7M7C

Crystal Structure of Hip1 (Rv2224c) mutant - T466A/S228DHA (dehydroalanine)

PDB DOI: https://doi.org/10.2210/pdb7M7C/pdb

Classification: HYDROLASE
Organism(s): Mycobacterium tuberculosis H37Rv
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2021-03-27 Released: 2022-03-30
Deposition Author(s): Naffin-Olivos, J.L., Daab, A., Goldfarb, N.E., Doran, M.H., Baikovitz, J., Liu, D., Sun, S., White, A., Dunn, B.M., Rengarajan, J., Petsko, G.A., Ringe, D.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.239
R-Value Work: 0.213
R-Value Observed: 0.214

wwPDB Validation 3D Report Full Report

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

Literature

Inhibitors and Inactivators of Mycobacterium tuberculosis serine protease Hip1 (Rv2224c)

Naffin-Olivos, J.L., Daab, A., Goldfarb, N., Doran, M.H., Baikovitz, J., Liu, D., Sun, S., White, A., Dunn, B.M., Rengarajan, J., Petsko, G.A., Ringe, D.

To be published.

Macromolecule Content

Total Structure Weight: 52.94 kDa
Atom Count: 3,498
Modelled Residue Count: 463
Deposited Residue Count: 492
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carboxylesterase A	A	492	Mycobacterium tuberculosis H37Rv	Mutation(s): 1 Gene Names: caeA, Rv2224c, MTCY427.05c EC: 3.1.1
UniProt
Find proteins for P9WHR3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WHR3 Go to UniProtKB: P9WHR3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P9WHR3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
DHA Query on DHA	A	PEPTIDE LINKING	C₃ H₅ N O₂		SER

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.239
R-Value Work: 0.213
R-Value Observed: 0.214
Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.75	α = 90
b = 104.75	β = 90
c = 128.309	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALEPACK	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SOLVE	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-03-30

Deposition Author(s):

Naffin-Olivos, J.L.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM32415

Revision History (Full details and data files)

Version 1.0: 2022-03-30
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Refinement description

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.