6VPC
Structure of the SpCas9 DNA adenine base editor - ABE8e
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B | SCOP2B Superfamily | Cas9 BH domain-like | 8045840 | 3002579 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | His-Me finger endonucleases | 8048679 | 3001893 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Ribonuclease H-like | 8092300 | 3000143 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Cas9 PI domain-like | 8092301 | 3002581 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Cas9 REC domain-like | 8045843 | 3002580 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Ribonuclease H-like | 8092300 | 3000143 | SCOP2B (2021-05-27) |
B | SCOP2B Superfamily | Ribonuclease H-like | 8092300 | 3000143 | SCOP2B (2021-05-27) |
E | SCOP2B Superfamily | Cytidine deaminase-like | 8035125 | 3001838 | SCOP2B (2021-05-27) |
F | SCOP2B Superfamily | Cytidine deaminase-like | 8035125 | 3001838 | SCOP2B (2021-05-27) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
B | PF16592,PF16593 | e6vpcB3 | A: alpha complex topology | X: CRISPR-associated endonuclease Cas9 alpha-helical lobe | H: CRISPR-associated endonuclease Cas9 alpha-helical lobe (From Topology) | T: CRISPR-associated endonuclease Cas9 alpha-helical lobe | F: PF16592,PF16593 | ECOD (1.6) |
B | PF16595 | e6vpcB2 | A: a+b two layers | X: SSHS domain | H: SSHS domain in CRISPR-associated endonuclease Cas9 (From Topology) | T: SSHS domain in CRISPR-associated endonuclease Cas9 | F: PF16595 | ECOD (1.6) |
B | PF16595 | e6vpcB4 | A: a+b complex topology | X: CRISPR-associated endonuclease Cas9 C-terminal domain (From Topology) | H: CRISPR-associated endonuclease Cas9 C-terminal domain (From Topology) | T: CRISPR-associated endonuclease Cas9 C-terminal domain | F: PF16595 | ECOD (1.6) |
B | PF22702 | e6vpcB5 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF22702 | ECOD (1.6) |
B | PF13395 | e6vpcB1 | A: few secondary structure elements | X: His-Me finger endonucleases (From Homology) | H: His-Me finger endonucleases | T: His-Me finger endonucleases | F: PF13395 | ECOD (1.6) |
E | PF14437 | e6vpcE1 | A: a+b three layers | X: Cytidine deaminase-like (From Topology) | H: Cytidine deaminase-like (From Topology) | T: Cytidine deaminase-like | F: PF14437 | ECOD (1.6) |
F | PF14437 | e6vpcF1 | A: a+b three layers | X: Cytidine deaminase-like (From Topology) | H: Cytidine deaminase-like (From Topology) | T: Cytidine deaminase-like | F: PF14437 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF16592 | REC lobe of CRISPR-associated endonuclease Cas9 (Cas9_REC) | REC lobe of CRISPR-associated endonuclease Cas9 | - | Family | |
PF16593 | Bridge helix of CRISPR-associated endonuclease Cas9 (Cas9-BH) | Bridge helix of CRISPR-associated endonuclease Cas9 | - | Family | |
PF13395 | HNH endonuclease (HNH_4) | HNH endonuclease | This HNH nuclease domain is found in CRISPR-related proteins. | Domain | |
PF16595 | PAM-interacting domain of CRISPR-associated endonuclease Cas9 (Cas9_PI) | PAM-interacting domain of CRISPR-associated endonuclease Cas9 | Cas9_PI is a family found at the C-terminal of bacterial type II CRISPR system Cas9 endonuclease. This domain adopts a novel protein fold that is unique to the Cas9 family. It is positioned in the structure-DNA-complex to recognise the PAM sequence o ... | Domain | |
PF22702 | Cas9 RuvC domain (Cas9_RuvC) | Cas9 RuvC domain | This entry represent a RuvC endonuclease domain (RNAseH-like) domain found in CRISPR-Cas9 from Streptococcus pyogenes and related sequences [1-5]. This domain, and the HNH (Pfam:PF13395) domain of Cas9, are used to cleave the DNA strands complementar ... | Domain | |
PF00383 | Cytidine and deoxycytidylate deaminase zinc-binding region (dCMP_cyt_deam_1) | Cytidine and deoxycytidylate deaminase zinc-binding region | - | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR036397 | Ribonuclease H superfamily | Homologous Superfamily | |
IPR032240 | CRISPR-associated endonuclease Cas9, REC lobe | Domain | |
IPR032239 | CRISPR-associated endonuclease Cas9, bridge helix | Domain | |
IPR033114 | Cas9-type HNH domain | Domain | |
IPR028629 | CRISPR-associated endonuclease Cas9 | Family | |
IPR003615 | HNH nuclease | Domain | |
IPR032237 | CRISPR-associated endonuclease Cas9, PAM-interacting domain | Domain | |
IPR016193 | Cytidine deaminase-like | Homologous Superfamily | |
IPR002125 | Cytidine and deoxycytidylate deaminase domain | Domain | |
IPR028883 | tRNA-specific adenosine deaminase | Family | |
IPR016192 | APOBEC/CMP deaminase, zinc-binding | Binding Site |