1UC2 | pdb_00001uc2

Hypothetical Extein Protein of PH1602 from Pyrococcus horikoshii

• PDB DOI: https://doi.org/10.2210/pdb1UC2/pdb

• Classification: LIGASE
• Organism(s): Pyrococcus horikoshii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-04-08 Released: 2004-05-04 
• Deposition Author(s): Okada, C., Maegawa, Y., Yao, M., Tanaka, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.204 (Depositor) 
• R-Value Work: 
  0.168 (Depositor) 

Literature

Crystal structure of an RtcB homolog protein (PH1602-extein protein) from Pyrococcus horikoshii reveals a novel fold

Okada, C., Maegawa, Y., Yao, M., Tanaka, I.

(2006) Proteins 63: 1119-1122

• PubMed: 16485279 
• DOI: https://doi.org/10.1002/prot.20912
• Primary Citation Related Structures: 
  1UC2

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Organizational Affiliation: 
• Division of Biological Sciences, Graduate School of Science, Hokkaido University, Sapporo, Japan.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 108.71 kDa 
• Atom Count: 8,480 
• Modeled Residue Count: 960 
• Deposited Residue Count: 962 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein PH1602	A, B	481	Pyrococcus horikoshii	Mutation(s): 0  Gene Names: PH1602_extein EC: 6.5.1.8
UniProt
Find proteins for O59245 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59245  Go to UniProtKB:  O59245

Oligosaccharides

Help  

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose	C, D	2		N/A
Glycosylation Resources
GlyTouCan: G05551OP GlyCosmos: G05551OP

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth B], K [auth B], L [auth B], M [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Biologically Interesting Molecules (External Reference) 

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900003	C, D	sucrose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.204 (Depositor) 
• R-Value Work:  0.168 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.251	α = 90
b = 137.586	β = 90
c = 148.5	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
HKL-2000	data collection
SCALA	data scaling
SCALEPACK	data scaling
SOLVE	phasing
RESOLVE	model building
CNS	refinement
HKL-2000	data reduction
CCP4	data scaling
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-05-04 
Deposition Author(s): Okada, C., Maegawa, Y., Yao, M., Tanaka, I.

Revision History  

• Version 1.0: 2004-05-04
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2012-11-14
  Changes: Structure summary
• Version 1.4: 2017-08-23
  Changes: Refinement description, Source and taxonomy
• Version 1.5: 2017-10-04
  Changes: Refinement description
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2023-12-27
  Changes: Data collection, Database references, Structure summary