Structure of PDB 2cf9 Chain H

Receptor sequence

>2cf9H (length=250) Species: 9606 (Homo sapiens)

IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPW
DKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDI
ALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETGQP
SVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGG
PFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF

3D structure

• PDB: 2cf9 Multipolar Interactions in the D Pocket of Thrombin: Large Differences between Tricyclic Imide and Lactam Inhibitors.
• Chain: H
• Resolution: 1.79 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	F34 Q38 R73 T74 R75 Y76	F19 Q24 R68 T69 R70 Y71
BS02	peptide	H	E23 G25 M26 P28 W29 H119 P120 C122 Y134 K135 R137 N159 M201 K202 N205 R206 W207	E8 G10 M11 P13 W14 H116 P117 C119 Y134 K135 R137 N157 M204 K205 N210 R211 W212
BS03	348	H	H57 Y60A N98 D189 A190 S214 W215 G216 G219	H43 Y47 N95 D192 A193 S219 W220 G221 G223	MOAD: Ki=0.015uM PDBbind-CN: -logKd/Ki=7.82,Ki=0.015uM
BS04	CA	H	K169 T172	K167 T170

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:2cf9, PDBe:2cf9, PDBj:2cf9
• PDBsum: 2cf9
• PubMed: 16763681
• UniProt: P00734|THRB_HUMAN Prothrombin (Gene Name=F2)