1GO6

Balhimycin in complex with Lys-D-ala-D-ala

Structural Biology Knowledgebase: 1GO6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.98 Å
  • R-Value Observed: 0.129

Literature

Macromolecules
Sequence Display for 1GO6

Classification: ANTIBIOTIC / PEPTIDE

Total Structure Weight: 14413.17

Macromolecule Entities
Molecule Chains Length Organism Details
BALHIMYCIN A, C, E..., G, I, K, M, OA, C, E, G, I, K, M, O 7 Amycolatopsis sp.
PEPTIDE LYS-DAL-DAL B, D, F, H 3 synthetic

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CIT
Query on CIT

E, I, K, M, O CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BGC
Query on BGC

A, C, E, G, I, K, M, O BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DVC
Query on DVC

A, C, E, G, I, K, M, O (2R,4S,6S)-4-azanyl-4,6-dimethyl-oxane-2,5,5- triol
C7 H15 N O4
ATGUYZRYRGIDLC-JKUQZMGJSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

K (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

I (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000484
Query on PRD_000484
A, C, E, G, I, K, M, O Balhimycin Glycopeptide /
Antibiotic, Antimicrobial
Ligand Explorer
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
DAL
Query on DAL
B, D, F, H D-PEPTIDE LINKING C3 H7 N O2 --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 0.98 Å
  • R-Value Observed: 0.129
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 88.93 α = 90.00
b = 28.02 β = 90.00
c = 50.71 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-10-19
  • Released Date: 2002-06-13
  • Deposition author(s): Lehmann, C., Bunkoczi, G., Vertesy, L., Sheldrick, G.M.

Revision History

  • 2013-03-20
    Type: Biological assembly | Details: REMARK 350
  • 2013-02-27
    Type: Biological assembly | Details: REMARK 350
  • 2012-11-30
    Type: Other | Details: Add PRD info
  • 2012-07-25
    Type: Atom occupancy | Details: Restore author's atom occupancy
  • 2012-07-25
    Type: Non-polymer description | Details: HETNAM
  • 2012-07-25
    Type: Other | Details: ANISOU
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Linkage | Details: Linkage