Annotations: 9GXZ

Structure of the Medicago truncatula LYR4 ectodomain

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	FtsZ_C	e9gxzA1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: FtsZ_C	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF23446	NFP/LYK LysM1 domain (LysM1_NFP_LYK)	NFP/LYK LysM1 domain	This entry represents the first LysM domain found in proteins from plants, including the NFP from Medicago truncatula and LYK from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions and [1]. N ...	This entry represents the first LysM domain found in proteins from plants, including the NFP from Medicago truncatula and LYK from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions and [1]. NFP/NFR5 class of receptors are crucial for initial lipochitooligosaccharide (LCO) perception and essential for LCO-mediated root nodule symbiosis [1]. LYK4 is a chitin-binding protein and contributes to chitin-triggered immunity [2]. LYK5 has been identified as a receptor with a very high affinity to chitooligosaccharides [2]. Receptors recognising Nod factors and chitin have a very similar structure but contain two diverging motifs in the LysM1 domain that are necessary for discriminating between immunity and symbiotic functions [3].	Domain
A	PF23472	LYK3/4/5 LysM2 domain (LysM2_CERK1_LYK3_4_5)	LYK3/4/5 LysM2 domain	This entry represents the second LysM domain found in proteins from plants, including LYK3 from Medicago truncatula, CERK1 and LYK4/5 from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions. A ...	This entry represents the second LysM domain found in proteins from plants, including LYK3 from Medicago truncatula, CERK1 and LYK4/5 from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions. Arabidopsis thaliana has retained the root developmental response to chitin-derived signals, utilising a widely conserved pathway involving CERK1 [1]. LYK4 is a chitin-binding protein and contributes to chitin-triggered immunity [2]. LYK5 has been identified as a receptor with a very high affinity to chitooligosaccharides [2]. Medicago LYK3 has an active intracellular kinase and Medicago NFP has a pseudokinase domain [3].	Domain
A	PF23473	LYK4/5 LysM3 domain (LysM3_LYK4_5)	LYK4/5 LysM3 domain	This entry represents the third LysM domain found in proteins from plants, including LYK4/5 from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions. LYK4 is a chitin-binding protein and contri ...	This entry represents the third LysM domain found in proteins from plants, including LYK4/5 from Arabidopsis thaliana. The LysM domain adopt a beta-alpha-alpha-beta fold, according to structure predictions. LYK4 is a chitin-binding protein and contributes to chitin-triggered immunity [1]. LYK5 has been identified as a receptor with a very high affinity to chitooligosaccharides [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	LysM-domain receptor-like kinase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	biological process involved in interspecies interaction between organisms response to stimulus response to other organism response to external stimulus response to external biotic stimulus response to biotic stimulus	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000719	Protein kinase domain	Domain
A	IPR056562	LYK3/4/5, second LysM domain	Domain
A	IPR036779	LysM domain superfamily	Homologous Superfamily
A	IPR056563	LYK4/5, third LysM domain	Domain
A	IPR018392	LysM domain	Domain
A	IPR056561	NFP/LYK4/5, first LysM domain	Domain
A	IPR052611	Plant receptor-like kinase with LysM domain-containing protein	Family
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	PCA	Parent Component: GLN : AA0031 : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420