6RS7
X-ray crystal structure of LsAA9B (deglycosylated form)
- PDB DOI: https://doi.org/10.2210/pdb6RS7/pdb
- Classification: UNKNOWN FUNCTION
- Organism(s): Panus similis
- Expression System: Aspergillus oryzae
- Mutation(s): No 
- Deposited: 2019-05-21 Released: 2019-09-11 
- Funding Organization(s): Danish Agency for Science Technology and Innovation, Novo Nordisk Foundation, European Communitys Seventh Framework Programme, European Commission
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.211 
- R-Value Work: 0.152 
- R-Value Observed: 0.155 
This is version 3.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
AA9 | 221 | Panus similis | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 5 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
MAN Query on MAN | C [auth A] | alpha-D-mannopyranose C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N | |||
PGE Query on PGE | M [auth A] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N | |||
MPD Query on MPD | D [auth A] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N | |||
SO4 Query on SO4 | E [auth A], F [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
NO3 Query on NO3 | G [auth A] H [auth A] I [auth A] J [auth A] K [auth A] | NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
SEP Query on SEP | A | L-PEPTIDE LINKING | C3 H8 N O6 P | SER |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.211 
- R-Value Work: 0.152 
- R-Value Observed: 0.155 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 35.08 | α = 90 |
b = 72.99 | β = 90 |
c = 79.06 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
MxCuBE | data collection |
XDS | data reduction |
XSCALE | data scaling |
MOLREP | phasing |
Coot | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-09-11  Deposition Author(s): Frandsen, K.E.H., Tovborg, M., Poulsen, J.C.N., Johansen, K.S., Lo Leggio, L.
Funding Organization | Location | Grant Number |
---|---|---|
Danish Agency for Science Technology and Innovation | Denmark | 12-134922 |
Danish Agency for Science Technology and Innovation | Denmark | 12-134923 |
Novo Nordisk Foundation | Denmark | NNF17SA0027704 |
European Communitys Seventh Framework Programme | Denmark | BioStruct-X (grant agreement N283570) |
European Commission | Denmark | CF16-0673 - The Carlsberg Foundation |
European Commission | Denmark | CF17-0533 - The Carlsberg Foundation |
European Commission | France | AgreenSkills+ (Marie-Curie FP7 COFUND People Programme under grant agreement 609398) |
Revision History (Full details and data files)
- Version 1.0: 2019-09-11
Type: Initial release - Version 1.1: 2019-11-20
Changes: Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 3.0: 2021-11-10
Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary - Version 3.1: 2024-01-24
Changes: Data collection, Refinement description