5MZ9

Structure of P110 from Mycoplasma genitalium complexed with 3'-SL and potassium ion


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.189 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Mycoplasma genitalium adhesin P110 binds sialic-acid human receptors.

Aparicio, D.Torres-Puig, S.Ratera, M.Querol, E.Pinol, J.Pich, O.Q.Fita, I.

(2018) Nat Commun 9: 4471-4471


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mgp-operon protein 3
A
922Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)Mutation(s): 0 
Find proteins for P22747 (Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195))
Go to UniProtKB:  P22747
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K
Query on K

Download SDF File 
Download CCD File 
A
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
PO4
Query on PO4

Download SDF File 
Download CCD File 
A
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
SLT
Query on SLT

Download SDF File 
Download CCD File 
A
5-(ACETYLAMINO)-3,5-DIDEOXYNON-2-ULOPYRANONOSYL-(2->3)-BETA-D-LYXO-HEXOPYRANOSYL-(1->4)HEXOPYRANOSE
LACTOSE SIALIC ACID; ALPHA(2,3) SIALYL LACTOSE
C23 H39 N O19
CILYIEBUXJIHCO-LPTWSRJFSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.189 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 110.026α = 90.00
b = 151.569β = 90.00
c = 176.548γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
xia2data scaling
PHASERphasing
xia2data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2017-01-31 
  • Released Date: 2018-08-15 
  • Deposition Author(s): Aparicio, D., Fita, I.

Revision History 

  • Version 1.0: 2018-08-15
    Type: Initial release
  • Version 1.1: 2018-10-17
    Type: Data collection, Database references, Structure summary
  • Version 1.2: 2018-10-24
    Type: Advisory, Data collection, Derived calculations, Structure summary
  • Version 1.3: 2018-11-07
    Type: Data collection, Database references