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Title :   STRUCTURE OF A SIR2 SUBSTRATE, ALBA, REVEALS A MECHANISM FOR DEACTYLATION-INDUCED ENHANCEMENT OF DNA-BINDING

Authors :   K. Zhao, X. Chai, R. Marmorstein

Date :   15 Dec 02 (Deposition) - 05 Aug 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.65

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (2x)

Keywords :   Sir2, Alba, Hdac, Gene Regulation, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Zhao, X. Chai, R. Marmorstein
Structure Of A Sir2 Substrate, Alba, Reveals A Mechanism For Deacetylation-Induced Enhancement Of Dna-Binding
J. Biol. Chem. V. 278 26071 2003
PubMed-ID: 12730210 | Reference-DOI: 10.1074/JBC.M303666200
(for further references see the PDB file header)

Molecule 1 - CONSERVED HYPOTHETICAL PROTEIN AF1956
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PGEX 4T-1
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ARCHAEOGLOBUS FULGIDUS
	Organism Taxid	:	2234
	Synonym	:	ALBA

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (2x)	:	A	B

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1NFH)

(no "Site" information available for 1NFH)

(no "SS Bond" information available for 1NFH)

(no "Cis Peptide Bond" information available for 1NFH)

(no "SAP(SNP)/Variant" information available for 1NFH)

(no "PROSITE Motif" information available for 1NFH)

(no "Exon" information available for 1NFH)

Asymmetric 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:PROTEIN  Length:86
 aligned with ALBA2_ARCFU | O28323 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:86
                                    13        23        33        43        53        63        73        83      
           ALBA2_ARCFU    4 HVVYVGNKPVMNYVLATLTQLNEGADEVVIKARGRAISRAVDVAEIVRNRFMPGVKVKEIKIDTEELESEQGRRSNVSTIEIVLAK 89
               SCOP domains d1nfha_ A: DNA-binding protein AlbA                                                    SCOP domains
               CATH domains 1nfhA00 A:4-89  [code=3.30.110.20, no name defined]                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhhhhhh....eeeeeeeeeeeee.....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  1nfh A  4 HVVYVGNKPVMNYVLATLTQLNEGADEVVIKARGRAISRAVDVAEIVRNRFMPGVKVKEIKIDTEELESEQGRRSNVSTIEIVLAK 89
                                    13        23        33        43        53        63        73        83

Chain B from PDB  Type:PROTEIN  Length:86
 aligned with ALBA2_ARCFU | O28323 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:86
                                    13        23        33        43        53        63        73        83      
           ALBA2_ARCFU    4 HVVYVGNKPVMNYVLATLTQLNEGADEVVIKARGRAISRAVDVAEIVRNRFMPGVKVKEIKIDTEELESEQGRRSNVSTIEIVLAK 89
               SCOP domains d1nfhb_ B: DNA-binding protein AlbA                                                    SCOP domains
               CATH domains 1nfhB00 B:4-89  [code=3.30.110.20, no name defined]                                    CATH domains
           Pfam domains (1) Alba-1nfhB01 B:4-67                                             ---------------------- Pfam domains (1)
           Pfam domains (2) Alba-1nfhB02 B:4-67                                             ---------------------- Pfam domains (2)
         Sec.struct. author ..ee....hhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhh......eeeeeeeeeeeee.....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  1nfh B  4 HVVYVGNKPVMNYVLATLTQLNEGADEVVIKARGRAISRAVDVAEIVRNRFMPGVKVKEIKIDTEELESEQGRRSNVSTIEIVLAK 89
                                    13        23        33        43        53        63        73        83

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	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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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Class: Alpha and beta proteins (a+b) (23004)

Fold: IF3-like (127)

Superfamily: AlbA-like (17)

Family: DNA-binding protein AlbA (13)

Protein domain: DNA-binding protein AlbA (8)

Archaeoglobus fulgidus [TaxId: 2234] (2)

1a	d1nfha_	A:
1b	d1nfhb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Translation Initiation Factor IF3 (34)

Homologous Superfamily: [code=3.30.110.20, no name defined] (13)

Archaeoglobus fulgidus. Organism_taxid: 2234. (2)

1a	1nfhA00	A:4-89
1b	1nfhB00	B:4-89

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: AlbA (7)

Family: Alba (7)

Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) (1)

1a	Alba-1nfhB01	B:4-67
1b	Alba-1nfhB02	B:4-67

Asymmetric Unit(hide GO term definitions)

Chain A,B (ALBA2_ARCFU | O28323)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003690	double-stranded DNA binding	Interacting selectively and non-covalently with double-stranded DNA.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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Biological Unit
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