Deposited model

PDB 3VXF|dpdb_jq6spg4p

Deposited model

X/N Joint refinement of Human alpha-thrombin-Bivalirudin complex PD5

Program: PHENIX (PHENIX.REFINE
Model type: Deposited
Purpose: Reference
Authors: Yamada, T., Kurihara, K., Masumi, K., Tamada, T., Tomoyori, K., Ohnishi, Y., Tanaka, I., Kuroki, R., Niimura, N.
Atoms: 2,534

Residues: 298
Protein chains: 4
Unmodeled fraction: 5.4%
Ligand: NAG

Evaluations

R-work

0.161

R-free

0.184

Clashscore

3.0

Macromolecules

The same in every model of this entry.

Entity 1
Molecule	Chains	Length	Organism	UniProt	Details
Thrombin light chain		36	Homo sapiens9606	P00734SIFTS · 2026_03	—

Entity 2
Molecule	Chains	Length	Organism	UniProt	Details
Thrombin heavy chain		259	Homo sapiens9606	P00734SIFTS · 2026_03	—

Entity 3
Molecule	Chains	Length	Organism	UniProt	Details
BIVALIRUDIN		17	unidentified32644	P28504SIFTS · 2026_03	ConstructC-TERMINAL

Entity 4
Molecule	Chains	Length	Organism	UniProt	Details
BIVALIRUDIN		3	unidentified32644	—	ConstructN-TERMINAL

Data

L0 Raw

L1 Processed

L2 Models

L3 Evaluations