3BFX | pdb_00003bfx

Crystal structure of human sulfotransferase SULT1C1 in complex with PAP

PDB DOI: https://doi.org/10.2210/pdb3BFX/pdb
Entry: 3BFX supersedes: 2ETG

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2007-11-23 Released: 2007-12-04
Deposition Author(s): Dong, A., Dombrovski, L., Loppnau, P., Edwards, A.M., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., Bochkarev, A., Plotnikov, A.N., Structural Genomics Consortium (SGC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.227 (Depositor), 0.173 (DCC)
R-Value Work:
0.183 (Depositor), 0.183 (DCC)
R-Value Observed:
0.184 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structures of Human Sulfotransferases Sult1B1 and Sult1C1 Complexed with the Cofactor Product Adenosine-3'-5'-Diphosphate (Pap).

Dombrovski, L., Dong, A., Bochkarev, A., Plotnikov, A.N.

(2006) Proteins 64: 1091-1094

PubMed: 16804942 Search on PubMed
DOI: https://doi.org/10.1002/prot.21048
Primary Citation Related Structures:
2Z5F, 3BFX

Organizational Affiliation

Structural Genomics Consortium, University of Toronto, Toronto, Ontario, Canada.

Macromolecule Content

Total Structure Weight: 70.56 kDa
Atom Count: 4,791
Modeled Residue Count: 501
Deposited Residue Count: 592
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sulfotransferase 1C2	A, B	296	Homo sapiens	Mutation(s): 1 Gene Names: SULT1C2, SULT1C1 EC: 2.8.2 (PDB Primary Data), 2.8.2.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for O00338 (Homo sapiens) Explore O00338 Go to UniProtKB: O00338
PHAROS: O00338 GTEx: ENSG00000198203
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O00338
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A3P Query on A3P Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A]	ADENOSINE-3'-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ WHTCPDAXWFLDIH-KQYNXXCUSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain C [auth A] Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.227 (Depositor), 0.173 (DCC)
R-Value Work: 0.183 (Depositor), 0.183 (DCC)
R-Value Observed: 0.184 (Depositor)

Space Group: P 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.824	α = 90
b = 40.536	β = 91.83
c = 154.612	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
REFMAC	refinement
Coot	model building
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2007-12-04

Deposition Author(s):

Arrowsmith, C.H.

Plotnikov, A.N.

Structural Genomics Consortium (SGC)

This entry supersedes: 2ETG

Revision History (Full details and data files)

Version 1.0: 2007-12-04
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2021-10-20
Changes: Database references, Derived calculations
Version 1.3: 2023-08-30
Changes: Data collection, 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.