OCA Atlas for 1AIS

1AIS

Transcription Dna

date

Apr 24, 1997

title

Tata-Binding Proteintranscription Factor (II)Btata-Box Complex From Pyrococcus Woesei

authors

P.F.Kosa, G.Ghosh, B.S.Dedecker, P.B.Sigler

compound

source

Molecule: Dna (5'-D(Apapcptptpapcptptptp(5iu) P(5iu)Papapapgpc)-3');
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Gpcptptptpapapapapapgptpapapgptpt )-3');
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Protein (Tata-Binding Protein)
Chain: A
Fragment: Residues 1 - 181
Synonym: Tbp
Engineered: Yes

Organism_scientific: Pyrococcus Woesei
Organism_taxid: 2262
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21
Expression_system_variant: De3
Expression_system_plasmid: Pet11a

Molecule: Protein (Transcription Initiation Factor Iib)
Chain: B
Fragment: C Terminal Domain
Synonym: Tfb Tfiib
Engineered: Yes

symmetry

Space Group: C 1 2 1

R_factor

0.212

R_Free

0.268

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
125.700	91.200	74.200	90.00	122.70	90.00

method

X-Ray Diffraction

resolution

2.10 Å

ligand

5IU

enzyme

related structures

by homologous chain: 1D3U, 1PCZ

Gene
Ontology

Chain	Function	Process	Component
A
B

Primary reference

The 2.1-A crystal structure of an archaeal preinitiation complex: TATA-box-binding protein/transcription factor (II)B core/TATA-box., Kosa PF, Ghosh G, DeDecker BS, Sigler PB, Proc Natl Acad Sci U S A 1997 Jun 10;94(12):6042-7. PMID:9177165

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]

Biological Unit Coordinates (1ais.pdb1.gz) 80 Kb

LPC: Ligand-Protein Contacts for 1AIS

CSU: Contacts of Structural Units for 1AIS

Likely Quarternary Molecular Structure file(s) for 1AIS

Structure Factors (327 Kb)

Retrieve 1AIS in mmCIF format [Save to disk]

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

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

View 1AIS 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 1AIS

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 1AIS, from MSDmotif at EBI

Genome occurence of 1AIS's fold from GeneCensus

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1aisa1, region A:1-92 [Jmol] [rasmolscript] [script source]
- Domain d1aisa2, region A:93-181 [Jmol] [rasmolscript] [script source]
- Domain d1aisb1, region B:1108-1205 [Jmol] [rasmolscript] [script source]
- Domain d1aisb2, region B:1206-1300 [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: [1ais_E] [1ais_A] [1ais_C] [1ais] [1ais_B]

SWISS-PROT database: [P62001] [P61999]

Domain organization of [TBP_PYRWO] [TF2B_PYRWO] by SWISSPFAM

Domain found in 1AIS: [CYCLIN ] by SMART

Other resources with information on 1AIS

Community annotation for 1AIS 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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