1WA5 | pdb_00001wa5

Structure of the Cse1:Imp-alpha:RanGTP complex

PDB DOI: https://doi.org/10.2210/pdb1WA5/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Canis lupus familiaris, Saccharomyces cerevisiae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-10-23 Released: 2004-12-13
Deposition Author(s): Stewart, M.
Funding Organization(s): Human Frontier Science Program (HFSP)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.216 (Depositor), 0.218 (DCC)
R-Value Work:
0.188 (Depositor), 0.190 (DCC)
R-Value Observed:
0.190 (Depositor)

Starting Models: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 2.1 of the entry. See complete history.

Literature

Structural basis for the assembly of a nuclear export complex.

Matsuura, Y., Stewart, M.

(2004) Nature 432: 872-877

DOI: https://doi.org/10.1038/NATURE03144

Macromolecule Content

Total Structure Weight: 189.28 kDa
Atom Count: 13,522
Modeled Residue Count: 1,586
Deposited Residue Count: 1,666
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GTP-binding nuclear protein Ran	A	176	Canis lupus familiaris	Mutation(s): 0 Gene Names: RAN EC: 3.6.5
UniProt
Find proteins for P62825 (Canis lupus familiaris) Explore P62825 Go to UniProtKB: P62825
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P62825
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
SRP1 isoform 1	B	530	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: SRP1, GI526_G0004888
UniProt
Find proteins for Q02821 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q02821 Go to UniProtKB: Q02821
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q02821
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Importin alpha re-exporter	C	960	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: CSE1, YGL238W, HRC135
UniProt
Find proteins for P33307 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P33307 Go to UniProtKB: P33307
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P33307
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GTP Query on GTP Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	GUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₄ P₃ XKMLYUALXHKNFT-UUOKFMHZSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.216 (Depositor), 0.218 (DCC)
R-Value Work: 0.188 (Depositor), 0.190 (DCC)
R-Value Observed: 0.190 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 272.672	α = 90
b = 72.261	β = 92.57
c = 97.64	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
SCALA	data scaling
CNS	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2004-12-13

Deposition Author(s):

Stewart, M.

Funding Organization	Location	Grant Number
Human Frontier Science Program (HFSP)		--

Revision History (Full details and data files)

Version 1.0: 2004-12-13
Type: Initial release
Version 1.1: 2011-05-08
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 2.0: 2020-11-04
Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Experimental preparation, Other, Polymer sequence, Refinement description, Source and taxonomy, Structure summary, Version format compliance
Version 2.1: 2023-12-13
Changes: Data collection, Database references, Refinement description