OCA Atlas for 1TTT

1TTT

Complex (Elongation Factor Trna)

date

Nov 16, 1995

title

Phe-Trna, Elongation Factor Ef-Tu:Gdpnp Ternary Complex

authors

P.Nissen, M.Kjeldgaard, S.Thirup, G.Polekhina, L.Reshetnikova, B.F.C.Clark, J.Nyborg

compound

source

Molecule: Transfer Ribonucleic Acid (Yeast, Phe)
Chain: D, E, F
Engineered: Yes
Other_details: Ternary Complex With Guanosine-5'-(Beta,Gamm Triphosphate (Gdpnp);

Synthetic: Yes

Molecule: Of Elongation Factor Tu (Ef-Tu)
Chain: A, B, C

Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
Strain: Yt-1
Atcc: 25104

symmetry

Space Group: C 1 2 1

R_factor

0.206

R_Free

0.290

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
206.835	122.354	151.552	90.00	126.30	90.00

method

X-Ray Diffraction

resolution

2.70 Å

ligand

1MA, 2MG, 5MC, 5MU, 7MG, GNP, H2U, M2G, MG, OMC, OMG, PHE, PSU, YYG

enzyme

note

1TTT (Molecule of the Month:pdb81)

related structures

by homologous chain: 1B23, 1TUI

Gene
Ontology

Chain	Function	Process	Component
A, C, B

Primary reference

Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog., Nissen P, Kjeldgaard M, Thirup S, Polekhina G, Reshetnikova L, Clark BF, Nyborg J, Science 1995 Dec 1;270(5241):1464-72. PMID:7491491

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (318 Kb) [Save to disk]

Biological Unit Coordinates (1ttt.pdb1.gz) 106 Kb

Biological Unit Coordinates (1ttt.pdb2.gz) 106 Kb

Biological Unit Coordinates (1ttt.pdb3.gz) 106 Kb

LPC: Ligand-Protein Contacts for 1TTT

CSU: Contacts of Structural Units for 1TTT

Likely Quarternary Molecular Structure file(s) for 1TTT

Retrieve 1TTT in mmCIF format [Save to disk]

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

View 1TTT 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 1TTT

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 1TTT, from MSDmotif at EBI

Structure summary from SCOR (Structural Classification of RNA)

Genome occurence of 1TTT's fold from GeneCensus

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1ttta3, region A:1-212 [Jmol] [rasmolscript] [script source]
- Domain d1ttta1, region A:213-313 [Jmol] [rasmolscript] [script source]
- Domain d1ttta2, region A:314-405 [Jmol] [rasmolscript] [script source]
- Domain d1tttb3, region B:1-212 [Jmol] [rasmolscript] [script source]
- Domain d1tttb1, region B:213-312 [Jmol] [rasmolscript] [script source]
- Domain d1tttb2, region B:313-405 [Jmol] [rasmolscript] [script source]
- Domain d1tttc3, region C:1-212 [Jmol] [rasmolscript] [script source]
- Domain d1tttc1, region C:213-312 [Jmol] [rasmolscript] [script source]
- Domain d1tttc2, region C:313-405 [Jmol] [rasmolscript] [script source]

Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH

Summaries and structural analyses of PDB data files from PDBSum

Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ttt_B] [1ttt_D] [1ttt_E] [1ttt_C] [1ttt_A] [1ttt] [1ttt_F]

SWISS-PROT database: [Q01698]

Domain organization of [EFTU_THEAQ] by SWISSPFAM

Other resources with information on 1TTT

Community annotation for 1TTT 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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