3PJI | pdb_00003pji

Crystal structure of AgamOBP22a at 1.7 angstrom in the open status for ligand binding.

PDB DOI: https://doi.org/10.2210/pdb3PJI/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Anopheles gambiae str. PEST
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2010-11-10 Released: 2012-01-11
Deposition Author(s): Zhang, S., Ren, H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.208 (Depositor), 0.211 (DCC)
R-Value Work:
0.179 (Depositor), 0.182 (DCC)
R-Value Observed:
0.182 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3PJI

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structures of Anopheles gambiae Odorant-binding Protein AgamOBP22a and Complexes with Bound Odorants

Ren, H., Yang, G., Winberg, G., Turin, L., Zhang, S.

To be published.

Macromolecule Content

Total Structure Weight: 16.1 kDa
Atom Count: 1,115
Modeled Residue Count: 119
Deposited Residue Count: 141
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Odorant binding protein (AGAP010409-PA)	A	141	Anopheles gambiae str. PEST	Mutation(s): 0 Gene Names: OBP22, OBPjj83b, AGAP010409
UniProt
Find proteins for Q7PGA3 (Anopheles gambiae) Explore Q7PGA3 Go to UniProtKB: Q7PGA3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7PGA3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NH4 Query on NH4 Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A], D [auth A]	AMMONIUM ION H₄ N QGZKDVFQNNGYKY-UHFFFAOYSA-O		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.208 (Depositor), 0.211 (DCC)
R-Value Work: 0.179 (Depositor), 0.182 (DCC)
R-Value Observed: 0.182 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.263	α = 90
b = 37.702	β = 99.46
c = 43.639	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-01-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-01-11
Type: Initial release
Version 1.1: 2012-01-25
Changes: Other
Version 1.2: 2018-03-07
Changes: Data collection
Version 1.3: 2024-11-20
Changes: Data collection, Database references, Derived calculations, 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.