Query 044404
Match_columns 76
No_of_seqs 103 out of 141
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 02:58:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044404.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044404hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05627 AvrRpt-cleavage: Clea 99.9 7.6E-23 1.6E-27 118.5 0.3 38 4-41 2-39 (39)
2 PF04939 RRS1: Ribosome biogen 57.0 7.9 0.00017 28.0 1.8 35 7-41 107-151 (164)
3 smart00107 BTK Bruton's tyrosi 52.3 7.6 0.00016 21.7 0.9 16 61-76 9-24 (36)
4 PF00779 BTK: BTK motif; Inte 36.1 9.7 0.00021 20.8 -0.4 10 66-75 9-18 (32)
5 cd05806 CBM20_laforin Laforin 26.3 36 0.00078 22.9 1.0 13 8-20 22-34 (112)
6 COG0394 Wzb Protein-tyrosine-p 22.9 56 0.0012 22.3 1.5 27 11-37 102-130 (139)
7 KOG2970 Predicted membrane pro 21.7 37 0.0008 27.4 0.4 29 5-33 82-112 (319)
8 TIGR02689 ars_reduc_gluta arse 20.9 75 0.0016 20.6 1.7 24 12-37 94-117 (126)
9 PF13197 DUF4013: Protein of u 20.5 47 0.001 22.4 0.7 15 4-18 31-45 (169)
10 COG4262 Predicted spermidine s 19.6 43 0.00093 28.4 0.4 12 8-19 436-447 (508)
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=7.6e-23 Score=118.45 Aligned_cols=38 Identities=55% Similarity=1.061 Sum_probs=13.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCceehhHHHHHHHcCC
Q 044404 4 HGHGSTLPKFGEWDVNDPATADGFSFVFIKASEEKRGG 41 (76)
Q Consensus 4 ~~~~~~vPkFG~WD~~~pasa~~yTviF~KareeKK~~ 41 (76)
++++++|||||+||++||++|++|||||+|||++||++
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 45789999999999999999999999999999999974
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=56.97 E-value=7.9 Score=28.01 Aligned_cols=35 Identities=29% Similarity=0.474 Sum_probs=28.4
Q ss_pred CCCCCCCC----------CCCCCCCCCCCCceehhHHHHHHHcCC
Q 044404 7 GSTLPKFG----------EWDVNDPATADGFSFVFIKASEEKRGG 41 (76)
Q Consensus 7 ~~~vPkFG----------~WD~~~pasa~~yTviF~KareeKK~~ 41 (76)
+-=||.|| +|-..-+..++.|.-.|.+.|++||..
T Consensus 107 ~eW~prwGyk~~nkd~~~~wiiEv~~~~~~~eDpf~~~~~eKker 151 (164)
T PF04939_consen 107 GEWVPRWGYKRANKDKEKDWIIEVKPNDDPGEDPFEKKREEKKER 151 (164)
T ss_pred cchhhcccccccccccccCceEEcCCCCCCCcCHHHHHHHHHHHH
Confidence 44578888 788777778888999999999999863
No 3
>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=52.33 E-value=7.6 Score=21.75 Aligned_cols=16 Identities=38% Similarity=0.987 Sum_probs=11.1
Q ss_pred CCCCCCCceeEEeecC
Q 044404 61 HKQYSAKKKWFCCVFS 76 (76)
Q Consensus 61 ~~~~~~~kKwfCc~~~ 76 (76)
++.--...+|.||.++
T Consensus 9 HP~~~~~G~W~CC~q~ 24 (36)
T smart00107 9 HPSFWVDGKWLCCQQS 24 (36)
T ss_pred CCCceeCCeEccCCCc
Confidence 3444457899999863
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=36.12 E-value=9.7 Score=20.84 Aligned_cols=10 Identities=40% Similarity=1.175 Sum_probs=7.4
Q ss_pred CCceeEEeec
Q 044404 66 AKKKWFCCVF 75 (76)
Q Consensus 66 ~~kKwfCc~~ 75 (76)
...+|.||.+
T Consensus 9 ~~g~W~CC~q 18 (32)
T PF00779_consen 9 RGGKWLCCKQ 18 (32)
T ss_dssp ETTCESSSS-
T ss_pred cCCcCcCCCC
Confidence 3579999975
No 5
>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=26.34 E-value=36 Score=22.87 Aligned_cols=13 Identities=31% Similarity=0.892 Sum_probs=10.9
Q ss_pred CCCCCCCCCCCCC
Q 044404 8 STLPKFGEWDVND 20 (76)
Q Consensus 8 ~~vPkFG~WD~~~ 20 (76)
..+|.+|.||...
T Consensus 22 GsipeLG~Wd~~~ 34 (112)
T cd05806 22 GSRPELGSWDPQR 34 (112)
T ss_pred ECchhcCCCCccc
Confidence 4789999999765
No 6
>COG0394 Wzb Protein-tyrosine-phosphatase [Signal transduction mechanisms]
Probab=22.93 E-value=56 Score=22.29 Aligned_cols=27 Identities=22% Similarity=0.505 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCCCCC--CceehhHHHHHH
Q 044404 11 PKFGEWDVNDPATAD--GFSFVFIKASEE 37 (76)
Q Consensus 11 PkFG~WD~~~pasa~--~yTviF~Karee 37 (76)
..+-.||..||..+. +|--.|..||+.
T Consensus 102 ~~~~~~~v~DP~~~~~e~~~~~~~~i~~~ 130 (139)
T COG0394 102 LEYEHWEVPDPYYGSGEEFEEVYRLIEDA 130 (139)
T ss_pred ccccCCCCCCCCCCchHHHHHHHHHHHHH
Confidence 455669999999654 788899988875
No 7
>KOG2970 consensus Predicted membrane protein [Function unknown]
Probab=21.72 E-value=37 Score=27.36 Aligned_cols=29 Identities=24% Similarity=0.563 Sum_probs=20.6
Q ss_pred CCCCCCCCCC-CCCCCCC-CCCCCceehhHH
Q 044404 5 GHGSTLPKFG-EWDVNDP-ATADGFSFVFIK 33 (76)
Q Consensus 5 ~~~~~vPkFG-~WD~~~p-asa~~yTviF~K 33 (76)
+++.++|||+ .|-=.-- +--|-+||||+-
T Consensus 82 ~~~~pi~qfhGKWpFlrvlGiQEp~SviFS~ 112 (319)
T KOG2970|consen 82 KRGGPIPQFHGKWPFLRVLGIQEPFSVIFSF 112 (319)
T ss_pred hcCCccccccCCcchhhhhhccchHHHHHHH
Confidence 3679999986 8965431 234678999974
No 8
>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=20.91 E-value=75 Score=20.63 Aligned_cols=24 Identities=29% Similarity=0.596 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCCceehhHHHHHH
Q 044404 12 KFGEWDVNDPATADGFSFVFIKASEE 37 (76)
Q Consensus 12 kFG~WD~~~pasa~~yTviF~Karee 37 (76)
.++.|+..||.. +..-.|.++|++
T Consensus 94 ~~~~w~i~DP~~--~~~~~f~~~~~~ 117 (126)
T TIGR02689 94 IFEDWQLEDPDG--QSIEVFRRVRDE 117 (126)
T ss_pred eeecCCCCCCCC--CcHHHHHHHHHH
Confidence 468999999964 335566666664
No 9
>PF13197 DUF4013: Protein of unknown function (DUF4013)
Probab=20.48 E-value=47 Score=22.43 Aligned_cols=15 Identities=33% Similarity=0.873 Sum_probs=10.8
Q ss_pred CCCCCCCCCCCCCCC
Q 044404 4 HGHGSTLPKFGEWDV 18 (76)
Q Consensus 4 ~~~~~~vPkFG~WD~ 18 (76)
.++..++|+|.+|-.
T Consensus 31 ~g~~~~lP~~~~~~~ 45 (169)
T PF13197_consen 31 IGGSDPLPEFNDWGE 45 (169)
T ss_pred ccCCCCCCCchHHHH
Confidence 345589999888853
No 10
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=19.59 E-value=43 Score=28.38 Aligned_cols=12 Identities=42% Similarity=1.027 Sum_probs=9.7
Q ss_pred CCCCCCCCCCCC
Q 044404 8 STLPKFGEWDVN 19 (76)
Q Consensus 8 ~~vPkFG~WD~~ 19 (76)
.+||-||||---
T Consensus 436 v~VPTFGeWGf~ 447 (508)
T COG4262 436 VHVPTFGEWGFI 447 (508)
T ss_pred EecCccccccee
Confidence 479999999753
Done!