9BFG

Structure of the crosslinked PCP-E didomain of tyrocidine synthetase A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.18 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.188 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Crosslinking Reveals the Molecular Details of Intermodular Condensation and Epimerization in Nonribosomal Peptide Biosynthesis

Heberlig, G.W.La Clair, J.J.Burkart, M.D.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tyrocidine synthase 1
A, B
555Brevibacillus parabrevisMutation(s): 1 
Gene Names: tycA
EC: 5.1.1.11
UniProt
Find proteins for P09095 (Brevibacillus parabrevis)
Explore P09095 
Go to UniProtKB:  P09095
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP09095
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
2GH (Subject of Investigation/LOI)
Query on 2GH

Download Ideal Coordinates CCD File 
L [auth A],
V [auth B]
N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-pentyl-beta-alaninamide
C14 H29 N2 O7 P
YNPRWOBMMGRKHD-LBPRGKRZSA-N
MES
Query on MES

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E [auth A],
Q [auth B],
S [auth B]
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
SO4
Query on SO4

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C [auth A]
D [auth A]
F [auth A]
H [auth A]
I [auth A]
C [auth A],
D [auth A],
F [auth A],
H [auth A],
I [auth A],
J [auth A],
K [auth A],
M [auth A],
O [auth B],
P [auth B],
R [auth B],
U [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

Download Ideal Coordinates CCD File 
G [auth A],
N [auth A],
T [auth B],
W [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.18 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.188 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 216.381α = 90
b = 216.381β = 90
c = 59.758γ = 120
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
PHASERphasing
REFMACrefinement

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM095970

Revision History  (Full details and data files)

  • Version 1.0: 2024-10-09
    Type: Initial release