Structure of PDB 1kc3 Chain A

Receptor sequence

>1kc3A (length=298)

MNILLFGKTGQVGWELQRSLAPVGNLIALDVHSKEFCGDFSNPKGVAETV
RKLRPDVIVNAAAHTAVDKAESEPELAQLLNATSVEAIAKAANETGAWVV
HYSTDYVFPGTGDIPWQETDATSPLNVYGKTKLAGEKALQDNCPKHLIFR
TSWVYAGKGNNFAKTMLRLAKERQTLSVINDQYGAPTGAELLADCTAHAI
RVALNKPEVAGLYHLVAGGTTTWHDYAALVFDEARKAGITLALTELNAVP
TSAYPTPASRPGNSRLNTEKFQRNFDLILPQWELGVKRMLTEMFTTTT

3D structure

• PDB: 1kc3 Variation on a theme of SDR. dTDP-6-deoxy-L- lyxo-4-hexulose reductase (RmlD) shows a new Mg2+-dependent dimerization mode.
• Chain: A
• Resolution: 2.7 Å

Enzymatic activity

• Enzyme Commision number: 1.1.1.133: dTDP-4-dehydrorhamnose reductase.

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	NDP	A	G10 Q11 V12 V31 F40 A61 A62 A63 T65 L80 Y102 S103 T104 Y128 K132 T151 V154	G10 Q11 V12 V31 F40 A61 A62 A63 T65 L80 Y102 S103 T104 Y128 K132 T151 V154
BS02	TRH	A	V67 T104 Y106 Y128 S152 W153 F162 V178 I179 W223 R260	V67 T104 Y106 Y128 S152 W153 F162 V178 I179 W223 R260

Gene Ontology

Molecular Function

• GO:0008831 dTDP-4-dehydrorhamnose reductase activity
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0009103 lipopolysaccharide biosynthetic process
• GO:0009243 O antigen biosynthetic process
• GO:0019305 dTDP-rhamnose biosynthetic process
• GO:0045226 extracellular polysaccharide biosynthetic process

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:1kc3, PDBe:1kc3, PDBj:1kc3
• PDBsum: 1kc3
• PubMed: 12057193
• UniProt: P26392|RMLD_SALTY dTDP-4-dehydrorhamnose reductase (Gene Name=rfbD)