Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5H7S

Structural basis of the flanking zinc-finger motifs crucial for the E3 ligase activity of the LNX1 RING domain

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000151	cellular_component	ubiquitin ligase complex
A	0000166	molecular_function	nucleotide binding
A	0000209	biological_process	protein polyubiquitination
A	0000724	biological_process	double-strand break repair via homologous recombination
A	0000729	biological_process	DNA double-strand break processing
A	0001650	cellular_component	fibrillar center
A	0003723	molecular_function	RNA binding
A	0004842	molecular_function	ubiquitin-protein transferase activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP 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	0006282	biological_process	regulation of DNA repair
A	0006301	biological_process	DNA damage tolerance
A	0006513	biological_process	protein monoubiquitination
A	0006974	biological_process	DNA damage response
A	0016567	biological_process	protein ubiquitination
A	0016740	molecular_function	transferase activity
A	0031371	cellular_component	ubiquitin conjugating enzyme complex
A	0031372	cellular_component	UBC13-MMS2 complex
A	0031625	molecular_function	ubiquitin protein ligase binding
A	0032991	cellular_component	protein-containing complex
A	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
A	0043130	molecular_function	ubiquitin binding
A	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
A	0045739	biological_process	positive regulation of DNA repair
A	0050852	biological_process	T cell receptor signaling pathway
A	0051092	biological_process	positive regulation of NF-kappaB transcription factor activity
A	0061631	molecular_function	ubiquitin conjugating enzyme activity
A	0070062	cellular_component	extracellular exosome
A	0070534	biological_process	protein K63-linked ubiquitination
A	0097027	molecular_function	ubiquitin-protein transferase activator activity
A	0140374	biological_process	antiviral innate immune response
A	1902523	biological_process	positive regulation of protein K63-linked ubiquitination
A	1902533	biological_process	positive regulation of intracellular signal transduction
A	1904262	biological_process	negative regulation of TORC1 signaling
A	2000781	biological_process	positive regulation of double-strand break repair
B	0046872	molecular_function	metal ion binding
C	0000151	cellular_component	ubiquitin ligase complex
C	0000166	molecular_function	nucleotide binding
C	0000209	biological_process	protein polyubiquitination
C	0000724	biological_process	double-strand break repair via homologous recombination
C	0000729	biological_process	DNA double-strand break processing
C	0001650	cellular_component	fibrillar center
C	0003723	molecular_function	RNA binding
C	0004842	molecular_function	ubiquitin-protein transferase activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP 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	0006282	biological_process	regulation of DNA repair
C	0006301	biological_process	DNA damage tolerance
C	0006513	biological_process	protein monoubiquitination
C	0006974	biological_process	DNA damage response
C	0016567	biological_process	protein ubiquitination
C	0016740	molecular_function	transferase activity
C	0031371	cellular_component	ubiquitin conjugating enzyme complex
C	0031372	cellular_component	UBC13-MMS2 complex
C	0031625	molecular_function	ubiquitin protein ligase binding
C	0032991	cellular_component	protein-containing complex
C	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
C	0043130	molecular_function	ubiquitin binding
C	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
C	0045739	biological_process	positive regulation of DNA repair
C	0050852	biological_process	T cell receptor signaling pathway
C	0051092	biological_process	positive regulation of NF-kappaB transcription factor activity
C	0061631	molecular_function	ubiquitin conjugating enzyme activity
C	0070062	cellular_component	extracellular exosome
C	0070534	biological_process	protein K63-linked ubiquitination
C	0097027	molecular_function	ubiquitin-protein transferase activator activity
C	0140374	biological_process	antiviral innate immune response
C	1902523	biological_process	positive regulation of protein K63-linked ubiquitination
C	1902533	biological_process	positive regulation of intracellular signal transduction
C	1904262	biological_process	negative regulation of TORC1 signaling
C	2000781	biological_process	positive regulation of double-strand break repair
D	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN D 201

Chain	Residue
D	CYS4
D	CYS7
D	HIS11
D	HIS17

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN D 202

Chain	Residue
D	CYS31
D	CYS34
D	CYS51
D	CYS54

site_id	AC3
Number of Residues	4
Details	binding site for residue ZN D 203

Chain	Residue
D	HIS48
D	CYS65
D	ASP68
D	CYS46

site_id	AC4
Number of Residues	4
Details	binding site for residue ZN D 204

Chain	Residue
D	CYS95
D	CYS101
D	HIS113
D	CYS118

site_id	AC5
Number of Residues	4
Details	binding site for residue ZN B 201

Chain	Residue
B	CYS4
B	CYS7
B	HIS11
B	HIS17

site_id	AC6
Number of Residues	4
Details	binding site for residue ZN B 202

Chain	Residue
B	CYS31
B	CYS34
B	CYS51
B	CYS54

site_id	AC7
Number of Residues	4
Details	binding site for residue ZN B 203

Chain	Residue
B	CYS46
B	HIS48
B	CYS65
B	ASP68

site_id	AC8
Number of Residues	4
Details	binding site for residue ZN B 204

Chain	Residue
B	CYS95
B	CYS101
B	HIS113
B	CYS118

Functional Information from PROSITE/UniProt

site_id	PS00299
Number of Residues	26
Details	UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD

Chain	Residue	Details
E	LYS27-ASP52

site_id	PS00518
Number of Residues	10
Details	ZF_RING_1 Zinc finger RING-type signature. CgHtYCtlCL

Chain	Residue	Details
D	CYS46-LEU55

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	150
Details	Domain: {"description":"Ubiquitin-like 3","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	76
Details	Zinc finger: {"description":"RING-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU00175","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	2
Details	Active site: {"description":"Glycyl thioester intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	4
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ISG15)","evidences":[{"source":"PubMed","id":"16112642","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16122702","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)