Crystal structure of Diaminopimelate decarboxylase from Brucella melitensis bound to PLP
Edwards, T.E., Gardberg, A.S., Letesson, J.J., Seattle Structural Genomics Center for Infectious Disease (SSGCID)To be published.
Experimental Data Snapshot
Starting Model: experimental
View more details
wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Diaminopimelate decarboxylase 1 | 443 | Brucella melitensis bv. 1 str. 16M | Mutation(s): 0  Gene Names: BMEI0084, lysA1 EC: 4.1.1.20 | ||
UniProt | |||||
Find proteins for Q8YJJ9 (Brucella melitensis biotype 1 (strain ATCC 23456 / CCUG 17765 / NCTC 10094 / 16M)) Explore Q8YJJ9  Go to UniProtKB:  Q8YJJ9 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q8YJJ9 | ||||
Sequence AnnotationsExpand | |||||
|
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
SO4 Query on SO4 | C [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L | |||
EDO Query on EDO | D [auth A], E [auth A], F [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |
Modified Residues 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Type | Formula | 2D Diagram | Parent |
LLP Query on LLP | A, B | L-PEPTIDE LINKING | C14 H22 N3 O7 P | LYS |
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 59.53 | α = 90 |
b = 126.37 | β = 112.71 |
c = 68.18 | γ = 90 |
Software Name | Purpose |
---|---|
XSCALE | data scaling |
PHASER | phasing |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
StructureStudio | data collection |
XDS | data reduction |