Query 034154
Match_columns 102
No_of_seqs 13 out of 15
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 10:22:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034154.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034154hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09865 DUF2092: Predicted pe 53.7 12 0.00026 28.9 2.4 22 81-102 164-185 (214)
2 smart00042 CUB Domain first fo 34.0 35 0.00075 20.7 1.8 15 79-93 14-28 (102)
3 COG3900 Predicted periplasmic 32.9 39 0.00086 28.0 2.5 22 81-102 199-220 (262)
4 PF11259 DUF3060: Protein of u 32.3 35 0.00076 21.7 1.7 16 60-75 1-16 (61)
5 PRK15452 putative protease; Pr 31.3 20 0.00044 30.3 0.6 30 53-87 161-201 (443)
6 PF05284 DUF736: Protein of un 29.4 51 0.0011 23.0 2.3 16 86-101 28-46 (107)
7 PF00431 CUB: CUB domain CUB d 29.3 34 0.00074 20.7 1.2 12 81-92 25-36 (110)
8 cd00041 CUB CUB domain; extrac 25.9 66 0.0014 19.4 2.1 13 80-92 25-37 (113)
9 PF04972 BON: BON domain; Int 24.6 65 0.0014 18.8 1.8 16 62-77 22-37 (64)
10 PF02495 7kD_coat: 7kD viral c 24.6 25 0.00054 21.8 0.0 17 63-80 31-47 (59)
11 PF03108 DBD_Tnp_Mut: MuDR fam 23.0 1.3E+02 0.0029 18.1 3.0 32 65-100 36-67 (67)
12 PRK15367 type III secretion sy 21.7 57 0.0012 28.1 1.6 17 64-80 162-178 (395)
13 PF11127 DUF2892: Protein of u 21.3 20 0.00043 22.0 -0.9 8 70-77 48-55 (66)
14 COG5489 Uncharacterized conser 20.6 66 0.0014 23.6 1.5 16 86-101 31-49 (107)
15 PRK10738 hypothetical protein; 20.6 36 0.00079 24.0 0.2 13 70-82 109-121 (134)
16 PF14901 Jiv90: Cleavage induc 20.4 57 0.0012 23.1 1.1 11 92-102 84-94 (94)
17 PLN02856 fumarylacetoacetase 20.3 1.2E+02 0.0026 26.2 3.2 29 62-91 391-423 (424)
18 PF13656 RNA_pol_L_2: RNA poly 20.1 80 0.0017 20.6 1.7 11 64-74 24-34 (77)
No 1
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=53.68 E-value=12 Score=28.86 Aligned_cols=22 Identities=27% Similarity=0.529 Sum_probs=19.4
Q ss_pred cceeeEEeeCCCCCCCceeEeC
Q 034154 81 EPCRWEILPASDSDAPQFRVVF 102 (102)
Q Consensus 81 epCrWei~pa~~~~aPQfrvvF 102 (102)
=|||--|.-...+++|||++.|
T Consensus 164 LP~k~vIT~k~~~~~PQy~~~~ 185 (214)
T PF09865_consen 164 LPRKYVITYKTDPGSPQYSAEF 185 (214)
T ss_pred eeeEEEEEECCCCCCceEEEEE
Confidence 5899999888889999999876
No 2
>smart00042 CUB Domain first found in C1r, C1s, uEGF, and bone morphogenetic protein. This domain is found mostly among developmentally-regulated proteins. Spermadhesins contain only this domain.
Probab=33.95 E-value=35 Score=20.67 Aligned_cols=15 Identities=20% Similarity=0.452 Sum_probs=10.5
Q ss_pred CCcceeeEEeeCCCC
Q 034154 79 DLEPCRWEILPASDS 93 (102)
Q Consensus 79 dlepCrWei~pa~~~ 93 (102)
.-.-|+|.|....+.
T Consensus 14 ~~~~C~w~i~~~~g~ 28 (102)
T smart00042 14 NNLDCVWTIRAPPGY 28 (102)
T ss_pred CCCcEEEEEECCCCe
Confidence 345699999877643
No 3
>COG3900 Predicted periplasmic protein [Function unknown]
Probab=32.94 E-value=39 Score=28.04 Aligned_cols=22 Identities=32% Similarity=0.590 Sum_probs=17.2
Q ss_pred cceeeEEeeCCCCCCCceeEeC
Q 034154 81 EPCRWEILPASDSDAPQFRVVF 102 (102)
Q Consensus 81 epCrWei~pa~~~~aPQfrvvF 102 (102)
-|||.-|---.-.++|||-|+|
T Consensus 199 vp~k~VITsk~v~g~PqYtv~f 220 (262)
T COG3900 199 VPLKYVITSKDVPGEPQYTVVF 220 (262)
T ss_pred cceeEEEEecccCCCCcEEEEE
Confidence 4777777777777999999887
No 4
>PF11259 DUF3060: Protein of unknown function (DUF3060); InterPro: IPR021417 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed.
Probab=32.30 E-value=35 Score=21.74 Aligned_cols=16 Identities=44% Similarity=0.708 Sum_probs=11.9
Q ss_pred cceecCCceEEEeeec
Q 034154 60 SVAASADKVTMAGYCP 75 (102)
Q Consensus 60 Saa~s~d~VTlaGyCp 75 (102)
|+..++..|||.|.|-
T Consensus 1 ~V~G~~N~vt~~G~c~ 16 (61)
T PF11259_consen 1 SVSGSGNTVTVTGDCG 16 (61)
T ss_pred CeeccCCEEEEEeEEe
Confidence 3556677899999883
No 5
>PRK15452 putative protease; Provisional
Probab=31.32 E-value=20 Score=30.27 Aligned_cols=30 Identities=33% Similarity=0.842 Sum_probs=22.5
Q ss_pred ceEEEeccceecCCceEEEeeecCCCCC-----------cceeeEE
Q 034154 53 VTVFEFGSVAASADKVTMAGYCPVSDDL-----------EPCRWEI 87 (102)
Q Consensus 53 ~tVFEFGSaa~s~d~VTlaGyCpVsddl-----------epCrWei 87 (102)
.-||=.|..- +...|+|++|.=+ .||||+-
T Consensus 161 lEvfVHGalc-----~m~Sg~Clls~~~~~rs~nrg~C~q~CR~~y 201 (443)
T PRK15452 161 LEVFVHGALC-----MAYSGRCLLSGYINKRDPNQGTCTNACRWEY 201 (443)
T ss_pred EEEEEEccch-----heeeCcchHHHHhhcCCCCCCcccCcccccc
Confidence 4567777764 7789999998433 6899976
No 6
>PF05284 DUF736: Protein of unknown function (DUF736); InterPro: IPR007948 This family consists of several uncharacterised bacterial proteins of unknown function.
Probab=29.43 E-value=51 Score=22.98 Aligned_cols=16 Identities=31% Similarity=0.800 Sum_probs=12.4
Q ss_pred EEeeCCC---CCCCceeEe
Q 034154 86 EILPASD---SDAPQFRVV 101 (102)
Q Consensus 86 ei~pa~~---~~aPQfrvv 101 (102)
.|+|... +.||.|||.
T Consensus 28 ~lvP~~~~~~e~aPdyRV~ 46 (107)
T PF05284_consen 28 RLVPNESKDSENAPDYRVY 46 (107)
T ss_pred EEEeCCCCCCCCCCCEEEE
Confidence 5777665 699999985
No 7
>PF00431 CUB: CUB domain CUB domain entry Spermadhesins family entry Link to schematic domain picture by Peer Bork. ; InterPro: IPR000859 The CUB domain (for complement C1r/C1s, Uegf, Bmp1) is a structural motif of approximately 110 residues found almost exclusively in extracellular and plasma membrane-associated proteins, many of which are developmentally regulated [, ]. These proteins are involved in a diverse range of functions, including complement activation, developmental patterning, tissue repair, axon guidance and angiogenesis, cell signalling, fertilisation, haemostasis, inflammation, neurotransmission, receptor-mediated endocytosis, and tumour suppression [, ]. Many CUB-containing proteins are peptidases belonging to MEROPS peptidase families M12A (astacin) and S1A (chymotrypsin). Proteins containing a CUB domain include: Mammalian complement subcomponents C1s/C1r, which form the calcium-dependent complex C1, the first component of the classical pathway of the complement system. Cricetidae sp. (Hamster) serine protease Casp, which degrades type I and IV collagen and fibronectin in the presence of calcium. Mammalian complement-activating component of Ra-reactive factor (RARF), a protease that cleaves the C4 component of complement. Vertebrate enteropeptidase (3.4.21.9 from EC), a type II membrane protein of the intestinal brush border, which activates trypsinogen. Vertebrate bone morphogenic protein 1 (BMP-1), a protein which induces cartilage and bone formation and expresses metalloendopeptidase activity. Sea urchin blastula proteins BP10 and SpAN. Caenorhabditis elegans hypothetical proteins F42A10.8 and R151.5. Neuropilin (A5 antigen), a calcium-independent cell adhesion molecule that functions during the formation of certain neuronal circuits. Fibropellins I and III from Strongylocentrotus purpuratus (Purple sea urchin). Mammalian hyaluronate-binding protein TSG-6 (or PS4), a serum and growth factor induced protein. Mammalian spermadhesins. Xenopus laevis embryonic protein UVS.2, which is expressed during dorsoanterior development. Several of the above proteins consist of a catalytic domain together with several CUB domains interspersed by calcium-binding EGF domains. Some CUB domains appear to be involved in oligomerisation and/or recognition of substrates and binding partners. For example, in the complement proteases, the CUB domains mediate dimerisation and binding to collagen-like regions of target proteins (e.g. C1q for C1r/C1s). The structure of CUB domains consists of a beta-sandwich with a jelly-roll fold. Almost all CUB domains contain four conserved cysteines that probably form two disulphide bridges (C1-C2, C3-C4). The CUB1 domains of C1s and Map19 have calcium-binding sites [].; PDB: 1SFP_A 3KQ4_B 2WNO_A 2QQK_A 2QQL_A 2QQO_B 2QQM_A 3POJ_A 3POB_A 3POG_B ....
Probab=29.30 E-value=34 Score=20.66 Aligned_cols=12 Identities=25% Similarity=0.797 Sum_probs=8.4
Q ss_pred cceeeEEeeCCC
Q 034154 81 EPCRWEILPASD 92 (102)
Q Consensus 81 epCrWei~pa~~ 92 (102)
.-|+|.|....+
T Consensus 25 ~~C~w~i~~~~~ 36 (110)
T PF00431_consen 25 SDCTWTITAPPG 36 (110)
T ss_dssp EEEEEEEE-STT
T ss_pred CcEeEEEEeccc
Confidence 459999987654
No 8
>cd00041 CUB CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
Probab=25.91 E-value=66 Score=19.37 Aligned_cols=13 Identities=23% Similarity=0.493 Sum_probs=10.2
Q ss_pred CcceeeEEeeCCC
Q 034154 80 LEPCRWEILPASD 92 (102)
Q Consensus 80 lepCrWei~pa~~ 92 (102)
-.-|+|.|....+
T Consensus 25 ~~~C~w~i~~~~g 37 (113)
T cd00041 25 NLNCVWTIEAPPG 37 (113)
T ss_pred CCcEEEEEEcCCC
Confidence 3569999988775
No 9
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=24.63 E-value=65 Score=18.82 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=12.0
Q ss_pred eecCCceEEEeeecCC
Q 034154 62 AASADKVTMAGYCPVS 77 (102)
Q Consensus 62 a~s~d~VTlaGyCpVs 77 (102)
...++.|+|.|.+|=.
T Consensus 22 ~v~~g~v~L~G~v~s~ 37 (64)
T PF04972_consen 22 SVENGVVTLSGEVPSQ 37 (64)
T ss_dssp EEECTEEEEEEEESSC
T ss_pred EEECCEEEEEeeCcHH
Confidence 3457789999998743
No 10
>PF02495 7kD_coat: 7kD viral coat protein; InterPro: IPR003411 This family consists of a 7 kDa coat protein from Carlavirus and Potexvirus [].
Probab=24.58 E-value=25 Score=21.83 Aligned_cols=17 Identities=24% Similarity=0.720 Sum_probs=13.4
Q ss_pred ecCCceEEEeeecCCCCC
Q 034154 63 ASADKVTMAGYCPVSDDL 80 (102)
Q Consensus 63 ~s~d~VTlaGyCpVsddl 80 (102)
-+|..|++.| |+.+.|+
T Consensus 31 ItGeSv~I~g-C~~~~e~ 47 (59)
T PF02495_consen 31 ITGESVTISG-CEFTPEF 47 (59)
T ss_pred EeCcEEEEEC-CCCCHHH
Confidence 3678899999 9888654
No 11
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.02 E-value=1.3e+02 Score=18.13 Aligned_cols=32 Identities=19% Similarity=0.571 Sum_probs=21.8
Q ss_pred CCceEEEeeecCCCCCcceeeEEeeCCCCCCCceeE
Q 034154 65 ADKVTMAGYCPVSDDLEPCRWEILPASDSDAPQFRV 100 (102)
Q Consensus 65 ~d~VTlaGyCpVsddlepCrWei~pa~~~~aPQfrv 100 (102)
+|+-.+.-.|- . +-|.|+|.=+-..+.-.|.|
T Consensus 36 sd~~r~~~~C~-~---~~C~Wrv~as~~~~~~~~~I 67 (67)
T PF03108_consen 36 SDKKRYRAKCK-D---KGCPWRVRASKRKRSDTFQI 67 (67)
T ss_pred cCCEEEEEEEc-C---CCCCEEEEEEEcCCCCEEEC
Confidence 45667888898 2 23999998766655555543
No 12
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=21.74 E-value=57 Score=28.11 Aligned_cols=17 Identities=24% Similarity=0.778 Sum_probs=12.8
Q ss_pred cCCceEEEeeecCCCCC
Q 034154 64 SADKVTMAGYCPVSDDL 80 (102)
Q Consensus 64 s~d~VTlaGyCpVsddl 80 (102)
+++.|+|.|||-=|..+
T Consensus 162 ~dg~l~LsGyC~~s~~~ 178 (395)
T PRK15367 162 EDGSLQLSGYCSSSEQM 178 (395)
T ss_pred CCCcEEEEEEECChHHH
Confidence 36689999999766443
No 13
>PF11127 DUF2892: Protein of unknown function (DUF2892); InterPro: IPR021309 This family is conserved in bacteria. The function is not known.
Probab=21.28 E-value=20 Score=22.00 Aligned_cols=8 Identities=38% Similarity=1.406 Sum_probs=6.5
Q ss_pred EEeeecCC
Q 034154 70 MAGYCPVS 77 (102)
Q Consensus 70 laGyCpVs 77 (102)
++||||+.
T Consensus 48 ~~g~Cp~~ 55 (66)
T PF11127_consen 48 ITGFCPLY 55 (66)
T ss_pred HHCcCHhH
Confidence 57999986
No 14
>COG5489 Uncharacterized conserved protein [Function unknown]
Probab=20.59 E-value=66 Score=23.60 Aligned_cols=16 Identities=44% Similarity=0.902 Sum_probs=11.6
Q ss_pred EEeeC---CCCCCCceeEe
Q 034154 86 EILPA---SDSDAPQFRVV 101 (102)
Q Consensus 86 ei~pa---~~~~aPQfrvv 101 (102)
+|+|. ++++||.|||.
T Consensus 31 ~lvPn~~~s~~~aPdfRV~ 49 (107)
T COG5489 31 RLVPNESKSGDNAPDFRVT 49 (107)
T ss_pred EEcccCCCCCCCCCcEEEE
Confidence 46664 34689999995
No 15
>PRK10738 hypothetical protein; Provisional
Probab=20.57 E-value=36 Score=23.96 Aligned_cols=13 Identities=38% Similarity=0.575 Sum_probs=10.1
Q ss_pred EEeeecCCCCCcc
Q 034154 70 MAGYCPVSDDLEP 82 (102)
Q Consensus 70 laGyCpVsddlep 82 (102)
+.-||||++-|++
T Consensus 109 ~~kyC~V~~~l~~ 121 (134)
T PRK10738 109 AEKYCSVALMLEK 121 (134)
T ss_pred HccCCcHHHHhCC
Confidence 4569999987774
No 16
>PF14901 Jiv90: Cleavage inducing molecular chaperone
Probab=20.42 E-value=57 Score=23.14 Aligned_cols=11 Identities=18% Similarity=0.392 Sum_probs=9.5
Q ss_pred CCCCCceeEeC
Q 034154 92 DSDAPQFRVVF 102 (102)
Q Consensus 92 ~~~aPQfrvvF 102 (102)
+.|.+||||+|
T Consensus 84 ntH~vqyri~~ 94 (94)
T PF14901_consen 84 NTHRVQYRINT 94 (94)
T ss_pred CcccceeeecC
Confidence 37999999986
No 17
>PLN02856 fumarylacetoacetase
Probab=20.25 E-value=1.2e+02 Score=26.20 Aligned_cols=29 Identities=31% Similarity=0.700 Sum_probs=23.0
Q ss_pred eecCCceEEEeeecCCCC----CcceeeEEeeCC
Q 034154 62 AASADKVTMAGYCPVSDD----LEPCRWEILPAS 91 (102)
Q Consensus 62 a~s~d~VTlaGyCpVsdd----lepCrWei~pa~ 91 (102)
=+-||.|+|.|+|.= |. +-.|+=+|+||.
T Consensus 391 L~dGD~V~l~g~~~~-~g~~igfG~~~g~v~pa~ 423 (424)
T PLN02856 391 LEDGDEVVLSGWCKG-DGYRVGFGTCSGKVLPAL 423 (424)
T ss_pred CCCCCEEEEEEEECC-CCccEeeeeeeeEEecCC
Confidence 467899999999965 33 457999999983
No 18
>PF13656 RNA_pol_L_2: RNA polymerase Rpb3/Rpb11 dimerisation domain; PDB: 2Y0S_L 1I3Q_K 4A3D_K 2JA8_K 3GTP_K 1R9T_K 3PO2_K 4A3J_K 3HOX_K 2JA7_K ....
Probab=20.09 E-value=80 Score=20.59 Aligned_cols=11 Identities=36% Similarity=0.579 Sum_probs=9.4
Q ss_pred cCCceEEEeee
Q 034154 64 SADKVTMAGYC 74 (102)
Q Consensus 64 s~d~VTlaGyC 74 (102)
.+.+|+.|||+
T Consensus 24 ~~p~V~fagY~ 34 (77)
T PF13656_consen 24 KDPDVEFAGYR 34 (77)
T ss_dssp TSTTEEEEEEE
T ss_pred hCCCeEEEEec
Confidence 46789999998
Done!