8Z38 | pdb_00008z38

FK506 binding protein 1B (including FK506)

PDB DOI: https://doi.org/10.2210/pdb8Z38/pdb

Classification: PROTEIN BINDING
Organism(s): Pyricularia oryzae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-04-14 Released: 2024-07-03
Deposition Author(s): Liu, X.H., Zhao, W.H.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.17 Å
R-Value Free:
0.259 (Depositor), 0.260 (DCC)
R-Value Work:
0.198 (Depositor), 0.200 (DCC)
R-Value Observed:
0.201 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

High-resolution cocrystallized crystal structures of FK506 and FK506-binding proteins

Liu, X.H., Zhao, W.H.

To be published.

Macromolecule Content

Total Structure Weight: 24.1 kDa
Atom Count: 1,765
Modeled Residue Count: 225
Deposited Residue Count: 226
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
peptidylprolyl isomerase	A, B	113	Pyricularia oryzae	Mutation(s): 0 Gene Names: PoMZ_03707 EC: 5.2.1.8
UniProt
Find proteins for A0A4P7N8E2 (Pyricularia oryzae) Explore A0A4P7N8E2 Go to UniProtKB: A0A4P7N8E2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A4P7N8E2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CPI (Subject of Investigation/LOI) Query on CPI Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	6-CARBOXYPIPERIDINE C₆ H₁₁ N O₂ HXEACLLIILLPRG-RXMQYKEDSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.17 Å
R-Value Free: 0.259 (Depositor), 0.260 (DCC)
R-Value Work: 0.198 (Depositor), 0.200 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.157	α = 90
b = 59.382	β = 90
c = 67.246	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2024-07-03

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	2023YFD1400202-3

Revision History (Full details and data files)

Version 1.0: 2024-07-03
Type: Initial release

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.