PDBsum entry 4dy7

Hydrolase/hydrolase inhibitor

PDB id: 4dy7

Contents

Protein chains

45 a.a.

253 a.a.

377 a.a.

39 a.a.

Ligands

ACT ×3

Metals

_CA ×2

_NA

Waters ×110

PDB id:

4dy7

Name:

Hydrolase/hydrolase inhibitor

Title:

Crystal structures of protease nexin-1 in complex with s195a thrombin

Structure:

Thrombin light chain. Chain: a, d. Fragment: unp residues 315-363. Engineered: yes. Mutation: yes. Thrombin heavy chain. Chain: b, e. Engineered: yes. Glia-derived nexin.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: f2. Expressed in: cricetinae gen. Sp.. Expression_system_taxid: 36483. Expression_system_organ: kidney. Expression_system_cell: baby hamster kidney (bhk) cells. Gene: serpine2, pi7, pn1.

Resolution:

2.80Å R-factor: 0.225 R-free: 0.268

Authors:

J.A.Huntington,W.Li

Key ref:

W.Li and J.A.Huntington (2012). Crystal structures of protease nexin-1 in complex with heparin and thrombin suggest a 2-step recognition mechanism. Blood, 120, 459-467. PubMed id: 22618708

Date:

28-Feb-12 Release date: 15-Aug-12

Protein chain

P00734  (THRB_HUMAN) -  Prothrombin from Homo sapiens

Seq: 622 a.a.

Struc: 45 a.a.

Protein chains

P00734  (THRB_HUMAN) -  Prothrombin from Homo sapiens

Seq: 622 a.a.

Struc: 253 a.a.*

Protein chains

P07093  (GDN_HUMAN) -  Glia-derived nexin from Homo sapiens

Seq: 398 a.a.

Struc: 377 a.a.

Protein chain

P00734  (THRB_HUMAN) -  Prothrombin from Homo sapiens

Seq: 622 a.a.

Struc: 39 a.a.

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class: Chains A, B, D, E: E.C.3.4.21.5 - thrombin.
• Reaction: Preferential cleavage: Arg-|-Gly; activates fibrinogen to fibrin and releases fibrinopeptide A and B.

Blood 120:459-467 (2012)

PubMed id: 22618708

Crystal structures of protease nexin-1 in complex with heparin and thrombin suggest a 2-step recognition mechanism.

W.Li, J.A.Huntington.

ABSTRACT

No abstract given.