Query 013089
Match_columns 449
No_of_seqs 119 out of 152
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 00:17:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013089.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013089hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04833 COBRA: COBRA-like pro 100.0 6.9E-85 1.5E-89 597.3 17.7 165 60-224 1-169 (169)
2 PF00553 CBM_2: Cellulose bind 95.6 0.053 1.1E-06 45.9 7.5 55 47-104 2-56 (101)
3 PF00553 CBM_2: Cellulose bind 88.3 2.2 4.8E-05 36.1 7.2 99 296-412 3-101 (101)
4 smart00637 CBD_II CBD_II domai 71.2 10 0.00023 31.2 5.3 43 57-102 5-47 (92)
5 PF03128 CXCXC: CXCXC repeat; 45.6 10 0.00023 22.6 0.7 8 249-256 7-14 (14)
6 PF11153 DUF2931: Protein of u 44.2 48 0.001 31.6 5.4 20 48-67 28-47 (216)
7 PF10563 CdCA1: Cadmium carbon 40.0 5.3 0.00012 39.5 -1.7 14 290-303 5-18 (218)
8 PF13511 DUF4124: Domain of un 33.9 18 0.00038 27.6 0.6 25 25-49 4-28 (60)
9 COG5341 Uncharacterized protei 30.5 54 0.0012 30.4 3.2 38 377-414 46-83 (132)
10 cd06364 PBP1_CaSR Ligand-bindi 25.9 78 0.0017 33.9 4.0 32 41-72 460-494 (510)
11 smart00141 PDGF Platelet-deriv 21.7 58 0.0013 27.6 1.7 47 116-166 2-60 (83)
No 1
>PF04833 COBRA: COBRA-like protein; InterPro: IPR006918 In Arabidopsis thaliana (Mouse-ear cress) members of the family are all extracellular glycosyl-phosphatidyl inositol-anchored proteins (GPI-linked) []. The type example of the family is COBRA (Q94KT8 from SWISSPROT) and the family is generally annotated as COBRA-like (COBL). COBRA is involved in determining the orientation of cell expansion, probably by playing an important role in cellulose deposition. It may act by recruiting cellulose synthesizing complexes to discrete positions on the cell surface. Some members of this family are annotated as phytochelatin synthase, but these annotations are incorrect [].
Probab=100.00 E-value=6.9e-85 Score=597.29 Aligned_cols=165 Identities=70% Similarity=1.303 Sum_probs=162.3
Q ss_pred eEEEEEEecCccccccCCCCCeEEEEecCCeeEEEeccceeeecCCccccc--CCCCccccCCCeEEeCCCCCCCCcccc
Q 013089 60 YVAAVTINNFQMYRHIGAPGWTLGWQWAKKEVIWTMVGAQTTEQGDCSKFK--ANIPHCCKRTPIVVDLLPGVPYNQQFA 137 (449)
Q Consensus 60 Y~A~VTi~N~q~yr~i~~pgW~L~W~W~~~EvIwsM~GA~~teqgdCs~f~--~~~ph~C~k~P~IvDLpP~~~~d~qi~ 137 (449)
|+|+|||+|||+|||||.|||+|||+|+|+||||+|+|||++|||||++|| +++||||+|+|+|||||||+++|+|++
T Consensus 1 Y~A~VTi~N~~~yr~id~pgW~L~W~W~~~E~IwsM~GA~~tdqgdCs~~~~~~~~ph~C~k~P~IvDLpp~~~~n~qi~ 80 (169)
T PF04833_consen 1 YVAQVTISNYQPYRHIDNPGWNLGWTWAKKEFIWSMKGAQTTDQGDCSKFYKDGDFPHCCKKRPTIVDLPPGTPYNQQIG 80 (169)
T ss_pred CEEEEEEecCCeecccCCCCceEeeEEcCCEEEEEeeCceeccCCcccccccCCCCCcccCCCCEEEeCCCCCCCccccc
Confidence 999999999999999999999999999999999999999999999999998 689999999999999999999999999
Q ss_pred ccccCCeeccCccCcccCcceEEEEEeec--CCCCccccCCcCeEecCCCCCCccCCCeeeCCcccccCCCcceeeEeEE
Q 013089 138 NCCKGGVLSAWGQDPASAVSAFQVSVGLA--GTSNKTVKLPKNFTLQGPGPGYTCGPAKVVPSTVYLTSDRRRKTQALMT 215 (449)
Q Consensus 138 nCCrgGvl~~~~qDps~s~SsFQm~Vgk~--~~~n~tv~pP~Nf~l~~pgPgYtCg~p~~V~Pt~f~~pdg~r~tqAl~T 215 (449)
||||||||+||+|||+||+|+|||+||++ +++|++++||+||+|++|||||+||+|++|+||+|+|+||||+||||||
T Consensus 81 nCCrgG~l~~~~~Dps~s~S~FQm~Vg~~pp~~~~~~~~~P~nf~l~~~~pgYtCg~~~~V~pT~f~~~~g~r~t~A~~T 160 (169)
T PF04833_consen 81 NCCRGGVLSSWAQDPSKSVSAFQMSVGKAPPGTNNTTVKPPQNFTLGGPGPGYTCGPPKRVSPTVFPDPDGRRTTQALMT 160 (169)
T ss_pred cccCCCEECCcccChhhCceEEEEEEeEeeccCCCceecCCcceEEcCCCCCcCCCCcceeCCceeeCCCCCEEEEEEEE
Confidence 99999999999999999999999999998 7778889999999999999999999999999999999999999999999
Q ss_pred Eeeeeeeec
Q 013089 216 WNVTCTYSQ 224 (449)
Q Consensus 216 WqVtC~ysq 224 (449)
|||||||||
T Consensus 161 WqvtC~ysq 169 (169)
T PF04833_consen 161 WQVTCNYSQ 169 (169)
T ss_pred EeEEEEeeC
Confidence 999999997
No 2
>PF00553 CBM_2: Cellulose binding domain; InterPro: IPR001919 The microbial degradation of cellulose and xylans requires several types of enzyme such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) []. Structurally, cellulases and xylanases generally consist of a catalytic domain joined to a cellulose-binding domain (CBD) by a short linker sequence rich in proline and/or hydroxy-amino acids. The CBD domain is found either at the N-terminal or at the C-terminal extremity of these enzymes. As it is shown in the following schematic representation, there are two conserved cysteines in this CBD domain - one at each extremity of the domain - which have been shown [] to be involved in a disulphide bond. There are also four conserved tryptophan, two are involved in cellulose binding. The CBD of a number of bacterial cellulases has been shown to consist of about 105 amino acid residues [, ]. +-------------------------------------------------+ | | xCxxxxWxxxxxNxxxWxxxxxxxWxxxxxxxxWNxxxxxGxxxxxxxxxxCx 'C': conserved cysteine involved in a disulphide bond. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process; PDB: 2CZN_A 2CWR_A 1HEH_C 1HEJ_C 3NDZ_E 3NDY_E 2XBD_A 1E5C_A 1XBD_A 1E5B_A ....
Probab=95.64 E-value=0.053 Score=45.92 Aligned_cols=55 Identities=24% Similarity=0.424 Sum_probs=47.6
Q ss_pred EEEEEEEEeeCCCeEEEEEEecCccccccCCCCCeEEEEecCCeeEEEeccceeeecC
Q 013089 47 TIKWDVMSWTPDGYVAAVTINNFQMYRHIGAPGWTLGWQWAKKEVIWTMVGAQTTEQG 104 (449)
Q Consensus 47 TI~wDV~~~~~d~Y~A~VTi~N~q~yr~i~~pgW~L~W~W~~~EvIwsM~GA~~teqg 104 (449)
|++|.|.+--++||.++|+|.|... ..|+ ||+|.|+-..++-|-++.+|..+..|
T Consensus 2 tv~~~v~~~W~~Gf~~~v~v~N~~~-~~i~--~W~v~~~~~~~~~i~~~Wna~~s~~g 56 (101)
T PF00553_consen 2 TVTYTVTNSWGGGFQGEVTVTNNGS-SPIN--GWTVTFTFPSGQTITSSWNATVSQSG 56 (101)
T ss_dssp EEEEEEEEESSSEEEEEEEEEESSS-STEE--SEEEEEEESTTEEEEEEESCEEEEET
T ss_pred EEEEEEecccCCCeEEEEEEEECCC-CccC--CEEEEEEeCCCCEEeeeeccEEEecC
Confidence 6889999888999999999999885 4554 89999999988998899999886644
No 3
>PF00553 CBM_2: Cellulose binding domain; InterPro: IPR001919 The microbial degradation of cellulose and xylans requires several types of enzyme such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) []. Structurally, cellulases and xylanases generally consist of a catalytic domain joined to a cellulose-binding domain (CBD) by a short linker sequence rich in proline and/or hydroxy-amino acids. The CBD domain is found either at the N-terminal or at the C-terminal extremity of these enzymes. As it is shown in the following schematic representation, there are two conserved cysteines in this CBD domain - one at each extremity of the domain - which have been shown [] to be involved in a disulphide bond. There are also four conserved tryptophan, two are involved in cellulose binding. The CBD of a number of bacterial cellulases has been shown to consist of about 105 amino acid residues [, ]. +-------------------------------------------------+ | | xCxxxxWxxxxxNxxxWxxxxxxxWxxxxxxxxWNxxxxxGxxxxxxxxxxCx 'C': conserved cysteine involved in a disulphide bond. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process; PDB: 2CZN_A 2CWR_A 1HEH_C 1HEJ_C 3NDZ_E 3NDY_E 2XBD_A 1E5C_A 1XBD_A 1E5B_A ....
Probab=88.32 E-value=2.2 Score=36.10 Aligned_cols=99 Identities=17% Similarity=0.256 Sum_probs=62.7
Q ss_pred EeEEEeecCccceEEEEEEEecCCccCccceeeEeecCCCCCcceEEeeecccCCCCcccCceEEEEecchhhHHHhhcC
Q 013089 296 VHWHVKVNYKEYWRVKIAITNFNYRMNYTQWTLVAQHPNLNNVTQVFSFDYKPLVPYESINDTGMFYGMKFYNDLLMEAG 375 (449)
Q Consensus 296 IhWHVk~nYk~~WrvkiTi~N~~~~~nys~W~lvVqhpn~~~~tqvySFN~t~L~~y~~~NdT~m~~Gl~~yN~ll~e~g 375 (449)
+-.-|..+.-+++.+.|+|+|=. .....+|.+-++.|.-.-+++++ |++. . ...+++.+-+. .||--|.
T Consensus 3 v~~~v~~~W~~Gf~~~v~v~N~~-~~~i~~W~v~~~~~~~~~i~~~W--na~~-s---~~g~~~~v~~~-~wn~~i~--- 71 (101)
T PF00553_consen 3 VTYTVTNSWGGGFQGEVTVTNNG-SSPINGWTVTFTFPSGQTITSSW--NATV-S---QSGNTVTVTNP-SWNGTIA--- 71 (101)
T ss_dssp EEEEEEEESSSEEEEEEEEEESS-SSTEESEEEEEEESTTEEEEEEE--SCEE-E---EETTEEEEEES-STCSEEE---
T ss_pred EEEEEecccCCCeEEEEEEEECC-CCccCCEEEEEEeCCCCEEeeee--ccEE-E---ecCCEEEEEcC-CcCcccC---
Confidence 55678889999999999999966 36667999999999644455554 4442 1 12346666664 3443332
Q ss_pred CCCceeEEEEEeecCCCcccccCCCCceeeEEeCCcc
Q 013089 376 PQGNVQSELLLQKNKDTFTFKQGWAFPRKVYFNGDEC 412 (449)
Q Consensus 376 ~~G~vQSeilf~Kd~~~ft~~~GwaFP~rVyFNGeEC 412 (449)
+|.- ..+-|.-.. ....+-|..+-|||..|
T Consensus 72 -~G~s-~~~Gf~~~~-----~~~~~~p~~~t~ng~~C 101 (101)
T PF00553_consen 72 -PGGS-VTFGFQASG-----SGSSAAPSTCTVNGAPC 101 (101)
T ss_dssp -ESEE-EEEEEEEEE-----SSS--SESEEEETTEEE
T ss_pred -CCCe-EEEEEEEeC-----CCCCCCCcEEEEcCeeC
Confidence 2322 235454221 22334599999999998
No 4
>smart00637 CBD_II CBD_II domain.
Probab=71.16 E-value=10 Score=31.19 Aligned_cols=43 Identities=23% Similarity=0.411 Sum_probs=33.9
Q ss_pred CCCeEEEEEEecCccccccCCCCCeEEEEecCCeeEEEeccceeee
Q 013089 57 PDGYVAAVTINNFQMYRHIGAPGWTLGWQWAKKEVIWTMVGAQTTE 102 (449)
Q Consensus 57 ~d~Y~A~VTi~N~q~yr~i~~pgW~L~W~W~~~EvIwsM~GA~~te 102 (449)
.+||.+.|+|.|-.-. .|+ +|.+.|+-..++-|-++..|..+.
T Consensus 5 ~~G~~~~v~vtN~~~~-~~~--~W~v~~~~~~~~~i~~~Wn~~~~~ 47 (92)
T smart00637 5 GSGFTANVTVTNTGSS-AIN--GWTVTFDLPGGQTVTNSWNATVSQ 47 (92)
T ss_pred CCCEEEEEEEEeCCCC-ccc--CeEEEEEcCCCcEEeeeEEEEEEe
Confidence 4699999999997542 354 999999998887777777776654
No 5
>PF03128 CXCXC: CXCXC repeat; InterPro: IPR004153 This repeat contains the conserved pattern CXCXC where X can be any amino acid. The repeat is found in up to five copies in Vascular endothelial growth factor C []. In the salivary glands of the dipteran Chironomus tentans, a specific messenger ribonucleoprotein (mRNP) particle, the Balbiani ring (BR) granule, can be visualized during its assembly on the gene and during its nucleocytoplasmic transport. This repeat is found over 70 copies in the balbiani ring protein 3 (Q03376 from SWISSPROT). It is also found in some silk proteins [].
Probab=45.61 E-value=10 Score=22.56 Aligned_cols=8 Identities=38% Similarity=1.381 Sum_probs=6.3
Q ss_pred CCCCcCCC
Q 013089 249 PSCACGCH 256 (449)
Q Consensus 249 ptCACGC~ 256 (449)
.||+|+|+
T Consensus 7 ~tC~C~Cp 14 (14)
T PF03128_consen 7 DTCQCECP 14 (14)
T ss_pred CCcCccCC
Confidence 47999995
No 6
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=44.21 E-value=48 Score=31.60 Aligned_cols=20 Identities=25% Similarity=0.381 Sum_probs=17.4
Q ss_pred EEEEEEEeeCCCeEEEEEEe
Q 013089 48 IKWDVMSWTPDGYVAAVTIN 67 (449)
Q Consensus 48 I~wDV~~~~~d~Y~A~VTi~ 67 (449)
..|.+.-.+|.+|-|.||.-
T Consensus 28 ~~W~~~~~~P~~ypv~V~~~ 47 (216)
T PF11153_consen 28 FEWRFGVAAPKHYPVWVTYA 47 (216)
T ss_pred CccEEEEecCCCCEEEEEEE
Confidence 46999999999999999753
No 7
>PF10563 CdCA1: Cadmium carbonic anhydrase repeat; InterPro: IPR018883 This entry represents the cadmium-binding carbonic anhydrase domain of marine diatoms []. The prevalence of carbonic anhydrase in diatoms that contain Cd at their active site probably reflects the very low concentration of Zn in the marine environment and the difficulty in acquiring inorganic carbon for photosynthesis. Compared with alpha- and gamma-carbonic anhydrases that use three histidines to coordinate the zinc-atom, this beta-carbonic anhydrase has two cysteines and one histidine, and rapidly binds cadmium []. ; PDB: 3BOH_A 3BOJ_A 3BOC_A 3BOE_A 3BOB_A.
Probab=40.04 E-value=5.3 Score=39.55 Aligned_cols=14 Identities=50% Similarity=1.376 Sum_probs=7.4
Q ss_pred CCCcceEeEEEeec
Q 013089 290 HMCPIRVHWHVKVN 303 (449)
Q Consensus 290 hmCpV~IhWHVk~n 303 (449)
.||||+||||+-.-
T Consensus 5 ~mc~vnvhwHlgaE 18 (218)
T PF10563_consen 5 SMCPVNVHWHLGAE 18 (218)
T ss_dssp EEEECGGG------
T ss_pred eeeeeeeecccccc
Confidence 49999999999873
No 8
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=33.90 E-value=18 Score=27.57 Aligned_cols=25 Identities=24% Similarity=0.219 Sum_probs=17.5
Q ss_pred HHHHHhccccccccCCCCCCCEEEE
Q 013089 25 AIAFFMLSHAEAYDPLDPTGNVTIK 49 (449)
Q Consensus 25 ~~~~~~~~~~~aydPldp~GniTI~ 49 (449)
++++..+..++-|.=.|.+|+++..
T Consensus 4 l~l~~~a~aa~vYk~~D~~G~v~ys 28 (60)
T PF13511_consen 4 LLLAASAAAAEVYKWVDENGVVHYS 28 (60)
T ss_pred HHHhHHHhhccEEEEECCCCCEEEC
Confidence 3334444557999999999997654
No 9
>COG5341 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.49 E-value=54 Score=30.45 Aligned_cols=38 Identities=29% Similarity=0.437 Sum_probs=33.0
Q ss_pred CCceeEEEEEeecCCCcccccCCCCceeeEEeCCccCC
Q 013089 377 QGNVQSELLLQKNKDTFTFKQGWAFPRKVYFNGDECML 414 (449)
Q Consensus 377 ~G~vQSeilf~Kd~~~ft~~~GwaFP~rVyFNGeEC~m 414 (449)
.|++=-++.++|...+|++++-+||=-+|-|.|+|=+.
T Consensus 46 ~Gk~~r~i~l~Kg~~t~~v~~~~g~~n~vev~g~~IRV 83 (132)
T COG5341 46 DGKVIRTIPLTKGNETFDVKENGGFYNKVEVKGNRIRV 83 (132)
T ss_pred CCEEEEEEEcccCCccEEEEcCCCceEEEEEcCCEEEE
Confidence 57888888888888899999999999999999987543
No 10
>cd06364 PBP1_CaSR Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the CaSR calcium-sensing receptor, which is a member of the family C receptors within the G-protein coupled receptor superfamily. CaSR provides feedback control of extracellular calcium homeostasis by responding sensitively to acute fluctuations in extracellular ionized Ca2+ concentration. This ligand-binding domain has homology to the bacterial leucine-isoleucine-valine binding protein (LIVBP) and a leucine binding protein (LBP). CaSR is widely expressed in mammalian tissues and is active in tissues that are not directly involved in extracellular calcium homeostasis. Moreover, CaSR responds to aromatic, aliphatic, and polar amino acids, but not to positively charged or branched chain amino acids, which suggests that changes in plasma amino acid levels are likely to modulate whole body calci
Probab=25.91 E-value=78 Score=33.89 Aligned_cols=32 Identities=25% Similarity=0.716 Sum_probs=27.2
Q ss_pred CCCCCEEEEEEEEEee--C-CCeEEEEEEecCccc
Q 013089 41 DPTGNVTIKWDVMSWT--P-DGYVAAVTINNFQMY 72 (449)
Q Consensus 41 dp~GniTI~wDV~~~~--~-d~Y~A~VTi~N~q~y 72 (449)
|++||..-.|||++|. + +|...-|.|--+.++
T Consensus 460 d~~Gd~~~~YdI~n~q~~~~~~~~~~v~VG~~~~~ 494 (510)
T cd06364 460 DEGGDLVGNYSIINWHLSPEDGSVVFKEVGYYNVY 494 (510)
T ss_pred ecCCCCccceeEEEeeecCCCCcEEEEEEEEEcCC
Confidence 6899999999999997 3 788888888888765
No 11
>smart00141 PDGF Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family. Platelet-derived growth factor is a potent activator for cells of mesenchymal origin. PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer. Members of the VEGF family are homologues of PDGF.
Probab=21.70 E-value=58 Score=27.65 Aligned_cols=47 Identities=17% Similarity=0.282 Sum_probs=31.3
Q ss_pred cccCCCeEEeCCCCCCCCcc---c---------cccccCCeeccCccCcccCcceEEEEEeec
Q 013089 116 CCKRTPIVVDLLPGVPYNQQ---F---------ANCCKGGVLSAWGQDPASAVSAFQVSVGLA 166 (449)
Q Consensus 116 ~C~k~P~IvDLpP~~~~d~q---i---------~nCCrgGvl~~~~qDps~s~SsFQm~Vgk~ 166 (449)
.|+.|++||||.++-|.+.. . .=||-.-.|. =-.++.+..+|+|.+.
T Consensus 2 ~C~pre~~V~i~~e~~~~~~~~y~P~Cv~v~RCgGCCn~e~l~----C~pt~t~~v~~~v~~~ 60 (83)
T smart00141 2 ECKPREVVVEVSREYPDETNFLFKPPCVTVQRCGGCCNDEGLE----CVPTETHNVTMQLLEI 60 (83)
T ss_pred CCceeeEEEECchhcCCccCcEEecCcEEeceecCCCCCCCCE----EEccEEEEEEEEEEEE
Confidence 49999999999998887654 1 4566322221 1225666788888774
Done!