1SA1

Tubulin-podophyllotoxin: stathmin-like domain complex

Structural Biology Knowledgebase: 1SA1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.2 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1SA1

Classification: CELL CYCLE

Total Structure Weight: 219667.30

Macromolecule Entities
Molecule Chains Length Organism Details
Tubulin alpha chain A, C 451 Bos taurus Mutation: A265I
Gene Name(s): TUBA1D
Tubulin beta chain B, D 445 Bos taurus Gene Name(s): TUBB2B Gene View
Stathmin 4 E 142 Rattus norvegicus Gene Name(s): Stmn4

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GDP
Query on GDP

B, D GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
JSmol
GTP
Query on GTP

A, C GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A, C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
POD
Query on POD

B, D 9-HYDROXY-5-(3,4,5-TRIMETHOXYPHENYL)-5,8,8A,9- TETRAHYDROFURO[3',4':6,7]NAPHTHO[2,3-D][1,3]DIOXOL- 6(5AH)-ONE
PODOPHYLLOTOXIN (Synonym)
C22 H22 O8
YJGVMLPVUAXIQN-XVVDYKMHSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
POD IC50: 460 - 1400 nM (98 - 99) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.2 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.204
  • Space Group: P 65

Unit Cell:

Length (Å) Angle (°)
a = 328.06 α = 90.00
b = 328.06 β = 90.00
c = 54.30 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-02-06
  • Released Date: 2004-03-23
  • Deposition author(s): Ravelli, R.B., Gigant, B., Curmi, P.A., Jourdain, I., Lachkar, S., Sobel, A., Knossow, M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4