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Title :   CRYSTAL STRUCTURE OF THE ALBA1:ALBA2 HETERODIMER FROM SULFOLOBUS SOLFATARICUS

Authors :   C. Jelinska, M. J. Conroy, C. J. Craven, P. A. Bullough, J. P. Waltho, G. L M. F. White

Date :   22 Feb 05 (Deposition) - 14 Jul 05 (Release) - 01 Jun 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Archaeal Dna Binding Protein, Dna Condensation, Dna-Binding, Rna-Binding, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Jelinska, M. J. Conroy, C. J. Craven, A. M. Hounslow, P. A. Bullough, J. P. Waltho, G. L. Taylor, M. F. White
Obligate Heterodimerization Of The Archaeal Alba2 Protein With Alba1 Provides A Mechanism For Control Of Dna Packaging.
Structure V. 13 963 2005
PubMed-ID: 16004869 | Reference-DOI: 10.1016/J.STR.2005.04.016

Molecule 1 - DNA/RNA-BINDING PROTEIN ALBA 1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET 30A
	Expression System Strain	:	ROSETTA
	Expression System Taxid	:	562
	Organism Scientific	:	SULFOLOBUS SOLFATARICUS
	Organism Taxid	:	273057
	Strain	:	P2
	Synonym	:	ALBA HETERODIMER, SSO10B

Molecule 2 - DNA/RNA-BINDING PROTEIN ALBA 2
	Chains	:	X, Y
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET 30A
	Expression System Strain	:	ROSETTA
	Expression System Taxid	:	562
	Organism Scientific	:	SULFOLOBUS SOLFATARICUS
	Organism Taxid	:	273057
	Strain	:	P2
	Synonym	:	ALBA HETERODIMER

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	X	Y

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 5)

No.	Name	Count	Type	Full Name
1	MPD	5	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:78 , SER A:79 , GLY A:82 , HOH A:2033 , ASN Y:65 , VAL Y:66 , GLN Y:67 , MPD Y:1090	BINDING SITE FOR RESIDUE MPD A1098
2	AC2	SOFTWARE	ASP A:51 , HOH A:2088 , ARG X:41 , HOH X:2041	BINDING SITE FOR RESIDUE MPD A1099
3	AC3	SOFTWARE	THR B:78 , SER B:79 , HOH B:2092 , HOH B:2093 , ASN X:65 , VAL X:66 , GLN X:67	BINDING SITE FOR RESIDUE MPD B1098
4	AC4	SOFTWARE	ARG Y:75	BINDING SITE FOR RESIDUE MPD X1090
5	AC5	SOFTWARE	GLN A:80 , MPD A:1098 , ILE B:67 , ILE B:70 , ASN Y:65 , VAL Y:66 , GLN Y:67 , HOH Y:2062	BINDING SITE FOR RESIDUE MPD Y1090

(no "SS Bond" information available for 2BKY)

(no "Cis Peptide Bond" information available for 2BKY)

(no "SAP(SNP)/Variant" information available for 2BKY)

(no "PROSITE Motif" information available for 2BKY)

(no "Exon" information available for 2BKY)

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
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:89
 aligned with ALBA1_SULSO | P60849 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:89
                                    18        28        38        48        58        68        78        88         
           ALBA1_SULSO    9 SNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
               SCOP domains d2bkya_ A: automated matches                                                              SCOP domains
               CATH domains 2bkyA00 A:9-97  [code=3.30.110.20, no name defined]                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhh....eeeeeeeeeeeeee.....eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  2bky A  9 SNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
                                    18        28        38        48        58        68        78        88

Chain B from PDB  Type:PROTEIN  Length:89
 aligned with ALBA1_SULSO | P60849 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:89
                                    18        28        38        48        58        68        78        88         
           ALBA1_SULSO    9 SNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
               SCOP domains d2bkyb_ B: automated matches                                                              SCOP domains
               CATH domains 2bkyB00 B:9-97  [code=3.30.110.20, no name defined]                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhh.....eeeeeeeeeeeeee.....eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  2bky B  9 SNVVLIGKKPVMNYVLAALTLLNQGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTSQDGRQSRVSTIEIAIRKK 97
                                    18        28        38        48        58        68        78        88

Chain X from PDB  Type:PROTEIN  Length:86
 aligned with ALBA2_SULSO | Q97ZF4 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:86
                                    13        23        33        43        53        63        73        83      
           ALBA2_SULSO    4 KLNEIVVRKTKNVEDHVLDVIVLFNQGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVNVQTGSEVRDRRRISYILLRLKRVY 89
               SCOP domains d2bkyx_ X: DNA-binding protein AlbA                                                    SCOP domains
               CATH domains 2bkyX00 X:4-89  [code=3.30.110.20, no name defined]                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhhh..eeeeeeeeeeeee..eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  2bky X  4 KLNEIVVRKTKNVEDHVLDVIVLFNQGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVNVQTGSEVRDRRRISYILLRLKRVY 89
                                    13        23        33        43        53        63        73        83

Chain Y from PDB  Type:PROTEIN  Length:86
 aligned with ALBA2_SULSO | Q97ZF4 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:86
                                    13        23        33        43        53        63        73        83      
           ALBA2_SULSO    4 KLNEIVVRKTKNVEDHVLDVIVLFNQGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVNVQTGSEVRDRRRISYILLRLKRVY 89
               SCOP domains d2bkyy_ Y: DNA-binding protein AlbA                                                    SCOP domains
               CATH domains 2bkyY00 Y:4-89  [code=3.30.110.20, no name defined]                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee..eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  2bky Y  4 KLNEIVVRKTKNVEDHVLDVIVLFNQGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVNVQTGSEVRDRRRISYILLRLKRVY 89
                                    13        23        33        43        53        63        73        83

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: IF3-like (127)

Superfamily: AlbA-like (17)

Family: DNA-binding protein AlbA (13)

Protein domain: automated matches (5)

Sulfolobus solfataricus [TaxId: 273057] (1)

1a	d2bkya_	A:
1b	d2bkyb_	B:

Protein domain: DNA-binding protein AlbA (8)

Sulfolobus solfataricus, Sso10b2 [TaxId: 2287] (3)

2a	d2bkyx_	X:
2b	d2bkyy_	Y:

Asymmetric/Biological 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)

Sulfolobus solfataricus. Organism_taxid: 273057. Strain: p2. (1)

1a	2bkyA00	A:9-97
1b	2bkyB00	B:9-97
1c	2bkyX00	X:4-89
1d	2bkyY00	Y:4-89

(no "Pfam Domain" information available for 2BKY)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (ALBA1_SULSO | P60849)

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.
biological process
	GO:0030261	chromosome condensation	The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells.
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.

Chain X,Y (ALBA2_SULSO | Q97ZF4)

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.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2bky)

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	2bky
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	ALBA1_SULSO \| P60849
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	ALBA2_SULSO \| Q97ZF4
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UniProtKB/Swiss-Prot
	ALBA1_SULSO \| P60849	:	1h0x 1h0y 4r3l
	ALBA2_SULSO \| Q97ZF4	:	1udv 2a2y

1h0x	STRUCTURE OF ALBA: AN ARCHAEAL CHROMATIN PROTEIN MODULATED BY ACETYLATION
1h0y	STRUCTURE OF ALBA: AN ARCHAEAL CHROMATIN PROTEIN MODULATED BY ACETYLATION
1udv	CRYSTAL STRUCTURE OF THE HYPERTHERMOPHILIC ARCHAEAL DNA-BINDING PROTEIN SSO10B2 AT 1.85 A

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (2, 4)

CATH Domains (1, 4)

Pfam Domains (0, 0)

Gene Ontology (7, 13)

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