6AIE

Crystal structure of a new form of RsmD-like RNA methyl transferase from Mycobacterium tuberculosis determined at 1.74 A resolution

PDB DOI: https://doi.org/10.2210/pdb6AIE/pdb

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

Deposited: 2018-08-22 Released: 2018-09-26
Deposition Author(s): Venkataraman, S., Dhankar, A., Sinha, K.M., Manivasakan, P., Iqbal, N., Singh, T.P., Prasad, B.V.L.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.243
R-Value Work: 0.211
R-Value Observed: 0.212

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of a new form of RsmD-like RNA methyl transferase from Mycobacterium tuberculosis determined at 1.74 A resolution

Venkataraman, S., Dhankar, A., Sinha, K.M., Bandopadhyay, K., Iqbal, N., Singh, T.P., Prasad, V.L.S.B.

To be published.

Macromolecule Content

Total Structure Weight: 59.74 kDa
Atom Count: 4,354
Modelled Residue Count: 546
Deposited Residue Count: 567
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative methyltransferase	A, B, C	189	Mycobacterium tuberculosis	Mutation(s): 0 Gene Names: rsmD, ERS007661_01921, ERS007663_00818, ERS007665_01852, ERS007672_04225, ERS007681_00248, ERS007722_02698, ERS007739_01109, ERS007741_03599, ERS023446_00051... rsmD, ERS007661_01921, ERS007663_00818, ERS007665_01852, ERS007672_04225, ERS007681_00248, ERS007722_02698, ERS007739_01109, ERS007741_03599, ERS023446_00051, ERS027646_01755, ERS027651_01374, ERS027652_01710, ERS027654_02036, ERS027656_00358, ERS027659_03553, ERS031537_04978, SAMEA2682864_00651, SAMEA2683035_02297 EC: 2.1.1.171
UniProt
Find proteins for I6XFS7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore I6XFS7 Go to UniProtKB: I6XFS7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	I6XFS7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.74 Å
R-Value Free: 0.243
R-Value Work: 0.211
R-Value Observed: 0.212
Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.782	α = 90
b = 55.3	β = 90
c = 100.74	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2018-09-26

Deposition Author(s):

Venkataraman, S.

Manivasakan, P.

Prasad, B.V.L.S.

Revision History (Full details and data files)

Version 1.0: 2018-09-26
Type: Initial release
Version 1.1: 2023-11-22
Changes: Data collection, Database references, 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.