Structure of PDB 1dwd Chain H

Receptor sequence

>1dwdH (length=257) Species: 9606 (Homo sapiens)

IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPW
DKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDI
ALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETWTA
NVGKGQPSVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDA
CEGDSGGPFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWI
QKVIDQF

3D structure

• PDB: 1dwd Crystallographic analysis at 3.0-A resolution of the binding to human thrombin of four active site-directed inhibitors.
• Chain: H
• Resolution: 3.0 Å

Enzymatic activity

• Enzyme Commision number: 3.4.21.5: thrombin.

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	H	E23 I24 G25 M26 P28 W29 D116 H119 P120 C122 Y134 K135 R137 N159 K202 P204 N205 R206 W207	E8 I9 G10 M11 P13 W14 D113 H116 P117 C119 Y134 K135 R137 N164 K212 P214 N217 R218 W219
BS02	peptide	H	F34 K36 R73 T74 R75 Y76 I82 F245	F19 K21 R68 T69 R70 Y71 I78 F257
BS03	MID	H	H57 Y60A W60D N98 L99 I174 D189 A190 W215 G216	H43 Y47 W50 N95 L96 I179 D199 A200 W227 G228	PDBbind-CN: -logKd/Ki=8.18,Ki=6.6nM BindingDB: Ki=6nM,IC50=690nM,EC50=750nM

Gene Ontology

Molecular Function

• GO:0004252 serine-type endopeptidase activity
• GO:0005509 calcium ion binding

Biological Process

• GO:0006508 proteolysis
• GO:0007596 blood coagulation

External links

• PDB: RCSB:1dwd, PDBe:1dwd, PDBj:1dwd
• PDBsum: 1dwd
• PubMed: 1939071
• UniProt: P00734|THRB_HUMAN Prothrombin (Gene Name=F2)