3NAR - JenaLib

Title :   CRYSTAL STRUCTURE OF ZHX1 HD4 (ZINC-FINGERS AND HOMEOBOXES PROTEIN 1, HOMEODOMAIN 4)

Authors :   J. Ren, L. E. Bird, R. J. Owens, D. K. Stammers, Oxford Protein Product Facility (Oppf)

Date :   02 Jun 10 (Deposition) - 07 Jul 10 (Release) - 07 Jul 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Zhx1, Corepressor, Homeodomain, Structural Genomics, Oxford Protein Production Facility, Oppf, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. E. Bird, J. Ren, J. E. Nettleship, G. E. Folkers, R. J. Owens, D. K. Stammers
Novel Structural Features In Two Zhx Homeodomains Derived From A Systematic Study Of Single And Multiple Domains
Bmc Struct. Biol. V. 10 13 2010
PubMed-ID: 20509910 | Reference-DOI: 10.1186/1472-6807-10-13

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HOMEOBOX_2	PS50071	'Homeobox' domain profile.	ZHX1_HUMAN	299-342 468-522 576-626 668-718	2	- - - A:668-718 B:668-718

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HOMEOBOX_2	PS50071	'Homeobox' domain profile.	ZHX1_HUMAN	299-342 468-522 576-626 668-718	1	- - - A:668-718 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HOMEOBOX_2	PS50071	'Homeobox' domain profile.	ZHX1_HUMAN	299-342 468-522 576-626 668-718	1	- - - - B:668-718

Exons (1, 2)

Sequences/Alignments

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
	(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:70
 aligned with ZHX1_HUMAN | Q9UKY1 from UniProtKB/Swiss-Prot  Length:873

    Alignment length:70
                                   671       681       691       701       711       721       731
           ZHX1_HUMAN   662 GKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKWYYYYQSANS 731
               SCOP domains ---------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------HOMEOBOX_2  PDB: A:668-718 UniProt: 668-718        ------------- PROSITE
               Transcript 1 Exon 1.6d  PDB: A:662-731 UniProt: 1-948 [INCOMPLETE]                  Transcript 1
                 3nar A 662 GKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKWYYYYQSANS 731
                                   671       681       691       701       711       721       731

Chain B from PDB  Type:PROTEIN  Length:70
 aligned with ZHX1_HUMAN | Q9UKY1 from UniProtKB/Swiss-Prot  Length:873

    Alignment length:70
                                   671       681       691       701       711       721       731
           ZHX1_HUMAN   662 GKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKWYYYYQSANS 731
               SCOP domains ---------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---Homeobox-3narB01 B:665-717                           -------------- Pfam domains (1)
           Pfam domains (2) ---Homeobox-3narB02 B:665-717                           -------------- Pfam domains (2)
         Sec.struct. author ......hhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------HOMEOBOX_2  PDB: B:668-718 UniProt: 668-718        ------------- PROSITE
               Transcript 1 Exon 1.6d  PDB: B:662-731 UniProt: 1-948 [INCOMPLETE]                  Transcript 1
                 3nar B 662 GKICKKTPEQLHMLKSAFVRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKWYYYYQSANS 731
                                   671       681       691       701       711       721       731

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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (1, 2)

Gene Ontology (13, 13)

Asymmetric Unit(hide GO term definitions)

Chain A,B (ZHX1_HUMAN | Q9UKY1)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
	GO:0003714	transcription corepressor activity	Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
	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:0030154	cell differentiation	The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
	GO:0000122	negative regulation of transcription from RNA polymerase II promoter	Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces 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:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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