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Title :   SOLUSION STRUCTURE OF THE TODOR DOMAIN OF HUMAN LAMIN-B RECEPTOR

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

Date :   30 Mar 06 (Deposition) - 30 Sep 06 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

Keywords :   Tudor Domain, Integral Nuclear Envelope Inner Membrane Protein, Nuclear Protein, Receptor, 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. Yoneyama, N. Tochio, S. Koshiba, M. Inoue, T. Kigawa, S. Yokoyama
Solusion Structure Of The Todor Domain Of Human Lamin-B Receptor
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - LAMIN-B RECEPTOR
	Chains	:	A
	Engineered	:	YES
	Expression System	:	CELL FREE SYNTHESIS
	Expression System Plasmid	:	P050905-15
	Expression System Vector Type	:	PLASMID
	Fragment	:	TUDOR DOMAIN
	Gene	:	LBR
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	CELL-FREE PROTEIN SYNTHESIS
	Synonym	:	INTEGRAL NUCLEAR ENVELOPE INNER MEMBRANE PROTEIN, LMN2R


NMR Structure (20x)	:

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2DIG)

(no "Site" information available for 2DIG)

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

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

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

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

NMR Structure (2, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1b	ENST00000338179	1b	ENSE00001379102	chr1:225616519-225616408	112	LBR_HUMAN	-	0	0	-	-
1.4b	ENST00000338179	4b	ENSE00001071015	chr1:225611791-225611613	179	LBR_HUMAN	1-55	55	1	A:8-62	55
1.5c	ENST00000338179	5c	ENSE00000962089	chr1:225609979-225609779	201	LBR_HUMAN	56-122	67	1	A:63-68 (gaps)	8
1.6b	ENST00000338179	6b	ENSE00001774924	chr1:225607500-225607417	84	LBR_HUMAN	123-150	28	0	-	-
1.7a	ENST00000338179	7a	ENSE00002197673	chr1:225607154-225606965	190	LBR_HUMAN	151-214	64	0	-	-
1.8a	ENST00000338179	8a	ENSE00001765297	chr1:225605882-225605686	197	LBR_HUMAN	214-279	66	0	-	-
1.9	ENST00000338179	9	ENSE00001728782	chr1:225603034-225602980	55	LBR_HUMAN	280-298	19	0	-	-
1.10	ENST00000338179	10	ENSE00001615230	chr1:225600347-225600156	192	LBR_HUMAN	298-362	65	0	-	-
1.11a	ENST00000338179	11a	ENSE00001632166	chr1:225599142-225599039	104	LBR_HUMAN	362-396	35	0	-	-
1.12	ENST00000338179	12	ENSE00001703578	chr1:225598118-225597993	126	LBR_HUMAN	397-438	42	0	-	-
1.13a	ENST00000338179	13a	ENSE00001697279	chr1:225594534-225594366	169	LBR_HUMAN	439-495	57	0	-	-
1.14	ENST00000338179	14	ENSE00001728188	chr1:225592408-225592328	81	LBR_HUMAN	495-522	28	0	-	-
1.15b	ENST00000338179	15b	ENSE00001718128	chr1:225592228-225592106	123	LBR_HUMAN	522-563	42	0	-	-
1.16b	ENST00000338179	16b	ENSE00001762332	chr1:225591165-225589205	1961	LBR_HUMAN	563-615	53	0	-	-

NMR Structure

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:68
 aligned with LBR_HUMAN | Q14739 from UniProtKB/Swiss-Prot  Length:615

    Alignment length:84
                                   1                                                                            
                                   | 3        13        23        33        43        53        63        73    
             LBR_HUMAN    - -------MPSRKFADGEVVRGRWPGSSLYYEVEILSHDSTSQLYTVKYKDGTELELKENDIKPLTSFRQRKGGSTSSSPSRRRG 77
               SCOP domains -------d2diga1 A:8-62 Lamin-b receptor                        ---------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................eeeee......eeeeeeeeee....eeeee.....eeeee...ee--------------.....--. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
               Transcript 1 -------Exon 1.4b  PDB: A:8-62 UniProt: 1-55                   Exon 1.5c [INCOMPLETE] Transcript 1
                  2dig A  1 GSSGSSGMPSRKFADGEVVRGRWPGSSLYYEVEILSHDSTSQLYTVKYKDGTELELKENDIK--------------SGPSS--G 68
                                    10        20        30        40        50        60 |       -      | 66|  |
                                                                                        62             63  67 68

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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 '\|'

NMR Structure

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All beta proteins (24004)

Fold: SH3-like barrel (1035)

Superfamily: Tudor/PWWP/MBT (72)

Family: Tudor domain (24)

Protein domain: Lamin-b receptor (2)

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

d2diga1

A:8-62

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

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

NMR Structure(hide GO term definitions)

Chain A (LBR_HUMAN | Q14739)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0070087	chromo shadow domain binding	Interacting selectively and non-covalently with a chromo shadow domain, a protein domain that is distantly related, and found in association with, the chromo domain.
	GO:0050613	delta14-sterol reductase activity	Catalysis of the reaction: NADP+ + 4,4-dimethyl-5-alpha-cholesta-8,24-dien-3-beta-ol = NADPH + H+ + 4,4-dimethyl-5-alpha-cholesta-8,14,24-trien-3-beta-ol.
	GO:0005521	lamin binding	Interacting selectively and non-covalently with lamin; any of a group of intermediate-filament proteins that form the fibrous matrix on the inner surface of the nuclear envelope.
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
	GO:0016628	oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces NAD or NADP.
	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:0006695	cholesterol biosynthetic process	The chemical reactions and pathways resulting in the formation of cholesterol, cholest-5-en-3 beta-ol, the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0016126	sterol biosynthetic process	The chemical reactions and pathways resulting in the formation of sterols, steroids with one or more hydroxyl groups and a hydrocarbon side-chain in the molecule.
cellular component
	GO:0030176	integral component of endoplasmic reticulum membrane	The component of the endoplasmic reticulum membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0005639	integral component of nuclear inner membrane	The component of the nuclear inner membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005635	nuclear envelope	The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
	GO:0005637	nuclear inner membrane	The inner, i.e. lumen-facing, lipid bilayer of the nuclear envelope.
	GO:0031965	nuclear membrane	Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space.
	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.

NMR Structure
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