2C6U - JenaLib

Title :   CRYSTAL STRUCTURE OF HUMAN CLEC-2 (CLEC1B)

Authors :   A. A. Watson, J. Brown, C. A. O'Callaghan

Date :   11 Nov 05 (Deposition) - 20 Nov 06 (Release) - 12 Jul 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A

Keywords :   Lectin, Clec-2, Rhodocytin, Aggretin, C-Type Lectin-Like, Platelets, Thrombosis, Clec1B (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. A. Watson, J. Brown, K. Harlos, J. A. Eble, T. S. Walter, C. A. O'Callaghan
The Crystal Structure And Mutational Binding Analysis Of Th Extracellular Domain Of The Platelet-Activating Receptor Clec-2.
J. Biol. Chem. V. 282 3165 2007
PubMed-ID: 17132623 | Reference-DOI: 10.1074/JBC.M610383200

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (3, 3)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (3, 3)

Asymmetric/Biological Unit (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000298527	1	ENSE00002178372	chr12:10151899-10151636	264	CLC1B_HUMAN	1-22	22	0	-	-
1.2	ENST00000298527	2	ENSE00001626056	chr12:10150979-10150881	99	CLC1B_HUMAN	22-55	34	0	-	-
1.3	ENST00000298527	3	ENSE00001677545	chr12:10149878-10149759	120	CLC1B_HUMAN	55-95	41	0	-	-
1.4a	ENST00000298527	4a	ENSE00001095413	chr12:10149599-10149445	155	CLC1B_HUMAN	95-146	52	1	A:100-146	47
1.9b	ENST00000298527	9b	ENSE00001095422	chr12:10147845-10147739	107	CLC1B_HUMAN	147-182	36	1	A:147-182	36
1.14a	ENST00000298527	14a	ENSE00001375569	chr12:10145886-10145664	223	CLC1B_HUMAN	182-229	48	1	A:182-221	40

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 CLC1B_HUMAN | Q9P126 from UniProtKB/Swiss-Prot  Length:229

    Alignment length:122
                                   109       119       129       139       149       159       169       179       189       199       209       219  
          CLC1B_HUMAN   100 SPCDTNWRYYGDSCYGFFRHNLTWEESKQYCTDMNATLLKIDNRNIVEYIKARTHLIRWVGLSRQKSNEVWKWEDGSVISENMFEFLEDGKGNMNCAYFHNGKMHPTFCENKHYLMCERKAG 221
               SCOP domains d2c6ua_ A: automated matches                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee..eeeeeeeeeehhhhhhhhhhhh..ee....hhhhhhhhhh.....eeeeee................hhhhhhh.........eeeee..eeeee.....eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------C_TYPE_LECTIN_2  PDB: A:109-217 UniProt: 109-217                                                             ---- PROSITE
           Transcript 1 (1) Exon 1.4a  PDB: A:100-146 UniProt: 95-146      -----------------------------------Exon 1.14a  PDB: A:182-221 [INCOMPLETE]  Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------Exon 1.9b  PDB: A:147-182           --------------------------------------- Transcript 1 (2)
                 2c6u A 100 SPCDTNWRYYGDSCYGFFRHNLTWEESKQYCTDMNATLLKIDNRNIVEYIKARTHLIRWVGLSRQKSNEVWKWEDGSVISENMFEFLEDGKGNMNCAYFHNGKMHPTFCENKHYLMCERKAG 221
                                   109       119       129       139       149       159       169       179       189       199       209       219

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

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CLC1B_HUMAN | Q9P126)

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: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:0007166	cell surface receptor signaling pathway	A series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
	GO:0006952	defense response	Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
	GO:0030168	platelet activation	A series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue. These events include shape change, adhesiveness, aggregation, and release reactions. When carried through to completion, these events lead to the formation of a stable hemostatic plug.
	GO:0030220	platelet formation	The process in which platelets bud from long processes extended by megakaryocytes.
cellular component
	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:0005887	integral component of plasma membrane	The component of the plasma 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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	Cis Peptide Bonds
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