4BVE

CRYSTAL STRUCTURE OF HUMAN SIRT3 IN COMPLEX WITH THIOALKYLIMIDATE FORMED FROM THIO-ACETYL-LYSINE ACS2-PEPTIDE

Structural Biology Knowledgebase: 4BVE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.162

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4BVE

Classification: HYDROLASE / LIGASE

Total Structure Weight: 33655.37

Macromolecule Entities
Molecule Chains Length Organism Details
NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-3, MITOCHONDRIAL A 284 Homo sapiens EC#: 3.5.1 IUBMB
Fragment: RESIDUES 116-399
Gene Name(s): SIRT3 Gene View SIR2L3
ACETYL-COENZYME A SYNTHETASE 2-LIKE, MITOCHONDRIAL B 10 Homo sapiens EC#: 6.2.1.1 IUBMB
Fragment: RESIDUES 640-645
Gene Name(s): ACSS1 Gene View ACAS2L KIAA1846

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
PEG
Query on PEG

A DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
JSmol
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
FZN
Query on FZN
B L-peptide linking C23 H37 N7 O15 P2 S LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.208
  • R-Value Work: 0.162
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.99 α = 90.00
b = 126.97 β = 90.00
c = 76.49 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-06-25
  • Released Date: 2013-07-17
  • Deposition author(s): Gertz, M., Weyand, M., Steegborn, C.

Revision History

  • 2013-08-07
    Type: Citation | Details: JRNL