1FVP

FLAVOPROTEIN 390


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Work: 0.240 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of flavoprotein FP390 from a luminescent bacterium Photobacterium phosphoreum refined at 2.7 A resolution.

Kita, A.Kasai, S.Miyata, M.Miki, K.

(1996) Acta Crystallogr.,Sect.D 52: 77-86

  • DOI: 10.1107/S0907444995009796

  • PubMed Abstract: 
  • The three-dimensional structure of a flavoprotein, FP(390), from a luminescent bacterium, Photobacterium phosphoreum, solved by the molecular-replacement method, was refined to an R factor of 24.0% for 17 433 independent reflections, from 6.0 to 2.7 ...

    The three-dimensional structure of a flavoprotein, FP(390), from a luminescent bacterium, Photobacterium phosphoreum, solved by the molecular-replacement method, was refined to an R factor of 24.0% for 17 433 independent reflections, from 6.0 to 2.7 A resolution, collected by synchrotron radiation. The asymmetric unit of the crystal (space group P4(3)22, a = b = 76.8 and c = 242 A) contains two monomer molecules related by a non-crystallographic twofold axis to form a dimer. There are two Q-flavin [flavin mononucleotide (FMN) with myristic acid] molecules in FP(390) monomer. One of them is located at the interface of dimer which is bound to both monomer and the another is at the molecular surface. The electron density of myristic acids of Q-flavins at the dimer interface in both monomer are weak and unclear, showing the possibility that the Q-flavins bound in this site are not a single species but a mixture of two components, 6-(3"-myristic acid)-FMN and 6-(4"- myristic acid)-FMN.


    Related Citations: 
    • Crystal Structure Determination of a Flavoprotein Fp390 from a Luminescent Bacterium, Photobacterium Phosphoreum
      Kita, A.,Kasai, S.,Miki, K.
      (1995) J.Biochem.(Tokyo) 117: 575


    Organizational Affiliation

    Research Laboratory of Resources Utilization, Tokyo Institute of Technology, Yokohama, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
FLAVOPROTEIN 390
A, B
231Photobacterium phosphoreumMutation(s): 0 
Gene Names: luxF
Find proteins for P12745 (Photobacterium phosphoreum)
Go to UniProtKB:  P12745
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FMA
Query on FMA

Download SDF File 
Download CCD File 
A, B
6-(3-TETRADECANOIC ACID) FLAVINE MONONUCLEOTIDE
C31 H47 N4 O11 P
ZMESPPGIOMLBCU-QPLRPWAESA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Work: 0.240 
  • Space Group: P 43 2 2
Unit Cell:
Length (Å)Angle (°)
a = 76.800α = 90.00
b = 76.800β = 90.00
c = 242.000γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORmodel building
PROLSQrefinement
X-PLORphasing
WEISdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 1995-07-07 
  • Released Date: 1995-10-15 
  • Deposition Author(s): Kita, A., Miki, K.

Revision History 

  • Version 1.0: 1995-10-15
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance