1WYH - JenaLib

Title :   SOLUTION STRUCTURE OF THE LIM DOMAIN FROM HUMAN SKELETAL MUSCLE LIM-PROTEIN 2

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

Date :   14 Feb 05 (Deposition) - 14 Aug 05 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

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

Reference :   T. N. Niraula, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solution Structure Of The Lim Domain From Human Skeletal Muscle Lim-Protein 2
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

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
1.1b	ENST00000373016	1b	ENSE00001917363	chr1:38471177-38471029	149	FHL3_HUMAN	-	0	0	-	-
1.2	ENST00000373016	2	ENSE00002160660	chr1:38465104-38464929	176	FHL3_HUMAN	1-52	52	0	-	-
1.3a	ENST00000373016	3a	ENSE00001319279	chr1:38464820-38464646	175	FHL3_HUMAN	53-111	59	1	A:1-18	18
1.4	ENST00000373016	4	ENSE00001302258	chr1:38463804-38463635	170	FHL3_HUMAN	111-167	57	1	A:18-67	50
1.5	ENST00000373016	5	ENSE00001296101	chr1:38463542-38463356	187	FHL3_HUMAN	168-230	63	1	A:68-72 (gaps)	26
1.6c	ENST00000373016	6c	ENSE00001833847	chr1:38463231-38462442	790	FHL3_HUMAN	230-280	51	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:72
 aligned with FHL3_HUMAN | Q13643 from UniProtKB/Swiss-Prot  Length:280

    Alignment length:104
                                   103       113       123       133       143       153       163       173       183       193    
           FHL3_HUMAN    94 CSAFSSQCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAPRCARCSKTLTQGGVTYRDQPWHRECLVCTGCQTPLAG 197
               SCOP domains -------d1wyha2 A:8-34             d1wyha1 A:35-66                 -------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------LIM-1wyhA01 A:8-65                                        --------------------------------------- Pfam domains
         Sec.struct. author ....................ee......ee.................eeee..eeeehhhhhhhh..-----------.---------------------.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LIM_D--LIM_DOMAIN_1  PDB: A:8-43           -------------------------LIM_DOMAIN_1  PDB: A:68-69        -- PROSITE (1)
                PROSITE (2) -----LIM_DOMAIN_2  PDB: A:6-66 UniProt: 99-160                     LIM_DOMAIN_2  PDB: A:68-72            PROSITE (2)
           Transcript 1 (1) Exon 1.3a         --------------------------------------------------------Exon 1.5  PDB: A:68-72 (gaps)  Transcript 1 (1)
           Transcript 1 (2) -----------------Exon 1.4  PDB: A:18-67 UniProt: 111-167 [INCOMPLETE]     ------------------------------ Transcript 1 (2)
                 1wyh A   1 GSSGSSGCSACGETVMPGSRKLEYGGQTWHEHCFLCSGCEQPLGSRSFVPDKGAHYCVPCYENKFAS-----------G---------------------PSSG  72
                                    10        20        30        40        50        60      |  -        |-         -         -|   
                                                                                             67          68                    69

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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 '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (10, 10)

NMR Structure(hide GO term definitions)

Chain A (FHL3_HUMAN | Q13643)

molecular function
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	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:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0030036	actin cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
	GO:0007517	muscle organ development	The process whose specific outcome is the progression of the muscle over time, from its formation to the mature structure. The muscle is an organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work.
cellular component
	GO:0030018	Z disc	Platelike region of a muscle sarcomere to which the plus ends of actin filaments are attached.
	GO:0005925	focal adhesion	Small region on the surface of a cell that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments.
	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.
	GO:0001725	stress fiber	A contractile actin filament bundle that consists of short actin filaments with alternating polarity, cross-linked by alpha-actinin and possibly other actin bundling proteins, and with myosin present in a periodic distribution along the fiber.

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