34FS | pdb_000034fs

Pseudo-merohedral twinning crystal form of putative amidase

PDB DOI: https://doi.org/10.2210/pdb34FS/pdb

Classification: HYDROLASE
Organism(s): Sphingomonas spermidinifaciens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2026-09-12 Released: 2026-11-04
Deposition Author(s): Bicer, D., Morth, J.P.
Funding Organization(s): Novo Nordisk Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.250 (Depositor), 0.227 (DCC)
R-Value Work:
0.222 (Depositor), 0.212 (DCC)
R-Value Observed:
0.225 (Depositor)

Starting Model: in silico
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 34FS

This is version 1.0 of the entry. See complete history.

Literature

Fragment-based active-site exploration of urethane hydrolases reveals a diversity of urethane binding modes

Bicer, D., Kochubei, D., Graham, R., Pena-Diaz, S., Rotilio, L., Villadsen, N.L., Sommerfeldt, A., Johansen, M.B., Sandahl, A., Thirup, S.S., Morth, J.P., Otzen, D.E.

(2026) Acta Crystallogr D Biol Crystallogr

DOI: https://doi.org/10.1107/S2059798326010624

Macromolecule Content

Total Structure Weight: 362.84 kDa
Atom Count: 26,857
Modeled Residue Count: 3,384
Deposited Residue Count: 3,464
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amidase	A, B, C, D, E A, B, C, D, E, F, G, H	433	Sphingomonas spermidinifaciens	Mutation(s): 0 Gene Names: COC42_04005
UniProt
Find proteins for A0A2A4B7C5 (Sphingomonas spermidinifaciens) Explore A0A2A4B7C5 Go to UniProtKB: A0A2A4B7C5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A2A4B7C5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.250 (Depositor), 0.227 (DCC)
R-Value Work: 0.222 (Depositor), 0.212 (DCC)
R-Value Observed: 0.225 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.43	α = 90
b = 193.25	β = 90
c = 436.77	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-04

Deposition Author(s):

Funding Organization	Location	Grant Number
Novo Nordisk Foundation	Denmark	NNF22OC0072891

Revision History (Full details and data files)

Version 1.0: 2026-11-04
Type: Initial release