8J5D | pdb_00008j5d

Cryo-EM structure of starch degradation complex of BAM1-LSF1-MDH

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B	SBP_bac_5	e8j5dB01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: SBP_bac_5	ECOD (v294.1)
C [auth D]	SBP_bac_5	e8j5dD01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: SBP_bac_5	ECOD (v294.1)
A	Glyco_hydro_14	e8j5dA01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: Glyco_hydro_14	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D [auth C]	PF02866	lactate/malate dehydrogenase, alpha/beta C-terminal domain (Ldh_1_C)	lactate/malate dehydrogenase, alpha/beta C-terminal domain	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the in ...	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate. The enzyme participates in the citric acid cycle. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes.	Domain
B, D [auth C]	PF00056	lactate/malate dehydrogenase, NAD binding domain (Ldh_1_N)	lactate/malate dehydrogenase, NAD binding domain	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the in ...	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate. The enzyme participates in the citric acid cycle. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. N-terminus (this family) is a Rossmann NAD-binding fold. C-terminus is an unusual alpha+beta fold.	Domain
A	PF01373	Glycosyl hydrolase family 14 (Glyco_hydro_14)	Glycosyl hydrolase family 14	This family are beta amylases.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D [auth C]	Malate dehydrogenase, chloroplastic	L-malate dehydrogenase (NAD+) activity oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors malate dehydrogenase activity catalytic activity protein transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity protein-transporting ATPase activity ATP-dependent activity macromolecule transmembrane transporter activity chloroplast protein-transporting ATPase activity active transmembrane transporter activity L-malate dehydrogenase (NAD+) activity oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors malate dehydrogenase activity catalytic activity protein transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity protein-transporting ATPase activity ATP-dependent activity macromolecule transmembrane transporter activity chloroplast protein-transporting ATPase activity active transmembrane transporter activity transmembrane protein transporter activity transporter activity transmembrane transporter activity	establishment of protein localization transport establishment of localization transmembrane transport localization establishment of protein localization to chloroplast protein localization to chloroplast establishment of protein localization to organelle protein transmembrane transport protein transport macromolecule localization protein localization to organelle protein import into chloroplast stroma cellular process establishment of protein localization transport establishment of localization transmembrane transport localization establishment of protein localization to chloroplast protein localization to chloroplast establishment of protein localization to organelle protein transmembrane transport protein transport macromolecule localization protein localization to organelle protein import into chloroplast stroma cellular process intracellular protein localization response to stimulus response to stress response to abiotic stimulus response to cold response to temperature stimulus oxoacid metabolic process malate metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process small molecule metabolic process metabolic process organic acid metabolic process defense response to bacterium biological process involved in interspecies interaction between organisms response to other organism defense response response to bacterium response to external stimulus response to external biotic stimulus response to biotic stimulus aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process generation of precursor metabolites and energy developmental process multicellular organismal process reproductive system development reproductive process embryo development developmental process involved in reproduction multicellular organism development fruit development embryo development ending in seed dormancy seed development anatomical structure development reproductive structure development post-embryonic development system development cellular component organization organelle organization plastid organization chloroplast organization cellular component organization or biogenesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle plastid plastid stroma chloroplast stroma chloroplast cytosol extracellular region membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle plastid plastid stroma chloroplast stroma chloroplast cytosol extracellular region apoplast plant-type vacuole vacuole plastid membrane organelle inner membrane membrane chloroplast envelope plastid inner membrane organelle envelope chloroplast membrane chloroplast inner membrane organelle membrane plastid envelope ATPase complex protein-containing complex catalytic complex Ycf2/FtsHi complex stromule
C [auth D]	Phosphoglucan phosphatase LSF1, chloroplastic	phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity carbohydrate phosphatase activity	carbohydrate metabolic process catabolic process glucan catabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process glucan metabolic process starch metabolic process polysaccharide catabolic process starch catabolic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular anatomical structure plastid intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle chloroplast starch grain cytoplasm starch grain chloroplast plastid stroma chloroplast stroma
A	Beta-amylase 1, chloroplastic	hydrolase activity, acting on glycosyl bonds amylase activity beta-amylase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	response to acid chemical response to stimulus response to stress response to chemical response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation carbohydrate metabolic process catabolic process glucan catabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process response to acid chemical response to stimulus response to stress response to chemical response to oxygen-containing compound response to abiotic stimulus response to water response to water deprivation carbohydrate metabolic process catabolic process glucan catabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process glucan metabolic process starch metabolic process polysaccharide catabolic process starch catabolic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D [auth C]	IPR015955	Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal	Homologous Superfamily
B, D [auth C]	IPR001252	Malate dehydrogenase, active site	Active Site
B, D [auth C]	IPR022383	Lactate/malate dehydrogenase, C-terminal	Domain
B, D [auth C]	IPR010097	Malate dehydrogenase, type 1	Family
B, D [auth C]	IPR001236	Lactate/malate dehydrogenase, N-terminal	Domain
B, D [auth C]	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
C [auth D]	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
C [auth D]	IPR032640	AMP-activated protein kinase, glycogen-binding domain	Domain
C [auth D]	IPR036034	PDZ superfamily	Homologous Superfamily
C [auth D]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth D]	IPR014756	Immunoglobulin E-set	Homologous Superfamily
C [auth D]	IPR045204	Laforin-like, dual specificity phosphatase domain	Domain
C [auth D]	IPR020422	Dual specificity protein phosphatase domain	Domain
C [auth D]	IPR000340	Dual specificity phosphatase, catalytic domain	Domain
A	IPR001371	Glycoside hydrolase, family 14B, plant	Family
A	IPR001554	Glycoside hydrolase, family 14	Family
A	IPR017853	Glycoside hydrolase superfamily	Homologous Superfamily
A	IPR018238	Glycoside hydrolase, family 14, conserved site	Conserved Site

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.