8CFZ

Crystal structure of S-adenosyl-L-homocysteine hydrolase from P. aeruginosa in complex with F2X-Entry library fragment H09


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.170 

Starting Model: experimental
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Ligand Structure Quality Assessment 


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Literature

Crystal structure of S-adenosyl-L-homocysteine hydrolase from P. aeruginosa in complex with fragment F2X-Entry H09

Malecki, P.H.Gawel, M.Stepniewska, M.Brzezinski, K.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Adenosylhomocysteinase472Pseudomonas aeruginosa PAO1Mutation(s): 0 
Gene Names: ahcYsahHPA0432
EC: 3.3.1.1 (PDB Primary Data), 3.13.2.1 (UniProt)
UniProt
Find proteins for Q9I685 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9I685 
Go to UniProtKB:  Q9I685
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9I685
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAD
Query on NAD

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AB [auth J]
EA [auth D]
I [auth A]
MA [auth H]
MB [auth K]
AB [auth J],
EA [auth D],
I [auth A],
MA [auth H],
MB [auth K],
P [auth B],
TA [auth I],
X [auth C]
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
A1H8H (Subject of Investigation/LOI)
Query on A1H8H

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LA [auth D],
LB [auth K],
W [auth C],
ZA [auth I]
1-[2,4-bis(fluoranyl)phenyl]-2-(3,4-dihydro-1,2,4-triazol-2-yl)ethanone
C10 H9 F2 N3 O
UWNAFSDCDMGFTR-UHFFFAOYSA-N
ADE
Query on ADE

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BB [auth J]
FA [auth D]
J [auth A]
NA [auth H]
NB [auth K]
BB [auth J],
FA [auth D],
J [auth A],
NA [auth H],
NB [auth K],
Q [auth B],
UA [auth I],
Y [auth C]
ADENINE
C5 H5 N5
GFFGJBXGBJISGV-UHFFFAOYSA-N
PO4
Query on PO4

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AA [auth C]
BA [auth C]
CA [auth C]
GA [auth D]
GB [auth J]
AA [auth C],
BA [auth C],
CA [auth C],
GA [auth D],
GB [auth J],
HA [auth D],
HB [auth J],
IA [auth D],
IB [auth J],
JA [auth D],
JB [auth J],
K [auth A],
L [auth A],
M [auth A],
N [auth A],
OA [auth H],
OB [auth K],
PA [auth H],
PB [auth K],
QA [auth H],
QB [auth K],
R [auth B],
RA [auth H],
S [auth B],
T [auth B],
U [auth B],
VA [auth I],
WA [auth I],
XA [auth I],
Z [auth C]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
GOL
Query on GOL

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CB [auth J],
DB [auth J],
EB [auth J],
FB [auth J]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
K
Query on K

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DA [auth C]
KA [auth D]
KB [auth J]
O [auth A]
RB [auth K]
DA [auth C],
KA [auth D],
KB [auth J],
O [auth A],
RB [auth K],
SA [auth H],
V [auth B],
YA [auth I]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.192 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.170 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 111.073α = 90
b = 210.799β = 105.835
c = 111.501γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata scaling
XDSdata reduction
REFMACphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Polish National Science CentrePolandSONATA BIS 2018/30/E/NZ1/00729

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-22
    Type: Initial release