Structure of PDB 5vr8 Chain A

Receptor sequence
>5vr8A (length=460) Species: 9606 (Homo sapiens) [Search protein sequence]
MFEIKKICCIGAGYVGGPTCSVIAHMCPEIRVTVVDVNESRINAWNSPTL
PIYEPGLKEVVESCRGKNLFFSTNIDDAIKEADLVFISVNTPTKTYGMGK
GRAADLKYIEACARRIVQNSNGYKIVTEKSTVPVRAAESIRRIFDANTKP
NLNLQVLSNPEFLAEGTAIKDLKNPDRVLIGGDETPEGQRAVQALCAVYE
HWVPREKILTTNTWSSELSKLAANAFLAQRISSINSISALCEATGADVEE
VATAIGMDQRIGNKFLKASVGFGGSCFQKDVLNLVYLCEALNLPEVARYW
QQVIDMNDYQRRRFASRIIDSLFNTVTDKKIAILGFAFKKDTGDTRESSS
IYISKYLMDEGAHLHIYDPKVPREQIVVDLSHDDQVSRLVTISKDPYEAC
DGAHAVVICTEWDMFKELDYERIHKKMLKPAFIFDGRRVLDGLHNELQTI
GFQIETIGKK
3D structure
PDB5vr8 The entropic force generated by intrinsically disordered segments tunes protein function.
ChainA
Resolution1.999 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) T131 E165 K220 N224 C276 D280
Catalytic site (residue number reindexed from 1) T131 E165 K220 N224 C276 D280
Enzyme Commision number 1.1.1.22: UDP-glucose 6-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 UDX A G13 Y14 V15 D36 V37 R41 V89 N90 T91 Y108 S130 T131 R346 G13 Y14 V15 D36 V37 R41 V89 N90 T91 Y108 S130 T131 R346 PDBbind-CN: -logKd/Ki=6.87,Kd=0.135uM
BS02 UDX A F162 L163 A164 E165 K220 I231 F265 K267 S269 F272 G273 C276 F277 F338 K339 R442 F162 L163 A164 E165 K220 I231 F265 K267 S269 F272 G273 C276 F277 F338 K339 R437 PDBbind-CN: -logKd/Ki=6.87,Kd=0.135uM
Gene Ontology
Molecular Function
GO:0003979 UDP-glucose 6-dehydrogenase activity
GO:0016491 oxidoreductase activity
GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
GO:0042802 identical protein binding
GO:0051287 NAD binding
Biological Process
GO:0001702 gastrulation with mouth forming second
GO:0006024 glycosaminoglycan biosynthetic process
GO:0006065 UDP-glucuronate biosynthetic process
GO:0015012 heparan sulfate proteoglycan biosynthetic process
GO:0030206 chondroitin sulfate biosynthetic process
GO:0034214 protein hexamerization
GO:0048666 neuron development
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:0070062 extracellular exosome

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5vr8, PDBe:5vr8, PDBj:5vr8
PDBsum5vr8
PubMed30420606
UniProtO60701|UGDH_HUMAN UDP-glucose 6-dehydrogenase (Gene Name=UGDH)

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