2WNO - JenaLib

Title :   X-RAY STRUCTURE OF CUB_C DOMAIN FROM TSG-6

Authors :   D. C. Briggs, A. J. Day

Date :   13 Jul 09 (Deposition) - 01 Sep 10 (Release) - 28 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A

Keywords :   Glycoprotein, Cell Adhesion, Extracellular Matrix (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. C. Briggs, H. L. Birchenough, T. Ali, M. S. Rugg, J. P. Waltho, E. Ievoli, T. A. Jowitt, J. J. Enghild, R. P. Richter, A. Salustri, C. M. Milner, A. J. Day
Metal Ion-Dependent Heavy Chain Transfer Activity Of Tsg-6 Mediates Assembly Of The Cumulus-Oocyte Matrix.
J. Biol. Chem. V. 290 28708 2015
PubMed-ID: 26468290 | Reference-DOI: 10.1074/JBC.M115.669838

Compounds

Molecule 1 - TUMOR NECROSIS FACTOR-INDUCIBLE GENE 6 PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PRK172
	Expression System Strain	:	ROSETTA GAMI-B
	Expression System Taxid	:	562
	Fragment	:	CUB_C, RESIDUES 129-277
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	TUMOR NECROSIS FACTOR-INDUCIBLE PROTEIN TSG-6, TNF- STIMULATED GENE 6 PROTEIN, TSG-6, TUMOR NECROSIS FACTOR ALPHA-INDUCED PROTEIN 6, TNF ALPHA-INDUCED PROTEIN 6, HYALURONATE-BINDING PROTEIN

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (2, 2)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

PROSITE Motifs (1, 1)

Exons (4, 4)

Asymmetric/Biological Unit (4, 4)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000243347	1	ENSE00000840475	chr2:152214106-152214274	169	TSG6_HUMAN	1-32	32	0	-	-
1.2	ENST00000243347	2	ENSE00000840476	chr2:152220457-152220594	138	TSG6_HUMAN	32-78	47	0	-	-
1.3a	ENST00000243347	3a	ENSE00000840477	chr2:152222570-152222731	162	TSG6_HUMAN	78-132	55	1	A:131-132	2
1.4	ENST00000243347	4	ENSE00000840478	chr2:152226534-152226762	229	TSG6_HUMAN	132-208	77	1	A:132-208	77
1.5a	ENST00000243347	5a	ENSE00000840479	chr2:152230063-152230103	41	TSG6_HUMAN	208-222	15	1	A:208-222	15
1.6	ENST00000243347	6	ENSE00001217763	chr2:152235878-152236560	683	TSG6_HUMAN	222-277	56	1	A:222-249	28

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
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Chain A from PDB  Type:PROTEIN  Length:119
 aligned with TSG6_HUMAN | P98066 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:119
                                   140       150       160       170       180       190       200       210       220       230       240         
           TSG6_HUMAN   131 HAKECGGVFTDPKQIFKSPGFPNEYEDNQICYWHIRLKYGQRIHLSFLDFDLEDDPGCLADYVEIYDSYDDVHGFVGRYCGDELPDDIISTGNVMTLKFLSDASVTAGGFQIKYVAMDP 249
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----CUB-2wnoA01 A:135-244                                                                                         ----- Pfam domains
         Sec.struct. author ............eeeee............eeeeeee.....eeeeeeee............eeeee.....................ee....eeeeeee..........eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------R--------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----CUB  PDB: A:135-247 UniProt: 135-247                                                                             -- PROSITE
           Transcript 1 (1) 1.---------------------------------------------------------------------------Exon 1.5a      --------------------------- Transcript 1 (1)
           Transcript 1 (2) -Exon 1.4  PDB: A:132-208 UniProt: 132-208                                    -------------Exon 1.6  PDB: A:222-249     Transcript 1 (2)
                 2wno A 131 HAKECGGVFTDPKQIFKSPGFPNEYEDNQICYWHIRLKYGQRIHLSFLDFDLEDDPGCLADYVEIYDSYDDVHGFVGRYCGDELPDDIISTGNVMTLKFLSDASVTAGGFQIKYVAMDP 249
                                   140       150       160       170       180       190       200       210       220       230       240

Legend:		→ Mismatch	(orange background)
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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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (TSG6_HUMAN | P98066)

molecular function
	GO:0005540	hyaluronic acid binding	Interacting selectively and non-covalently with hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine.
biological process
	GO:0007155	cell adhesion	The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
	GO:0007267	cell-cell signaling	Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
	GO:0006954	inflammatory response	The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
	GO:0050728	negative regulation of inflammatory response	Any process that stops, prevents, or reduces the frequency, rate or extent of the inflammatory response.
	GO:0007165	signal transduction	The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.

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