OCA Atlas for 1U5T

1U5T

Transport Protein

date

Jul 28, 2004

title

Structure Of The Escrt-II Endosomal Trafficking Complex

authors

A.Hierro, J.Sun, A.S.Rusnak, J.Kim, G.Prag, S.D.Emr, J.H.Hurley

compound

source

Molecule: Appears To Be Functionally Related To Snf7; Snf8p
Chain: A
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pst39

Molecule: Defective In Vacuolar Protein Sorting; Vps36p
Chain: B
Engineered: Yes

Molecule: Hypothetical 23.6 Kda Protein In Yuh1-Ura8 Interg Region;
Chain: C, D
Engineered: Yes

symmetry

Space Group: P 43 2 2

R_factor

0.226

R_Free

0.289

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
150.040	150.040	185.760	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

3.60 Å

Gene
Ontology

Chain	Function	Process	Component
A			ESCRT II complex
B
D, C			ESCRT II complex

Primary reference

Structure of the ESCRT-II endosomal trafficking complex., Hierro A, Sun J, Rusnak AS, Kim J, Prag G, Emr SD, Hurley JH, Nature 2004 Sep 9;431(7005):221-5. Epub 2004 Aug 25. PMID:15329733

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (128 Kb) [Save to disk]

Biological Unit Coordinates (1u5t.pdb1.gz) 122 Kb

CSU: Contacts of Structural Units for 1U5T

Likely Quarternary Molecular Structure file(s) for 1U5T

Structure Factors (712 Kb)

Retrieve 1U5T in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1U5T from S2C, [Save to disk]

Re-refined 1u5t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1U5T in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1U5T

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 1U5T, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1u5ta2, region A:165-232 [Jmol] [rasmolscript] [script source]
- Domain d1u5ta1, region A:20-164 [Jmol] [rasmolscript] [script source]
- Domain d1u5tb1, region B:396-489 [Jmol] [rasmolscript] [script source]
- Domain d1u5tb2, region B:490-564 [Jmol] [rasmolscript] [script source]
- Domain d1u5tc2, region C:126-199 [Jmol] [rasmolscript] [script source]
- Domain d1u5tc1, region C:2-125 [Jmol] [rasmolscript] [script source]
- Domain d1u5td2, region D:126-199 [Jmol] [rasmolscript] [script source]
- Domain d1u5td1, region D:2-125 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1u5t_A] [1u5t_C] [1u5t] [1u5t_D] [1u5t_B]

SWISS-PROT database: [Q12483] [P47142] [Q06696]

Domain organization of [SNF8_YEAST] [VPS25_YEAST] [VPS36_YEAST] by SWISSPFAM

Other resources with information on 1U5T

Community annotation for 1U5T at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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