Query 040492
Match_columns 77
No_of_seqs 101 out of 144
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 09:00:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040492.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040492hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05627 AvrRpt-cleavage: Clea 99.8 1E-22 2.3E-27 117.7 0.0 38 2-39 2-39 (39)
2 PF04939 RRS1: Ribosome biogen 53.4 10 0.00022 27.5 1.8 33 7-39 109-151 (164)
3 COG4262 Predicted spermidine s 30.4 20 0.00044 30.2 0.4 10 7-16 437-446 (508)
4 PF00779 BTK: BTK motif; Inte 28.7 20 0.00043 19.6 0.1 10 63-72 10-19 (32)
5 smart00107 BTK Bruton's tyrosi 26.7 26 0.00057 19.5 0.3 10 62-71 14-23 (36)
6 cd05806 CBM20_laforin Laforin 25.4 39 0.00084 22.7 1.1 12 7-18 23-34 (112)
7 TIGR02689 ars_reduc_gluta arse 22.0 69 0.0015 20.8 1.7 24 10-35 94-117 (126)
8 COG0394 Wzb Protein-tyrosine-p 21.0 65 0.0014 22.0 1.5 27 9-35 102-130 (139)
9 PF00686 CBM_20: Starch bindin 18.9 41 0.00089 20.8 0.1 12 7-18 23-34 (96)
10 PF13197 DUF4013: Protein of u 17.8 57 0.0012 22.0 0.7 13 4-16 33-45 (169)
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=99.85 E-value=1e-22 Score=117.71 Aligned_cols=38 Identities=74% Similarity=1.243 Sum_probs=13.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCceehhHHHHhhhhcC
Q 040492 2 AEKGGPLPKFGEWDVNDPASAEGFTVIFNKARNEKKTG 39 (77)
Q Consensus 2 ~~~~~~vPKFG~WD~~~pas~~~yTviF~kar~~Kk~~ 39 (77)
.+++++|||||+||++||+++++|||||+|||++|+++
T Consensus 2 ~~~~~~vPkFG~WD~~~~~~~~~yT~iF~kar~~Kk~~ 39 (39)
T PF05627_consen 2 PQKGSHVPKFGEWDENNPASAEGYTVIFEKAREEKKTG 39 (39)
T ss_dssp ----------SGGGTT-TT---SS-EEEE---------
T ss_pred CcCCCCCCCCCcccCCCCCCCCCeeehHHHHhhhccCC
Confidence 35778999999999999999999999999999999975
No 2
>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=53.43 E-value=10 Score=27.50 Aligned_cols=33 Identities=27% Similarity=0.479 Sum_probs=27.1
Q ss_pred CCCCCC----------CCCCCCCCCCCCceehhHHHHhhhhcC
Q 040492 7 PLPKFG----------EWDVNDPASAEGFTVIFNKARNEKKTG 39 (77)
Q Consensus 7 ~vPKFG----------~WD~~~pas~~~yTviF~kar~~Kk~~ 39 (77)
=||+|| +|=.+-+..+..|.-.|.+.|++||..
T Consensus 109 W~prwGyk~~nkd~~~~wiiEv~~~~~~~eDpf~~~~~eKker 151 (164)
T PF04939_consen 109 WVPRWGYKRANKDKEKDWIIEVKPNDDPGEDPFEKKREEKKER 151 (164)
T ss_pred hhhcccccccccccccCceEEcCCCCCCCcCHHHHHHHHHHHH
Confidence 478888 677766777899999999999999864
No 3
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=30.37 E-value=20 Score=30.22 Aligned_cols=10 Identities=50% Similarity=1.331 Sum_probs=8.8
Q ss_pred CCCCCCCCCC
Q 040492 7 PLPKFGEWDV 16 (77)
Q Consensus 7 ~vPKFG~WD~ 16 (77)
+||-||||-=
T Consensus 437 ~VPTFGeWGf 446 (508)
T COG4262 437 HVPTFGEWGF 446 (508)
T ss_pred ecCcccccce
Confidence 7999999964
No 4
>PF00779 BTK: BTK motif; InterPro: IPR001562 The Btk-type zinc finger or Btk motif (BM) is a conserved zinc-binding motif containing conserved cysteines and a histidine that is present in certain eukaryotic signalling proteins. The motif is named after Bruton's tyrosine kinase (Btk), an enzyme which is essential for B cell maturation in humans and mice [, ]. Btk is a member of the Tec family of protein tyrosine kinases (PTK). These kinases contain a conserved Tec homology (TH) domain between the N-terminal pleckstrin homology (PH) domain (IPR001849 from INTERPRO) and the Src homology 3 (SH3) domain (IPR001452 from INTERPRO). The N-terminal of the TH domain is highly conserved and known as the Btf motif, while the C-terminal region of the TH domain contains a proline-rich region (PRR). The Btk motif contains a conserved His and three Cys residues that form a zinc finger (although these differ from known zinc finger topologies), while PRRs are commonly involved in protein-protein interactions, including interactions with G proteins [, ]. The TH domain may be of functional importance in various signalling pathways in different species []. A complete TH domain, containing both the Btk and PRR regions, has not been found outside the Tec family; however, the Btk motif on its own does occur in other proteins, usually C-terminal to a PH domain (note that although a Btk motif always occurs C-terminal to a PH domain, not all PH domains are followed by a Btk motif). The crystal structures of Btk show that the Btk-type zinc finger has a globular core, formed by a long loop which is held together by a zinc ion, and that the Btk motif is packed against the PH domain []. The zinc-binding residues are a histidine and three cysteines, which are fully conserved in the Btk motif []. Proteins known to contain a Btk-type zinc finger include: Mammalian Bruton's tyrosine kinase (Btk), a protein tyrosine kinase involved in modulation of diverse cellular processes. Mutations affecting Btk are the cause of X-linked agammaglobulinemia (XLA) in humans and X-linked immunodeficiency in mice. Mammalian Tec, Bmx, and Itk proteins, which are tyrosine protein kinases of the Tec subfamily. Drosophila tyrosine-protein kinase Btk29A, which is required for the development of proper ring canals and of male genitalia and required for adult survival. Mammalian Ras GTPase-activating proteins (RasGAP), which regulate the activation of inactive GDP-bound Ras by converting GDP to GTP. ; GO: 0035556 intracellular signal transduction; PDB: 2E6I_A 2YS2_A 2Z0P_A 1B55_A 1BTK_B 1BWN_A.
Probab=28.73 E-value=20 Score=19.56 Aligned_cols=10 Identities=50% Similarity=1.451 Sum_probs=7.4
Q ss_pred CcceeeeecC
Q 040492 63 SKKWFCCMQA 72 (77)
Q Consensus 63 ~kKwfCc~~~ 72 (77)
..+|.||.+.
T Consensus 10 ~g~W~CC~q~ 19 (32)
T PF00779_consen 10 GGKWLCCKQT 19 (32)
T ss_dssp TTCESSSS-S
T ss_pred CCcCcCCCCc
Confidence 5799999873
No 5
>smart00107 BTK Bruton's tyrosine kinase Cys-rich motif. Zinc-binding motif containing conserved cysteines and a histidine. Always found C-terminal to PH domains (but not all PH domains are followed by BTK motifs). The crystal structure shows this motif packs against the PH domain. The PH+Btk module pair has been called the Tec homology (TH) region.
Probab=26.67 E-value=26 Score=19.52 Aligned_cols=10 Identities=50% Similarity=1.398 Sum_probs=8.4
Q ss_pred CCcceeeeec
Q 040492 62 QSKKWFCCMQ 71 (77)
Q Consensus 62 ~~kKwfCc~~ 71 (77)
...+|.||.+
T Consensus 14 ~~G~W~CC~q 23 (36)
T smart00107 14 VDGKWLCCQQ 23 (36)
T ss_pred eCCeEccCCC
Confidence 3689999987
No 6
>cd05806 CBM20_laforin Laforin protein tyrosine phosphatase, N-terminal CBM20 (carbohydrate-binding module, family 20) domain. Laforin, encoded by the EPM2A gene, is a dual-specificity phosphatase that dephosphorylates complex carbohydrates. Mutations in the gene encoding laforin result in Lafora disease, a fatal autosomal recessive neurodegenerative disorder characterized by the presence of intracellular deposits of insoluble, abnormally branched, glycogen-like polymers, known as Lafora bodies, in neurons, muscle, liver, and other tissues. The molecular basis for the formation of these Lafora bodies is unknown. Laforin is one of the only phosphatases that contains a carbohydrate-binding module. 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
Probab=25.40 E-value=39 Score=22.71 Aligned_cols=12 Identities=33% Similarity=0.925 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCC
Q 040492 7 PLPKFGEWDVND 18 (77)
Q Consensus 7 ~vPKFG~WD~~~ 18 (77)
.+|.+|+||...
T Consensus 23 sipeLG~Wd~~~ 34 (112)
T cd05806 23 SRPELGSWDPQR 34 (112)
T ss_pred CchhcCCCCccc
Confidence 789999999765
No 7
>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=22.05 E-value=69 Score=20.83 Aligned_cols=24 Identities=29% Similarity=0.756 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCCCCceehhHHHHhh
Q 040492 10 KFGEWDVNDPASAEGFTVIFNKARNE 35 (77)
Q Consensus 10 KFG~WD~~~pas~~~yTviF~kar~~ 35 (77)
.++.|+-.||.. ...-.|.++|++
T Consensus 94 ~~~~w~i~DP~~--~~~~~f~~~~~~ 117 (126)
T TIGR02689 94 IFEDWQLEDPDG--QSIEVFRRVRDE 117 (126)
T ss_pred eeecCCCCCCCC--CcHHHHHHHHHH
Confidence 468999999853 345566666664
No 8
>COG0394 Wzb Protein-tyrosine-phosphatase [Signal transduction mechanisms]
Probab=20.99 E-value=65 Score=21.96 Aligned_cols=27 Identities=19% Similarity=0.548 Sum_probs=21.0
Q ss_pred CCCCCCCCCCCCCCC--CceehhHHHHhh
Q 040492 9 PKFGEWDVNDPASAE--GFTVIFNKARNE 35 (77)
Q Consensus 9 PKFG~WD~~~pas~~--~yTviF~kar~~ 35 (77)
..+-.||..||..+. .|-..|..+|+.
T Consensus 102 ~~~~~~~v~DP~~~~~e~~~~~~~~i~~~ 130 (139)
T COG0394 102 LEYEHWEVPDPYYGSGEEFEEVYRLIEDA 130 (139)
T ss_pred ccccCCCCCCCCCCchHHHHHHHHHHHHH
Confidence 345569999998654 788889888875
No 9
>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=18.91 E-value=41 Score=20.76 Aligned_cols=12 Identities=33% Similarity=0.988 Sum_probs=9.8
Q ss_pred CCCCCCCCCCCC
Q 040492 7 PLPKFGEWDVND 18 (77)
Q Consensus 7 ~vPKFG~WD~~~ 18 (77)
..|.+|+||.+.
T Consensus 23 s~~~LG~W~~~~ 34 (96)
T PF00686_consen 23 SCPELGNWDPKK 34 (96)
T ss_dssp SSGGGTTTSGGG
T ss_pred CcHHhCCCChHh
Confidence 578999999854
No 10
>PF13197 DUF4013: Protein of unknown function (DUF4013)
Probab=17.75 E-value=57 Score=22.04 Aligned_cols=13 Identities=38% Similarity=1.084 Sum_probs=9.2
Q ss_pred CCCCCCCCCCCCC
Q 040492 4 KGGPLPKFGEWDV 16 (77)
Q Consensus 4 ~~~~vPKFG~WD~ 16 (77)
+..++|+|.+|-.
T Consensus 33 ~~~~lP~~~~~~~ 45 (169)
T PF13197_consen 33 GSDPLPEFNDWGE 45 (169)
T ss_pred CCCCCCCchHHHH
Confidence 3468999887753
Done!