7NFC
Cryo-EM structure of NHEJ super-complex (dimer)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B | SCOP2B Superfamily | vWA-like | 8035574 | 3000832 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | SPOC domain-like | 8035571 | 3000675 | SCOP2B (2022-06-29) |
E [auth G] | SCOP2B Superfamily | SPOC domain-like | 8035571 | 3000675 | SCOP2B (2022-06-29) |
E [auth G] | SCOP2B Superfamily | vWA-like | 8035574 | 3000832 | SCOP2B (2022-06-29) |
F [auth H] | SCOP2B Superfamily | C-terminal domain of Ku80 | 8041016 | 3001210 | SCOP2B (2022-06-29) |
F [auth H] | SCOP2B Superfamily | SPOC domain-like | 8035577 | 3000675 | SCOP2B (2022-06-29) |
F [auth H] | SCOP2B Superfamily | vWA-like | 8035579 | 3000832 | SCOP2B (2022-06-29) |
C | SCOP2B Superfamily | SPOC domain-like | 8035577 | 3000675 | SCOP2B (2022-06-29) |
G [auth K] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8036636 | 3001502 | SCOP2B (2022-06-29) |
G [auth K] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8036633 | 3001319 | SCOP2B (2022-06-29) |
J [auth N] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8036633 | 3001319 | SCOP2B (2022-06-29) |
J [auth N] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8036636 | 3001502 | SCOP2B (2022-06-29) |
K [auth O] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8036633 | 3001319 | SCOP2B (2022-06-29) |
K [auth O] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8036636 | 3001502 | SCOP2B (2022-06-29) |
H [auth L] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8036633 | 3001319 | SCOP2B (2022-06-29) |
H [auth L] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8036636 | 3001502 | SCOP2B (2022-06-29) |
I [auth M] | SCOP2B Superfamily | DNA ligase IV Xrcc4-binding domain-like | 8095958 | 3002713 | SCOP2B (2022-06-29) |
L [auth P] | SCOP2B Superfamily | DNA ligase IV Xrcc4-binding domain-like | 8095958 | 3002713 | SCOP2B (2022-06-29) |
N [auth R] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8051827 | 3001319 | SCOP2B (2022-06-29) |
N [auth R] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8051828 | 3001502 | SCOP2B (2022-06-29) |
M [auth Q] | SCOP2B Superfamily | XRCC4 N-terminal domain-like | 8051827 | 3001319 | SCOP2B (2022-06-29) |
M [auth Q] | SCOP2B Superfamily | XRCC4 C-terminal oligomerization domain-like | 8051828 | 3001502 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
B | Ku | e7nfcB1 | A: beta barrels | X: SPOC domain-like | H: SPOC domain-related | T: Ku70/80 subunit middle domain | F: Ku | ECOD (1.6) |
B | Ku_N | e7nfcB2 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: vWA-like | F: Ku_N | ECOD (1.6) |
E [auth G] | Ku | e7nfcG1 | A: beta barrels | X: SPOC domain-like | H: SPOC domain-related | T: Ku70/80 subunit middle domain | F: Ku | ECOD (1.6) |
E [auth G] | Ku_N | e7nfcG2 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: vWA-like | F: Ku_N | ECOD (1.6) |
F [auth H] | Ku | e7nfcH1 | A: beta barrels | X: SPOC domain-like | H: SPOC domain-related | T: Ku70/80 subunit middle domain | F: Ku | ECOD (1.6) |
F [auth H] | Ku_PK_bind | e7nfcH2 | A: alpha superhelices | X: Repetitive alpha hairpins | H: C-terminal domain of Ku80 (From Topology) | T: C-terminal domain of Ku80 | F: Ku_PK_bind | ECOD (1.6) |
F [auth H] | Ku_N | e7nfcH3 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: vWA-like | F: Ku_N | ECOD (1.6) |
C | Ku | e7nfcC1 | A: beta barrels | X: SPOC domain-like | H: SPOC domain-related | T: Ku70/80 subunit middle domain | F: Ku | ECOD (1.6) |
C | Ku_N | e7nfcC2 | A: a/b three-layered sandwiches | X: HAD domain-like | H: HAD domain-related | T: vWA-like | F: Ku_N | ECOD (1.6) |
G [auth K] | XRCC4_1st | e7nfcK2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XRCC4_1st | ECOD (1.6) |
G [auth K] | XRCC4_2nd | e7nfcK3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XRCC4_2nd | ECOD (1.6) |
G [auth K] | XRCC4_3rd | e7nfcK1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XRCC4_3rd | ECOD (1.6) |
J [auth N] | XRCC4_1st | e7nfcN2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XRCC4_1st | ECOD (1.6) |
J [auth N] | XRCC4_2nd | e7nfcN3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XRCC4_2nd | ECOD (1.6) |
J [auth N] | XRCC4_3rd | e7nfcN1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XRCC4_3rd | ECOD (1.6) |
K [auth O] | XRCC4_1st | e7nfcO2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XRCC4_1st | ECOD (1.6) |
K [auth O] | XRCC4_2nd | e7nfcO3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XRCC4_2nd | ECOD (1.6) |
K [auth O] | XRCC4_3rd | e7nfcO1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XRCC4_3rd | ECOD (1.6) |
H [auth L] | XRCC4_1st | e7nfcL2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XRCC4_1st | ECOD (1.6) |
H [auth L] | XRCC4_2nd | e7nfcL3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XRCC4_2nd | ECOD (1.6) |
H [auth L] | XRCC4_3rd | e7nfcL1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XRCC4_3rd | ECOD (1.6) |
I [auth M] | PTCB-BRCT | e7nfcM2 | A: a/b three-layered sandwiches | X: BRCT domain (From Topology) | H: BRCT domain (From Topology) | T: BRCT domain | F: PTCB-BRCT | ECOD (1.6) |
I [auth M] | BRCT_2_1 | e7nfcM1 | A: a/b three-layered sandwiches | X: BRCT domain (From Topology) | H: BRCT domain (From Topology) | T: BRCT domain | F: BRCT_2_1 | ECOD (1.6) |
L [auth P] | PTCB-BRCT | e7nfcP2 | A: a/b three-layered sandwiches | X: BRCT domain (From Topology) | H: BRCT domain (From Topology) | T: BRCT domain | F: PTCB-BRCT | ECOD (1.6) |
L [auth P] | BRCT_2_1 | e7nfcP1 | A: a/b three-layered sandwiches | X: BRCT domain (From Topology) | H: BRCT domain (From Topology) | T: BRCT domain | F: BRCT_2_1 | ECOD (1.6) |
N [auth R] | XLF_N | e7nfcR2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XLF_N | ECOD (1.6) |
N [auth R] | XLF_like | e7nfcR3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XLF_like | ECOD (1.6) |
N [auth R] | XLF_C | e7nfcR1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XLF_C | ECOD (1.6) |
M [auth Q] | XLF_N | e7nfcQ2 | A: beta barrels | X: XRCC4, N-terminal domain-like | H: XRCC4, N-terminal domain (From Topology) | T: XRCC4, N-terminal domain | F: XLF_N | ECOD (1.6) |
M [auth Q] | XLF_like | e7nfcQ3 | A: alpha arrays | X: HTH | H: HTH | T: HTH motif inserted in other structures | F: XLF_like | ECOD (1.6) |
M [auth Q] | XLF_C | e7nfcQ1 | A: alpha duplicates or obligate multimers | X: XRCC4 C-terminal oligomerization domain (From Topology) | H: XRCC4 C-terminal oligomerization domain (From Topology) | T: XRCC4 C-terminal oligomerization domain | F: XLF_C | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
A, D [auth F] | PF08163 | DNA-dependent protein kinase catalytic subunit, CC3 (DNAPKcs_CC3) | DNA-dependent protein kinase catalytic subunit, CC3 | - | Repeat |
A, D [auth F] | PF02260 | FATC domain (FATC) | FATC domain | - | Family |
A, D [auth F] | PF00454 | Phosphatidylinositol 3- and 4-kinase (PI3_PI4_kinase) | Phosphatidylinositol 3- and 4-kinase | - | Family |
A, D [auth F] | PF19704 | DNA-PKcs, CC5 (DNAPKcs_CC5) | DNA-PKcs, CC5 | - | Repeat |
A, D [auth F] | PF20502 | DNA-dependent protein kinase catalytic subunit, CC1/2 (DNAPKcs_CC1-2) | DNA-dependent protein kinase catalytic subunit, CC1/2 | - | Repeat |
B, E [auth G] | PF02735 | Ku70/Ku80 beta-barrel domain (Ku) | Ku70/Ku80 beta-barrel domain | The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-bi ... | Domain |
B, E [auth G] | PF03730 | Ku70/Ku80 C-terminal arm (Ku_C) | Ku70/Ku80 C-terminal arm | - | Family |
B, E [auth G] | PF03731 | Ku70/Ku80 N-terminal alpha/beta domain (Ku_N) | Ku70/Ku80 N-terminal alpha/beta domain | The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal ... | Domain |
C, F [auth H] | PF02735 | Ku70/Ku80 beta-barrel domain (Ku) | Ku70/Ku80 beta-barrel domain | The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-bi ... | Domain |
C, F [auth H] | PF08785 | Ku C terminal domain like (Ku_PK_bind) | Ku C terminal domain like | The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DN ... | Domain |
C, F [auth H] | PF03730 | Ku70/Ku80 C-terminal arm (Ku_C) | Ku70/Ku80 C-terminal arm | - | Family |
C, F [auth H] | PF03731 | Ku70/Ku80 N-terminal alpha/beta domain (Ku_N) | Ku70/Ku80 N-terminal alpha/beta domain | The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal ... | Domain |
G [auth K], H [auth L], J [auth N], K [auth O] | PF06632 | XRCC4 N-terminal domain (XRCC4) | XRCC4 N-terminal domain | This family consists of several eukaryotic DNA double-strand break repair and V(D)J recombination protein XRCC4 sequences. In the non-homologous end joining pathway of DNA double-strand break repair, the ligation step is catalysed by a complex of XRC ... | Domain |
G [auth K], H [auth L], J [auth N], K [auth O] | PF21924 | XRCC4 coiled-coil (XRCC4_CC) | XRCC4 coiled-coil | - | Coiled-coil |
I [auth M], L [auth P] | PF11411 | DNA ligase IV (DNA_ligase_IV) | DNA ligase IV | - | Family |
I [auth M], L [auth P] | PF00533 | BRCA1 C Terminus (BRCT) domain (BRCT) | BRCA1 C Terminus (BRCT) domain | - | Family |
M [auth Q], N [auth R] | PF09302 | XLF N-terminal domain (XLF) | XLF N-terminal domain | XLF (also called Cernunnos) is Xrcc4-like-factor, and interacts with the XRCC4-DNA ligase IV complex to promote DNA non-homologous end-joining. It directly interacts with the XRCC4-Ligase IV complex and siRNA-mediated down-regulation of XLF in human ... | Domain |
M [auth Q], N [auth R] | PF21928 | XLF protein coiled-coil region (XLF_CC) | XLF protein coiled-coil region | - | Coiled-coil |