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Conserved domains on  [gi|196259970|ref|NP_001124514|]
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transmembrane glycoprotein NMB precursor [Xenopus tropicalis]

Protein Classification

PKD domain-containing protein (domain architecture ID 10065681)

PKD domain-containing protein similar to melanocyte protein PMEL and transmembrane glycoprotein NMB

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
258-316 8.37e-07

polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is presented here. The domain is also found in microbial collagenases and chitinases.


:

Pssm-ID: 238084 [Multi-domain]  Cd Length: 81  Bit Score: 46.72  E-value: 8.37e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 196259970 258 PINFDIKIHDPSHYlnnSAVSFAWNFGDGSGSFvSNNPVSTHTYTLLGNFSLNLTIKAA 316
Cdd:cd00146   14 GASVTFSASDSSGG---SIVSYKWDFGDGEVSS-SGEPTVTHTYTKPGTYTVTLTVTNA 68
 
Name Accession Description Interval E-value
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
258-316 8.37e-07

polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is presented here. The domain is also found in microbial collagenases and chitinases.


Pssm-ID: 238084 [Multi-domain]  Cd Length: 81  Bit Score: 46.72  E-value: 8.37e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 196259970 258 PINFDIKIHDPSHYlnnSAVSFAWNFGDGSGSFvSNNPVSTHTYTLLGNFSLNLTIKAA 316
Cdd:cd00146   14 GASVTFSASDSSGG---SIVSYKWDFGDGEVSS-SGEPTVTHTYTKPGTYTVTLTVTNA 68
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
260-317 1.80e-06

Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 protein contains 14 repeats, present elsewhere such as in microbial collagenases.


Pssm-ID: 214510 [Multi-domain]  Cd Length: 79  Bit Score: 45.91  E-value: 1.80e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 196259970   260 NFDIKIHDPSHYlNNSAVSFAWNFGDGSgsfVSNNPVSTHTYTLLGNFSLNLTIKAAI 317
Cdd:smart00089  14 GESVTFTATSSD-DGSIVSYTWDFGDGT---SSTGPTVTHTYTKPGTYTVTLTVTNAV 67
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
248-313 2.01e-05

PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.


Pssm-ID: 408681 [Multi-domain]  Cd Length: 81  Bit Score: 43.03  E-value: 2.01e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 196259970  248 ASDRIFIKDSPINFDIKIHDPShylNNSAVSFAWNFGDGSGSfVSNNPvsTHTYTLLGNFSLNLTI 313
Cdd:pfam18911  18 TGPTRIAEGETVPFDASASDDG---DGDILTYTWDFGDGTTA-TGANV--SHTYAAPGTYTVTLTV 77
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
267-317 1.01e-04

polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a huge protein of 4303aas. Its repeated leucine-rich (LRR) segment is found in many proteins. It contains 16 polycystic kidney disease (PKD) domains, one LDL-receptor class A domain, one C-type lectin family domain, and 16-18 putative TMSs in positions between residues 2200 and 4100. Polycystin-L has been shown to be a cation (Na+, K+ and Ca2+) channel that is activated by Ca2+. Two members of the PCC family (polycystin 1 and 2) are mutated in autosomal dominant polycystic kidney disease, and polycystin-L is deleted in mice with renal and retinal defects. Note: this model is restricted to the amino half.


Pssm-ID: 188093 [Multi-domain]  Cd Length: 2740  Bit Score: 45.46  E-value: 1.01e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 196259970   267 DPSHYLnnsavsFAWNFGDGS-GSFVSNNPVSTHTYTLLGNFSLNLTIKAAI 317
Cdd:TIGR00864 1281 NAAHYL------FDWSFGDGSpNETHHGCPGISHNFRGNGTFPLALTISSGV 1326
 
Name Accession Description Interval E-value
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
258-316 8.37e-07

polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is presented here. The domain is also found in microbial collagenases and chitinases.


Pssm-ID: 238084 [Multi-domain]  Cd Length: 81  Bit Score: 46.72  E-value: 8.37e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 196259970 258 PINFDIKIHDPSHYlnnSAVSFAWNFGDGSGSFvSNNPVSTHTYTLLGNFSLNLTIKAA 316
Cdd:cd00146   14 GASVTFSASDSSGG---SIVSYKWDFGDGEVSS-SGEPTVTHTYTKPGTYTVTLTVTNA 68
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
260-317 1.80e-06

Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 protein contains 14 repeats, present elsewhere such as in microbial collagenases.


Pssm-ID: 214510 [Multi-domain]  Cd Length: 79  Bit Score: 45.91  E-value: 1.80e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 196259970   260 NFDIKIHDPSHYlNNSAVSFAWNFGDGSgsfVSNNPVSTHTYTLLGNFSLNLTIKAAI 317
Cdd:smart00089  14 GESVTFTATSSD-DGSIVSYTWDFGDGT---SSTGPTVTHTYTKPGTYTVTLTVTNAV 67
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
248-313 2.01e-05

PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.


Pssm-ID: 408681 [Multi-domain]  Cd Length: 81  Bit Score: 43.03  E-value: 2.01e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 196259970  248 ASDRIFIKDSPINFDIKIHDPShylNNSAVSFAWNFGDGSGSfVSNNPvsTHTYTLLGNFSLNLTI 313
Cdd:pfam18911  18 TGPTRIAEGETVPFDASASDDG---DGDILTYTWDFGDGTTA-TGANV--SHTYAAPGTYTVTLTV 77
PCC TIGR00864
polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) ...
267-317 1.01e-04

polycystin cation channel protein; The Polycystin Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a huge protein of 4303aas. Its repeated leucine-rich (LRR) segment is found in many proteins. It contains 16 polycystic kidney disease (PKD) domains, one LDL-receptor class A domain, one C-type lectin family domain, and 16-18 putative TMSs in positions between residues 2200 and 4100. Polycystin-L has been shown to be a cation (Na+, K+ and Ca2+) channel that is activated by Ca2+. Two members of the PCC family (polycystin 1 and 2) are mutated in autosomal dominant polycystic kidney disease, and polycystin-L is deleted in mice with renal and retinal defects. Note: this model is restricted to the amino half.


Pssm-ID: 188093 [Multi-domain]  Cd Length: 2740  Bit Score: 45.46  E-value: 1.01e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 196259970   267 DPSHYLnnsavsFAWNFGDGS-GSFVSNNPVSTHTYTLLGNFSLNLTIKAAI 317
Cdd:TIGR00864 1281 NAAHYL------FDWSFGDGSpNETHHGCPGISHNFRGNGTFPLALTISSGV 1326
PKD pfam00801
PKD domain; This domain was first identified in the Polycystic kidney disease protein PKD1. ...
258-312 4.48e-04

PKD domain; This domain was first identified in the Polycystic kidney disease protein PKD1. This domain has been predicted to contain an Ig-like fold.


Pssm-ID: 395646 [Multi-domain]  Cd Length: 70  Bit Score: 38.91  E-value: 4.48e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 196259970  258 PINFDIKIHDPShylnnsAVSFAWNFGDGSGsFVSNNPVSTHTYTLLGNFSLNLT 312
Cdd:pfam00801  13 PVTFTATLADGS------NVTYTWDFGDSPG-TSGSGPTVTHTYLSPGTYTVTLT 60
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.19
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
  • Marchler-Bauer A et al. (2015), "CDD: NCBI's conserved domain database.", Nucleic Acids Res.43(D)222-6.
  • Marchler-Bauer A et al. (2011), "CDD: a Conserved Domain Database for the functional annotation of proteins.", Nucleic Acids Res.39(D)225-9.
  • Marchler-Bauer A, Bryant SH (2004), "CD-Search: protein domain annotations on the fly.", Nucleic Acids Res.32(W)327-331.
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