4I9N

Crystal structure of rabbit LDHA in complex with AP28161 and AP28122

Structural Biology Knowledgebase: 4I9N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.220

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4I9N

Classification: OXIDOREDUCTASE / OXIDOREDUCTASE INHIBITOR

Total Structure Weight: 297726.38

Macromolecule Entities
Molecule Chains Length Organism Details
L-lactate dehydrogenase A chain A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 331 Oryctolagus cuniculus EC#: 1.1.1.27 IUBMB
Gene Name(s): LDHA Gene View

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1E6
Query on 1E6

A, B, C, D, E, F, G, H 6-({2-[(5-chloro-4-{[(2S)-2,3-dihydroxypropyl]oxy}- 2-methoxyphenyl)amino]-2-oxoethyl}sulfanyl)pyridine- 3-carboxylic acid
C18 H19 Cl N2 O7 S
JUOFKXYNMCCWAA-NSHDSACASA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1E5
Query on 1E5

A, B, C, D, E, F, G, H 6-[3-(carboxymethoxy)-5-fluorophenyl]pyridine- 3-carboxylic acid
C14 H10 F N O5
JGGHMGTXTAKFQV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1E6 N/A in BindingDB
Kd: 360000 nM  BindingMOAD
N/A in PDBbind
1E5 IC50: 2200000 nM (93) BindingDB
Kd: 1300000 nM (93) BindingDB

Kd: 1300000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.220
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 84.04 α = 90.00
b = 139.82 β = 94.57
c = 138.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-05
  • Released Date: 2013-01-23
  • Deposition author(s): Zhou, T., Kohlmann, A., Stephan, Z.G., Li, F., Commodore, L., Greenfield, M.T., Shakespeare, W.C., Zhu, X., Dalgarno, D.C.

Revision History

  • 2013-02-27
    Type: Citation | Details: Citation update