Query 034060
Match_columns 105
No_of_seqs 82 out of 84
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 09:19:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034060.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034060hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05627 AvrRpt-cleavage: Clea 99.6 1.2E-16 2.6E-21 97.7 -0.3 33 11-43 5-39 (39)
2 PF07896 DUF1674: Protein of u 54.2 5.4 0.00012 25.3 0.5 14 16-29 34-47 (47)
3 COG5508 Uncharacterized conser 49.6 7.8 0.00017 27.4 0.8 22 8-29 63-84 (84)
4 KOG2970 Predicted membrane pro 30.0 24 0.00052 30.1 0.8 25 12-36 85-113 (319)
5 PF10853 DUF2650: Protein of u 29.4 27 0.00059 21.1 0.8 12 92-103 3-14 (38)
6 TIGR02689 ars_reduc_gluta arse 27.0 76 0.0016 21.8 2.8 29 13-41 91-119 (126)
7 PF04939 RRS1: Ribosome biogen 25.8 55 0.0012 25.1 2.1 29 14-42 110-150 (164)
8 PF00686 CBM_20: Starch bindin 17.3 46 0.00099 21.7 0.1 11 13-23 23-33 (96)
9 COG4262 Predicted spermidine s 16.7 56 0.0012 29.4 0.5 11 13-23 437-447 (508)
10 cd05808 CBM20_alpha_amylase Al 15.7 48 0.001 21.3 -0.1 12 13-24 22-33 (95)
No 1
>PF05627 AvrRpt-cleavage: Cleavage site for pathogenic type III effector avirulence factor Avr; InterPro: IPR008700 This domain is conserved in small families of otherwise unrelated proteins in both mono-cots and di-cots, suggesting that it has a conserved, plant-specific function. It is found both in the plant RIN4 (resistance R membrane-bound host-target protein) where it appears to contribute to the binding of the protein to both RCS (AvrRpt2 auto-cleavage site) and AvrB, the virulence factor from the infecting bacterium []. The cleavage site for the AvrRpt2 avirulence protein would appear to be the sequence motifs VPQFGDW and LPKFGEW, both of which are highly conserved within the domain []. ; PDB: 2NUD_C.
Probab=99.59 E-value=1.2e-16 Score=97.72 Aligned_cols=33 Identities=36% Similarity=0.740 Sum_probs=12.5
Q ss_pred CCCCCCCCCccCCCC--CCCchhhhHHHHHHHhhh
Q 034060 11 WLSVPQFGDWDQKGQ--VPDYSLDFSKIREMRKQN 43 (105)
Q Consensus 11 ~~~vPkFG~WD~k~~--~~~ys~~FsK~Re~kK~~ 43 (105)
+.+||+||+||++++ +++|||||+|||++||+.
T Consensus 5 ~~~vPkFG~WD~~~~~~~~~yT~iF~kar~~Kk~~ 39 (39)
T PF05627_consen 5 GSHVPKFGEWDENNPASAEGYTVIFEKAREEKKTG 39 (39)
T ss_dssp -------SGGGTT-TT---SS-EEEE---------
T ss_pred CCCCCCCCcccCCCCCCCCCeeehHHHHhhhccCC
Confidence 578999999999965 789999999999999973
No 2
>PF07896 DUF1674: Protein of unknown function (DUF1674); InterPro: IPR012875 The members of this family are sequences derived from hypothetical eukaryotic and bacterial proteins. The region in question is approximately 60 residues long. ; PDB: 2K5K_A.
Probab=54.24 E-value=5.4 Score=25.28 Aligned_cols=14 Identities=43% Similarity=1.377 Sum_probs=3.4
Q ss_pred CCCCccCCCCCCCc
Q 034060 16 QFGDWDQKGQVPDY 29 (105)
Q Consensus 16 kFG~WD~k~~~~~y 29 (105)
.||||..|+-+.||
T Consensus 34 RyGDWe~kGr~~DF 47 (47)
T PF07896_consen 34 RYGDWERKGRASDF 47 (47)
T ss_dssp S-------STT---
T ss_pred cccccccCCEeccC
Confidence 79999999988876
No 3
>COG5508 Uncharacterized conserved small protein [Function unknown]
Probab=49.62 E-value=7.8 Score=27.40 Aligned_cols=22 Identities=36% Similarity=0.827 Sum_probs=16.8
Q ss_pred CCCCCCCCCCCCccCCCCCCCc
Q 034060 8 NAPWLSVPQFGDWDQKGQVPDY 29 (105)
Q Consensus 8 n~~~~~vPkFG~WD~k~~~~~y 29 (105)
.-++.---.||||..|+-+.||
T Consensus 63 GrgGlePtRyGDWe~KGr~iDF 84 (84)
T COG5508 63 GRGGLEPTRYGDWEHKGRVIDF 84 (84)
T ss_pred CCCCCCccccccccccceecCC
Confidence 3445555689999999988776
No 4
>KOG2970 consensus Predicted membrane protein [Function unknown]
Probab=29.97 E-value=24 Score=30.07 Aligned_cols=25 Identities=32% Similarity=0.538 Sum_probs=21.1
Q ss_pred CCCCCCC-CccCC---CCCCCchhhhHHH
Q 034060 12 LSVPQFG-DWDQK---GQVPDYSLDFSKI 36 (105)
Q Consensus 12 ~~vPkFG-~WD~k---~~~~~ys~~FsK~ 36 (105)
.++|||+ .|-=+ |--+-+||+||-+
T Consensus 85 ~pi~qfhGKWpFlrvlGiQEp~SviFS~l 113 (319)
T KOG2970|consen 85 GPIPQFHGKWPFLRVLGIQEPFSVIFSFL 113 (319)
T ss_pred CccccccCCcchhhhhhccchHHHHHHHH
Confidence 8999986 99887 5688999999854
No 5
>PF10853 DUF2650: Protein of unknown function (DUF2650); InterPro: IPR022559 This region is found in proteins with unknown function in metazoa.
Probab=29.44 E-value=27 Score=21.15 Aligned_cols=12 Identities=42% Similarity=1.254 Sum_probs=9.6
Q ss_pred ccccceeeeeee
Q 034060 92 RRSFLSYFNCCV 103 (105)
Q Consensus 92 rk~fLsyf~CCi 103 (105)
..+++.|+.||-
T Consensus 3 ~~s~f~yy~CCg 14 (38)
T PF10853_consen 3 EESFFHYYKCCG 14 (38)
T ss_pred CCCeeEEEECCC
Confidence 357899999994
No 6
>TIGR02689 ars_reduc_gluta arsenate reductase, glutathione/glutaredoxin type. Members of this protein family represent a novel form of arsenate reductase, using glutathione and glutaredoxin rather than thioredoxin for reducing equivalents as do some homologous arsenate reductases. An example of this type is Synechocystis sp. strain PCC 6803 slr0946, and of latter type (excluded from this model) is Staphylococcus aureus plasmid pI258 ArsC. Both are among the subset of arsenate reductases that belong the the low-molecular-weight protein-tyrosine phosphatase superfamily.
Probab=27.02 E-value=76 Score=21.85 Aligned_cols=29 Identities=21% Similarity=0.328 Sum_probs=20.4
Q ss_pred CCCCCCCccCCCCCCCchhhhHHHHHHHh
Q 034060 13 SVPQFGDWDQKGQVPDYSLDFSKIREMRK 41 (105)
Q Consensus 13 ~vPkFG~WD~k~~~~~ys~~FsK~Re~kK 41 (105)
.+..++.|+..+|.....-.|.++|++=+
T Consensus 91 ~~~~~~~w~i~DP~~~~~~~f~~~~~~I~ 119 (126)
T TIGR02689 91 TREIFEDWQLEDPDGQSIEVFRRVRDEIK 119 (126)
T ss_pred CCceeecCCCCCCCCCcHHHHHHHHHHHH
Confidence 35567999999886656666777776543
No 7
>PF04939 RRS1: Ribosome biogenesis regulatory protein (RRS1); InterPro: IPR007023 This is a family of eukaryotic ribosomal biogenesis regulatory proteins.; GO: 0042254 ribosome biogenesis, 0005634 nucleus
Probab=25.77 E-value=55 Score=25.14 Aligned_cols=29 Identities=34% Similarity=0.525 Sum_probs=23.1
Q ss_pred CCCCC----------CccCC--CCCCCchhhhHHHHHHHhh
Q 034060 14 VPQFG----------DWDQK--GQVPDYSLDFSKIREMRKQ 42 (105)
Q Consensus 14 vPkFG----------~WD~k--~~~~~ys~~FsK~Re~kK~ 42 (105)
||.|| +|..- +....|.-.|.+.|++||-
T Consensus 110 ~prwGyk~~nkd~~~~wiiEv~~~~~~~eDpf~~~~~eKke 150 (164)
T PF04939_consen 110 VPRWGYKRANKDKEKDWIIEVKPNDDPGEDPFEKKREEKKE 150 (164)
T ss_pred hhcccccccccccccCceEEcCCCCCCCcCHHHHHHHHHHH
Confidence 67777 67764 4577888889999999986
No 8
>PF00686 CBM_20: Starch binding domain; InterPro: IPR002044 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain binds to starch, and is found often at the C terminus of a variety of glycosyl hydrolases acting on polysaccharides more rapidly than on oligosaccharides. Reations include: the hydrolysis of terminal 1,4-linked alpha-D-glucose residues successively from non-reducing ends of the chains with release of beta-D-glucose, the degradation of starch to cyclodextrins by formation of a 1,4-alpha-D-glucosidic bond, and hydrolysis of 1,4-alpha-glucosidic linkages in polysaccharides to remove successive maltose units from the non-reducing ends of the chains.; GO: 0003824 catalytic activity, 0005975 carbohydrate metabolic process; PDB: 1KUL_A 1ACZ_A 1AC0_A 1KUM_A 2Z0B_C 9CGT_A 3CGT_A 6CGT_A 4CGT_A 1CGT_A ....
Probab=17.31 E-value=46 Score=21.75 Aligned_cols=11 Identities=55% Similarity=1.337 Sum_probs=9.5
Q ss_pred CCCCCCCccCC
Q 034060 13 SVPQFGDWDQK 23 (105)
Q Consensus 13 ~vPkFG~WD~k 23 (105)
+.|.+|.||.+
T Consensus 23 s~~~LG~W~~~ 33 (96)
T PF00686_consen 23 SCPELGNWDPK 33 (96)
T ss_dssp SSGGGTTTSGG
T ss_pred CcHHhCCCChH
Confidence 57999999985
No 9
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=16.69 E-value=56 Score=29.35 Aligned_cols=11 Identities=45% Similarity=1.111 Sum_probs=9.4
Q ss_pred CCCCCCCccCC
Q 034060 13 SVPQFGDWDQK 23 (105)
Q Consensus 13 ~vPkFG~WD~k 23 (105)
-||.||||-.-
T Consensus 437 ~VPTFGeWGf~ 447 (508)
T COG4262 437 HVPTFGEWGFI 447 (508)
T ss_pred ecCccccccee
Confidence 48999999875
No 10
>cd05808 CBM20_alpha_amylase Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the C-terminal CBM20 domain, an N-terminal catalytic domain belonging to glycosyl hydrolase family 13, which hydrolyzes internal alpha-1,4-glucosidic bonds in starch and related saccharides, yielding maltotriose and maltose. Two types of soluble substrates are used by alpha-amylases including long substrates (e.g. amylose) and short substrates (e.g. maltodextrins or maltooligosaccharides). The CBM20 domain is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is also present in proteins that have a regulatory role in starch metabolism in plants (e.g. alpha-amylase) or glycogen metabolism in mammals (e.g. lafo
Probab=15.65 E-value=48 Score=21.26 Aligned_cols=12 Identities=33% Similarity=1.080 Sum_probs=9.6
Q ss_pred CCCCCCCccCCC
Q 034060 13 SVPQFGDWDQKG 24 (105)
Q Consensus 13 ~vPkFG~WD~k~ 24 (105)
+.|.||.|+...
T Consensus 22 ~~~~lG~W~~~~ 33 (95)
T cd05808 22 NVPELGNWSPAN 33 (95)
T ss_pred CcHHhCCCChhh
Confidence 578999999753
Done!