NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2199298329|ref|WP_239666081|]
View 

MULTISPECIES: HNH endonuclease [Staphylococcus]

Protein Classification

HNH endonuclease family protein( domain architecture ID 1640)

HNH endonuclease family protein, similar to Physarum polycephalum intron-encoded endonuclease I-Ppoi which mediates the mobility of intron 3 in the ribosomal DNA

EC:  3.1.-.-
Gene Ontology:  GO:0004519

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
McrA super family cl43413
5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];
4-51 4.22e-04

5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];


The actual alignment was detected with superfamily member COG1403:

Pssm-ID: 441013 [Multi-domain]  Cd Length: 64  Bit Score: 34.57  E-value: 4.22e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 2199298329  4 QNYICERCGNLADI----CHHKIWLNESNVDDpmmtynWDNLEALCIDCHNK 51
Cdd:COG1403   18 DNGRCQYCGRPFSGdaleVDHIIPRSRGGTDT------WENLVLLCRRCNRR 63
 
Name Accession Description Interval E-value
McrA COG1403
5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];
4-51 4.22e-04

5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];


Pssm-ID: 441013 [Multi-domain]  Cd Length: 64  Bit Score: 34.57  E-value: 4.22e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 2199298329  4 QNYICERCGNLADI----CHHKIWLNESNVDDpmmtynWDNLEALCIDCHNK 51
Cdd:COG1403   18 DNGRCQYCGRPFSGdaleVDHIIPRSRGGTDT------WENLVLLCRRCNRR 63
HNH pfam01844
HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic ...
 8-53 2.72e-03

HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic acid-binding proteins that are generally associated with endonuclease activity.


Pssm-ID: 396422 [Multi-domain]  Cd Length: 47  Bit Score: 32.32  E-value: 2.72e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 2199298329  8 CERCGN-----LADICHHKIWLNESNVDDpmmtynWDNLEALCIDCHNKEH 53
Cdd:pfam01844  1 CQYCGRpfhisDALTVDHIIPLSDGGADD------IENLILLCPSCHNKKH 45
 
Name Accession Description Interval E-value
McrA COG1403
5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];
4-51 4.22e-04

5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];


Pssm-ID: 441013 [Multi-domain]  Cd Length: 64  Bit Score: 34.57  E-value: 4.22e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 2199298329  4 QNYICERCGNLADI----CHHKIWLNESNVDDpmmtynWDNLEALCIDCHNK 51
Cdd:COG1403   18 DNGRCQYCGRPFSGdaleVDHIIPRSRGGTDT------WENLVLLCRRCNRR 63
HNH pfam01844
HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic ...
 8-53 2.72e-03

HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic acid-binding proteins that are generally associated with endonuclease activity.


Pssm-ID: 396422 [Multi-domain]  Cd Length: 47  Bit Score: 32.32  E-value: 2.72e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 2199298329  8 CERCGN-----LADICHHKIWLNESNVDDpmmtynWDNLEALCIDCHNKEH 53
Cdd:pfam01844  1 CQYCGRpfhisDALTVDHIIPLSDGGADD------IENLILLCPSCHNKKH 45
 
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