 Sum_probs=24.3
Q ss_pred HHHHHHHhhhhhhhhhhcccccccCCCCCccCCCC-CCC
Q 039013 37 QLLLRELGFDLTKLKHYERLSSTIHRESDRVSPGG-PDP 74 (77)
Q Consensus 37 ~~lLrelg~~~sk~k~~~r~~~~~~~~s~RlSPGG-PDP 74 (77)
+.|.--.|......+++++..++.|..=+++||.| |||
T Consensus 13 ~~L~a~tGls~~~I~~yR~~~WieG~hyk~vs~dg~p~~ 51 (72)
T PF06806_consen 13 ELLMAITGLSPGTIKRYRKKSWIEGRHYKKVSPDGQPKP 51 (72)
T ss_dssp HHHHHHH---HHHHHHHHTTT--TTTSEEEE-SSSS--T
T ss_pred HHHHHHHCCCHHHHHHHHHHHhhccceeEecCCCCCcCC
Confidence 44666678888888888887898999999999998 655
No 2
>PF15027 DUF4525: Domain of unknown function (DUF4525)
Probab=70.29 E-value=7 Score=27.60 Aligned_cols=37 Identities=30% Similarity=0.374 Sum_probs=27.2
Q ss_pred cCCCHHHHHHHHhhhhhhhhhhcccccccCCCCCccCCCCCCC
Q 039013 32 SNIDSQLLLRELGFDLTKLKHYERLSSTIHRESDRVSPGGPDP 74 (77)
Q Consensus 32 ~~~~s~~lLrelg~~~sk~k~~~r~~~~~~~~s~RlSPGGPDP 74 (77)
.+-.|..-|||=.+|+| |+|-+ .+ ++..+..+.||++
T Consensus 35 ~~~~ss~~LR~QILdLS--krYVK--aL--AeEn~~~~dgp~~ 71 (138)
T PF15027_consen 35 PRHQSSAELREQILDLS--KRYVK--AL--AEENKNVVDGPYG 71 (138)
T ss_pred CCccChHHHHHHHHHHH--HHHHH--HH--HHHcCCCCCCCcc
Confidence 33456668999999999 77766 22 3677888999875
No 3
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=67.31 E-value=4.3 Score=26.94 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=6.8
Q ss_pred HHHHHHHHHhhhhhhhc
Q 039013 4 LFFIVFSLLFMSFQARI 20 (77)
Q Consensus 4 l~lil~s~~~~s~eaR~ 20 (77)
++++|++++|+..-.|.
T Consensus 10 ~~i~l~~~~~~~~~rRR 26 (130)
T PF12273_consen 10 VAILLFLFLFYCHNRRR 26 (130)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333344444444443
No 4
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=63.16 E-value=4.1 Score=26.55 Aligned_cols=17 Identities=29% Similarity=0.485 Sum_probs=7.9
Q ss_pred hHHHHHHHHHHhhhhhh
Q 039013 2 LMLFFIVFSLLFMSFQA 18 (77)
Q Consensus 2 lil~lil~s~~~~s~ea 18 (77)
|+|.|++.++|+.|+|.
T Consensus 7 llL~l~LA~lLlisSev 23 (95)
T PF07172_consen 7 LLLGLLLAALLLISSEV 23 (95)
T ss_pred HHHHHHHHHHHHHHhhh
Confidence 34444444445555543
No 5
>PF15240 Pro-rich: Proline-rich
Probab=54.93 E-value=9.2 Score=27.91 Aligned_cols=23 Identities=26% Similarity=0.174 Sum_probs=17.9
Q ss_pred ChHHHHHHHHHHhhhhhhhccch
Q 039013 1 MLMLFFIVFSLLFMSFQARILHD 23 (77)
Q Consensus 1 ~lil~lil~s~~~~s~eaR~L~~ 23 (77)
||+|+|.+.++.++|.|...-.+
T Consensus 1 MLlVLLSvALLALSSAQ~~dEdv 23 (179)
T PF15240_consen 1 MLLVLLSVALLALSSAQSTDEDV 23 (179)
T ss_pred ChhHHHHHHHHHhhhcccccccc
Confidence 88888888888888887765533
No 6
>KOG4319 consensus DNA-binding nuclear protein p8 [Transcription]
Probab=50.02 E-value=7.9 Score=24.54 Aligned_cols=9 Identities=56% Similarity=1.243 Sum_probs=8.2
Q ss_pred CCCccCCCC
Q 039013 63 ESDRVSPGG 71 (77)
Q Consensus 63 ~s~RlSPGG 71 (77)
-++|+||||
T Consensus 38 htnr~sPgG 46 (70)
T KOG4319|consen 38 HTNRLSPGG 46 (70)
T ss_pred hccCCCCCc
Confidence 489999999
No 7
>PHA02099 hypothetical protein
Probab=39.78 E-value=14 Score=23.92 Aligned_cols=10 Identities=40% Similarity=0.813 Sum_probs=8.4
Q ss_pred CCCccCCCCC
Q 039013 63 ESDRVSPGGP 72 (77)
Q Consensus 63 ~s~RlSPGGP 72 (77)
.-+|+||||-
T Consensus 24 n~~rv~pg~~ 33 (84)
T PHA02099 24 NAGRVGPGES 33 (84)
T ss_pred ccCccCCCCc
Confidence 5779999985
No 8
>PF06404 PSK: Phytosulfokine precursor protein (PSK); InterPro: IPR009438 This family consists of several plant specific phytosulfokine precursor proteins. Phytosulfokines, are active as either a pentapeptide or a C-terminally truncated tetrapeptide. These compounds were first isolated because of their ability to stimulate cell division in somatic embryo cultures of Asparagus officinalis [].; GO: 0008083 growth factor activity, 0008283 cell proliferation, 0005576 extracellular region
Probab=33.73 E-value=18 Score=23.00 Aligned_cols=15 Identities=33% Similarity=0.144 Sum_probs=11.1
Q ss_pred hhhhhhhccchhhHH
Q 039013 13 FMSFQARILHDEQQA 27 (77)
Q Consensus 13 ~~s~eaR~L~~~~~~ 27 (77)
..+..||++++.+..
T Consensus 10 ~~~~AARp~p~~~~~ 24 (81)
T PF06404_consen 10 TSAAAARPLPASQGA 24 (81)
T ss_pred hHhhhcCCCCCcccc
Confidence 348899999887543
No 9
>PF04648 MF_alpha: Yeast mating factor alpha hormone; InterPro: IPR006742 This repeated sequence,WHWLQLKPGQPMY, characterises the mating factor alpha-1 or alpha-1 mating pheromone [contains: Mating factor alpha].The hormone is excreted into the culture medium by haploid cells of the alpha mating type and acts on cells of the opposite mating type (type A) by binding to a cognate G-protein coupled receptor which is coupled to a downstream signal transduction pathway. It inhibits DNA synthesis in type A cells synchronising them with type alpha, and so mediates the conjugation process.; GO: 0000772 mating pheromone activity, 0019953 sexual reproduction, 0005576 extracellular region
Probab=31.35 E-value=24 Score=15.76 Aligned_cols=7 Identities=71% Similarity=1.402 Sum_probs=5.5
Q ss_pred ccCCCCC
Q 039013 66 RVSPGGP 72 (77)
Q Consensus 66 RlSPGGP 72 (77)
|++||-|
T Consensus 5 ~~~~GqP 11 (13)
T PF04648_consen 5 RLSPGQP 11 (13)
T ss_pred eccCCCc
Confidence 6888876
No 10
>COG4536 CorB Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]
Probab=30.63 E-value=36 Score=27.95 Aligned_cols=20 Identities=15% Similarity=0.411 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHhhhhhhhcc
Q 039013 2 LMLFFIVFSLLFMSFQARIL 21 (77)
Q Consensus 2 lil~lil~s~~~~s~eaR~L 21 (77)
.+++||+.|.||+.+|.-..
T Consensus 8 ~iiili~iSAfFSgSETal~ 27 (423)
T COG4536 8 AIIILIIISAFFSGSETALT 27 (423)
T ss_pred HHHHHHHHHHHhcccHHHHh
Confidence 47788999999999998654
No 11
>PF15284 PAGK: Phage-encoded virulence factor
Probab=24.00 E-value=67 Score=19.83 Aligned_cols=15 Identities=33% Similarity=0.374 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHhhhh
Q 039013 2 LMLFFIVFSLLFMSF 16 (77)
Q Consensus 2 lil~lil~s~~~~s~ 16 (77)
|.+.+++.++.|+++
T Consensus 9 L~l~~~LsA~~FSas 23 (61)
T PF15284_consen 9 LALVFILSAAGFSAS 23 (61)
T ss_pred HHHHHHHHHhhhhHH
Confidence 456667777777654
No 12
>PF01454 MAGE: MAGE family; InterPro: IPR002190 The first mammalian members of the MAGE (melanoma-associated antigen) gene family were originally described as completely silent in normal adult tissues, with the exception of male germ cells and, for some of them, placenta. By contrast, these genes were expressed in various kinds of tumors. However, other members of the family were recently found to be expressed in normal cells, indicating that the family is larger and more disparate than initially expected. MAGE-like genes have also been identified in non-mammalian species, including Drosophila melanogaster (Fruit fly) and Danio rerio (Zebrafish). Although no MAGE homologous sequences have been identified in Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast) or Schizosaccharomyces pombe (Fission yeast), MAGE sequences have been found in several vegetal species, including Arabidopsis thaliana (Mouse-ear cress) []. The only region of homology shared by all of the members of the family is a stretch of about 200 amino acids which has been named the MAGE conserved domain. The MAGE conserved domain is usually located close to the C-terminal, although it can also be found in a more central position in some proteins. The MAGE conserved domain is generally present as a single copy but it is duplicated in some proteins. It has been proposed that the MAGE conserved domain of MAGE-D proteins might interact with p75 neurotrophin or related receptors [].; PDB: 3NW0_B 2WA0_A 1I4F_C.
Probab=22.01 E-value=1.2e+02 Score=20.79 Aligned_cols=12 Identities=42% Similarity=0.551 Sum_probs=6.2
Q ss_pred HHHHHHHhhhhh
Q 039013 37 QLLLRELGFDLT 48 (77)
Q Consensus 37 ~~lLrelg~~~s 48 (77)
-..|+.+|++..
T Consensus 127 ~~~L~~lgi~~~ 138 (195)
T PF01454_consen 127 WKFLRRLGIDED 138 (195)
T ss_dssp HHHHHHTT--TT
T ss_pred HHHHHhcCCCcc
Confidence 337777776543
No 13
>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=21.52 E-value=84 Score=17.18 Aligned_cols=18 Identities=39% Similarity=0.580 Sum_probs=12.3
Q ss_pred HHHHHHHHhhhhhhhhhh
Q 039013 36 SQLLLRELGFDLTKLKHY 53 (77)
Q Consensus 36 s~~lLrelg~~~sk~k~~ 53 (77)
.+.+++|.|+|+++++..
T Consensus 9 ar~la~e~gidl~~v~gt 26 (39)
T PF02817_consen 9 ARKLAAELGIDLSQVKGT 26 (39)
T ss_dssp HHHHHHHTT--GGGSSSS
T ss_pred HHHHHHHcCCCccccccc
Confidence 356999999999977654
No 14
>KOG4761 consensus Proteasome formation inhibitor PI31 [Posttranslational modification, protein turnover, chaperones]
Probab=21.26 E-value=52 Score=25.52 Aligned_cols=14 Identities=43% Similarity=0.807 Sum_probs=11.3
Q ss_pred CCCccCCCCCCCCC
Q 039013 63 ESDRVSPGGPDPQH 76 (77)
Q Consensus 63 ~s~RlSPGGPDPqH 76 (77)
..-+.||+||+|-|
T Consensus 242 gP~g~~~~gpnpdh 255 (266)
T KOG4761|consen 242 GPIGTSPPGPNPDH 255 (266)
T ss_pred CCCCCCCCCCCccc
Confidence 46788889998877
No 15
>PF10028 DUF2270: Predicted integral membrane protein (DUF2270); InterPro: IPR014470 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.62 E-value=90 Score=22.94 Aligned_cols=24 Identities=21% Similarity=0.326 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHhhhhhhhccchhh
Q 039013 2 LMLFFIVFSLLFMSFQARILHDEQ 25 (77)
Q Consensus 2 lil~lil~s~~~~s~eaR~L~~~~ 25 (77)
.+|+-+++.++|..-|||..+...
T Consensus 46 ~lL~~~~l~~~FL~iEARRYR~yd 69 (185)
T PF10028_consen 46 VLLFGMFLVTFFLFIEARRYRFYD 69 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888889999999999987764
No 16
>TIGR02242 tail_TIGR02242 phage tail protein domain. This model describes a region of sequence similarity shared by a number of uncharacterized proteins in bacterial genomes, including Geobacter sulfurreducens PCA, Mesorhizobium loti, Streptomyces coelicolor A3(2), Gloeobacter violaceus PCC 7421, and Myxococcus xanthus. In all cases, the genomic region resembles a phage tail region, based on tentative identifications of neighboring genes. A region of this domain resembles a region of TIGR01634, another phage tail protein model.
Probab=20.60 E-value=74 Score=21.58 Aligned_cols=36 Identities=28% Similarity=0.439 Sum_probs=21.7
Q ss_pred HHHHH-HhhhhhhhhhhcccccccCCCCCccCCCCCCC
Q 039013 38 LLLRE-LGFDLTKLKHYERLSSTIHRESDRVSPGGPDP 74 (77)
Q Consensus 38 ~lLre-lg~~~sk~k~~~r~~~~~~~~s~RlSPGGPDP 74 (77)
.+++. .|+...-.+.++- ....+.+...+-|+||||
T Consensus 94 ~~l~~~~G~~~~i~E~f~~-~~~~~~~~~~~~~~g~~~ 130 (130)
T TIGR02242 94 ELLRLYLGIEPRIVEPFAS-DTLVGEDEFGVRVLGPDP 130 (130)
T ss_pred HHHHHhcCCCcEEeeehhc-cccccccccccccCCCCC
Confidence 35555 5655553444554 344455656679999998
Done!