NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|18394379|ref|NP_564002|]
View 

DNA-binding HORMA family protein [Arabidopsis thaliana]

Protein Classification

HORMA domain-containing protein( domain architecture ID 3092)

HORMA (Hop1p, Rev7p and MAD2) domain-containing protein which may recognize chromatin states that result from DNA adducts, double stranded breaks, or non-attachment to the spindle and act as an adaptor that recruits other proteins; similar to Mitotic spindle assembly checkpoint protein MAD2B

CATH:  3.30.900.10
Gene Ontology:  GO:0042772
PubMed:  9757827
SCOP:  4000363

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HORMA super family cl03523
HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize ...
 19-150 2.34e-06

HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.


The actual alignment was detected with superfamily member pfam02301:

Pssm-ID: 460526  Cd Length: 209  Bit Score: 46.51  E-value: 2.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394379    19 FMEVAITMIVYLKGFYPSAAFERRRYMNV----VVQRARHPE---LRDYIHsaaSGLLPFIEKGLVERVAVVFFSEDNVP 91
Cdd:pfam02301   8 LLRVSISCILYLRGLFPEDAFEDRYLVSGlklkILVRGKSPEadrLLDWLE---KGVFDALEKGYLKALVLVIYKDKDEP 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18394379    92 ---VERFIFKITIKPSCAALVEEGQLEFALRSFLIklSVSKSLVKPLPLNCRWEVTAYLRSL 150
Cdd:pfam02301  85 envLESYTFSFSYFKDGGVSDVTSSDGGGGDKNLV--SLSSELSEKTLEDVKKQLQSLIRRL 144
 
Name Accession Description Interval E-value
HORMA pfam02301
HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize ...
 19-150 2.34e-06

HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.


Pssm-ID: 460526  Cd Length: 209  Bit Score: 46.51  E-value: 2.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394379    19 FMEVAITMIVYLKGFYPSAAFERRRYMNV----VVQRARHPE---LRDYIHsaaSGLLPFIEKGLVERVAVVFFSEDNVP 91
Cdd:pfam02301   8 LLRVSISCILYLRGLFPEDAFEDRYLVSGlklkILVRGKSPEadrLLDWLE---KGVFDALEKGYLKALVLVIYKDKDEP 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18394379    92 ---VERFIFKITIKPSCAALVEEGQLEFALRSFLIklSVSKSLVKPLPLNCRWEVTAYLRSL 150
Cdd:pfam02301  85 envLESYTFSFSYFKDGGVSDVTSSDGGGGDKNLV--SLSSELSEKTLEDVKKQLQSLIRRL 144
 
Name Accession Description Interval E-value
HORMA pfam02301
HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize ...
 19-150 2.34e-06

HORMA domain; The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognize chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.


Pssm-ID: 460526  Cd Length: 209  Bit Score: 46.51  E-value: 2.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18394379    19 FMEVAITMIVYLKGFYPSAAFERRRYMNV----VVQRARHPE---LRDYIHsaaSGLLPFIEKGLVERVAVVFFSEDNVP 91
Cdd:pfam02301   8 LLRVSISCILYLRGLFPEDAFEDRYLVSGlklkILVRGKSPEadrLLDWLE---KGVFDALEKGYLKALVLVIYKDKDEP 84

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18394379    92 ---VERFIFKITIKPSCAALVEEGQLEFALRSFLIklSVSKSLVKPLPLNCRWEVTAYLRSL 150
Cdd:pfam02301  85 envLESYTFSFSYFKDGGVSDVTSSDGGGGDKNLV--SLSSELSEKTLEDVKKQLQSLIRRL 144
 
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