Macromolecule Content

Total Structure Weight: 171.04 kDa
Atom Count: 10661
Residue Count: 1371
Unique protein chains: 2

5MHO

FXIIIa in complex with the inhibitor ZED2369

DOI: 10.2210/pdb5MHO/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens, synthetic construct
Expression System: Spodoptera frugiperda
Mutation(s): Yes

Deposited: 2016-11-24 Released: 2017-12-20
Deposition Author(s): Stieler, M., Heine, A., Klebe, G.
Funding Organization(s): BMBF

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.92 Å
R-Value Free: 0.248
R-Value Work: 0.217
R-Value Observed: 0.219

wwPDB Validation 3D Report Full Report

Literature

FXIIIa in complex with the inhibitor ZED2369

Stieler, M., Heine, A., Klebe, G.

To be published.

Macromolecules

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(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coagulation factor XIII A chain	A, B	738	Homo sapiens	Mutation(s): 2 Gene Names: F13A1, F13A EC: 2.3.2.13
Find proteins for P00488 (Homo sapiens) Explore P00488 Go to UniProtKB: P00488
NIH Common Fund Data Resources
PHAROS: P00488 GTEx: ENSG00000124491
Protein Feature View Expand
Reference Sequence

Find similar proteins by: Sequence | Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
inhibitor ZED2369	G, H	9	synthetic construct	Mutation(s): 0
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain H [A] SDF format, chain L [B] SDF format, chain M [B] MOL2 format, chain H [A] MOL2 format, chain L [B] MOL2 format, chain M [B]	A, B	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain E [A] SDF format, chain F [A] SDF format, chain G [A] SDF format, chain I [B] SDF format, chain J [B] SDF format, chain K [B] MOL2 format, chain E [A] MOL2 format, chain F [A] MOL2 format, chain G [A] MOL2 format, chain I [B] MOL2 format, chain J [B] MOL2 format, chain K [B]	A, B	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.92 Å
R-Value Free: 0.248
R-Value Work: 0.217
R-Value Observed: 0.219
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.555	α = 88.2
b = 80.508	β = 76.91
c = 102.904	γ = 82.23

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
Coot	model building

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Deposited Date: 2016-11-24
Released Date: 2017-12-20

Deposition Author(s):

Funding Organization	Location	Grant Number
BMBF	Germany	FKZ0316030

Revision History

Version 1.0: 2017-12-20
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.