5BKM

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

• PDB DOI: https://doi.org/10.2210/pdb5BKM/pdb

• Classification: HYDROLASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-03-20 Released: 2022-03-23 
• 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)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.242 
• R-Value Work: 0.200 
• R-Value Observed: 0.203 

Literature

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

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.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 52.97 kDa 
• Atom Count: 3,500 
• Modelled Residue Count: 463 
• Deposited Residue Count: 492 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carboxylesterase A	A	492	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  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

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.242 
• R-Value Work: 0.200 
• R-Value Observed: 0.203 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.444	α = 90
b = 104.444	β = 90
c = 127.477	γ = 120

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-23 
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.

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

Revision History  

• Version 1.0: 2022-03-23
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Refinement description