4OKV | pdb_00004okv

Crystal structure of anopheline anti-platelet protein with Fab antibody

PDB DOI: https://doi.org/10.2210/pdb4OKV/pdb

Classification: BLOOD CLOTTING
Organism(s): Mus musculus, Anopheles stephensi
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-01-23 Released: 2014-04-30
Deposition Author(s): Park, S.Y., Sugiyama, K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.250 (Depositor), 0.244 (DCC)
R-Value Work:
0.218 (Depositor), 0.213 (DCC)
R-Value Observed:
0.220 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history.

Literature

The crystal structure of anopheles anti-platelet protein, a powerful anti-coagulant, in complex with an antibody

Sugiyama, K., Iyori, M., Sawaguchi, A., Akashi, S., Tame, J.R.H., Yoshida, S., Park, S.Y.

To be published.

Macromolecule Content

Total Structure Weight: 109.37 kDa
Atom Count: 8,351
Modeled Residue Count: 996
Deposited Residue Count: 998
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
heavy chain of 8H7 mAb	A, C	215	Mus musculus	Mutation(s): 0

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
light chain of 8H7 mAb	B, D	218	Mus musculus	Mutation(s): 0

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Anti-platelet aggregation protein	E, F	66	Anopheles stephensi	Mutation(s): 0 Gene Names: ansg-1, aapp
UniProt
Find proteins for Q7YT37 (Anopheles stephensi) Explore Q7YT37 Go to UniProtKB: Q7YT37
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7YT37
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.250 (Depositor), 0.244 (DCC)
R-Value Work: 0.218 (Depositor), 0.213 (DCC)
R-Value Observed: 0.220 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.81	α = 90
b = 99.426	β = 90
c = 166.033	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2014-04-30

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-04-30
Type: Initial release
Version 1.1: 2024-11-13
Changes: Data collection, Database references, Structure summary

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.