3RS1 - JenaLib

Title :   MOUSE C-TYPE LECTIN-RELATED PROTEIN CLRG

Authors :   T. Skalova, J. Dohnalek, J. Duskova, A. Stepankova, T. Koval, J. Hasek, K. Kotynkova, O. Vanek, K. Bezouska

Date :   02 May 11 (Deposition) - 02 May 12 (Release) - 19 Dec 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.94

Chains :   Asym./Biol. Unit : A,B

Keywords :   C-Type Lectin-Like, Ligand Of Nk Receptor, Natural Killer Cell Receptors, Surface Of Activated T Lymphocytes, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Skalova, K. Kotynkova, J. Duskova, J. Hasek, T. Kovai, P. Kolenko, P. Novak, P. Man, P. Hanc, O. Vanek, K. Bezouska, J. Dohnalek
Mouse Clr-G, A Ligand For Nk Cell Activation Receptor Nkr-P1F: Crystal Structure And Biophysical Properties.
J. Immunol. V. 189 4881 2012
PubMed-ID: 23071282 | Reference-DOI: 10.4049/JIMMUNOL.1200880

Compounds

Molecule 1 - C-TYPE LECTIN DOMAIN FAMILY 2 MEMBER I
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-30A
	Expression System Strain	:	BL-21 (DE3) GOLD
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	EXTRACELLULAR DOMAIN (UNP RESIDUES 85-206)
	Gene	:	CLEC2I, CLRG, DCL1, OCILRP2
	Mutation	:	YES
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	C57BL/6
	Synonym	:	C-TYPE LECTIN-RELATED PROTEIN DCL1, C-TYPE LECTIN-RELATED PROTEIN G, CLR-G, LYMPHOID-DERIVED C-TYPE LECTIN-1, LCL-1, OSTEOCLAST INHIBITORY LECTIN-RELATED PROTEIN 2, OCIL-RELATED PROTEIN 2

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological 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:122
 aligned with CLC2I_MOUSE | Q9WVF9 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:122
                                    94       104       114       124       134       144       154       164       174       184       194       204  
          CLC2I_MOUSE    85 INKTYAACSKNWTGVGNKCFYFSGYPRNWTFAQAFCMAQEAQLARFDNEEELIFLKRFKGDFDCWIGLHRESSEHPWKWTNNTEYNNMNPILGVGRYAYLSSDRISSSRSYINRMWICSKLN 206
               SCOP domains d3rs1a_ A: automated matches                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eeeee.....hhhhhhhhhhhh..ee....hhhhhhhhhhhh....eeeeee........ee.................eeeee..eeeee........eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------C_TYPE_LECTIN_2  PDB: A:99-203 UniProt: 99-203                                                           --- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rs1 A  85 MNKTYAACSKNWTGVGNKCFYFSGYPRNWTFAQAFCMAQEAQLARFDNEEELIFLKRFKGDFDSWIGLHRESSEHPWKWTNNTEYNNMNPILGVGRYAYLSSDRISSSRSYINRMWICSKLN 206
                                    94       104       114       124       134       144       154       164       174       184       194       204

Chain B from PDB  Type:PROTEIN  Length:122
 aligned with CLC2I_MOUSE | Q9WVF9 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:122
                                    94       104       114       124       134       144       154       164       174       184       194       204  
          CLC2I_MOUSE    85 INKTYAACSKNWTGVGNKCFYFSGYPRNWTFAQAFCMAQEAQLARFDNEEELIFLKRFKGDFDCWIGLHRESSEHPWKWTNNTEYNNMNPILGVGRYAYLSSDRISSSRSYINRMWICSKLN 206
               SCOP domains d3rs1b_ B: automated matches                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eee..eeeee.....hhhhhhhhhhhh..ee....hhhhhhhhhhhhh...eeeeee........ee.................eeeee..eeeee......eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------C_TYPE_LECTIN_2  PDB: B:99-203 UniProt: 99-203                                                           --- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rs1 B  85 MNKTYAACSKNWTGVGNKCFYFSGYPRNWTFAQAFCMAQEAQLARFDNEEELIFLKRFKGDFDSWIGLHRESSEHPWKWTNNTEYNNMNPILGVGRYAYLSSDRISSSRSYINRMWICSKLN 206
                                    94       104       114       124       134       144       154       164       174       184       194       204

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 (0, 0)

Gene Ontology (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (CLC2I_MOUSE | Q9WVF9)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0046703	natural killer cell lectin-like receptor binding	Interacting selectively and non-covalently with a lectin-like natural killer cell receptor.
	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:0004888	transmembrane signaling receptor activity	Combining with an extracellular or intracellular signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity or state as part of signal transduction.
biological process
	GO:0050852	T cell receptor signaling pathway	A series of molecular signals initiated by the cross-linking of an antigen receptor on a T cell.
	GO:0001765	membrane raft assembly	The aggregation, arrangement and bonding together of a set of components to form a membrane raft, a small (10-200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched membrane domains that compartmentalizes cellular processes.
	GO:0045671	negative regulation of osteoclast differentiation	Any process that stops, prevents, or reduces the frequency, rate or extent of osteoclast differentiation.
	GO:2000522	positive regulation of immunological synapse formation	Any process that activates or increases the frequency, rate or extent of immunological synapse formation.
	GO:0043113	receptor clustering	The receptor metabolic process that results in grouping of a set of receptors at a cellular location, often to amplify the sensitivity of a signaling response.
	GO:0042129	regulation of T cell proliferation	Any process that modulates the frequency, rate or extent of T cell proliferation.
	GO:0030833	regulation of actin filament polymerization	Any process that modulates the frequency, rate or extent of the assembly of actin filaments by the addition of actin monomers to a filament.
	GO:0045076	regulation of interleukin-2 biosynthetic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interleukin-2.
cellular component
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0009897	external side of plasma membrane	The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
	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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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