Structure of PDB 7bsj Chain A

Receptor sequence

>7bsjA (length=553) Species: 9606 (Homo sapiens)

HIKEKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFH
RNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLA
CSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGL
GDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYM
GLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKY
REKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGI
ANLIVMSMVENGLSEQEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSA
PESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFAL
SNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVY
IFPGVALAVILCNTWHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANI
QEVSINIAIKVTEYLYANKMAFRYPEPEDKAKYVKERTWRSEYDSLLPDV
YEW

3D structure

• PDB: 7bsj Single nucleotide variants lead to dysregulation of the human mitochondrial NAD(P) + -dependent malic enzyme.
• Chain: A
• Resolution: 2.48 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y112 R165 K183 E255 D256 D278 D279 N421
• Catalytic site (residue number reindexed from 1): Y93 R146 K164 E236 D237 D259 D260 N402
• Enzyme Commision number: 1.1.1.38: malate dehydrogenase (oxaloacetate-decarboxylating).

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	NAD	A	R165 L167 G168 T283 G311 A312 G313 E314 D345 K346 A393 G394 A395 L398 L419 S420 N421 N466 N467	R146 L148 G149 T264 G292 A293 G294 E295 D326 K327 A374 G375 A376 L379 L400 S401 N402 N447 N448
BS02	MG	A	E255 D256 D279	E236 D237 D260
BS03	NAD	A	K156 I193 R194 R197 I479 L480 R542 E555 R556	K137 I174 R175 R178 I460 L461 R523 E536 R537
BS04	FUM	A	Q64 R67 I88 R91 L95	Q45 R48 I69 R72 L76
BS05	TTN	A	Y112 R165 L167 K183 D279 N421	Y93 R146 L148 K164 D260 N402

Gene Ontology

Molecular Function

• GO:0004470 malic enzyme activity
• GO:0004471 malate dehydrogenase (decarboxylating) (NAD+) activity
• GO:0004473 malate dehydrogenase (decarboxylating) (NADP+) activity
• GO:0008948 oxaloacetate decarboxylase activity
• GO:0009055 electron transfer activity
• GO:0016491 oxidoreductase activity
• GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
• GO:0046872 metal ion binding
• GO:0051287 NAD binding

Biological Process

• GO:0006090 pyruvate metabolic process
• GO:0006108 malate metabolic process
• GO:1902031 regulation of NADP metabolic process

Cellular Component

• GO:0005739 mitochondrion
• GO:0005759 mitochondrial matrix
• GO:0043231 intracellular membrane-bounded organelle

External links

• PDB: RCSB:7bsj, PDBe:7bsj, PDBj:7bsj
• PDBsum: 7bsj
• PubMed: 33554057
• UniProt: P23368|MAOM_HUMAN NAD-dependent malic enzyme, mitochondrial (Gene Name=ME2)