1MJF | pdb_00001mjf

PUTATIVE SPERMIDINE SYNTHETASE FROM PYROCOCCUS FURIOSUS PFU-132382

PDB DOI: https://doi.org/10.2210/pdb1MJF/pdb

Classification: TRANSFERASE
Organism(s): Pyrococcus furiosus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2002-08-27 Released: 2002-09-18
Deposition Author(s): Southeast Collaboratory for Structural Genomics (SECSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.242 (Depositor), 0.253 (DCC)
R-Value Work:
0.205 (Depositor), 0.214 (DCC)
R-Value Observed:
0.207 (Depositor)

Starting Model: experimental
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This is version 1.5 of the entry. See complete history.

Literature

PUTATIVE SPERMIDINE SYNTHETASE FROM PYROCOCCUS FURIOSUS PFU-132382

Southeast Collaboratory for Structural Genomics

To be published.

Macromolecule Content

Total Structure Weight: 64.75 kDa
Atom Count: 4,527
Modeled Residue Count: 540
Deposited Residue Count: 562
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
spermidine synthase	A, B	281	Pyrococcus furiosus	Mutation(s): 0 EC: 2.5.1.16 (PDB Primary Data), 2.5.1 (UniProt), 2.5.1.23 (UniProt), 2.5.1.104 (UniProt)
UniProt
Find proteins for Q8U4G1 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U4G1 Go to UniProtKB: Q8U4G1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8U4G1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.242 (Depositor), 0.253 (DCC)
R-Value Work: 0.205 (Depositor), 0.214 (DCC)
R-Value Observed: 0.207 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.639	α = 90
b = 110.821	β = 90
c = 49.256	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
EPMR	phasing
REFMAC	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2002-09-18

Deposition Author(s):

Southeast Collaboratory for Structural Genomics (SECSG)

Revision History (Full details and data files)

Version 1.0: 2002-09-18
Type: Initial release
Version 1.1: 2008-04-28
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2017-10-11
Changes: Refinement description
Version 1.4: 2018-01-24
Changes: Database references
Version 1.5: 2024-02-14
Changes: Data collection, Database references, Refinement description

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.