Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 13.58 kDa 
• Atom Count: 957 
• Modelled Residue Count: 118 
• Deposited Residue Count: 118 
• Unique protein chains: 1

1L5I

30-CONFORMER NMR ENSEMBLE OF THE N-TERMINAL, DNA-BINDING DOMAIN OF THE REPLICATION INITIATION PROTEIN FROM A GEMINIVIRUS (TOMATO YELLOW LEAF CURL VIRUS-SARDINIA)

• PDB DOI: 10.2210/pdb1L5I/pdb
• BMRB: 5297

• Classification: VIRAL PROTEIN
• Organism(s): Tomato yellow leaf curl Sardinia virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-03-07 Released: 2002-09-18 
• Deposition Author(s): Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., Gronenborn, A.M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 30 

Literature

The structure of a replication initiator unites diverse aspects of nucleic acid metabolism

Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., Gronenborn, A.M.

(2002) Proc Natl Acad Sci U S A 99: 10310-10315

• PubMed: 12130667 
• DOI: 10.1073/pnas.152342699
• Primary Citation of Related Structures:  
  1L2M, 1L5I


• PubMed Abstract: 
  

Rolling circle replication is a mechanism for copying single-stranded genomes by means of double-stranded intermediates. A multifunctional replication initiator protein (Rep) is indispensable for the precise initiation and termination of this process. Despite the ubiquitous presence and fundamental importance of rolling circle replication elements, structural information on their respective replication initiators is still missing. Here we present the solution NMR structure of the catalytic domain of Rep, the initiator protein of tomato yellow leaf curl virus. It is composed of a central five-stranded anti-parallel beta-sheet, flanked by a small two-stranded beta-sheet, a beta-hairpin and two alpha-helices. Surprisingly, the structure reveals that the catalytic Rep domain is related to a large group of proteins that bind RNA or DNA. Identification of Rep as resembling the family of ribonucleoprotein/RNA-recognition motif fold proteins establishes a structure-based evolutionary link between RNA binding proteins, splicing factors, and replication initiators of prokaryotic and eukaryotic single-stranded DNA elements and mammalian DNA tumor viruses.

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Organizational Affiliation: 

Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rep protein	A	118	Tomato yellow leaf curl Sardinia virus	Mutation(s): 0  Gene Names: Rep, C1 EC: 2.7.7 (UniProt), 3.1.21 (UniProt)
UniProt
Find proteins for P27260 (Tomato yellow leaf curl Sardinia virus) Explore P27260  Go to UniProtKB:  P27260

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 30 
• OLDERADO: 1L5I Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-03-07 
• Released Date: 2002-09-18 
Deposition Author(s): Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., Gronenborn, A.M.

Revision History  

• Version 1.0: 2002-09-18
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-23
  Changes: Data collection, Database references, Derived calculations