Structure of PDB 6udq Chain B

Receptor sequence

>6udqB (length=487) Species: 9606 (Homo sapiens)

YVPDDGLTAQQLFNCGDGLTYNDFLILPGYIDFTADQVDLTSALTKKITL
KTPLVSSPMDTVTEAGMAIAMALTGGIGFIHHNCTPEFQANEVRKVKKYE
QGFITDPVVLSPKDRVRDVFEAKARHGFCGIPITDTGRMGSRLVGIISSR
DIDFLKEEEHDCFLEEIMTKREDLVVAPAGITLKEANEILQRSKKGKLPI
VNEDDELVAIIARTDLKKNRDYPLASKDAKKQLLCGAAIGTHEDDKYRLD
LLAQAGVDVVVLDSSQGNSIFQINMIKYIKDKYPNLQVIGGNVVTAAQAK
NLIDAGVDALRVGMGSGSICITQEVLACGRPQATAVYKVSEYARRFGVPV
IADGGIQNVGHIAKALALGASTVMMGSLLAATTEAPGEYFFSDGIRLKKY
RGMGSLDAMIKVAQGVSGAVQDKGSIHKFVPYLIAGIQHSCQDIGAKSLT
QVRAMMYSGELKFEKRTSSAQVEGGVHSLHSYEKRLF

3D structure

• PDB: 6udq Cryo-EM structures demonstrate human IMPDH2 filament assembly tunes allosteric regulation.
• Chain: B
• Resolution: 3.27 Å

Enzymatic activity

• Enzyme Commision number: 1.1.1.205: IMP dehydrogenase.

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	peptide	B	T52 S53 T60 E352 R355 R356 V359 T477 R480	T41 S42 T49 E341 R344 R345 V348 T450 R453
BS02	IMP	B	M70 G328 S329 I330 C331 D364 G365 G387 S388 Y411 G413 M414 G415 Q441 G442	M59 G317 S318 I319 C320 D353 G354 G376 S377 Y400 G402 M403 G404 Q414 G415
BS03	GTP	B	P118 F139 C140 G141 S160 K208 T225 D226	P107 F128 C129 G130 S149 K197 T214 D215
BS04	GTP	B	Q112 G113 L194 K195 N198 N230 K242	Q101 G102 L183 K184 N187 N219 K231
BS05	ATP	B	I157 S159 S160 R161 D162 T180 V186 K206 K208	I146 S148 S149 R150 D151 T169 V175 K195 K197
BS06	ATP	B	R161 R224	R150 R213

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003677 DNA binding
• GO:0003723 RNA binding
• GO:0003824 catalytic activity
• GO:0003938 IMP dehydrogenase activity
• GO:0005515 protein binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006164 purine nucleotide biosynthetic process
• GO:0006177 GMP biosynthetic process
• GO:0006183 GTP biosynthetic process
• GO:0007623 circadian rhythm
• GO:0046651 lymphocyte proliferation
• GO:0071353 cellular response to interleukin-4
• GO:0097294 'de novo' XMP biosynthetic process

Cellular Component

• GO:0005576 extracellular region
• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005778 peroxisomal membrane
• GO:0005829 cytosol
• GO:0016020 membrane
• GO:0034774 secretory granule lumen
• GO:0070062 extracellular exosome
• GO:1904813 ficolin-1-rich granule lumen

External links

• PDB: RCSB:6udq, PDBe:6udq, PDBj:6udq
• PDBsum: 6udq
• PubMed: 31999252
• UniProt: P12268|IMDH2_HUMAN Inosine-5'-monophosphate dehydrogenase 2 (Gene Name=IMPDH2)