5MH3 | pdb_00005mh3

Crystal structure of a DM9 domain containing protein from Crassostrea gigas with K43A mutation

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	MFPT repeat-like	8105536	3001021	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	UQ_con	e5mh3A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
B	UQ_con	e5mh3B1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
D	UQ_con	e5mh3D1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
E	UQ_con	e5mh3E1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
F	UQ_con	e5mh3F1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
G	UQ_con	e5mh3G1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
H	UQ_con	e5mh3H1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
I	UQ_con	e5mh3I1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
J	UQ_con	e5mh3J1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
K	UQ_con	e5mh3K1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
L	UQ_con	e5mh3L1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)
C	UQ_con	e5mh3C1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: UQ_con	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF11901	DM9 repeat (DM9)	DM9 repeat	This repeat of unknown function was first identified in Diptera proteins; later on it was found in a wide range of invertebrates and vertebrates [1], such as natterin [2,3]. It is often present in proteins comprising only two or four DM9 repeats and ...	This repeat of unknown function was first identified in Diptera proteins; later on it was found in a wide range of invertebrates and vertebrates [1], such as natterin [2,3]. It is often present in proteins comprising only two or four DM9 repeats and occasionally is linked to other domains at its N- or C-terminal. In the mannose-specific lectin CGL1 from Crassostrea gigas, DM9 exhibits high binding specificity and avidity toward D-mannose residue and served as a pattern recognition receptor (PRR) with a broad range of recognition spectrum to various pathogen-associated molecular patterns [4]. It also mediates immune recognition and cellular encapsulation [5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Natterin-3	cation binding ion binding binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR006616	DM9 repeat	Repeat

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

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.