NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2089593267|dbj|BCW77812|]
View 

hypothetical protein NicSoilB11_41370 (plasmid) [Arthrobacter sp. NicSoilB11]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
CA_like super family cl46864
Cadherin repeat-like domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell ...
 138-194 7.07e-03

Cadherin repeat-like domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion. The cadherin repeat domains occur as tandem repeats in the extracellular regions, which are thought to mediate cell-cell contact when bound to calcium. They play numerous roles in cell fate, signalling, proliferation, differentiation, and migration; members include E-, N-, P-, T-, VE-, CNR-, proto-, and FAT-family cadherin, desmocollin, and desmoglein, a large variety of domain architectures with varying repeat copy numbers. Cadherin-repeat containing proteins exist as monomers, homodimers, or heterodimers. This family also includes the cadherin-like repeats of extracellular alpha-dystroglycan.


The actual alignment was detected with superfamily member smart00089:

Pssm-ID: 481204 [Multi-domain]  Cd Length: 79  Bit Score: 34.73  E-value: 7.07e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2089593267  138 QVHVVATPVQYTWNYGDGTVFgpqpsmggalpqdrwgEKTRTSHAYASTGDFQVVLT 194
Cdd:smart00089  22 TSSDDGSIVSYTWDFGDGTSS----------------TGPTVTHTYTKPGTYTVTLT 62
 
Name Accession Description Interval E-value
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
 138-194 7.07e-03

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: 34.73  E-value: 7.07e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2089593267  138 QVHVVATPVQYTWNYGDGTVFgpqpsmggalpqdrwgEKTRTSHAYASTGDFQVVLT 194
Cdd:smart00089  22 TSSDDGSIVSYTWDFGDGTSS----------------TGPTVTHTYTKPGTYTVTLT 62
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
 145-196 7.75e-03

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


Pssm-ID: 436824 [Multi-domain]  Cd Length: 85  Bit Score: 34.55  E-value: 7.75e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2089593267 145 PVQYTWNYGDG-TVFGPQPsmggalpqdrwgektrtSHAYASTGDFQVVLTTS 196
Cdd:pfam18911  34 ILSYRWDFGDGtTATGANV-----------------SHTYAAPGTYTVTLTVT 69
 
Name Accession Description Interval E-value
PKD smart00089
Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Polycystic kidney disease 1 ...
 138-194 7.07e-03

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: 34.73  E-value: 7.07e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2089593267  138 QVHVVATPVQYTWNYGDGTVFgpqpsmggalpqdrwgEKTRTSHAYASTGDFQVVLT 194
Cdd:smart00089  22 TSSDDGSIVSYTWDFGDGTSS----------------TGPTVTHTYTKPGTYTVTLT 62
PKD_4 pfam18911
PKD domain; This entry is composed of PKD domains found in bacterial surface proteins.
 145-196 7.75e-03

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


Pssm-ID: 436824 [Multi-domain]  Cd Length: 85  Bit Score: 34.55  E-value: 7.75e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2089593267 145 PVQYTWNYGDG-TVFGPQPsmggalpqdrwgektrtSHAYASTGDFQVVLTTS 196
Cdd:pfam18911  34 ILSYRWDFGDGtTATGANV-----------------SHTYAAPGTYTVTLTVT 69
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH