Query psy10949
Match_columns 163
No_of_seqs 44 out of 46
Neff 2.8
Searched_HMMs 46136
Date Fri Aug 16 22:36:33 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10949.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10949hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01213 CAP_N: Adenylate cycl 81.2 1 2.2E-05 39.9 2.0 41 12-52 159-205 (312)
2 PF02205 WH2: WH2 motif; Inte 58.8 4.2 9.2E-05 24.8 0.6 16 37-52 7-24 (30)
3 smart00246 WH2 Wiskott Aldrich 53.8 8.2 0.00018 23.5 1.2 15 38-52 5-19 (26)
4 PF07516 SecA_SW: SecA Wing an 48.7 9.6 0.00021 30.8 1.2 36 38-74 164-203 (214)
5 cd04447 DEP_BRCC3 DEP (Disheve 45.2 12 0.00026 28.4 1.3 18 33-50 1-18 (92)
6 COG5587 Uncharacterized conser 41.6 40 0.00086 29.4 3.9 58 28-85 135-194 (228)
7 PF01065 Adeno_hexon: Hexon, a 39.6 7.3 0.00016 37.1 -0.8 27 3-29 239-282 (495)
8 PF05480 Staph_haemo: Staphylo 36.5 28 0.0006 23.4 1.8 28 20-47 9-36 (43)
9 KOG4462|consensus 31.6 26 0.00057 33.0 1.4 16 37-52 33-48 (437)
10 COG3337 CRISPR system related 27.5 39 0.00084 27.5 1.6 63 16-82 50-116 (134)
11 KOG2675|consensus 24.7 43 0.00093 32.1 1.5 34 15-48 166-205 (480)
12 PF15601 Imm42: Immunity prote 21.5 52 0.0011 26.3 1.3 36 10-45 12-48 (134)
13 KOG3671|consensus 20.7 55 0.0012 32.0 1.5 41 38-82 471-511 (569)
No 1
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=81.21 E-value=1 Score=39.89 Aligned_cols=41 Identities=22% Similarity=0.280 Sum_probs=29.9
Q ss_pred cccchhhhhhhh-hhcc-----ccchhhhHHHHHHHHhcccccccee
Q psy10949 12 SLNFQSFYLNKV-VNCA-----EGGLVRLWIQVLRELRRGVQLKKVC 52 (163)
Q Consensus 12 ~~~~~~~~~~~~-~~l~-----~~dWarlWvqVi~ELr~GVKLkKv~ 52 (163)
..+=--||.|+| .+-+ +-+|++-|.+++.||+.-||=.-..
T Consensus 159 ~~dsA~Fy~NRVLke~K~kd~~hveWvks~~~l~~~L~~YVke~htt 205 (312)
T PF01213_consen 159 MKDSAQFYTNRVLKEYKEKDPKHVEWVKSFKALLKELQAYVKEHHTT 205 (312)
T ss_dssp HHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHhHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 333446999994 4433 4589999999999999999844333
No 2
>PF02205 WH2: WH2 motif; InterPro: IPR003124 The WH2 (WASP-Homology 2, or Wiskott-Aldrich homology 2) domain is an ~18 amino acids actin-binding motif. This domain was first recognised as an essential element for the regulation of the cytoskeleton by the mammalian Wiskott-Aldrich syndrome protein (WASP) family. WH2 proteins occur in eukaryotes from yeast to mammals, in insect viruses, and in some bacteria. The WH2 domain is found as a modular part of larger proteins; it can be associated with the WH1 or EVH1 domain and with the CRIB domain, and the WH2 domain can occur as a tandem repeat. The WH2 domain binds actin monomers and can facilitate the assembly of actin monomers into newly forming actin filaments [, ]. ; GO: 0005515 protein binding; PDB: 2D1K_C 3M1F_V 2A41_C 2A3Z_C 2VCP_E 2A40_F 3P8C_D 3M3N_W.
Probab=58.84 E-value=4.2 Score=24.83 Aligned_cols=16 Identities=50% Similarity=0.777 Sum_probs=12.3
Q ss_pred HHHHHHhcc--cccccee
Q psy10949 37 QVLRELRRG--VQLKKVC 52 (163)
Q Consensus 37 qVi~ELr~G--VKLkKv~ 52 (163)
++|.+.|.| ++||||.
T Consensus 7 ~LL~~Ir~G~k~~LKkv~ 24 (30)
T PF02205_consen 7 ALLSQIRKGSKAQLKKVD 24 (30)
T ss_dssp HHHHHHHHH--HHHBHTS
T ss_pred HHHHHHHHcccccccCCC
Confidence 578888999 4498883
No 3
>smart00246 WH2 Wiskott Aldrich syndrome homology region 2. Wiskott Aldrich syndrome homology region 2 / actin-binding motif
Probab=53.75 E-value=8.2 Score=23.46 Aligned_cols=15 Identities=47% Similarity=0.798 Sum_probs=9.7
Q ss_pred HHHHHhcccccccee
Q psy10949 38 VLRELRRGVQLKKVC 52 (163)
Q Consensus 38 Vi~ELr~GVKLkKv~ 52 (163)
++.+.|.|.+||||.
T Consensus 5 LLa~Ir~G~~LKkv~ 19 (26)
T smart00246 5 LLAQIRQGKKLKKVX 19 (26)
T ss_pred hHHHHHcccccCccc
Confidence 456666666666665
No 4
>PF07516 SecA_SW: SecA Wing and Scaffold domain; InterPro: IPR011116 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner. This domain is composed of two C-terminal alpha helical subdomains: the wing and scaffold subdomains.; GO: 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 2IPC_D 3JUX_A 3DIN_B ....
Probab=48.66 E-value=9.6 Score=30.77 Aligned_cols=36 Identities=25% Similarity=0.557 Sum_probs=27.9
Q ss_pred HHHHHhcccccccee-ccCCCcccccchH---HHHHHHHhh
Q psy10949 38 VLRELRRGVQLKKVC-HTRNPIEYQMTPY---EILMDDIRS 74 (163)
Q Consensus 38 Vi~ELr~GVKLkKv~-~~p~P~Ey~lTPY---E~LMdDIR~ 74 (163)
=|..||.||-|+.-. .+|+ .||..--| +.++++|+.
T Consensus 164 ~m~~Lr~~I~lR~y~QkdPl-~EYk~Ea~~lF~~m~~~i~~ 203 (214)
T PF07516_consen 164 NMDQLREGIGLRSYGQKDPL-VEYKREAFELFEEMLENIRE 203 (214)
T ss_dssp HHHHHHHHCTCTTSSSSSHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhHccCCHH-HHHHHHHHHHHHHHHHHHHH
Confidence 477899999999988 5555 79886655 468888875
No 5
>cd04447 DEP_BRCC3 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in BBRC3-like proteins. BBRC3, also known as DEPDC1B, is a DEP containing protein of unknown function.
Probab=45.18 E-value=12 Score=28.39 Aligned_cols=18 Identities=39% Similarity=0.805 Sum_probs=15.3
Q ss_pred hhHHHHHHHHhccccccc
Q psy10949 33 RLWIQVLRELRRGVQLKK 50 (163)
Q Consensus 33 rlWvqVi~ELr~GVKLkK 50 (163)
++|-++|..+|+||-+|+
T Consensus 1 klWn~ii~~~r~g~~vk~ 18 (92)
T cd04447 1 KLWNEVTELFRAGMPLRK 18 (92)
T ss_pred CcHHHHHHHHHccCChHH
Confidence 489999999999986654
No 6
>COG5587 Uncharacterized conserved protein [Function unknown]
Probab=41.55 E-value=40 Score=29.36 Aligned_cols=58 Identities=17% Similarity=0.209 Sum_probs=41.4
Q ss_pred ccchhhhHHHHHHHH-hcccccccee-ccCCCcccccchHHHHHHHHhhcceeeeeeeeC
Q psy10949 28 EGGLVRLWIQVLREL-RRGVQLKKVC-HTRNPIEYQMTPYEILMDDIRSRRYKLKQVTVD 85 (163)
Q Consensus 28 ~~dWarlWvqVi~EL-r~GVKLkKv~-~~p~P~Ey~lTPYE~LMdDIR~kRYtLRKV~v~ 85 (163)
-.||-.-|-....-| +||.+|..-. -.++|--|+-.-=--|+||||++-+.+|.+.-+
T Consensus 135 I~~~Pd~framv~~lkkngl~ls~~d~lkRtPRGFehvtd~dlvdairnRhfavr~~lep 194 (228)
T COG5587 135 IFDNPDSFRAMVDPLKKNGLTLSEDDKLKRTPRGFEHVTDFDLVDAIRNRHFAVRRPLEP 194 (228)
T ss_pred HhcCcHHHHHHHhHHHhCCceecchhhhhcCCCCCCccCchhHHHHHhhcceeEeeeccc
Confidence 346656666666555 5788887666 667776666444446899999999999998655
No 7
>PF01065 Adeno_hexon: Hexon, adenovirus major coat protein, N-terminal domain; InterPro: IPR016107 Hexon is a major coat protein found in various species-specific Adenoviruses, which are type II dsDNA viruses. Hexon coat proteins are synthesised during late infection and form homo-trimers. The 240 copies of the hexon trimer that are produced are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polypeptide IX. The penton complex, formed by the peripentonal hexons and base hexon (holding in place a fibre), lie at each of the 12 vertices []. The hexon coat protein is a duplication consisting of two domains with a similar fold packed together like the nucleoplasmin subunits. Within a hexon trimer, the domains are arranged around a pseudo 6-fold axis. The domains have a beta-sandwich structure consisting of 8 strands in two sheets with a jelly-roll topology; each domain is heavily decorated with many insertions []. This entry represents the N-terminal domain of hexon coat proteins.; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2BVI_M 1VSZ_K 3IYN_D 3TG7_A 1P30_A 2OBE_B 2INY_A 1P2Z_A.
Probab=39.58 E-value=7.3 Score=37.12 Aligned_cols=27 Identities=52% Similarity=0.744 Sum_probs=17.2
Q ss_pred CCCCccc-----------------cccccchhhhhhhhhhcccc
Q psy10949 3 PQRPNYI-----------------MGSLNFQSFYLNKVVNCAEG 29 (163)
Q Consensus 3 ~~~~~~~-----------------~~~~~~~~~~~~~~~~l~~~ 29 (163)
|.||||| ||.|+=|+==||-|++|+-.
T Consensus 239 pNRPNYIGFRDNFIGLMYYnS~gn~GvLagqasqlNaVvDLQDR 282 (495)
T PF01065_consen 239 PNRPNYIGFRDNFIGLMYYNSGGNMGVLAGQASQLNAVVDLQDR 282 (495)
T ss_dssp E--SBBEEESGGGTTSBTSSSGGGS-EEEETTT-SBS--B-TTS
T ss_pred CCCCCeeeeecceeEEEEecCCcccccccccccCceEEEEcccc
Confidence 7899998 78999999999999988754
No 8
>PF05480 Staph_haemo: Staphylococcus haemolytic protein; InterPro: IPR008846 This family consists of several different short Staphylococcal proteins, it contains SLUSH A, B and C proteins as well as haemolysin and gonococcal growth inhibitor. Some strains of the coagulase-negative Staphylococcus lugdunensis produce a synergistic hemolytic activity (SLUSH), phenotypically similar to the delta-hemolysin of S. aureus []. Gonococcal growth inhibitor from Staphylococcus acts on the cytoplasmic membrane of the gonococcal cell causing cytoplasmic leakage and, eventually, death [].; GO: 0009405 pathogenesis
Probab=36.53 E-value=28 Score=23.39 Aligned_cols=28 Identities=18% Similarity=0.219 Sum_probs=24.2
Q ss_pred hhhhhhccccchhhhHHHHHHHHhcccc
Q psy10949 20 LNKVVNCAEGGLVRLWIQVLRELRRGVQ 47 (163)
Q Consensus 20 ~~~~~~l~~~dWarlWvqVi~ELr~GVK 47 (163)
-|-+.+=.+.||+.|-.++.+=+.|||-
T Consensus 9 ~n~V~Ag~~~Dwa~lgtsIv~iv~ngv~ 36 (43)
T PF05480_consen 9 KNTVQAGQNQDWAKLGTSIVDIVENGVD 36 (43)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence 3566777789999999999999999994
No 9
>KOG4462|consensus
Probab=31.63 E-value=26 Score=32.99 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=14.7
Q ss_pred HHHHHHhcccccccee
Q psy10949 37 QVLRELRRGVQLKKVC 52 (163)
Q Consensus 37 qVi~ELr~GVKLkKv~ 52 (163)
-+++|+++|.||||+.
T Consensus 33 ALL~DI~KG~KLKK~~ 48 (437)
T KOG4462|consen 33 ALLGDIQKGKKLKKAT 48 (437)
T ss_pred HHHHHhhhcceeccee
Confidence 4789999999999999
No 10
>COG3337 CRISPR system related protein [Defense mechanisms]
Probab=27.50 E-value=39 Score=27.52 Aligned_cols=63 Identities=14% Similarity=0.080 Sum_probs=39.6
Q ss_pred hhhhhhhhhhccccchhh----hHHHHHHHHhccccccceeccCCCcccccchHHHHHHHHhhcceeeeee
Q psy10949 16 QSFYLNKVVNCAEGGLVR----LWIQVLRELRRGVQLKKVCHTRNPIEYQMTPYEILMDDIRSRRYKLKQV 82 (163)
Q Consensus 16 ~~~~~~~~~~l~~~dWar----lWvqVi~ELr~GVKLkKv~~~p~P~Ey~lTPYE~LMdDIR~kRYtLRKV 82 (163)
-.||+.|..+.+..++-+ -|-....-+.|-. - .-.-+-++|.++-|-+.|+-|+-+|||-.=.
T Consensus 50 vAF~~SK~e~id~~~yls~~kea~g~~enH~sn~l--~--egkd~~~~~~~~~~~ae~~~i~~~~yte~iL 116 (134)
T COG3337 50 VAFYESKKENIDHARYLSGLKEALGVSENHASNDL--P--EGKDRGAEYRRMTEQAERASIWFKRYTEAIL 116 (134)
T ss_pred HHHHHHhhhchhhHHhcccCHHHHHHHHHHHHhhc--c--cccccCCcccHHHHHHHHHHHHHHHHHHHHH
Confidence 468999988877777643 3422222232221 0 0111335899999999999999999985443
No 11
>KOG2675|consensus
Probab=24.65 E-value=43 Score=32.11 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=27.0
Q ss_pred chhhhhhhh------hhccccchhhhHHHHHHHHhccccc
Q psy10949 15 FQSFYLNKV------VNCAEGGLVRLWIQVLRELRRGVQL 48 (163)
Q Consensus 15 ~~~~~~~~~------~~l~~~dWarlWvqVi~ELr~GVKL 48 (163)
---||.|+| .+..+-+|++-|..++.||+.=||-
T Consensus 166 aa~FY~NrvLkEyk~~D~~hveWvKa~l~l~~eL~~YVk~ 205 (480)
T KOG2675|consen 166 AAQFYTNRVLKEYKEKDPRHVEWVKAYLALFLELQAYVKE 205 (480)
T ss_pred HHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHHHHHHHH
Confidence 345999987 3455668999999999999987763
No 12
>PF15601 Imm42: Immunity protein 42
Probab=21.47 E-value=52 Score=26.32 Aligned_cols=36 Identities=22% Similarity=0.387 Sum_probs=30.6
Q ss_pred ccccc-chhhhhhhhhhccccchhhhHHHHHHHHhcc
Q psy10949 10 MGSLN-FQSFYLNKVVNCAEGGLVRLWIQVLRELRRG 45 (163)
Q Consensus 10 ~~~~~-~~~~~~~~~~~l~~~dWarlWvqVi~ELr~G 45 (163)
.|.-. |.||+=.-..+|.+..|.+=|+=+|++|-+|
T Consensus 12 iG~~dfl~sFFsti~~~lE~~~wGskfP~Lm~~LY~g 48 (134)
T PF15601_consen 12 IGPPDFLHSFFSTISYRLENEGWGSKFPLLMNELYRG 48 (134)
T ss_pred eCCHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHcC
Confidence 34433 5789888889999999999999999999888
No 13
>KOG3671|consensus
Probab=20.72 E-value=55 Score=31.95 Aligned_cols=41 Identities=37% Similarity=0.361 Sum_probs=27.5
Q ss_pred HHHHHhccccccceeccCCCcccccchHHHHHHHHhhcceeeeee
Q psy10949 38 VLRELRRGVQLKKVCHTRNPIEYQMTPYEILMDDIRSRRYKLKQV 82 (163)
Q Consensus 38 Vi~ELr~GVKLkKv~~~p~P~Ey~lTPYE~LMdDIR~kRYtLRKV 82 (163)
.+.+++.|-.||+|+...+| +..---.||++||.= =.|+||
T Consensus 471 l~~~i~~G~ql~~ve~t~~~---~~dgR~~LmaqIRqG-~~Lk~v 511 (569)
T KOG3671|consen 471 LLDAIAPGGQLKKVETTALS---SGDGRDALMAQIRQG-GQLKKV 511 (569)
T ss_pred cccccCccccccceeeccCc---CcccHHHHHHHHHhc-cccccc
Confidence 35667777777887766665 445556777888743 666666
Done!