3I86 | pdb_00003i86

Crystal structure of the P60 Domain from M. avium subspecies paratuberculosis antigen MAP1204

PDB DOI: https://doi.org/10.2210/pdb3I86/pdb

Classification: HYDROLASE
Organism(s): Mycobacterium avium subsp. paratuberculosis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2009-07-09 Released: 2010-07-21
Deposition Author(s): Ramyar, K.X., Lingle, C.K., McWhorter, W.J., Bouyain, S., Bannantine, J.P., Geisbrecht, B.V.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.280 (Depositor), 0.265 (DCC)
R-Value Work:
0.220 (Depositor), 0.207 (DCC)
R-Value Observed:
0.223 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Atypical structural features of two P60 family members from Mycobacterium avium subspecies paratuberculosis

Ramyar, K.X., Lingle, C.K., McWhorter, W.J., Bouyain, S., Bannantine, J.P., Geisbrecht, B.V.

To be published.

Macromolecule Content

Total Structure Weight: 29.81 kDa
Atom Count: 2,091
Modeled Residue Count: 274
Deposited Residue Count: 282
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative uncharacterized protein	A, B	141	Mycobacterium avium subsp. paratuberculosis	Mutation(s): 0 Gene Names: MAP1204, MAP_1204 EC: 3.4.19.11
UniProt
Find proteins for Q740Y8 (Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10)) Explore Q740Y8 Go to UniProtKB: Q740Y8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q740Y8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
IPA Query on IPA Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.280 (Depositor), 0.265 (DCC)
R-Value Work: 0.220 (Depositor), 0.207 (DCC)
R-Value Observed: 0.223 (Depositor)

Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.107	α = 90
b = 97.107	β = 90
c = 97.107	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	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: 2010-07-21

Deposition Author(s):

McWhorter, W.J.

Bannantine, J.P.

Geisbrecht, B.V.

Revision History (Full details and data files)

Version 1.0: 2010-07-21
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description

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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.