1EVU

HUMAN FACTOR XIII WITH CALCIUM BOUND IN THE ION SITE

PDB DOI: https://doi.org/10.2210/pdb1EVU/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Saccharomyces cerevisiae
Mutation(s): Yes

Deposited: 2000-04-20 Released: 2000-05-10
Deposition Author(s): Garzon, R.J., Pratt, K.P., Bishop, P.D., Le Trong, I., Stenkamp, R.E., Teller, D.C.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.01 Å
R-Value Free:
0.266 (Depositor)
R-Value Work:
0.208 (Depositor), 0.210 (DCC)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Tryptophan 279 is Essential for the Transglutaminase Activity of Coagulation Factor XIII: Functional and Structural Characterization

Garzon, R.J., Pratt, K.P., Bishop, P.D., Le Trong, I., Stenkamp, R.E., Teller, D.C.

To be published.

Macromolecule Content

Total Structure Weight: 166.71 kDa
Atom Count: 12,593
Modelled Residue Count: 1,416
Deposited Residue Count: 1,462
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COAGULATION FACTOR XIII	A, B	731	Homo sapiens	Mutation(s): 1 EC: 2.3.2.13
UniProt & NIH Common Fund Data Resources
Find proteins for P00488 (Homo sapiens) Explore P00488 Go to UniProtKB: P00488
PHAROS: P00488 GTEx: ENSG00000124491
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P00488
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PGO Query on PGO Download Ideal Coordinates CCD File SDF format, chain E [auth B] MOL2 format, chain E [auth B] mmCIF format, chain E [auth B]	E [auth B]	S-1,2-PROPANEDIOL C₃ H₈ O₂ DNIAPMSPPWPWGF-VKHMYHEASA-N		Interactions Focus chain E [auth B] Interactions & Density Focus chain E [auth B]
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SAC Query on SAC	A, B	L-PEPTIDE LINKING	C₅ H₉ N O₄		SER

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.01 Å
R-Value Free: 0.266 (Depositor)
R-Value Work: 0.208 (Depositor), 0.210 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.172	α = 90
b = 70.764	β = 106.11
c = 133.822	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2000-05-10

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2000-05-10
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.