7KZT

Structure of the human fanconi anaemia Core-UBE2T-ID-DNA complex in intermediate state

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000785	cellular_component	chromatin
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006281	biological_process	DNA repair
A	0006974	biological_process	DNA damage response
A	0036297	biological_process	interstrand cross-link repair
A	0043240	cellular_component	Fanconi anaemia nuclear complex
A	0045589	biological_process	regulation of regulatory T cell differentiation
A	0065003	biological_process	protein-containing complex assembly
B	0000785	cellular_component	chromatin
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005829	cellular_component	cytosol
B	0006281	biological_process	DNA repair
B	0006974	biological_process	DNA damage response
B	0036297	biological_process	interstrand cross-link repair
B	0043240	cellular_component	Fanconi anaemia nuclear complex
B	1905168	biological_process	positive regulation of double-strand break repair via homologous recombination
B	1990414	biological_process	replication-born double-strand break repair via sister chromatid exchange
B	2000042	biological_process	negative regulation of double-strand break repair via homologous recombination
C	0000785	cellular_component	chromatin
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006281	biological_process	DNA repair
C	0006289	biological_process	nucleotide-excision repair
C	0006974	biological_process	DNA damage response
C	0034599	biological_process	cellular response to oxidative stress
C	0036297	biological_process	interstrand cross-link repair
C	0043240	cellular_component	Fanconi anaemia nuclear complex
C	0065003	biological_process	protein-containing complex assembly
E	0000785	cellular_component	chromatin
E	0005515	molecular_function	protein binding
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005829	cellular_component	cytosol
E	0006281	biological_process	DNA repair
E	0006974	biological_process	DNA damage response
E	0036297	biological_process	interstrand cross-link repair
E	0043240	cellular_component	Fanconi anaemia nuclear complex
F	0000785	cellular_component	chromatin
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005829	cellular_component	cytosol
F	0006281	biological_process	DNA repair
F	0006974	biological_process	DNA damage response
F	0036297	biological_process	interstrand cross-link repair
F	0043240	cellular_component	Fanconi anaemia nuclear complex
G	0000785	cellular_component	chromatin
G	0003684	molecular_function	damaged DNA binding
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005737	cellular_component	cytoplasm
G	0005739	cellular_component	mitochondrion
G	0005829	cellular_component	cytosol
G	0006281	biological_process	DNA repair
G	0006974	biological_process	DNA damage response
G	0007005	biological_process	mitochondrion organization
G	0016607	cellular_component	nuclear speck
G	0036297	biological_process	interstrand cross-link repair
G	0043240	cellular_component	Fanconi anaemia nuclear complex
H	0000785	cellular_component	chromatin
H	0003684	molecular_function	damaged DNA binding
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005737	cellular_component	cytoplasm
H	0005739	cellular_component	mitochondrion
H	0005829	cellular_component	cytosol
H	0006281	biological_process	DNA repair
H	0006974	biological_process	DNA damage response
H	0007005	biological_process	mitochondrion organization
H	0016607	cellular_component	nuclear speck
H	0036297	biological_process	interstrand cross-link repair
H	0043240	cellular_component	Fanconi anaemia nuclear complex
L	0000785	cellular_component	chromatin
L	0004842	molecular_function	ubiquitin-protein transferase activity
L	0005515	molecular_function	protein binding
L	0005634	cellular_component	nucleus
L	0005635	cellular_component	nuclear envelope
L	0005654	cellular_component	nucleoplasm
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006281	biological_process	DNA repair
L	0006513	biological_process	protein monoubiquitination
L	0006974	biological_process	DNA damage response
L	0008270	molecular_function	zinc ion binding
L	0016567	biological_process	protein ubiquitination
L	0016740	molecular_function	transferase activity
L	0031625	molecular_function	ubiquitin protein ligase binding
L	0036297	biological_process	interstrand cross-link repair
L	0043240	cellular_component	Fanconi anaemia nuclear complex
L	0046872	molecular_function	metal ion binding
L	0061630	molecular_function	ubiquitin protein ligase activity
M	0000785	cellular_component	chromatin
M	0004842	molecular_function	ubiquitin-protein transferase activity
M	0005515	molecular_function	protein binding
M	0005634	cellular_component	nucleus
M	0005635	cellular_component	nuclear envelope
M	0005654	cellular_component	nucleoplasm
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0006281	biological_process	DNA repair
M	0006513	biological_process	protein monoubiquitination
M	0006974	biological_process	DNA damage response
M	0008270	molecular_function	zinc ion binding
M	0016567	biological_process	protein ubiquitination
M	0016740	molecular_function	transferase activity
M	0031625	molecular_function	ubiquitin protein ligase binding
M	0036297	biological_process	interstrand cross-link repair
M	0043240	cellular_component	Fanconi anaemia nuclear complex
M	0046872	molecular_function	metal ion binding
M	0061630	molecular_function	ubiquitin protein ligase activity
O	0000785	cellular_component	chromatin
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0005654	cellular_component	nucleoplasm
O	0005829	cellular_component	cytosol
O	0006281	biological_process	DNA repair
O	0006974	biological_process	DNA damage response
O	0036297	biological_process	interstrand cross-link repair
O	0043240	cellular_component	Fanconi anaemia nuclear complex
O	1905168	biological_process	positive regulation of double-strand break repair via homologous recombination
O	1990414	biological_process	replication-born double-strand break repair via sister chromatid exchange
O	2000042	biological_process	negative regulation of double-strand break repair via homologous recombination
P	0000785	cellular_component	chromatin
P	0003677	molecular_function	DNA binding
P	0005515	molecular_function	protein binding
P	0005634	cellular_component	nucleus
P	0005654	cellular_component	nucleoplasm
P	0005829	cellular_component	cytosol
P	0006281	biological_process	DNA repair
P	0006974	biological_process	DNA damage response
P	0036297	biological_process	interstrand cross-link repair
P	0043240	cellular_component	Fanconi anaemia nuclear complex
Q	0000785	cellular_component	chromatin
Q	0003677	molecular_function	DNA binding
Q	0005515	molecular_function	protein binding
Q	0005634	cellular_component	nucleus
Q	0005654	cellular_component	nucleoplasm
Q	0005829	cellular_component	cytosol
Q	0006281	biological_process	DNA repair
Q	0006974	biological_process	DNA damage response
Q	0036297	biological_process	interstrand cross-link repair
Q	0043240	cellular_component	Fanconi anaemia nuclear complex
S	0000785	cellular_component	chromatin
S	0005515	molecular_function	protein binding
S	0005634	cellular_component	nucleus
S	0005654	cellular_component	nucleoplasm
S	0005737	cellular_component	cytoplasm
S	0005829	cellular_component	cytosol
S	0006281	biological_process	DNA repair
S	0006974	biological_process	DNA damage response
S	0036297	biological_process	interstrand cross-link repair
S	0043240	cellular_component	Fanconi anaemia nuclear complex
S	0045589	biological_process	regulation of regulatory T cell differentiation
S	0065003	biological_process	protein-containing complex assembly
U	0006281	biological_process	DNA repair
V	0000785	cellular_component	chromatin
V	0000793	cellular_component	condensed chromosome
V	0005515	molecular_function	protein binding
V	0005634	cellular_component	nucleus
V	0005654	cellular_component	nucleoplasm
V	0005730	cellular_component	nucleolus
V	0006281	biological_process	DNA repair
V	0006974	biological_process	DNA damage response
V	0007129	biological_process	homologous chromosome pairing at meiosis
V	0010332	biological_process	response to gamma radiation
V	0016604	cellular_component	nuclear body
V	0031573	biological_process	mitotic intra-S DNA damage checkpoint signaling
V	0036297	biological_process	interstrand cross-link repair
V	0070182	molecular_function	DNA polymerase binding
V	1990918	biological_process	double-strand break repair involved in meiotic recombination
X	0000166	molecular_function	nucleotide binding
X	0000209	biological_process	protein polyubiquitination
X	0003682	molecular_function	chromatin binding
X	0004842	molecular_function	ubiquitin-protein transferase activity
X	0005515	molecular_function	protein binding
X	0005524	molecular_function	ATP binding
X	0005634	cellular_component	nucleus
X	0005654	cellular_component	nucleoplasm
X	0006281	biological_process	DNA repair
X	0006513	biological_process	protein monoubiquitination
X	0006974	biological_process	DNA damage response
X	0016567	biological_process	protein ubiquitination
X	0016740	molecular_function	transferase activity
X	0019787	molecular_function	ubiquitin-like protein transferase activity
X	0031625	molecular_function	ubiquitin protein ligase binding
X	0032446	biological_process	protein modification by small protein conjugation
X	0035519	biological_process	protein K29-linked ubiquitination
X	0044314	biological_process	protein K27-linked ubiquitination
X	0051865	biological_process	protein autoubiquitination
X	0061631	molecular_function	ubiquitin conjugating enzyme activity
X	0070534	biological_process	protein K63-linked ubiquitination
X	0070936	biological_process	protein K48-linked ubiquitination
X	0070979	biological_process	protein K11-linked ubiquitination
X	0085020	biological_process	protein K6-linked ubiquitination

Functional Information from PROSITE/UniProt

site_id	PS00183
Number of Residues	16
Details	UBC_1 Ubiquitin-conjugating (UBC) active site signature. YHPNIdsa.GrICLdvL

Chain	Residue	Details
X	TYR75-LEU90

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine; by CHEK1","evidences":[{"source":"PubMed","id":"17296736","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine; by CHEK1","evidences":[{"source":"PubMed","id":"17296736","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	66
Details	Repeat: {"description":"TPR 1"}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	66
Details	Repeat: {"description":"TPR 2"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	33
Details	Repeat: {"description":"TPR 3"}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	66
Details	Repeat: {"description":"TPR 4"}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	112
Details	Zinc finger: {"description":"RING-type; degenerate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00175","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	380
Details	Region: {"description":"UBC-RWD region (URD)"}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"PDB","id":"4CCG","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Modified residue: {"description":"N-acetylalanine","evidences":[{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	150
Details	Domain: {"description":"UBC core","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	1
Details	Active site: {"description":"Glycyl thioester intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"16916645","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19111657","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI17
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine; by ATM","evidences":[{"source":"PubMed","id":"12086603","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI18
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI19
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"11239454","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19111657","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20603015","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20603016","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20603073","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"36385258","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---