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Conserved domains on  [gi|16129122|ref|NP_415677|]
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Type IV methyl-directed restriction enzyme EcoKMcrA [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

HNH endonuclease signature motif containing protein( domain architecture ID 10052677)

HNH endonuclease signature motif containing protein which may catalyze the hydrolysis of DNA

EC:  3.-.-.-
Gene Ontology:  GO:0004519|GO:0003676|GO:0008270

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG3183 COG3183
Predicted restriction endonuclease, HNH family [Defense mechanisms];
169-277 5.77e-35

Predicted restriction endonuclease, HNH family [Defense mechanisms];


:

Pssm-ID: 442416 [Multi-domain]  Cd Length: 112  Bit Score: 122.03  E-value: 5.77e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129122 169 TLSQPEGSRKPVEVERLQKVYVRDPMVKAWILQQSKGICENCGKNAPF-YLNDGNPYLEVHHVIPLSS---GGADTTDNC 244
Cdd:COG3183   1 DLEEPKGFTEGAKKEVTHKRYERNPKLRKKAKEHAGGKCEVCGFDFEFvYGELGEGYIEVHHLIPLSEigeGGVDPIEDL 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129122 245 VALCPNCHRELHYSKNAKElIEMLYVNINRLQK 277
Cdd:COG3183  81 VPLCPNCHRMLHRGRPPLS-IEELKKLLKRRKA 112
 
Name Accession Description Interval E-value
COG3183 COG3183
Predicted restriction endonuclease, HNH family [Defense mechanisms];
169-277 5.77e-35

Predicted restriction endonuclease, HNH family [Defense mechanisms];


Pssm-ID: 442416 [Multi-domain]  Cd Length: 112  Bit Score: 122.03  E-value: 5.77e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129122 169 TLSQPEGSRKPVEVERLQKVYVRDPMVKAWILQQSKGICENCGKNAPF-YLNDGNPYLEVHHVIPLSS---GGADTTDNC 244
Cdd:COG3183   1 DLEEPKGFTEGAKKEVTHKRYERNPKLRKKAKEHAGGKCEVCGFDFEFvYGELGEGYIEVHHLIPLSEigeGGVDPIEDL 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129122 245 VALCPNCHRELHYSKNAKElIEMLYVNINRLQK 277
Cdd:COG3183  81 VPLCPNCHRMLHRGRPPLS-IEELKKLLKRRKA 112
HNHc cd00085
HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic ...
 194-256 9.56e-14

HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.


Pssm-ID: 238038 [Multi-domain]  Cd Length: 57  Bit Score: 64.42  E-value: 9.56e-14
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16129122 194 MVKAWILQQSKGICENCGKNAPfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:cd00085   1 RSHRLVLLARDGLCPYCGKPGG------TEGLEVDHIIPLSDGGNNDLDNLVLLCRKCHRKKH 57
HNH pfam01844
HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic ...
 207-256 2.81e-13

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: 62.75  E-value: 2.81e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 16129122   207 CENCGKNapfylNDGNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:pfam01844   1 CQYCGRP-----FHISDALTVDHIIPLSDGGADDIENLILLCPSCHNKKH 45
HNHc smart00507
HNH nucleases;
195-253 1.41e-11

HNH nucleases;


Pssm-ID: 214702 [Multi-domain]  Cd Length: 52  Bit Score: 58.24  E-value: 1.41e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129122    195 VKAWILQQsKGICENCGKNApfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHR 253
Cdd:smart00507   2 LRRLLLHR-DGVCAYCGKPA-------SEGLEVDHIIPLSDGGNDDLDNLVLLCPKCHI 52
guided_IscB NF040563
RNA-guided endonuclease IscB;
195-256 1.58e-08

RNA-guided endonuclease IscB;


Pssm-ID: 468538 [Multi-domain]  Cd Length: 315  Bit Score: 54.48  E-value: 1.58e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16129122  195 VKAWILQQSKGICENCGKnapfylndGNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:NF040563 184 VREYLLERDGRTCQYCGA--------KDVPLEVHHIVPRSKGGSDRVSNLILACEPCNQKKG 237
 
Name Accession Description Interval E-value
COG3183 COG3183
Predicted restriction endonuclease, HNH family [Defense mechanisms];
169-277 5.77e-35

Predicted restriction endonuclease, HNH family [Defense mechanisms];


Pssm-ID: 442416 [Multi-domain]  Cd Length: 112  Bit Score: 122.03  E-value: 5.77e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129122 169 TLSQPEGSRKPVEVERLQKVYVRDPMVKAWILQQSKGICENCGKNAPF-YLNDGNPYLEVHHVIPLSS---GGADTTDNC 244
Cdd:COG3183   1 DLEEPKGFTEGAKKEVTHKRYERNPKLRKKAKEHAGGKCEVCGFDFEFvYGELGEGYIEVHHLIPLSEigeGGVDPIEDL 80

                        90       100       110
                ....*....|....*....|....*....|...
gi 16129122 245 VALCPNCHRELHYSKNAKElIEMLYVNINRLQK 277
Cdd:COG3183  81 VPLCPNCHRMLHRGRPPLS-IEELKKLLKRRKA 112
McrA COG1403
5-methylcytosine-specific restriction endonuclease McrA [Defense mechanisms];
189-253 2.98e-15

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


Pssm-ID: 441013 [Multi-domain]  Cd Length: 64  Bit Score: 68.47  E-value: 2.98e-15
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16129122 189 YVRDPMVKAWILQQSKGICENCGKNAPfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHR 253
Cdd:COG1403   4 GREWPALRRAVLKRDNGRCQYCGRPFS------GDALEVDHIIPRSRGGTDTWENLVLLCRRCNR 62
HNHc cd00085
HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic ...
 194-256 9.56e-14

HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.


Pssm-ID: 238038 [Multi-domain]  Cd Length: 57  Bit Score: 64.42  E-value: 9.56e-14
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16129122 194 MVKAWILQQSKGICENCGKNAPfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:cd00085   1 RSHRLVLLARDGLCPYCGKPGG------TEGLEVDHIIPLSDGGNNDLDNLVLLCRKCHRKKH 57
HNH pfam01844
HNH endonuclease; His-Asn-His (HNH) proteins are a very common family of small nucleic ...
 207-256 2.81e-13

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: 62.75  E-value: 2.81e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 16129122   207 CENCGKNapfylNDGNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:pfam01844   1 CQYCGRP-----FHISDALTVDHIIPLSDGGADDIENLILLCPSCHNKKH 45
HNHc smart00507
HNH nucleases;
195-253 1.41e-11

HNH nucleases;


Pssm-ID: 214702 [Multi-domain]  Cd Length: 52  Bit Score: 58.24  E-value: 1.41e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129122    195 VKAWILQQsKGICENCGKNApfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHR 253
Cdd:smart00507   2 LRRLLLHR-DGVCAYCGKPA-------SEGLEVDHIIPLSDGGNDDLDNLVLLCPKCHI 52
guided_IscB NF040563
RNA-guided endonuclease IscB;
195-256 1.58e-08

RNA-guided endonuclease IscB;


Pssm-ID: 468538 [Multi-domain]  Cd Length: 315  Bit Score: 54.48  E-value: 1.58e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16129122  195 VKAWILQQSKGICENCGKnapfylndGNPYLEVHHVIPLSSGGADTTDNCVALCPNCHRELH 256
Cdd:NF040563 184 VREYLLERDGRTCQYCGA--------KDVPLEVHHIVPRSKGGSDRVSNLILACEPCNQKKG 237
HNH_5 pfam14279
HNH endonuclease; This domain is related to other HNH domain families such as pfam01844. ...
 207-255 1.06e-03

HNH endonuclease; This domain is related to other HNH domain families such as pfam01844. Suggesting that these proteins have a nucleic acid cleaving function.


Pssm-ID: 464124 [Multi-domain]  Cd Length: 56  Bit Score: 36.55  E-value: 1.06e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 16129122   207 CENCGKNAPfylndgNPYLEVHHVIPLSSGGADTTDNCVALCPNCHREL 255
Cdd:pfam14279   1 CIYCGKEFP------EKNLTIEHIIPESLGGKNKISNLQTLCKKCNSKK 43
 
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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