1G0Z | pdb_00001g0z

SPECIFIC MUTATIONS IN KRAIT PLA2 LEAD TO DIMERIZATION OF PROTEIN MOLECULES: CRYSTAL STRUCTURE OF KRAIT PLA2 AT 2.1 RESOLUTION

PDB DOI: https://doi.org/10.2210/pdb1G0Z/pdb

Classification: TOXIN
Organism(s): Bungarus caeruleus
Mutation(s): No

Deposited: 2000-10-10 Released: 2003-06-17
Deposition Author(s): Singh, T.P., Gourinath, S., Sharma, S., Singh, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.18 Å
R-Value Free:
0.257 (Depositor)
R-Value Work:
0.199 (Depositor)
R-Value Observed:
0.199 (Depositor)

Starting Model: experimental
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This is version 1.5 of the entry. See complete history.

Literature

Specific mutations in Krait PLA2 lead to dimerization of protein molecules: Crystal structure of Krait PLA2 at 2.1 resolution.

Gourinath, S., Singh, G., Sharma, S., Bhanumathi, S., Betzel, C., Paramsivam, M., Srinivasan, A., Singh, T.P.

To be published.

Macromolecule Content

Total Structure Weight: 26.03 kDa
Atom Count: 2,011
Modeled Residue Count: 236
Deposited Residue Count: 236
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PHOSPHOLIPASE A2	A, B	118	Bungarus caeruleus	Mutation(s): 0 EC: 3.1.1.4
UniProt
Find proteins for Q6SLM1 (Bungarus caeruleus) Explore Q6SLM1 Go to UniProtKB: Q6SLM1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6SLM1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.18 Å
R-Value Free: 0.257 (Depositor)
R-Value Work: 0.199 (Depositor)
R-Value Observed: 0.199 (Depositor)

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.36	α = 90
b = 80.36	β = 90
c = 99.44	γ = 120

Software Package:

Software Name	Purpose
MAR345	data collection
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2003-06-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2003-06-17
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2017-10-04
Changes: Refinement description
Version 1.4: 2023-08-09
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.5: 2024-11-20
Changes: 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.