2C9L | PD0937 - JenaLib

Title :   STRUCTURE OF THE EPSTEIN-BARR VIRUS ZEBRA PROTEIN

Authors :   C. Petosa, P. Morand, F. Baudin, M. Moulin, J. B. Artero, C. W. Muller

Date :   13 Dec 05 (Deposition) - 21 Feb 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.25

Chains :   Asym./Biol. Unit : A,B,Y,Z

Keywords :   Viral Protein, Epstein-Barr Virus, Ebv, Zebra, Bzlf1, Zta, Z, Lytic Cycle Activation, Bzip Protein, Viral Protein Dna-Binding, Nuclear Protein, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Petosa, P. Morand, F. Baudin, M. Moulin, J. B. Artero, C. W. Muller
Structural Basis Of Lytic Cycle Activation By The Epstein-Barr Virus Zebra Protein
Mol. Cell V. 21 565 2006
PubMed-ID: 16483937 | Reference-DOI: 10.1016/J.MOLCEL.2006.01.006

Compounds

Molecule 1 - BZLF1 TRANS-ACTIVATOR PROTEIN
	Chains	:	Y, Z
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	DNA-BINDING AND DIMERIZATION DOMAIN, RESIDUES 175-236
	Mutation	:	YES
	Organism Scientific	:	HUMAN HERPESVIRUS 4
	Organism Taxid	:	10376
	Synonym	:	EB1, ZEBRA

*Molecule 2 - 5'-D(APAPGPCPAPCPTPGPAPCP TPCPAPTPGPAPAPGPT)-3'**
	Chains	:	A
	Organism Scientific	:	HUMAN HERPESVIRUS 4
	Organism Taxid	:	10376
	Synthetic	:	YES

*Molecule 3 - 5'-D(APCPTPTPCPAPCPTPGPAP GPTPCPAPGPTPGPCPT)-3'**
	Chains	:	B
	Organism Scientific	:	HUMAN HERPESVIRUS 4
	Organism Taxid	:	10376
	Synthetic	:	YES

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:DNA  Length:19
                                                   
                 2c9l A   1 AAGCACTGACTCATGAAGT  19
                                    10

Chain B from PDB  Type:DNA  Length:18
                                                  
                 2c9l B 102 ACTTCATGAGTCAGTGCT 119
                                   111

Chain Y from PDB  Type:PROTEIN  Length:63
 aligned with BZLF1_EBVB9 | P03206 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:63
                                   183       193       203       213       223       233   
          BZLF1_EBVB9   174 ELEIKRYKNRVASRKCRAKFKQLLQHYREVAAAKSSENDRLRLLLKQMCPSLDVDSIIPRTPD 236
               SCOP domains -d2c9ly1 Y:175-236 Trans-activator protein BZLF1                SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----BZIP_BASIC     -------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                 2c9l Y 174 MLEIKRYKNRVAARKSRAKFKQLLQHYREVAAAKSSENDRLRLLLKQMCPSLDVDSIIPRTPD 236
                                   183       193       203       213       223       233

Chain Z from PDB  Type:PROTEIN  Length:62
 aligned with BZLF1_EBVB9 | P03206 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:62
                                   184       194       204       214       224       234  
          BZLF1_EBVB9   175 LEIKRYKNRVASRKCRAKFKQLLQHYREVAAAKSSENDRLRLLLKQMCPSLDVDSIIPRTPD 236
               SCOP domains d2c9lz1 Z:175-236 Trans-activator protein BZLF1                SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---BZIP_BASIC     -------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                 2c9l Z 175 LEIKRYKNRVAARKSRAKFKQLLQHYREVAAAKSSENDRLRLLLKQMCPSLDVDSIIPRTPD 236
                                   184       194       204       214       224       234

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)

Chain Y,Z (BZLF1_EBVB9 | P03206)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046983	protein dimerization activity	The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
	GO:0043565	sequence-specific DNA binding	Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
	GO:0003700	transcription factor activity, sequence-specific DNA binding	Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
	GO:0030683	evasion or tolerance by virus of host immune response	Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0039646	modulation by virus of host G0/G1 transition checkpoint	Any viral process that modulates the frequency, rate or extent of the host cell G0/G1 transition checkpoint.
	GO:0060153	modulation by virus of host cell cycle	Any viral process that modulates the rate or extent of progression through the cell cycle.
	GO:0045893	positive regulation of transcription, DNA-templated	Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0039557	suppression by virus of host IRF7 activity	Any process in which a virus stops, prevents, or reduces the activity of host IRF7 (interferon regulatory factor-7), a transcription factor in the RIG-I/MDA-5 signaling pathway. Viral infection triggers phosphorylation of cytoplasmic IRF7, which allows IRF7 to form a homodimer, migrate to the nucleus, and activate transcription of IFN-alpha and IFN-beta genes.
	GO:0039503	suppression by virus of host innate immune response	Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
	GO:0016032	viral process	A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
	GO:0042025	host cell nucleus	A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.

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