3ZH0

Functional and structural role of the N-terminal extension in Methanosarcina acetivorans protoglobin

Structural Biology Knowledgebase: 3ZH0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.199

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3ZH0

Classification: OXYGEN TRANSPORT

Total Structure Weight: 86861.71

Macromolecule Entities
Molecule Chains Length Organism Details
PROTOGLOBIN A, B, C, D 176 Methanosarcina acetivorans Fragment: RESIDUES 21-195
Mutation: C101S
Details: TRUNCATED FORM (WITHOUT THE FIRST 20 N-TERMINAL RESIDUES)
Gene Name(s): MA_2883

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

A, B, C, D PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FMT
Query on FMT

A, B, C, D FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.199
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.67 α = 90.00
b = 48.62 β = 92.61
c = 92.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-19
  • Released Date: 2013-03-27
  • Deposition author(s): Ciaccio, C., Pesce, A., Tundo, G.R., Tilleman, L., Dewilde, S., Moens, L., Ascenzi, P., Bolognesi, M., Nardini, M., Coletta, M.

Revision History

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