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Conserved domains on  [gi|221139701|ref|NP_001137389|]
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lysM and putative peptidoglycan-binding domain-containing protein 2 isoform 2 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nup88 super family cl25737
Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal ...
 10-115 3.29e-04

Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein has no obvious structural motifs but is the region for binding to Nup98, one of the components of the nuclear pore. the C-terminal end is a predicted coiled-coil domain. Nup88 is overexpressed in tumour cells.


The actual alignment was detected with superfamily member pfam10168:

Pssm-ID: 462975 [Multi-domain]  Cd Length: 713  Bit Score: 38.87  E-value: 3.29e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221139701   10 LFTNDCIFLKKTLNIPVISEKPLLFNGLNSIDSPENETADNSFSQE---------EEPVVAGEDLPPPSPQESDVQPVQP 80
Cdd:pfam10168 461 LSSGEVISLPLLIDAVPPSPPLLCSKEDVTVDEPLRGLQEDSFEDHiksilqrsvSNPILSADKLSSPSPQECLQLLSRA 540

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 221139701   81 EEVSARDFLQRLDL-------QIK-LSTQAAKKLKEESRDEES 115
Cdd:pfam10168 541 TQVFREEYLKKHDLareeiqkRVKlLKLQKEQQLQELQSLEEE 583
 
Name Accession Description Interval E-value
Nup88 pfam10168
Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal ...
 10-115 3.29e-04

Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein has no obvious structural motifs but is the region for binding to Nup98, one of the components of the nuclear pore. the C-terminal end is a predicted coiled-coil domain. Nup88 is overexpressed in tumour cells.


Pssm-ID: 462975 [Multi-domain]  Cd Length: 713  Bit Score: 38.87  E-value: 3.29e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221139701   10 LFTNDCIFLKKTLNIPVISEKPLLFNGLNSIDSPENETADNSFSQE---------EEPVVAGEDLPPPSPQESDVQPVQP 80
Cdd:pfam10168 461 LSSGEVISLPLLIDAVPPSPPLLCSKEDVTVDEPLRGLQEDSFEDHiksilqrsvSNPILSADKLSSPSPQECLQLLSRA 540

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 221139701   81 EEVSARDFLQRLDL-------QIK-LSTQAAKKLKEESRDEES 115
Cdd:pfam10168 541 TQVFREEYLKKHDLareeiqkRVKlLKLQKEQQLQELQSLEEE 583
 
Name Accession Description Interval E-value
Nup88 pfam10168
Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal ...
 10-115 3.29e-04

Nuclear pore component; Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein has no obvious structural motifs but is the region for binding to Nup98, one of the components of the nuclear pore. the C-terminal end is a predicted coiled-coil domain. Nup88 is overexpressed in tumour cells.


Pssm-ID: 462975 [Multi-domain]  Cd Length: 713  Bit Score: 38.87  E-value: 3.29e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221139701   10 LFTNDCIFLKKTLNIPVISEKPLLFNGLNSIDSPENETADNSFSQE---------EEPVVAGEDLPPPSPQESDVQPVQP 80
Cdd:pfam10168 461 LSSGEVISLPLLIDAVPPSPPLLCSKEDVTVDEPLRGLQEDSFEDHiksilqrsvSNPILSADKLSSPSPQECLQLLSRA 540

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 221139701   81 EEVSARDFLQRLDL-------QIK-LSTQAAKKLKEESRDEES 115
Cdd:pfam10168 541 TQVFREEYLKKHDLareeiqkRVKlLKLQKEQQLQELQSLEEE 583
 
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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