8WWW

Crystal structure of the adenylation domain of SyAstC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.196 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Functional Application of the Single-Module NRPS-like d-Alanyltransferase in Maytansinol Biosynthesis

Li, Z.Zhu, Z.Xu, G.Wei, L.Liu, J.Wang, H.Lu, C.Li, Y.Zhu, D.Shen, Y.

(2024) ACS Catal 14: 8062-8072


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Carrier domain-containing protein
A, B
501Streptomyces yokosukanensisMutation(s): 0 
Gene Names: AQI95_26035
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
YG3 (Subject of Investigation/LOI)
Query on YG3

Download Ideal Coordinates CCD File 
C [auth A],
F [auth B]
[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl N-[(2R)-2-azanylpropanoyl]sulfamate
C13 H19 N7 O7 S
CWWYMWDIYBJVLP-ZOBJURTISA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
G [auth B],
H [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

Download Ideal Coordinates CCD File 
L [auth B]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
DMS
Query on DMS

Download Ideal Coordinates CCD File 
D [auth A],
E [auth A],
I [auth B],
J [auth B],
K [auth B]
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.78 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.196 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 189.998α = 90
b = 77.308β = 118.86
c = 102.648γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
HKL-3000data reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2024-06-05
    Type: Initial release