NMR Ensemble

1E08

STRUCTURAL MODEL OF THE [FE]-HYDROGENASE/CYTOCHROME C553 COMPLEX COMBINING NMR AND SOFT-DOCKING

Structural Biology Knowledgebase: 1E08 SBKB.org


Experimental Data Snapshot

  • Method: SOLUTION NMR, THEORETICAL MODEL
  • Conformers Calculated: 1000
  • Conformers Submitted: 1
  • Selection Criteria: Least Shift Variation Violation

wwPDB Validation report is not available for this NMR entry.


Literature

Macromolecules
Sequence Display for 1E08

Classification: HYDROGENASE

Total Structure Weight: 60633.46

Macromolecule Entities
Molecule Chains Length Organism Details
[FE]-HYDROGENASE (LARGE SUBUNIT) A 371 Desulfovibrio desulfuricans EC#: 1.12.7.2 IUBMB
Gene Name(s): hydA DVU_1769
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
[FE]-HYDROGENASE (SMALL SUBUNIT) D 88 Desulfovibrio desulfuricans EC#: 1.12.7.2 IUBMB
Gene Name(s): hydB DVU_1770
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CYTOCHROME C553 E 78 Desulfovibrio vulgaris Gene Name(s): cyf DVU_1817
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEM
Query on HEM

E PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PDT
Query on PDT

A 1,3-PROPANEDITHIOL
C3 H8 S2
ZJLMKPKYJBQJNH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE2
Query on FE2

A FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

A CARBON MONOXIDE
C O
UGFAIRIUMAVXCW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CYN
Query on CYN

A CYANIDE ION
C N
XFXPMWWXUTWYJX-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR, THEORETICAL MODEL
  • Conformers Calculated: 1000
  • Conformers Submitted: 1
  • Selection Criteria: LEAST SHIFT VARIATION VIOLATION

Structure Validation

Validation report is not available for this NMR entry.



Entry History

Deposition Data

  • Deposited Date: 2000-03-13
  • Released Date: 2000-08-25
  • Deposition author(s): Morelli, X., Czjzek, M., Hatchikian, C.E., Bornet, O., Fontecilla-Camps, J.C., Palma, N.P., Moura, J.J.G., Guerlesquin, F.

Revision History

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