7FDS | pdb_00007fds

High resolution crystal structure of LpqH from Mycobacterium tuberculosis

PDB DOI: https://doi.org/10.2210/pdb7FDS/pdb

Classification: LIPID BINDING PROTEIN
Organism(s): Mycobacterium tuberculosis H37Rv
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-07-17 Released: 2021-12-15
Deposition Author(s): Kundapura, S.V., Chatterjee, S., Samanta, D., Ramagopal, U.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.26 Å
R-Value Free:
0.178 (Depositor), 0.202 (DCC)
R-Value Work:
0.143 (Depositor)

Starting Model: experimental
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This is version 1.3 of the entry. See complete history.

Literature

High-resolution crystal structure of LpqH, an immunomodulatory surface lipoprotein of Mycobacterium tuberculosis reveals a distinct fold and a conserved cleft on its surface.

Chatterjee, S., Kundapura, S.V., Basak, A.J., Mukherjee, D., Dash, S., Ganguli, N., Das, A.K., Mukherjee, G., Samanta, D., Ramagopal, U.A.

(2022) Int J Biol Macromol 210: 494-503

DOI: https://doi.org/10.1016/j.ijbiomac.2022.04.196

Macromolecule Content

Total Structure Weight: 25.58 kDa
Atom Count: 1,745
Modeled Residue Count: 229
Deposited Residue Count: 256
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipoprotein LpqH	A, B	128	Mycobacterium tuberculosis H37Rv	Mutation(s): 0 Gene Names: lpqH
UniProt
Find proteins for P9WK61 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WK61 Go to UniProtKB: P9WK61
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P9WK61
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.26 Å
R-Value Free: 0.178 (Depositor), 0.202 (DCC)
R-Value Work: 0.143 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 29.9	α = 90
b = 78.51	β = 107.34
c = 42.18	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2021-12-15

Deposition Author(s):

Kundapura, S.V.

Ramagopal, U.A.

Revision History (Full details and data files)

Version 1.0: 2021-12-15
Type: Initial release
Version 1.1: 2022-07-06
Changes: Database references, Derived calculations
Version 1.2: 2023-11-29
Changes: Data collection, Refinement description
Version 1.3: 2024-10-09
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.