1NGM	Transcription Dna	date	Dec 17, 2002
title	Crystal Structure Of A Yeast Brf1-Tbp-Dna Ternary Complex
authors	Z.S.Juo, G.A.Kassavetis, J.Wang, E.P.Geiduschek, P.B.Sigler
compound		source
Molecule: 5'-D(Cptpaptpapapapapapapaptpgptpt T)-3'; Chain: C, G, K, O Engineered: Yes Other_details: Yeast U6 Promoter Tata Element		Synthetic: Yes
Molecule: 5'-D(Apapapapapapcpaptptptptptptpt G)-3'; Chain: D, H, L, P Engineered: Yes Other_details: Yeast U6 Promoter Tata Element		Synthetic: Yes
Molecule: Transcription Initiation Factor Tfiid Chain: A, E, I, M Fragment: C-Terminal Core Domain Synonym: Tata-Box Factor, Tata Sequence-Binding Protein, Tb Transcription Factor D; Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Transcription Factor Iiib Brf1 Subunit Chain: B, F, J, N Fragment: Homology Domain II Synonym: Brf, Tfiib-Related Factor Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 2	R_factor 0.276 R_Free 0.308
crystal cell	length a length b length c angle alpha angle beta angle gamma 93.610 152.600 256.638 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.95 Å
related structures	by homologous chain: 1TBA, 1TGH
Gene Ontology	Chain Function Process Component A, M, I, E
Primary reference	Crystal structure of a transcription factor IIIB core interface ternary complex., Juo ZS, Kassavetis GA, Wang J, Geiduschek EP, Sigler PB, Nature 2003 Apr 3;422(6931):534-9. PMID:12660736

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (211 Kb) [Save to disk] Biological Unit Coordinates (1ngm.pdb1.gz) 54 Kb Biological Unit Coordinates (1ngm.pdb2.gz) 55 Kb Biological Unit Coordinates (1ngm.pdb3.gz) 52 Kb Biological Unit Coordinates (1ngm.pdb4.gz) 52 Kb CSU: Contacts of Structural Units for 1NGM Likely Quarternary Molecular Structure file(s) for 1NGM Structure Factors (655 Kb) Retrieve 1NGM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1NGM from S2C, [Save to disk] Re-refined 1ngm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1NGM 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 1NGM

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1NGM, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ngma2, region A:156-240 [Jmol] [rasmolscript] [script source]     - Domain d1ngma1, region A:61-155 [Jmol] [rasmolscript] [script source]     - Domain d1ngmb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1ngme2, region E:156-240 [Jmol] [rasmolscript] [script source]     - Domain d1ngme1, region E:61-155 [Jmol] [rasmolscript] [script source]     - Domain d1ngmf_, region F [Jmol] [rasmolscript] [script source]     - Domain d1ngmi2, region I:156-240 [Jmol] [rasmolscript] [script source]     - Domain d1ngmi1, region I:61-155 [Jmol] [rasmolscript] [script source]     - Domain d1ngmj_, region J [Jmol] [rasmolscript] [script source]     - Domain d1ngmm2, region M:156-240 [Jmol] [rasmolscript] [script source]     - Domain d1ngmm1, region M:61-155 [Jmol] [rasmolscript] [script source]     - Domain d1ngmn_, region N [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: [1ngm_A] [1ngm_K] [1ngm_I] [1ngm_L] [1ngm] [1ngm_D] [1ngm_G] [1ngm_J] [1ngm_C] [1ngm_B] [1ngm_E] [1ngm_H] [1ngm_O] [1ngm_N] [1ngm_F] [1ngm_P] [1ngm_M] SWISS-PROT database: [P13393] [P29056] Domain organization of [TBP_YEAST] [TF3B_YEAST] by SWISSPFAM

Other resources with information on 1NGM

Community annotation for 1NGM at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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