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Conserved domains on  [gi|222613328|gb|EEE51460|]
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hypothetical protein OsJ_32579 [Oryza sativa Japonica Group]

Protein Classification

nuclease-related domain-containing protein( domain architecture ID 10551559)

nuclease-related domain (NERD)-containing protein has distant similarity to endonucleases and DEAD/DEAH box containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA

CATH:  3.40.960.10
Gene Ontology:  GO:0003677|GO:0004519
PubMed:  15055202|16011798|15972856
SCOP:  3000104

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NERD pfam08378
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial ...
 41-152 4.77e-13

Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.


:

Pssm-ID: 462454  Cd Length: 108  Bit Score: 64.39  E-value: 4.77e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 222613328   41 FALASRLEKLYSARCFVGLRIPdPDAGERQhVDLVLLTNREVMVVAIHNISGFVEVDKDGNWTCpsdkkNKHGVIPNPVL 120
Cdd:pfam08378   7 RRVAEYLKLPGGYIVLHNLRLP-PGTGTAE-IDHLVISPNGIFVIEVKNYSGWIFGDENGQWTQ-----KIGNGFPNPLE 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 222613328  121 QVNRLAANLQSYLEKRGAKLPdghITGKIVLP 152
Cdd:pfam08378  80 QNRRHAKALKKLLKAGGPRVP---VESVVVFS 108
 
Name Accession Description Interval E-value
NERD pfam08378
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial ...
 41-152 4.77e-13

Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.


Pssm-ID: 462454  Cd Length: 108  Bit Score: 64.39  E-value: 4.77e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 222613328   41 FALASRLEKLYSARCFVGLRIPdPDAGERQhVDLVLLTNREVMVVAIHNISGFVEVDKDGNWTCpsdkkNKHGVIPNPVL 120
Cdd:pfam08378   7 RRVAEYLKLPGGYIVLHNLRLP-PGTGTAE-IDHLVISPNGIFVIEVKNYSGWIFGDENGQWTQ-----KIGNGFPNPLE 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 222613328  121 QVNRLAANLQSYLEKRGAKLPdghITGKIVLP 152
Cdd:pfam08378  80 QNRRHAKALKKLLKAGGPRVP---VESVVVFS 108
 
Name Accession Description Interval E-value
NERD pfam08378
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial ...
 41-152 4.77e-13

Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.


Pssm-ID: 462454  Cd Length: 108  Bit Score: 64.39  E-value: 4.77e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 222613328   41 FALASRLEKLYSARCFVGLRIPdPDAGERQhVDLVLLTNREVMVVAIHNISGFVEVDKDGNWTCpsdkkNKHGVIPNPVL 120
Cdd:pfam08378   7 RRVAEYLKLPGGYIVLHNLRLP-PGTGTAE-IDHLVISPNGIFVIEVKNYSGWIFGDENGQWTQ-----KIGNGFPNPLE 79

                          90       100       110
                  ....*....|....*....|....*....|..
gi 222613328  121 QVNRLAANLQSYLEKRGAKLPdghITGKIVLP 152
Cdd:pfam08378  80 QNRRHAKALKKLLKAGGPRVP---VESVVVFS 108
 
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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