4I4T

Crystal structure of tubulin-RB3-TTL-Zampanolide complex

Structural Biology Knowledgebase: 4I4T SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.171

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4I4T

Classification: CELL CYCLE

Total Structure Weight: 265605.60

Macromolecule Entities
Molecule Chains Length Organism Details
Tubulin alpha-1B chain A, C 450 Bos taurus
Tubulin beta-2B chain B, D 445 Bos taurus Gene Name(s): TUBB2B Gene View
Stathmin-4 E 143 Rattus norvegicus Gene Name(s): Stmn4
Tubulin Tyrosine ligase, TTL F 384 Gallus gallus

Small Molecules
Ligands 10 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ACP
Query on ACP

F PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE (Synonym)
C11 H18 N5 O12 P3
UFZTZBNSLXELAL-IOSLPCCCSA-N
Ligand Explorer
 
JSmol
CA
Query on CA

A, B, C CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
CL
Query on CL

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

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

A, B, F GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
GTP
Query on GTP

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

B 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

A, B, C, D, F MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
TYR
Query on TYR

B TYROSINE
C9 H11 N O3
OUYCCCASQSFEME-QMMMGPOBSA-N
Ligand Explorer
 
JSmol
ZPN
Query on ZPN

D (2Z,4E)-N-[(S)-[(1S,2E,5S,8E,10Z,17S)-3,11- dimethyl-19-methylidene-7,13-dioxo-6,21-dioxabicyclo[15.3.1]henicosa- 2,8,10-trien-5-yl](hydroxy)methyl]hexa-2,4- dienamide
(-)-ZAMPANOLIDE (Bound form) (Synonym)
C29 H39 N O6
KNEMNZWQWFRUIB-KZVIXHMTSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.204
  • R-Value Work: 0.171
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 104.77 α = 90.00
b = 158.64 β = 90.00
c = 179.24 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-28
  • Released Date: 2013-01-23
  • Deposition author(s): Prota, A.E., Steinmetz, M.O.

Revision History

  • 2013-02-20
    Type: Citation | Details: Citation update
  • 2013-02-13
    Type: Citation | Details: Citation update