1VLG | pdb_00001vlg

Crystal structure of Ferritin (TM1128) from Thermotoga maritima at 2.00 A resolution

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 
    0.218 (Depositor), 0.225 (DCC) 
  • R-Value Work: 
    0.178 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 
    0.180 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 1VLG

This is version 1.6 of the entry. See complete history. 

Literature

Crystal structure of Ferritin (TM1128) from Thermotoga maritima at 2.00 A resolution

Joint Center for Structural Genomics (JCSG)

To be published.

Macromolecule Content 

  • Total Structure Weight: 169.53 kDa 
  • Atom Count: 11,751 
  • Modeled Residue Count: 1,312 
  • Deposited Residue Count: 1,408 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
ferritin
A, B, C, D, E
A, B, C, D, E, F, G, H
176Thermotoga maritima MSB8Mutation(s): 0 
Gene Names: TM1128
EC: 1.16.3.2
UniProt
Find proteins for Q9X0L2 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8))
Explore Q9X0L2 
Go to UniProtKB:  Q9X0L2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9X0L2
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4

Query on SO4


Download:Ideal Coordinates CCD File
AA [auth E]
BA [auth E]
FA [auth F]
J [auth A]
K [auth A]
AA [auth E],
BA [auth E],
FA [auth F],
J [auth A],
K [auth A],
L [auth A],
LA [auth H],
M [auth A],
O [auth B],
P [auth B],
Q [auth B],
U [auth C],
X [auth D],
Y [auth D]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL

Query on GOL


Download:Ideal Coordinates CCD File
CA [auth E]
DA [auth E]
GA [auth F]
HA [auth F]
JA [auth G]
CA [auth E],
DA [auth E],
GA [auth F],
HA [auth F],
JA [auth G],
MA [auth H],
R [auth B],
S [auth B],
V [auth C]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
FE

Query on FE


Download:Ideal Coordinates CCD File
EA [auth F]
I [auth A]
IA [auth G]
KA [auth H]
N [auth B]
EA [auth F],
I [auth A],
IA [auth G],
KA [auth H],
N [auth B],
T [auth C],
W [auth D],
Z [auth E]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free:  0.218 (Depositor), 0.225 (DCC) 
  • R-Value Work:  0.178 (Depositor), 0.190 (DCC) 
  • R-Value Observed: 0.180 (Depositor) 
Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 175.634α = 90
b = 175.634β = 90
c = 354.843γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
SCALAdata scaling
CNSrefinement
MOLREPphasing
MOSFLMdata reduction
CCP4data scaling
CNSphasing

Structure Validation

View Full Validation Report



View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-08-17
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Derived calculations, Refinement description, Source and taxonomy, Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Data collection
  • Version 1.4: 2019-07-24
    Changes: Data collection, Refinement description
  • Version 1.5: 2023-01-25
    Changes: Database references, Derived calculations
  • Version 1.6: 2023-09-20
    Changes: Data collection, Refinement description