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Description

Title :   SOLUTION STRUCTURES OF THE C2H2 TYPE ZINC FINGER DOMAIN OF HUMAN ZINC FINGER PROTEIN 462

Authors :   M. Sato, K. Saito, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   17 May 05 (Deposition) - 17 Nov 05 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

Keywords :   Zinc Finger Domain, Kiaa1803, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Sato, K. Saito, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structures Of The C2H2 Type Zinc Finger Domain Of Human Zinc Finger Protein 462
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Molecule 1 - ZINC FINGER PROTEIN 462
	Chains	:	A
	Engineered	:	YES
	Expression System Plasmid	:	P041012-05
	Expression System Vector Type	:	PLASMID
	Fragment	:	C2H2 TYPE ZINC FINGER DOMAIN
	Gene	:	ZNF462
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	CELL-FREE PROTEIN SYNTHESIS

Structural Features

Chains, Units


NMR Structure (20x)	:

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 1)

NMR Structure (1, 1)

No.	Name	Count	Type	Full Name
1	ZN	1	Ligand/Ion	ZINC ION

Sites (1, 1)

NMR Structure (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:28 , CYS A:31 , HIS A:44 , HIS A:48	BINDING SITE FOR RESIDUE ZN A 201

SS Bonds (0, 0)

(no "SS Bond" information available for 1X6F)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 1X6F)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 1X6F)

PROSITE Motifs (1, 1)

NMR Structure (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_FINGER_C2H2_1	PS00028	Zinc finger C2H2 type domain signature.	ZN462_HUMAN	110-131 472-492 888-909 1472-1493 1662-1683 1894-1914 2302-2322 2416-2436	1	- - - - - A:28-48 - -

Exons (3, 3)

NMR Structure (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000277225	1a	ENSE00001408250	chr9:109625378-109625636	259	ZN462_HUMAN	-	0	0	-	-
1.2	ENST00000277225	2	ENSE00002169954	chr9:109685635-109685884	250	ZN462_HUMAN	1-74	74	0	-	-
1.3b	ENST00000277225	3b	ENSE00001633746	chr9:109686414-109692040	5627	ZN462_HUMAN	74-1949	1876	1	A:1-82	82
1.4b	ENST00000277225	4b	ENSE00000983378	chr9:109692806-109692970	165	ZN462_HUMAN	1950-2004	55	1	A:83-87	5
1.6d	ENST00000277225	6d	ENSE00001023580	chr9:109694727-109694830	104	ZN462_HUMAN	2005-2039	35	1	A:88-88	1
1.9	ENST00000277225	9	ENSE00000983380	chr9:109697784-109697902	119	ZN462_HUMAN	2039-2079	41	0	-	-
1.10b	ENST00000277225	10b	ENSE00000983381	chr9:109701197-109701388	192	ZN462_HUMAN	2079-2143	65	0	-	-
1.11b	ENST00000277225	11b	ENSE00000983382	chr9:109734286-109734553	268	ZN462_HUMAN	2143-2232	90	0	-	-
1.12b	ENST00000277225	12b	ENSE00001023582	chr9:109736418-109736554	137	ZN462_HUMAN	2232-2278	47	0	-	-
1.13	ENST00000277225	13	ENSE00001023581	chr9:109746467-109746690	224	ZN462_HUMAN	2278-2352	75	0	-	-
1.15	ENST00000277225	15	ENSE00000983391	chr9:109765575-109765707	133	ZN462_HUMAN	2353-2397	45	0	-	-
1.16b	ENST00000277225	16b	ENSE00000983392	chr9:109771826-109771949	124	ZN462_HUMAN	2397-2438	42	0	-	-
1.17d	ENST00000277225	17d	ENSE00001464341	chr9:109773104-109775915	2812	ZN462_HUMAN	2438-2506	69	0	-	-

Sequences/Alignments

NMR Structure

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:88
 aligned with ZN462_HUMAN | Q96JM2 from UniProtKB/Swiss-Prot  Length:2506

    Alignment length:139
                                  1876      1886      1896      1906      1916      1926      1936      1946      1956      1966      1976      1986      1996         
         ZN462_HUMAN   1867 TDHHSRDLKRDFIILGNGPRLQNSTYQCKHCDSKLQSTAELTSHLNIHNEEFQKRAKRQERRKQLLSKQKYADGAFADFKQERPFGHLEEVPKIKERKVVGYKCKFCVEVHPTLRAICNHLRKHVQYGNVPAVSAAVKG 2005
               SCOP domains -------d1x6fa1 A:8-82 Zinc finger protein 462, ZNF462                             --------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........................ee......ee.hhhhhhhhhhhhhhhhhhhh..........................---------------------------------------------------...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------ZINC_FINGER_C2H2_1   ------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3b  PDB: A:1-82 UniProt: 74-1949 [INCOMPLETE]                               Exon 1.4b  PDB: A:83-87 UniProt: 1950-2004 [INCOMPLETE]1 Transcript 1
                1x6f A    1 GSSGSSGLKRDFIILGNGPRLQNSTYQCKHCDSKLQSTAELTSHLNIHNEEFQKRAKRQERRKQLLSKQKYADGAFADFKQE---------------------------------------------------SGPSSG   88
                                    10        20        30        40        50        60        70        80 |       -         -         -         -         -   |     
                                                                                                            82                                                  83

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 1)

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Small proteins (3458)

Fold: beta-beta-alpha zinc fingers (183)

Superfamily: beta-beta-alpha zinc fingers (183)

Family: Classic zinc finger, C2H2 (162)

Protein domain: Zinc finger protein 462, ZNF462 (1)

Human (Homo sapiens) [TaxId: 9606] (1)

d1x6fa1

A:8-82

CATH Domains (0, 0)

(no "CATH Domain" information available for 1X6F)

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 1X6F)

Gene Ontology (8, 8)

NMR Structure(hide GO term definitions)

Chain A (ZN462_HUMAN | Q96JM2)

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.
biological process
	GO:0006325	chromatin organization	Any process that results in the specification, formation or maintenance of the physical structure of eukaryotic chromatin.
	GO:0043392	negative regulation of DNA binding	Any process that stops or reduces the frequency, rate or extent of DNA binding. DNA binding is any process in which a gene product interacts selectively with DNA (deoxyribonucleic acid).
	GO:0045944	positive regulation of transcription from RNA polymerase II promoter	Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	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: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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	1x6f
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Description

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, 1)

Exons (3, 3)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (8, 8)

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