Query 023233
Match_columns 285
No_of_seqs 133 out of 235
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 02:30:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023233.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023233hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03181 BURP: BURP domain; I 100.0 2.8E-92 6E-97 636.3 20.9 215 60-281 1-216 (216)
2 PF07172 GRP: Glycine rich pro 46.2 16 0.00034 29.5 2.2 15 16-30 15-29 (95)
3 KOG0022 Alcohol dehydrogenase, 43.0 16 0.00036 36.1 2.1 30 220-255 30-59 (375)
4 PF06890 Phage_Mu_Gp45: Bacter 27.9 1.4E+02 0.0031 26.3 5.3 51 218-281 44-94 (162)
5 PF07792 Afi1: Docking domain 25.7 48 0.0011 28.7 2.0 22 230-259 116-137 (145)
6 COG1064 AdhP Zn-dependent alco 25.0 69 0.0015 31.5 3.1 43 220-263 16-62 (339)
7 smart00676 DM10 Domains in hyp 19.9 45 0.00098 27.1 0.6 21 57-77 63-83 (104)
8 smart00167 VPS9 Domain present 19.7 49 0.0011 27.5 0.8 27 134-160 79-105 (117)
9 PF11323 DUF3125: Protein of u 19.0 69 0.0015 23.3 1.3 32 246-280 19-50 (50)
10 TIGR03475 tap_IncFII_lead RepA 16.3 1.1E+02 0.0024 19.3 1.6 18 8-25 6-23 (26)
No 1
>PF03181 BURP: BURP domain; InterPro: IPR004873 The BURP domain is a ~230-residue module, which has been named for the four members of the group initially identified, BNM2, USP, RD22, and PG1beta. It is found in the C-terminal part of a number of plant cell wall proteins, which are defined not only by the BURP domain, but also by the overall similarity in their modular construction. The BURP domain proteins consists of either three or four modules: (i) an N-terminal hydrophobic domain - a presumptive transit peptide, joined to (ii) a short conserved segment or other short segment, (iii) an optional segment consisting of repeated units which is unique to each member, and (iv) the C-terminal BURP domain. Although the BURP domain proteins share primary structural features, their expression patterns and the conditions under which they are expressed differ. The presence of the conserved BURP domain in diverse plant proteins suggests an important and fundamental functional role for this domain []. It is possible that the BURP domain represents a general motif for localization of proteins within the cell wall matrix. The other structural domains associated with the BURP domain may specify other target sites for intermolecular interactions []. Some proteins known to contain a BURP domain are listed below [, , ]: Brassica protein BNM2, which is expressed during the induction of microspore embryogenesis. Field bean USPs, abundant non-storage seed proteins with unknown function. Soybean USP-like proteins ADR6 (or SALI5-4A), an auxin-repressible, aluminium-inducible protein and SALI3-2, a protein that is up-regulated by aluminium. Soybean seed coat BURP-domain protein 1 (SCB1). It might play a role in the differentiation of the seed coat parenchyma cells. Arabidopsis RD22 drought induced protein. Maize ZRP2, a protein of unknown function in cortex parenchyma. Tomato PG1beta, the beta-subunit of polygalacturonase isozyme 1 (PG1), which is expressed in ripening fruits. Cereal RAFTIN. It is essential specifically for the maturation phase of pollen development.
Probab=100.00 E-value=2.8e-92 Score=636.28 Aligned_cols=215 Identities=53% Similarity=0.962 Sum_probs=205.0
Q ss_pred CcccccCCCCCCceeecccCCCCCCCCCCCCCccccccCCCCCCChHHHHhhcCCCCCcHHHHHHHHHHHHhccCCCCCC
Q 023233 60 QIFFTISDLKIGKSLPIYFSYKDPSTSPHLLPRDEANSIPFSSSELPYLLEFFSFSKDSHQAEAMKYTLTQCELQPLKGE 139 (285)
Q Consensus 60 ~~FF~e~dL~~G~~m~l~f~~~~~~~~~~fLPR~vAdsIPFSs~~l~~iL~~Fsi~~~S~~A~~m~~TL~~CE~~~~~GE 139 (285)
++||+|+||++|++|+++|++.+..+.++||||++||+||||+++||+||++|+|+++|+||++|++||++||.++++||
T Consensus 1 ~~fF~e~dL~~G~~m~l~f~~~~~~~~~~fLpr~~A~siPfss~~l~~iL~~Fsi~~~S~~A~~m~~Tl~~Ce~~~~~GE 80 (216)
T PF03181_consen 1 ALFFLEKDLHPGKKMPLYFPKSDNSAKRPFLPRQVADSIPFSSSKLPEILQMFSIPPGSPMAKAMKNTLEECESPPIKGE 80 (216)
T ss_pred CcccCHHHCCCCceeeecCCCCCCCcccccCCHHHhccCCcCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCCc
Confidence 47999999999999999999988766789999999999999999999999999999999999999999999999999999
Q ss_pred cccccccHHHHHHHhhhccCCcceeEEEecccccCCCCCCCCcceEEeecceeecC-CceeeeccCCCCeEEEEeeecCC
Q 023233 140 TKFCATSLESMLDFTRGVFGLETNFKILTTNFITNPLIGNPLQNYTILKLPEEIYA-PKMVACHSMPYPYAVFYCHYQES 218 (285)
Q Consensus 140 ~K~CaTSLESMvdFa~s~LG~~~~i~alst~~~~~~~~~~~~q~Ytv~~~~k~i~g-~k~V~CH~~~yPYaVfyCH~~~~ 218 (285)
+|+||||||||+||++|+||++ ++++++|+... +.+.|+|+| +++++++| +++|+||+|+|||+|||||.++
T Consensus 81 ~k~CaTSLESMvdF~~s~LG~~-~v~a~st~~~~----~~~~~~y~V-~~v~~i~~~~~~V~CH~~~yPYaVyyCH~~~- 153 (216)
T PF03181_consen 81 TKYCATSLESMVDFAVSKLGTR-NVRALSTEVPK----STPLQNYTV-EGVKKIGGGDKSVVCHKMPYPYAVYYCHSIP- 153 (216)
T ss_pred CccCcCCHHHHHHHHHHhcCCC-ccEEEeccccC----CCCCccEEE-EeeeeecCCCceEEEcccCCceeEEEeeecC-
Confidence 9999999999999999999986 89999998864 367899999 55677887 8999999999999999999998
Q ss_pred CcEEEEEEeecCCCceeeEEEEeecCCCCCCCCchhhhhhccCCCCCceeeeeeCCcEEEeeC
Q 023233 219 ENKLFQVSLTGENGVRVEAAAVCHMDTSQWNRDHASFRVLKIEPGTSPVCHFLPVDNLVWVPD 281 (285)
Q Consensus 219 ~t~vY~V~L~g~dG~~v~avAVCH~DTS~W~p~H~aF~~L~vkPG~~pVCHfl~~~~ivWvp~ 281 (285)
+||+|+|+|+|+||++++||||||+|||+|||+|+||++||+|||++|||||+++|+|+||||
T Consensus 154 ~t~~y~V~l~g~dg~~~~avavCH~DTS~W~p~h~aF~~L~vkPG~~~VCHf~~~~~ivWv~~ 216 (216)
T PF03181_consen 154 PTRVYMVPLVGEDGTKVEAVAVCHLDTSGWNPDHPAFQVLGVKPGTVPVCHFLPNDHIVWVPN 216 (216)
T ss_pred ceeEEEEEEeecCCceEEEEEEEecCCCCCCcchHHHHHhCCCCCCcceEEEeeCCeEEEccC
Confidence 599999999999999999999999999999999999999999999999999999999999997
No 2
>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=46.24 E-value=16 Score=29.52 Aligned_cols=15 Identities=13% Similarity=0.377 Sum_probs=10.1
Q ss_pred HHHhhhcCCccceee
Q 023233 16 LVLMFAQKSTTRKVV 30 (285)
Q Consensus 16 ~~~~~~~~~~~~~~~ 30 (285)
++|+|..+-.||++.
T Consensus 15 ~lLlisSevaa~~~~ 29 (95)
T PF07172_consen 15 ALLLISSEVAARELE 29 (95)
T ss_pred HHHHHHhhhhhHHhh
Confidence 556666666888883
No 3
>KOG0022 consensus Alcohol dehydrogenase, class III [Secondary metabolites biosynthesis, transport and catabolism]
Probab=42.97 E-value=16 Score=36.08 Aligned_cols=30 Identities=27% Similarity=0.531 Sum_probs=23.1
Q ss_pred cEEEEEEeecCCCceeeEEEEeecCCCCCCCCchhh
Q 023233 220 NKLFQVSLTGENGVRVEAAAVCHMDTSQWNRDHASF 255 (285)
Q Consensus 220 t~vY~V~L~g~dG~~v~avAVCH~DTS~W~p~H~aF 255 (285)
-++++|.+ |+.+.+|||+|-..|+-+++.+
T Consensus 30 Pka~EVRI------KI~~t~vCHTD~~~~~g~~~~~ 59 (375)
T KOG0022|consen 30 PKAHEVRI------KILATGVCHTDAYVWSGKDPEG 59 (375)
T ss_pred CCCceEEE------EEEEEeeccccceeecCCCccc
Confidence 35677665 5789999999999999765443
No 4
>PF06890 Phage_Mu_Gp45: Bacteriophage Mu Gp45 protein; InterPro: IPR014462 This entry is represented by the Bacteriophage Mu, Gp45. The characteristics of the protein distribution suggest prophage matches.
Probab=27.89 E-value=1.4e+02 Score=26.35 Aligned_cols=51 Identities=12% Similarity=0.188 Sum_probs=36.9
Q ss_pred CCcEEEEEEeecCCCceeeEEEEeecCCCCCCCCchhhhhhccCCCCCceeeeeeCCcEEEeeC
Q 023233 218 SENKLFQVSLTGENGVRVEAAAVCHMDTSQWNRDHASFRVLKIEPGTSPVCHFLPVDNLVWVPD 281 (285)
Q Consensus 218 ~~t~vY~V~L~g~dG~~v~avAVCH~DTS~W~p~H~aF~~L~vkPG~~pVCHfl~~~~ivWvp~ 281 (285)
.++.++.+.|. |.+-..|+||-- |..|++-+++||++ |=|=..++.||+..
T Consensus 44 ~Ga~~vvl~lG---G~rs~~Vvia~~--------d~~yR~~~L~~GEv--alY~~~G~~I~L~~ 94 (162)
T PF06890_consen 44 PGAEAVVLFLG---GDRSHGVVIAVE--------DRRYRPKGLKPGEV--ALYDDEGQKIHLKR 94 (162)
T ss_pred CCCeEEEEEec---cCCcceEEEEeC--------CccccccCCCCCcE--EEEcCCCCEEEEEe
Confidence 46788888875 456677788744 46688888999964 55557888888764
No 5
>PF07792 Afi1: Docking domain of Afi1 for Arf3 in vesicle trafficking; InterPro: IPR012860 This domain occurs at the N terminus of Afi1, a protein necessary for vesicle trafficking in yeast. This domain is the interacting region of the protein which binds to Arf3. Afi1 is distributed asymmetrically at the plasma membrane and is required for polarized distribution of Arf3 but not of an Arf3 guanine nucleotide-exchange factor, Yel1p. However, Afi1 is not required for targeting of Arf3 or Yel1p to the plasma membrane. Afi1 functions as an Arf3 polarization-specific adapter and participates in development of polarity. Although Arf3 is the homologue of human Arf6 it does not function in the same way, not being necessary for endocytosis or for mating factor receptor internalisation. In the S phase, however, it is concentrated at the plasma membrane of the emerging bud. Because of its polarized localisation and its critical function in the normal budding pattern of yeast, Arf3 is probably a regulator of vesicle trafficking, which is important for polarized growth.
Probab=25.65 E-value=48 Score=28.65 Aligned_cols=22 Identities=36% Similarity=0.721 Sum_probs=16.7
Q ss_pred CCCceeeEEEEeecCCCCCCCCchhhhhhc
Q 023233 230 ENGVRVEAAAVCHMDTSQWNRDHASFRVLK 259 (285)
Q Consensus 230 ~dG~~v~avAVCH~DTS~W~p~H~aF~~L~ 259 (285)
..|.+|+|+||| ..|+.|++++
T Consensus 116 rRGA~vKa~aI~--------T~~~~~~ifK 137 (145)
T PF07792_consen 116 RRGAVVKAMAIC--------TRHPFFHIFK 137 (145)
T ss_pred ccccceeEEEEE--------cccHHHHHHh
Confidence 456789999999 4577777653
No 6
>COG1064 AdhP Zn-dependent alcohol dehydrogenases [General function prediction only]
Probab=25.01 E-value=69 Score=31.53 Aligned_cols=43 Identities=30% Similarity=0.497 Sum_probs=27.0
Q ss_pred cEEEEEEee--cCCC--ceeeEEEEeecCCCCCCCCchhhhhhccCCC
Q 023233 220 NKLFQVSLT--GENG--VRVEAAAVCHMDTSQWNRDHASFRVLKIEPG 263 (285)
Q Consensus 220 t~vY~V~L~--g~dG--~~v~avAVCH~DTS~W~p~H~aF~~L~vkPG 263 (285)
-++.+++.- +.+. -+|++-+|||+|-..|.-+-+ ...|-+-||
T Consensus 16 l~i~e~~~p~p~~~eVlI~v~~~GVChsDlH~~~G~~~-~~~~P~ipG 62 (339)
T COG1064 16 LEIEEVPVPEPGPGEVLIKVEACGVCHTDLHVAKGDWP-VPKLPLIPG 62 (339)
T ss_pred ceEEeccCCCCCCCeEEEEEEEEeecchhhhhhcCCCC-CCCCCccCC
Confidence 344555543 3344 378999999999999986543 222444455
No 7
>smart00676 DM10 Domains in hypothetical proteins in Drosophila, C. elegans and mammals. Occurs singly in some nucleoside diphosphate kinases.
Probab=19.86 E-value=45 Score=27.07 Aligned_cols=21 Identities=24% Similarity=0.795 Sum_probs=18.3
Q ss_pred CCCCcccccCCCCCCceeecc
Q 023233 57 PSEQIFFTISDLKIGKSLPIY 77 (285)
Q Consensus 57 ~~~~~FF~e~dL~~G~~m~l~ 77 (285)
|..+-|+..+||++|++++++
T Consensus 63 ~~~~~~y~~~Dl~vG~~v~i~ 83 (104)
T smart00676 63 PDDPEYYHASDLNVGTTINVF 83 (104)
T ss_pred ccccCccCHHHcCCCCEEEEe
Confidence 455679999999999999986
No 8
>smart00167 VPS9 Domain present in VPS9. Domain present in yeast vacuolar sorting protein 9 and other proteins.
Probab=19.73 E-value=49 Score=27.48 Aligned_cols=27 Identities=30% Similarity=0.429 Sum_probs=23.9
Q ss_pred CCCCCCcccccccHHHHHHHhhhccCC
Q 023233 134 QPLKGETKFCATSLESMLDFTRGVFGL 160 (285)
Q Consensus 134 ~~~~GE~K~CaTSLESMvdFa~s~LG~ 160 (285)
.-..||..||-|++|+-++|..+..+.
T Consensus 79 ~~l~gE~gY~lT~l~aAv~fi~~l~~~ 105 (117)
T smart00167 79 SLLTGEGGYYLTSLSAALALIKGLTEA 105 (117)
T ss_pred cccccHHHHHHHHHHHHHHHHHHCCHH
Confidence 346899999999999999999988764
No 9
>PF11323 DUF3125: Protein of unknown function (DUF3125); InterPro: IPR021472 This family of proteins with unknown function appears to be restricted to Staphylococcus.
Probab=19.04 E-value=69 Score=23.29 Aligned_cols=32 Identities=22% Similarity=0.511 Sum_probs=26.5
Q ss_pred CCCCCCchhhhhhccCCCCCceeeeeeCCcEEEee
Q 023233 246 SQWNRDHASFRVLKIEPGTSPVCHFLPVDNLVWVP 280 (285)
Q Consensus 246 S~W~p~H~aF~~L~vkPG~~pVCHfl~~~~ivWvp 280 (285)
..|..+ |-+||-.|-.+--|++-..-.++|+|
T Consensus 19 ~~~e~~---fS~Lga~~q~a~yckl~f~~~L~~~P 50 (50)
T PF11323_consen 19 RNWESN---FSMLGAHFQSANYCKLNFPRLLCWGP 50 (50)
T ss_pred eeeccc---chhhccccceeeeEEecceeEEEecC
Confidence 467664 77899888888889998788999987
No 10
>TIGR03475 tap_IncFII_lead RepA leader peptide Tap. This protein is a translated leader peptide that actis in the regulation of the expression of the plasmid replication protein RepA in incF2 group plasmids.
Probab=16.30 E-value=1.1e+02 Score=19.30 Aligned_cols=18 Identities=22% Similarity=0.290 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhhcCCc
Q 023233 8 RSFTLCVLLVLMFAQKST 25 (285)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~ 25 (285)
--+||+.|+++|...++.
T Consensus 6 Q~~FLc~~LL~cniSAg~ 23 (26)
T TIGR03475 6 QYLFLCHLLLPCNISAGR 23 (26)
T ss_pred HHHHHHHHHhhhcccccc
Confidence 457888888888877654
Done!