8B7P | pdb_00008b7p

Crystal structure of an AA9 LPMO from Aspergillus nidulans, AnLPMOC

PDB DOI: https://doi.org/10.2210/pdb8B7P/pdb

Classification: OXIDOREDUCTASE
Organism(s): Aspergillus nidulans FGSC A4
Expression System: Aspergillus nidulans
Mutation(s): No

Deposited: 2022-09-30 Released: 2023-10-11
Deposition Author(s): Males, A., Rafael Fanchini Terrasan, C., Davies, G.J., Walton, P.H.
Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.11 Å
R-Value Free:
0.273 (Depositor), 0.276 (DCC)
R-Value Work:
0.213 (Depositor), 0.216 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 8B7P

This is version 1.2 of the entry. See complete history.

Literature

Characterisation of lytic polysaccharide monooxygenases from Aspergillus nidulans

Rafael Fanchini Terrasan, C., Males, A., Figueiredo, F.L., Gerhardt, J.A., Rubio, M.V., Franco Cairo, J.P., Lindley, P., Steward, M., Lima Valadares, F., Correa, T.L.R., Davies, G.J., Damasio, A., Walton, P.H.

To be published.

Macromolecule Content

Total Structure Weight: 91.17 kDa
Atom Count: 6,632
Modeled Residue Count: 852
Deposited Residue Count: 852
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endo-beta-1,4-glucanase D	A [auth AAA], B [auth BBB], C [auth CCC], D [auth DDD]	213	Aspergillus nidulans FGSC A4	Mutation(s): 0 Gene Names: ANIA_06428 EC: 3.2.1.4 (PDB Primary Data), 1.14.99.56 (UniProt)
UniProt
Find proteins for Q5AZ52 (Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139)) Explore Q5AZ52 Go to UniProtKB: Q5AZ52
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5AZ52
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A [auth AAA] Focus chain B [auth BBB] Focus chain C [auth CCC] Focus chain D [auth DDD]
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download:Ideal Coordinates CCD File SDF format, chain E [auth AAA] SDF format, chain G [auth BBB] SDF format, chain I [auth CCC] SDF format, chain L [auth DDD] MOL2 format, chain E [auth AAA] MOL2 format, chain G [auth BBB] MOL2 format, chain I [auth CCC] MOL2 format, chain L [auth DDD] mmCIF format, chain E [auth AAA] mmCIF format, chain G [auth BBB] mmCIF format, chain I [auth CCC] mmCIF format, chain L [auth DDD]	E [auth AAA], G [auth BBB], I [auth CCC], L [auth DDD]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain E [auth AAA] Focus chain G [auth BBB] Focus chain I [auth CCC] Focus chain L [auth DDD] Interactions & Density Focus chain E [auth AAA] Focus chain G [auth BBB] Focus chain I [auth CCC] Focus chain L [auth DDD]
CU (Subject of Investigation/LOI) Query on CU Download:Ideal Coordinates CCD File SDF format, chain F [auth AAA] SDF format, chain H [auth BBB] SDF format, chain J [auth CCC] SDF format, chain K [auth CCC] SDF format, chain M [auth DDD] SDF format, chain N [auth DDD] MOL2 format, chain F [auth AAA] MOL2 format, chain H [auth BBB] MOL2 format, chain J [auth CCC] MOL2 format, chain K [auth CCC] MOL2 format, chain M [auth DDD] MOL2 format, chain N [auth DDD] mmCIF format, chain F [auth AAA] mmCIF format, chain H [auth BBB] mmCIF format, chain J [auth CCC] mmCIF format, chain K [auth CCC] mmCIF format, chain M [auth DDD] mmCIF format, chain N [auth DDD]	F [auth AAA] H [auth BBB] J [auth CCC] K [auth CCC] M [auth DDD] F [auth AAA], H [auth BBB], J [auth CCC], K [auth CCC], M [auth DDD], N [auth DDD]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N		Interactions Focus chain F [auth AAA] Focus chain H [auth BBB] Focus chain J [auth CCC] Focus chain K [auth CCC] Focus chain M [auth DDD] Focus chain N [auth DDD] Interactions & Density Focus chain F [auth AAA] Focus chain H [auth BBB] Focus chain J [auth CCC] Focus chain K [auth CCC] Focus chain M [auth DDD] Focus chain N [auth DDD]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HIC Query on HIC	A [auth AAA], B [auth BBB], C [auth CCC], D [auth DDD]	L-PEPTIDE LINKING	C₇ H₁₁ N₃ O₂		HIS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.11 Å
R-Value Free: 0.273 (Depositor), 0.276 (DCC)
R-Value Work: 0.213 (Depositor), 0.216 (DCC)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.9	α = 86.459
b = 64.378	β = 85.54
c = 76.237	γ = 68.208

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-10-11

Deposition Author(s):

Rafael Fanchini Terrasan, C.

Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/T004819/1

Revision History (Full details and data files)

Version 1.0: 2023-10-11
Type: Initial release
Version 1.1: 2024-05-08
Changes: Source and taxonomy
Version 1.2: 2026-03-04
Changes: Refinement description, 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.