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Conserved domains on  [gi|197313781|ref|NP_001127923|]
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transmembrane protein 130 isoform c precursor [Homo sapiens]

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
PKAT_KLD super family cl48588
PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, ...
 165-210 9.18e-14

PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, Transmembrane glycoprotein NMB (GPNMB) and TMEM130, which is downstream the PKD domain. It contains six highly conserved cysteine residues that form the disulphide bonds of mature PMEL dimers. (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). This domain is perfectly conserved in PMEL and GPNMB which suggests that GPNMB also forms dimers. PMEL and GPNMB, together with TMEM130 (its most ancient paralogue), have a conserved domain architecture and have been recently described as the PKAT (PKD- and KLD-Associated Transmembrane) protein family (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). PMEL and GPNMB share overlapping phenotypes and disease associations, such as melanin-based pigmentation, cancer, neurodegenerative disease and glaucoma.


The actual alignment was detected with superfamily member pfam20433:

Pssm-ID: 466582  Cd Length: 51  Bit Score: 64.61  E-value: 9.18e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 197313781  165 GSPPLTVCWRLK-PECLPLEEGECHPVSVA-STAYNLTHTFRDPGDYC 210
Cdd:pfam20433   4 GSLPTEVCTVVSdPTCQTPQNTVCNPVSPSpECQLVLRRAFNGSGTYC 51
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
 42-108 6.33e-05

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: 40.94  E-value: 6.33e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 197313781  42 SLPWPSSYLTKTVLKVSFLLHDPSNFLKTAlflYSWDFGDGTQMVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:cd00146    2 TASVSAPPVAELGASVTFSASDSSGGSIVS---YKWDFGDGEVSSSGEPTVTHTYTKPGTYTVTLTV 65
 
Name Accession Description Interval E-value
PKAT_KLD pfam20433
PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, ...
 165-210 9.18e-14

PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, Transmembrane glycoprotein NMB (GPNMB) and TMEM130, which is downstream the PKD domain. It contains six highly conserved cysteine residues that form the disulphide bonds of mature PMEL dimers. (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). This domain is perfectly conserved in PMEL and GPNMB which suggests that GPNMB also forms dimers. PMEL and GPNMB, together with TMEM130 (its most ancient paralogue), have a conserved domain architecture and have been recently described as the PKAT (PKD- and KLD-Associated Transmembrane) protein family (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). PMEL and GPNMB share overlapping phenotypes and disease associations, such as melanin-based pigmentation, cancer, neurodegenerative disease and glaucoma.


Pssm-ID: 466582  Cd Length: 51  Bit Score: 64.61  E-value: 9.18e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 197313781  165 GSPPLTVCWRLK-PECLPLEEGECHPVSVA-STAYNLTHTFRDPGDYC 210
Cdd:pfam20433   4 GSLPTEVCTVVSdPTCQTPQNTVCNPVSPSpECQLVLRRAFNGSGTYC 51
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
 42-108 6.33e-05

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: 40.94  E-value: 6.33e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 197313781  42 SLPWPSSYLTKTVLKVSFLLHDPSNFLKTAlflYSWDFGDGTQMVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:cd00146    2 TASVSAPPVAELGASVTFSASDSSGGSIVS---YKWDFGDGEVSSSGEPTVTHTYTKPGTYTVTLTV 65
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
 75-108 1.18e-04

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


Pssm-ID: 436824 [Multi-domain]  Cd Length: 85  Bit Score: 40.33  E-value: 1.18e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 197313781   75 YSWDFGDGTqmVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:pfam18911  37 YRWDFGDGT--TATGANVSHTYAAPGTYTVTLTV 68
COG3291 COG3291
Uncharacterized conserved protein, PKD repeat domain [Function unknown];
75-108 1.86e-04

Uncharacterized conserved protein, PKD repeat domain [Function unknown];


Pssm-ID: 442520 [Multi-domain]  Cd Length: 333  Bit Score: 42.73  E-value: 1.86e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 197313781  75 YSWDFGDGTqMVTEDSVVyYNYSIIGTFTVKLKV 108
Cdd:COG3291   27 YEWDFGDGT-TSTEANPS-HTYTTPGTYTVTLTV 58
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
 43-108 2.51e-04

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: 38.97  E-value: 2.51e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 197313781    43 LPWPSSYLTKTVLKVSFllHDPSNFLKTALFlYSWDFGDGTqMVTEDSVVyYNYSIIGTFTVKLKV 108
Cdd:smart00089   3 DVSASPTVGVAGESVTF--TATSSDDGSIVS-YTWDFGDGT-SSTGPTVT-HTYTKPGTYTVTLTV 63
 
Name Accession Description Interval E-value
PKAT_KLD pfam20433
PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, ...
 165-210 9.18e-14

PKAT, KLD domain; This is the Kringle-like domain (KLD) found in Melanocyte protein PMEL, Transmembrane glycoprotein NMB (GPNMB) and TMEM130, which is downstream the PKD domain. It contains six highly conserved cysteine residues that form the disulphide bonds of mature PMEL dimers. (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). This domain is perfectly conserved in PMEL and GPNMB which suggests that GPNMB also forms dimers. PMEL and GPNMB, together with TMEM130 (its most ancient paralogue), have a conserved domain architecture and have been recently described as the PKAT (PKD- and KLD-Associated Transmembrane) protein family (Chrystal et. al., Molecules 2021, 26(12), 3529; https://doi.org/10.3390/molecules26123529). PMEL and GPNMB share overlapping phenotypes and disease associations, such as melanin-based pigmentation, cancer, neurodegenerative disease and glaucoma.


Pssm-ID: 466582  Cd Length: 51  Bit Score: 64.61  E-value: 9.18e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 197313781  165 GSPPLTVCWRLK-PECLPLEEGECHPVSVA-STAYNLTHTFRDPGDYC 210
Cdd:pfam20433   4 GSLPTEVCTVVSdPTCQTPQNTVCNPVSPSpECQLVLRRAFNGSGTYC 51
PKD cd00146
polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an ...
 42-108 6.33e-05

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: 40.94  E-value: 6.33e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 197313781  42 SLPWPSSYLTKTVLKVSFLLHDPSNFLKTAlflYSWDFGDGTQMVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:cd00146    2 TASVSAPPVAELGASVTFSASDSSGGSIVS---YKWDFGDGEVSSSGEPTVTHTYTKPGTYTVTLTV 65
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
 75-108 1.18e-04

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


Pssm-ID: 436824 [Multi-domain]  Cd Length: 85  Bit Score: 40.33  E-value: 1.18e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 197313781   75 YSWDFGDGTqmVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:pfam18911  37 YRWDFGDGT--TATGANVSHTYAAPGTYTVTLTV 68
COG3291 COG3291
Uncharacterized conserved protein, PKD repeat domain [Function unknown];
75-108 1.86e-04

Uncharacterized conserved protein, PKD repeat domain [Function unknown];


Pssm-ID: 442520 [Multi-domain]  Cd Length: 333  Bit Score: 42.73  E-value: 1.86e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 197313781  75 YSWDFGDGTqMVTEDSVVyYNYSIIGTFTVKLKV 108
Cdd:COG3291   27 YEWDFGDGT-TSTEANPS-HTYTTPGTYTVTLTV 58
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
 43-108 2.51e-04

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: 38.97  E-value: 2.51e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 197313781    43 LPWPSSYLTKTVLKVSFllHDPSNFLKTALFlYSWDFGDGTqMVTEDSVVyYNYSIIGTFTVKLKV 108
Cdd:smart00089   3 DVSASPTVGVAGESVTF--TATSSDDGSIVS-YTWDFGDGT-SSTGPTVT-HTYTKPGTYTVTLTV 63
PKD pfam00801
PKD domain; This domain was first identified in the Polycystic kidney disease protein PKD1. ...
 75-108 2.54e-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: 2.54e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 197313781   75 YSWDFGDGTQMVTEDSVVYYNYSIIGTFTVKLKV 108
Cdd:pfam00801  28 YTWDFGDSPGTSGSGPTVTHTYLSPGTYTVTLTA 61
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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