3RG1 | pdb_00003rg1

Crystal structure of the RP105/MD-1 complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth C]		e3rg1C1	A: Cystatin-like	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: E1_DerP2_DerF2	F:	ECOD (20:10:01)
J [auth D]		e3rg1D1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
K [auth G]		e3rg1G1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
L [auth H]		e3rg1H1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
M [auth K]		e3rg1K1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
N [auth L]		e3rg1L1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
O		e3rg1O1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
P		e3rg1P1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Pkinase, APH	F:	ECOD (20:10:01)
A		e3rg1A1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: LRR_1,LRR_8	F:	ECOD (20:10:01)
A		e3rg1A2	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
B [auth E]		e3rg1E1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
C [auth I]		e3rg1I1	A: Lipocalins/Streptavidin	X: Enterocin 7A and 7B	H: Enterocin 7A and 7B	T:	F:	ECOD (20:10:01)
D [auth M]		e3rg1M1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
E [auth B]		e3rg1B1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
F		e3rg1F1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
G [auth J]		e3rg1J1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)
H [auth N]		e3rg1N1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: V-set	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I [auth C]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
J [auth D]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
K [auth G]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
L [auth H]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
M [auth K]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
N [auth L]	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
O	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
P	2.60.40.770	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
B [auth E]	3.80.10.10	Alpha Beta	Alpha-Beta Horseshoe	Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)	Ribonuclease Inhibitor	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], N [auth L], O, P	PF02221	ML domain (E1_DerP2_DerF2)	ML domain	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pa ...	ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2 (Swiss:P49278). It has been implicate in lipid recognition, particularly in the recognition of pathogen related products. A mutation in Npc2 (Swiss:Q15668) causes a rare form of Niemann-Pick type C2 disease. This domain has a similar topology to immunoglobulin domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], N [auth L], O, P	LY86 protein	-	biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus cellular response to stimulus biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus cellular response to stimulus positive regulation of cell communication regulation of lipopolysaccharide-mediated signaling pathway positive regulation of response to biotic stimulus regulation of response to biotic stimulus regulation of cellular process positive regulation of signal transduction regulation of response to external stimulus response to lipid signaling cellular response to lipopolysaccharide positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus positive regulation of response to external stimulus response to bacterium signal transduction positive regulation of cellular process regulation of biological process regulation of signaling cell surface receptor signaling pathway biological regulation response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to chemical stimulus regulation of response to stimulus response to chemical cellular response to lipid regulation of cell communication cellular process positive regulation of lipopolysaccharide-mediated signaling pathway response to molecule of bacterial origin positive regulation of signaling	-
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	CD180 molecule	-	response to stimulus defense response response to stress inflammatory response biological process involved in interspecies interaction between organisms immune response response to other organism defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism innate immune response response to external biotic stimulus response to stimulus defense response response to stress inflammatory response biological process involved in interspecies interaction between organisms immune response response to other organism defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism innate immune response response to external biotic stimulus cellular response to stimulus positive regulation of cell communication regulation of lipopolysaccharide-mediated signaling pathway positive regulation of response to biotic stimulus regulation of response to biotic stimulus regulation of cellular process positive regulation of signal transduction regulation of response to external stimulus response to lipid signaling cellular response to lipopolysaccharide positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus positive regulation of response to external stimulus response to bacterium signal transduction positive regulation of cellular process regulation of biological process regulation of signaling cell surface receptor signaling pathway biological regulation response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to chemical stimulus regulation of response to stimulus response to chemical cellular response to lipid regulation of cell communication cellular process positive regulation of lipopolysaccharide-mediated signaling pathway response to molecule of bacterial origin positive regulation of signaling	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], N [auth L], O, P	IPR039945	Lymphocyte antigen 86	Family
I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], N [auth L], O, P	IPR014756	Immunoglobulin E-set	Homologous Superfamily
I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], I [auth C], J [auth D], K [auth G], L [auth H], M [auth K], N [auth L], O, P	IPR003172	MD-2-related lipid-recognition domain	Domain
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	IPR000483	Cysteine-rich flanking region, C-terminal	Domain
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	IPR001611	Leucine-rich repeat	Repeat
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	IPR003591	Leucine-rich repeat, typical subtype	Repeat
A, B [auth E], C [auth I], D [auth M], E [auth B], A, B [auth E], C [auth I], D [auth M], E [auth B], F, G [auth J], H [auth N]	IPR041281	CD180, leucine-rich repeat	Repeat

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.