Structure of PDB 5jdu Chain D Binding Site BS01

Receptor Information

>5jdu Chain D (length=247) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPW
DKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDI
ALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNKGQPSVL
QVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGAACEGDSGGPFV
MKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF

Ligand information

>5jdu Chain C (length=29) Species: 9606 (Homo sapiens) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

ADCGLRPLFEKKSLEDKTERELLESYIDG

Receptor-Ligand Complex Structure

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Structure summary

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PDB	5jdu Loop Electrostatics Asymmetry Modulates the Preexisting Conformational Equilibrium in Thrombin.
Resolution	1.7 Å
Binding residue (original residue number in PDB)	E23 G25 M26 P28 W29 D116 H119 P120 C122 L129C Y134 K135 G136 R137 N159 K202 P204 N205 R206 W207
Binding residue (residue number reindexed from 1)	E8 G10 M11 P13 W14 D113 H116 P117 C119 L129 Y134 K135 G136 R137 N154 K202 P204 N207 R208 W209

Enzymatic activity

Catalytic site (original residue number in PDB)	H57 D102 E192 G193 D194 S195 G196
Catalytic site (residue number reindexed from 1)	H43 D99 E192 G193 D194 S195 G196
Enzyme Commision number	3.4.21.5: thrombin.

Gene Ontology

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

	Biological Process
GO:0006508	proteolysis
GO:0007596	blood coagulation

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Molecular Function

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Biological Process

External links

PDB	RCSB:5jdu, PDBe:5jdu, PDBj:5jdu
PDBsum	5jdu
PubMed	27347732
UniProt	P00734\|THRB_HUMAN Prothrombin (Gene Name=F2)

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