5ZXA

Crystal structure of fibronectin-binding protein Apa mutant from Mycobacterium tuberculosis

PDB DOI: https://doi.org/10.2210/pdb5ZXA/pdb

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

Deposited: 2018-05-18 Released: 2019-05-29
Deposition Author(s): Gao, J., Liu, W.D., Chen, C.C., Guo, R.T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.77 Å
R-Value Free: 0.181
R-Value Work: 0.163
R-Value Observed: 0.164

wwPDB Validation 3D Report Full Report

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

Literature

Functional and structural investigations of fibronectin-binding protein Apa from Mycobacterium tuberculosis.

Kuo, C.J., Gao, J., Huang, J.W., Ko, T.P., Zhai, C., Ma, L., Liu, W., Dai, L., Chang, Y.F., Chen, T.H., Hu, Y., Yu, X., Guo, R.T., Chen, C.C.

(2019) Biochim Biophys Acta Gen Subj 1863: 1351-1359

PubMed: 31175911 Search on PubMed
DOI: https://doi.org/10.1016/j.bbagen.2019.06.003
Primary Citation of Related Structures:
5ZX9, 5ZXA

PubMed Abstract:
Alanine and proline-rich protein (Apa) is a secreted antigen of Mycobacterium spp. which involves in stimulating immune responses and adhering to host cells by binding to fibronectin (Fn). Here, we report the crystal structure of Apa from Mycobacterium tuberculosis (Mtb) and its Fn-binding characteristics.

Organizational Affiliation

State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Hubei Key Laboratory of Industrial Biotechnology, School of Life Sciences, Hubei University, Wuhan 430062, China; Tianjin Institute of Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.

Macromolecule Content

Total Structure Weight: 33.07 kDa
Atom Count: 1,400
Modelled Residue Count: 161
Deposited Residue Count: 325
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alanine and proline-rich secreted protein Apa	A	325	Mycobacterium tuberculosis H37Rv	Mutation(s): 1 Gene Names: 1860c, apa, modD, Rv1860, MTCY359.13
UniProt
Find proteins for P9WIR7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WIR7 Go to UniProtKB: P9WIR7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P9WIR7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HG Query on HG Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]