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Description

Title :   THE SOLUTION STRUCTURE OF THE MYND DOMAIN (LEU384-CYS430) OF HUMAN ZINC FINGER MYND DOMAIN CONTAINING PROTEIN 10

Authors :   A. Sasagawa, K. Miyamoto, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   14 Dec 05 (Deposition) - 14 Jun 06 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

Keywords :   Zf-Mynd, Blu Protein, C3H, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Sasagawa, K. Miyamoto, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
The Solution Structure Of The Mynd Domain (Leu384-Cys430) Of Human Zinc Finger Mynd Domain Containing Protein 10
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Molecule 1 - ZINC FINGER MYND DOMAIN CONTAINING PROTEIN 10
	Chains	:	A
	Engineered	:	YES
	Expression System	:	CELL FREE SYNTHESIS
	Expression System Plasmid	:	P050302-43
	Expression System Vector Type	:	PLASMID
	Fragment	:	MYND DOMAIN
	Gene	:	ZMYND10
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	CELL-FREE PROTEIN SYNTHESIS
	Synonym	:	BLU PROTEIN

Structural Features

Chains, Units


NMR Structure (20x)	:

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 2)

NMR Structure (1, 2)

No.	Name	Count	Type	Full Name
1	ZN	2	Ligand/Ion	ZINC ION

Sites (2, 2)

NMR Structure (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:29 , ARG A:31 , CYS A:32 , HIS A:50 , CYS A:54	BINDING SITE FOR RESIDUE ZN A 201
2	AC2	SOFTWARE	CYS A:18 , CYS A:21 , CYS A:38 , CYS A:42	BINDING SITE FOR RESIDUE ZN A 401

SS Bonds (0, 0)

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

Cis Peptide Bonds (0, 0)

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

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

NMR Structure (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_014227	R	407	Q	ZMY10_HUMAN	Unclassified	182064110	A	R	31	Q

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

PROSITE Motifs (2, 1)

NMR Structure (2, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZF_MYND_1	PS01360	Zinc finger MYND-type signature.	ZMY10_HUMAN	394-430	1	A:18-54
2	ZF_MYND_2	PS50865	Zinc finger MYND-type profile.	ZMY10_HUMAN	394-430	1	A:18-54

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	ENST00000231749	1a	ENSE00001372499	chr3:50384283-50382919	1365	ZMY10_HUMAN	1-31	31	0	-	-
1.2b	ENST00000231749	2b	ENSE00001785120	chr3:50382663-50382555	109	ZMY10_HUMAN	31-67	37	0	-	-
1.4b	ENST00000231749	4b	ENSE00001684837	chr3:50381281-50381165	117	ZMY10_HUMAN	68-106	39	0	-	-
1.5	ENST00000231749	5	ENSE00001803532	chr3:50381047-50380994	54	ZMY10_HUMAN	107-124	18	0	-	-
1.6b	ENST00000231749	6b	ENSE00001806257	chr3:50380875-50380738	138	ZMY10_HUMAN	125-170	46	0	-	-
1.6d	ENST00000231749	6d	ENSE00001731202	chr3:50380637-50380549	89	ZMY10_HUMAN	171-200	30	0	-	-
1.6f	ENST00000231749	6f	ENSE00001797495	chr3:50380449-50380349	101	ZMY10_HUMAN	200-234	35	0	-	-
1.6i	ENST00000231749	6i	ENSE00001598571	chr3:50380000-50379828	173	ZMY10_HUMAN	234-291	58	0	-	-
1.6l	ENST00000231749	6l	ENSE00001654103	chr3:50379571-50379446	126	ZMY10_HUMAN	292-333	42	0	-	-
1.7	ENST00000231749	7	ENSE00000860731	chr3:50379362-50379241	122	ZMY10_HUMAN	334-374	41	1	A:1-7 (gaps)	21
1.8	ENST00000231749	8	ENSE00001610366	chr3:50379130-50379005	126	ZMY10_HUMAN	374-416	43	1	A:8-40	33
1.9c	ENST00000231749	9c	ENSE00001917579	chr3:50378916-50378541	376	ZMY10_HUMAN	416-440	25	1	A:40-60	21

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:60
 aligned with ZMY10_HUMAN | O75800 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:93
                                   353       363       373       383       393       403       413       423       433   
          ZMY10_HUMAN   344 ENRGKWQAIAKHQLQHVFSPSEQDLRLQARRWAETYRLDVLEAVAPERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTCVLAAQG 436
               SCOP domains ----------------------------------------d2dana1 A:8-54                                 ------ SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....--------------...-------------------...................ee.......ee.hhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------Q----------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------------ZF_MYND_1  PDB: A:18-54              ------ PROSITE (1)
                PROSITE (2) --------------------------------------------------ZF_MYND_2  PDB: A:18-54              ------ PROSITE (2)
           Transcript 1 (1) Exon 1.7  PDB: A:1-7 (gaps)    -----------------------------------------Exon 1.9c             Transcript 1 (1)
           Transcript 1 (2) ------------------------------Exon 1.8  PDB: A:8-40 UniProt: 374-416     -------------------- Transcript 1 (2)
                 2dan A   1 GSSG--------------SSG-------------------LEAVAPERPRCAYCSAEASKRCSRCQNEWYCCRECQVKHWEKHGKTCSGPSSG  60
                               |     -        |6|        -         -|       17        27        37        47        57   
                               4              5 7                   8

Legend:		→ Mismatch	(orange background)
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		→ 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, 1)

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Small proteins (3458)

Fold: HIT/MYND zinc finger-like (7)

Superfamily: HIT/MYND zinc finger-like (7)

Family: MYND zinc finger (6)

Protein domain: Zinc finger MYND domain-containing protein 10, ZMYND10 (2)

Human (Homo sapiens) [TaxId: 9606] (2)

d2dana1

A:8-54

CATH Domains (0, 0)

(no "CATH Domain" information available for 2DAN)

Pfam Domains (0, 0)

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

Gene Ontology (9, 9)

NMR Structure(hide GO term definitions)

Chain A (ZMY10_HUMAN | O75800)

molecular function
	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).
biological process
	GO:0036159	inner dynein arm assembly	The aggregation, arrangement and bonding together of a set of components to form an axonemal dynein inner arm, an inner arm structure present on the outer doublet microtubules of ciliary and flagellar axonemes.
	GO:0044458	motile cilium assembly	The aggregation, arrangement and bonding together of a set of components to form a motile cilium.
	GO:0036158	outer dynein arm assembly	The aggregation, arrangement and bonding together of a set of components to form an axonemal dynein outer arm, an outer arm structure present on the outer doublet microtubules of ciliary and flagellar axonemes.
cellular component
	GO:0034451	centriolar satellite	A small (70-100 nm) cytoplasmic granule that contains a number of centrosomal proteins; centriolar satellites traffic toward microtubule minus ends and are enriched near the centrosome.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	GO:0005815	microtubule organizing center	An intracellular structure that can catalyze gamma-tubulin-dependent microtubule nucleation and that can anchor microtubules by interacting with their minus ends, plus ends or sides.

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Related Entries

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UniProtKB/Swiss-Prot
	ZMY10_HUMAN \| O75800	:	2d8q

Related Entries Specified in the PDB File

2d8q	THE SAME PROTEIN DOMAIN OF THE DIFFERENT LENGTH RELATED ID: HSS001004006.1 RELATED DB: TARGETDB