Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

7KZS

Structure of the human fanconi anaemia Core-UBE2T-ID-DNA complex in open 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	0007140	biological_process	male meiotic nuclear division
A	0008584	biological_process	male gonad development
A	0008585	biological_process	female gonad development
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	0050727	biological_process	regulation of inflammatory response
A	0065003	biological_process	protein-containing complex assembly
A	1905936	biological_process	regulation of germ cell proliferation
A	2000348	biological_process	regulation of CD40 signaling pathway
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	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	0002262	biological_process	myeloid cell homeostasis
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	0007276	biological_process	gamete generation
C	0007281	biological_process	germ cell development
C	0019430	biological_process	removal of superoxide radicals
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	0048854	biological_process	brain morphogenesis
C	0065003	biological_process	protein-containing complex assembly
C	0097150	biological_process	neuronal stem cell population maintenance
E	0000785	cellular_component	chromatin
E	0003674	molecular_function	molecular_function
E	0005634	cellular_component	nucleus
E	0005654	cellular_component	nucleoplasm
E	0005694	cellular_component	chromosome
E	0005813	cellular_component	centrosome
E	0005829	cellular_component	cytosol
E	0006281	biological_process	DNA repair
E	0036297	biological_process	interstrand cross-link repair
E	0043240	cellular_component	Fanconi anaemia nuclear complex
F	0000785	cellular_component	chromatin
F	0003674	molecular_function	molecular_function
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	0001541	biological_process	ovarian follicle development
G	0003684	molecular_function	damaged DNA binding
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005730	cellular_component	nucleolus
G	0005737	cellular_component	cytoplasm
G	0005739	cellular_component	mitochondrion
G	0005829	cellular_component	cytosol
G	0005886	cellular_component	plasma membrane
G	0006281	biological_process	DNA repair
G	0006974	biological_process	DNA damage response
G	0007005	biological_process	mitochondrion organization
G	0007286	biological_process	spermatid development
G	0009314	biological_process	response to radiation
G	0036297	biological_process	interstrand cross-link repair
G	0043240	cellular_component	Fanconi anaemia nuclear complex
H	0000785	cellular_component	chromatin
H	0001541	biological_process	ovarian follicle development
H	0003684	molecular_function	damaged DNA binding
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005730	cellular_component	nucleolus
H	0005737	cellular_component	cytoplasm
H	0005739	cellular_component	mitochondrion
H	0005829	cellular_component	cytosol
H	0005886	cellular_component	plasma membrane
H	0006281	biological_process	DNA repair
H	0006974	biological_process	DNA damage response
H	0007005	biological_process	mitochondrion organization
H	0007286	biological_process	spermatid development
H	0009314	biological_process	response to radiation
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	0007276	biological_process	gamete generation
L	0016567	biological_process	protein ubiquitination
L	0016604	cellular_component	nuclear body
L	0016740	molecular_function	transferase activity
L	0031625	molecular_function	ubiquitin protein ligase binding
L	0036297	biological_process	interstrand cross-link repair
L	0042127	biological_process	regulation of cell population proliferation
L	0043231	cellular_component	intracellular membrane-bounded organelle
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	0007276	biological_process	gamete generation
M	0016567	biological_process	protein ubiquitination
M	0016604	cellular_component	nuclear body
M	0016740	molecular_function	transferase activity
M	0031625	molecular_function	ubiquitin protein ligase binding
M	0036297	biological_process	interstrand cross-link repair
M	0042127	biological_process	regulation of cell population proliferation
M	0043231	cellular_component	intracellular membrane-bounded organelle
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	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	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	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	0007140	biological_process	male meiotic nuclear division
S	0008584	biological_process	male gonad development
S	0008585	biological_process	female gonad development
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	0050727	biological_process	regulation of inflammatory response
S	0065003	biological_process	protein-containing complex assembly
S	1905936	biological_process	regulation of germ cell proliferation
S	2000348	biological_process	regulation of CD40 signaling pathway
U	0006281	biological_process	DNA repair
U	0070182	molecular_function	DNA polymerase binding
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	0005829	cellular_component	cytosol
V	0006281	biological_process	DNA repair
V	0006974	biological_process	DNA damage response
V	0007129	biological_process	homologous chromosome pairing at meiosis
V	0007276	biological_process	gamete generation
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	0034599	biological_process	cellular response to oxidative stress
V	0036297	biological_process	interstrand cross-link repair
V	0045589	biological_process	regulation of regulatory T cell differentiation
V	0048854	biological_process	brain morphogenesis
V	0050727	biological_process	regulation of inflammatory response
V	0070182	molecular_function	DNA polymerase binding
V	0097150	biological_process	neuronal stem cell population maintenance
V	1990391	cellular_component	DNA repair complex
V	1990918	biological_process	double-strand break repair involved in meiotic recombination
V	2000348	biological_process	regulation of CD40 signaling pathway
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	0005730	cellular_component	nucleolus
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	2
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:23186163, ECO:0007744\|PubMed:24275569

Chain	Residue	Details
V	SER717
V	SER1423
P	SER667
Q	SER667

site_id	SWS_FT_FI2
Number of Residues	16
Details	BINDING: BINDING => ECO:0007744\|PDB:4CCG

Chain	Residue	Details
L	CYS359
L	CYS362
M	CYS307
M	CYS310
M	CYS324
M	CYS329
M	HIS334
M	CYS337
M	CYS359
M	CYS362
L	CYS329
L	HIS334
L	CYS337
L	CYS307
L	CYS310
L	CYS324

site_id	SWS_FT_FI3
Number of Residues	2
Details	MOD_RES: N-acetylalanine => ECO:0007744\|PubMed:22814378

Chain	Residue	Details
L	ALA2
M	ALA2

site_id	SWS_FT_FI4
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:23186163

Chain	Residue	Details
X	LYS192
X	LYS191
V	SER1257

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Phosphoserine; by ATM => ECO:0000305

Chain	Residue	Details
V	SER1401

site_id	SWS_FT_FI6
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:17525332, ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:23186163

Chain	Residue	Details
V	SER1412

site_id	SWS_FT_FI7
Number of Residues	1
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:20068231

Chain	Residue	Details
V	THR1426

site_id	SWS_FT_FI8
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692

Chain	Residue	Details
V	SER1435

site_id	SWS_FT_FI9
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269\|PubMed:11239454, ECO:0000269\|PubMed:19111657, ECO:0000269\|PubMed:20603015, ECO:0000269\|PubMed:20603016, ECO:0000269\|PubMed:20603073

Chain	Residue	Details
V	LYS561

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		Validation report (PDF)