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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   STRUCTURE OF A THROMBOSPONDIN C-TERMINAL FRAGMENT REVEALS A NOVEL CALCIUM CORE IN THE TYPE 3 REPEATS

Authors :   M. Kvansakul, J. C. Adams, E. Hohenester

Date :   19 Feb 04 (Deposition) - 18 Mar 04 (Release) - 12 Jul 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym./Biol. Unit : A

Keywords :   Extracellular Matrix, Calcium Binding, L-Type Lectin, Glycoprotein, Cell Adhesion, Calcium-Binding, Heparin-Binding, Egf-Like Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Kvansakul, J. C. Adams, E. Hohenester
Structure Of A Thrombospondin C-Terminal Fragment Reveals A Novel Calcium Core In The Type 3 Repeats
Embo J. V. 23 1223 2004
PubMed-ID: 15014436 | Reference-DOI: 10.1038/SJ.EMBOJ.7600166

Molecule 1 - THROMBOSPONDIN-1
	Chains	:	A
	Engineered	:	YES
	Expression System	:	HOMO SAPIENS
	Expression System Cell Line	:	293-EBNA
	Expression System Taxid	:	9606
	Expression System Vector	:	PCEP-PU
	Fragment	:	RESIDUES 831-1170
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 16)

No.	Name	Count	Type	Full Name
1	CA	16	Ligand/Ion	CALCIUM ION

Asymmetric Unit (16, 16)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:917 , ASP A:919 , ASP A:926 , CYS A:928 , ASN A:931 , ILE A:934	BINDING SITE FOR RESIDUE CA B2001
02	AC2	SOFTWARE	ASP A:915 , ASP A:917 , ASP A:919 , VAL A:921 , ASP A:926 , HOH A:2154	BINDING SITE FOR RESIDUE CA B2002
03	AC3	SOFTWARE	ASP A:902 , ASP A:904 , ASP A:906 , ARG A:908 , HOH A:2239 , HOH A:2150	BINDING SITE FOR RESIDUE CA B2003
04	AC4	SOFTWARE	ASP A:879 , ASP A:881 , ASP A:883 , ILE A:885 , ASP A:890 , HOH A:2136	BINDING SITE FOR RESIDUE CA B2004
05	AC5	SOFTWARE	ASP A:881 , ASP A:883 , ASP A:890 , CYS A:892 , VAL A:895 , ASN A:897	BINDING SITE FOR RESIDUE CA B2005
06	AC6	SOFTWARE	ASP A:868 , ASP A:870 , ASP A:877 , ASP A:879 , ASN A:882 , HOH A:2294	BINDING SITE FOR RESIDUE CA B2006
07	AC7	SOFTWARE	ASP A:866 , ASP A:868 , ASP A:870 , LYS A:872 , ASP A:877 , HOH A:2118	BINDING SITE FOR RESIDUE CA B2007
08	AC8	SOFTWARE	ASP A:874 , ASP A:877 , ASP A:880 , ASP A:887 , HOH A:2280 , HOH A:2142	BINDING SITE FOR RESIDUE CA B2008
09	AC9	SOFTWARE	ASP A:845 , ASP A:847 , ASP A:854 , CYS A:856 , VAL A:859 , ASN A:861	BINDING SITE FOR RESIDUE CA B2009
10	BC1	SOFTWARE	ASP A:843 , ASP A:845 , ASP A:847 , HIS A:849 , ASP A:854 , HOH A:2122	BINDING SITE FOR RESIDUE CA B2010
11	BC2	SOFTWARE	ASP A:830 , ASP A:832 , ASP A:839 , ASN A:841 , HOH A:2241 , HOH A:2183	BINDING SITE FOR RESIDUE CA B2011
12	BC3	SOFTWARE	ASP A:828 , ASP A:830 , ASP A:832 , ILE A:834 , ASP A:839 , HOH A:2110	BINDING SITE FOR RESIDUE CA B2012
13	BC4	SOFTWARE	ASP A:825 , ASN A:973 , ASP A:1001 , ASP A:1003 , SER A:1136	BINDING SITE FOR RESIDUE CA B2013
14	BC5	SOFTWARE	GLU A:999 , ASP A:1001 , GLN A:1024 , ASP A:1086 , HOH A:2184 , HOH A:2244 , HOH A:2179	BINDING SITE FOR RESIDUE CA B2014
15	BC6	SOFTWARE	ASP A:825 , ASP A:1001 , ASP A:1002 , ASP A:1003 , GLN A:1027 , HOH A:2203	BINDING SITE FOR RESIDUE CA B2015
16	BC7	SOFTWARE	ASP A:948 , GLY A:951 , ASP A:956 , ASP A:975 , HOH A:2187 , HOH A:2149	BINDING SITE FOR RESIDUE CA B2016

Asymmetric/Biological Unit

No.	Residues
1	A:818	-	A:838
2	A:856	-	A:876
3	A:892	-	A:912
4	A:928	-	A:1149

Asymmetric/Biological Unit

No.	Residues
1	Asn A:1033	-	Pro A:1034
2	Asp A:1151	-	Pro A:1152

(no "SAP(SNP)/Variant" information available for 1UX6)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TSP3	PS51234	Thrombospondin type-3 (TSP3) repeat profile.	TSP1_HUMAN	691-726 727-762 763-785 786-821 822-844 845-882 883-918 919-954	3	- - - - - A:827-864 A:865-900 A:901-936
2	TSP_CTER	PS51236	Thrombospondin C-terminal domain profile.	TSP1_HUMAN	958-1170	1	A:940-1152

Asymmetric/Biological Unit (7, 7)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000260356	1a	ENSE00001948740	chr15:39873127-39873429	303	TSP1_HUMAN	-	0	0	-	-
1.2b	ENST00000260356	2b	ENSE00002162162	chr15:39874030-39874125	96	TSP1_HUMAN	1-23	23	0	-	-
1.3b	ENST00000260356	3b	ENSE00001792284	chr15:39874394-39874953	560	TSP1_HUMAN	23-209	187	0	-	-
1.4	ENST00000260356	4	ENSE00001758707	chr15:39875818-39875893	76	TSP1_HUMAN	210-235	26	0	-	-
1.5	ENST00000260356	5	ENSE00001725099	chr15:39876189-39876388	200	TSP1_HUMAN	235-301	67	0	-	-
1.6	ENST00000260356	6	ENSE00001706898	chr15:39876501-39876623	123	TSP1_HUMAN	302-342	41	0	-	-
1.7	ENST00000260356	7	ENSE00001674053	chr15:39877671-39877764	94	TSP1_HUMAN	343-374	32	0	-	-
1.8b	ENST00000260356	8b	ENSE00001738791	chr15:39879548-39879721	174	TSP1_HUMAN	374-432	59	0	-	-
1.9a	ENST00000260356	9a	ENSE00001608072	chr15:39880243-39880419	177	TSP1_HUMAN	432-491	60	0	-	-
1.10b	ENST00000260356	10b	ENSE00001783863	chr15:39880727-39880900	174	TSP1_HUMAN	491-549	59	0	-	-
1.11c	ENST00000260356	11c	ENSE00001710663	chr15:39881160-39881287	128	TSP1_HUMAN	549-591	43	0	-	-
1.12	ENST00000260356	12	ENSE00001794374	chr15:39881403-39881555	153	TSP1_HUMAN	592-642	51	0	-	-
1.13c	ENST00000260356	13c	ENSE00000883769	chr15:39882006-39882224	219	TSP1_HUMAN	643-715	73	0	-	-
1.14	ENST00000260356	14	ENSE00000883770	chr15:39882717-39882824	108	TSP1_HUMAN	716-751	36	0	-	-
1.15	ENST00000260356	15	ENSE00000883771	chr15:39883392-39883551	160	TSP1_HUMAN	752-805	54	0	-	-
1.16	ENST00000260356	16	ENSE00000883772	chr15:39883706-39883824	119	TSP1_HUMAN	805-844	40	1	A:813-826	14
1.17	ENST00000260356	17	ENSE00000883773	chr15:39884769-39885003	235	TSP1_HUMAN	845-923	79	1	A:827-905	79
1.18a	ENST00000260356	18a	ENSE00000883774	chr15:39885201-39885428	228	TSP1_HUMAN	923-999	77	1	A:905-981 (gaps)	77
1.19a	ENST00000260356	19a	ENSE00000883775	chr15:39885598-39885869	272	TSP1_HUMAN	999-1089	91	1	A:981-1071	91
1.19c	ENST00000260356	19c	ENSE00000883776	chr15:39886300-39886397	98	TSP1_HUMAN	1090-1122	33	1	A:1072-1104	33
1.20	ENST00000260356	20	ENSE00000883777	chr15:39886502-39886641	140	TSP1_HUMAN	1122-1169	48	1	A:1104-1151	48
1.21b	ENST00000260356	21b	ENSE00000930951	chr15:39887563-39891119	3557	TSP1_HUMAN	1169-1170	2	1	A:1151-1152	2

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:335
 aligned with TSP1_HUMAN | P07996 from UniProtKB/Swiss-Prot  Length:1170

    Alignment length:340
                                   840       850       860       870       880       890       900       910       920       930       940       950       960       970       980       990      1000      1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170
          TSP1_HUMAN    831 DQCDNCPLEHNPDQLDSDSDRIGDTCDNNQDIDEDGHQNNLDNCPYVPNANQADHDKDGKGDACDHDDDNDGIPDDKDNCRLVPNPDQKDSDGDGRGDACKDDFDHDSVPDIDDICPENVDISETDFRRFQMIPLDPKGTSQNDPNWVVRHQGKELVQTVNCDPGLAVGYDEFNAVDFSGTFFINTERDDDYAGFVFGYQSSSRFYVVMWKQVTQSYWDTNPTRAQGYSGLSVKVVNSTTGPGEHLRNALWHTGNTPGQVRTLWHDPRHIGWKDFTAYRWRLSHRPKTGFIRVVMYEGKKIMADSGPIYDKTYAGGRLGLFVFSQEMVFFSDLKYECRDP 1170
               SCOP domains d1ux6a2 A:813-936 Thrombospondin-1                                                                                          d1ux6a1 A:937-1152 Thromb     ospondin C-terminal domain                                                                                                                                                                 SCOP domains
               CATH domains 1ux6A01 A:813-939 TSP type-3 repeat                                                                                            1ux6A02 A:940-1152  [c     ode=2.60.120.200, no name defined]                                                                                                                                                         CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------TSP_3-1ux6A01 A:901-936             -----------------TSP_C-1u     x6A05 A:954-1152                                                                                                                                                                           Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------TSP_3-1ux6A02 A:901-936             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------------TSP_3-1ux6A03 A:901-936             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains (3)
           Pfam domains (4) ----------------------------------------------------------------------------------------TSP_3-1ux6A04 A:901-936             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains (4)
         Sec.struct. author hhhhhh...............................hhhhh..................hhhhh........hhhhh..................hhhhh.............................eeee............ee.-----.eee......eeeeeeeee..eeeeeeeee.......eeeeeeeeee..eeeeeeee...ee.........ee..eeeeeeee.....hhhhhhhhhh.......eeeeee...........eeeeeeeee....eeeeeeee..eeeee...ee......eeeeeeee....eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE TSP3  PDB: -  TSP3  PDB: A:827-864 UniProt: 845-882 TSP3  PDB: A:865-900                TSP3  PDB: A:901-936                ---TSP_CTER  PDB: A:940-1152 UniProt: 958-1170                                                                                                                                                                           PROSITE
           Transcript 1 (1) Exon 1.16     Exon 1.17  PDB: A:827-905 UniProt: 845-923                                     ---------------------------------------------------------------------------Exon 1.19a  PDB: A:981-1071 UniProt: 999-1089                                              Exon 1.19c  PDB: A:1072-1104     ----------------------------------------------1. Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------------------Exon 1.18a  PDB: A:905-981 (gaps) UniProt: 923-999                           --------------------------------------------------------------------------------------------------------------------------Exon 1.20  PDB: A:1104-1151 UniProt: 1122-1169  - Transcript 1 (2)
                1ux6 A  813 ALADNCPLEHNPDQLDSDSDRIGDTCDNNQDIDEDGHQNNLDNCPYVPNANQADHDKDGKGDACDHDDDNDGIPDDKDNCRLVPNPDQKDSDGDGRGDACKDDFDHDSVPDIDDICPENVDISETDFRRFQMIPLDPKGTSQNDPNWVV-----ELVQTVNSDPGLAVGYDEFNAVDFSGTFFINTERDDDYAGFVFGYQSSSRFYVVMWKQVTQSYWDTNPTRAQGYSGLSVKVVKSTTGPGEHLRNALWHTGNTPGQVRTLWHDPRHIGWKDFTAYRWRLSHRPKTGFIRVVMYEGKKIMADSGPIYDKTYAGGRLGLFVFSQEMVFFSDLKYECRDP 1152
                                   822       832       842       852       862       872       882       892       902       912       922       932       942       952        |-    |  972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152
                                                                                                                                                                              961   967

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Few Secondary Structures (1120)

Architecture: Irregular (1120)

Topology: TSP type-3 repeat (1)

Homologous Superfamily: TSP type-3 repeat (1)

Human (Homo sapiens) (1)

1ux6A01

A:813-939

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: [code=2.60.120.200, no name defined] (421)

Human (Homo sapiens) (49)

1ux6A02

A:940-1152

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: TSP_3] (3)

Family: TSP_3 (3)

Homo sapiens (Human) (3)

1a	TSP_3-1ux6A01	A:901-936
1b	TSP_3-1ux6A02	A:901-936
1c	TSP_3-1ux6A03	A:901-936
1d	TSP_3-1ux6A04	A:901-936

Clan: no clan defined [family: TSP_C] (3)

Family: TSP_C (3)

Homo sapiens (Human) (3)

TSP_C-1ux6A05

A:954-1152

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (TSP1_HUMAN | P07996)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0070052	collagen V binding	Interacting selectively and non-covalently with a type V collagen trimer.
	GO:0050840	extracellular matrix binding	Interacting selectively and non-covalently with a component of the extracellular matrix.
	GO:0070051	fibrinogen binding	Interacting selectively and non-covalently with fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade.
	GO:0017134	fibroblast growth factor binding	Interacting selectively and non-covalently with a fibroblast growth factor.
	GO:0001968	fibronectin binding	Interacting selectively and non-covalently with a fibronectin, a group of related adhesive glycoproteins of high molecular weight found on the surface of animal cells, connective tissue matrices, and in extracellular fluids.
	GO:0008201	heparin binding	Interacting selectively and non-covalently with heparin, any member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells and which consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0005178	integrin binding	Interacting selectively and non-covalently with an integrin.
	GO:0043236	laminin binding	Interacting selectively and non-covalently with laminins, glycoproteins that are major constituents of the basement membrane of cells.
	GO:0030169	low-density lipoprotein particle binding	Interacting selectively and non-covalently with a low-density lipoprotein particle, a lipoprotein particle that is rich in cholesterol esters and low in triglycerides, is typically composed of APOB100 and APOE, and has a density of 1.02-1.06 g/ml and a diameter of between 20-25 nm.
	GO:0001786	phosphatidylserine binding	Interacting selectively and non-covalently with phosphatidylserine, a class of glycophospholipids in which a phosphatidyl group is esterified to the hydroxyl group of L-serine.
	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:0043394	proteoglycan binding	Interacting selectively and non-covalently with a proteoglycan, any glycoprotein in which the carbohydrate units are glycosaminoglycans.
	GO:0050431	transforming growth factor beta binding	Interacting selectively and non-covalently with TGF-beta, transforming growth factor beta, a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types.
biological process
	GO:0000187	activation of MAPK activity	The initiation of the activity of the inactive enzyme MAP kinase (MAPK).
	GO:0048266	behavioral response to pain	Any process that results in a change in the behavior of an organism as a result of a pain stimulus. Pain stimuli cause activation of nociceptors, peripheral receptors for pain, include receptors which are sensitive to painful mechanical stimuli, extreme heat or cold, and chemical stimuli.
	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:0007050	cell cycle arrest	A regulatory process that halts progression through the cell cycle during one of the normal phases (G1, S, G2, M).
	GO:0016477	cell migration	The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues. Cell migration is a central process in the development and maintenance of multicellular organisms.
	GO:0034605	cellular response to heat	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
	GO:0002544	chronic inflammatory response	Inflammation of prolonged duration (weeks or months) in which active inflammation, tissue destruction, and attempts at repair are proceeding simultaneously. Although it may follow acute inflammation, chronic inflammation frequently begins insidiously, as a low-grade, smoldering, often asymptomatic response.
	GO:0043652	engulfment of apoptotic cell	The removal of the apoptotic cell by phagocytosis, by a neighboring cell or by a phagocyte.
	GO:0030198	extracellular matrix organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.
	GO:0006955	immune response	Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
	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:0016525	negative regulation of angiogenesis	Any process that stops, prevents, or reduces the frequency, rate or extent of angiogenesis.
	GO:0002581	negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II	Any process that stops, prevents, or reduces the frequency, rate, or extent of antigen processing and presentation of antigen (peptide or polysaccharide) via MHC class II.
	GO:0043066	negative regulation of apoptotic process	Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
	GO:0043537	negative regulation of blood vessel endothelial cell migration	Any process that stops, prevents, or reduces the frequency, rate or extent of the migration of the endothelial cells of blood vessels.
	GO:0010754	negative regulation of cGMP-mediated signaling	Any process that decreases the rate, frequency or extent of cGMP-mediated signaling. cGMP-mediated signaling is a series of molecular signals in which a cell uses cyclic GMP to convert an extracellular signal into a response.
	GO:0001953	negative regulation of cell-matrix adhesion	Any process that stops, prevents, or reduces the rate or extent of cell adhesion to the extracellular matrix.
	GO:0043154	negative regulation of cysteine-type endopeptidase activity involved in apoptotic process	Any process that stops, prevents, or reduces the frequency, rate or extent of a cysteine-type endopeptidase activity involved in the apoptotic process.
	GO:0002605	negative regulation of dendritic cell antigen processing and presentation	Any process that stops, prevents, or reduces the frequency, rate, or extent of dendritic cell antigen processing and presentation.
	GO:2001027	negative regulation of endothelial cell chemotaxis	Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell chemotaxis.
	GO:0010596	negative regulation of endothelial cell migration	Any process that decreases the rate, frequency, or extent of the orderly movement of an endothelial cell into the extracellular matrix to form an endothelium.
	GO:0001937	negative regulation of endothelial cell proliferation	Any process that stops, prevents, or reduces the rate or extent of endothelial cell proliferation.
	GO:2001237	negative regulation of extrinsic apoptotic signaling pathway	Any process that stops, prevents or reduces the frequency, rate or extent of extrinsic apoptotic signaling pathway.
	GO:0051918	negative regulation of fibrinolysis	Any process that stops, prevents, or reduces the frequency, rate or extent of fibrinolysis, an ongoing process that solubilizes fibrin, resulting in the removal of small blood clots.
	GO:0040037	negative regulation of fibroblast growth factor receptor signaling pathway	Any process that stops, prevents, or reduces the frequency, rate or extent of fibroblast growth factor receptor signaling pathway activity.
	GO:0051895	negative regulation of focal adhesion assembly	Any process that stops, prevents, or reduces the frequency, rate or extent of focal adhesion assembly, the establishment and maturation of focal adhesions.
	GO:0032695	negative regulation of interleukin-12 production	Any process that stops, prevents, or reduces the frequency, rate, or extent of interleukin-12 production.
	GO:0010751	negative regulation of nitric oxide mediated signal transduction	Any process that decreases the rate, frequency or extent of nitric oxide mediated signal transduction. Nitric oxide mediated signal transduction is a series of molecular signals mediated by the detection of nitric oxide (NO).
	GO:0010748	negative regulation of plasma membrane long-chain fatty acid transport	Any process that decreases the rate, frequency or extent of plasma membrane long-chain fatty acid transport. Plasma membrane long-chain fatty acid transport is the directed movement of long-chain fatty acids across the plasma membrane.
	GO:0010757	negative regulation of plasminogen activation	Any process that decreases the rate, frequency or extent of plasminogen activation. Plasminogen activation is the process in which plasminogen is processed to plasmin.
	GO:0018149	peptide cross-linking	The formation of a covalent cross-link between or within protein chains.
	GO:0002576	platelet degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
	GO:0045766	positive regulation of angiogenesis	Any process that activates or increases angiogenesis.
	GO:0030194	positive regulation of blood coagulation	Any process that activates or increases the frequency, rate or extent of blood coagulation.
	GO:0043536	positive regulation of blood vessel endothelial cell migration	Any process that activates or increases the frequency, rate or extent of the migration of the endothelial cells of blood vessels.
	GO:0030335	positive regulation of cell migration	Any process that activates or increases the frequency, rate or extent of cell migration.
	GO:0050921	positive regulation of chemotaxis	Any process that activates or increases the frequency, rate or extent of the directed movement of a motile cell or organism in response to a specific chemical concentration gradient.
	GO:2000353	positive regulation of endothelial cell apoptotic process	Any process that activates or increases the frequency, rate or extent of endothelial cell apoptotic process.
	GO:0010595	positive regulation of endothelial cell migration	Any process that increases the rate, frequency, or extent of the orderly movement of an endothelial cell into the extracellular matrix to form an endothelium.
	GO:1902043	positive regulation of extrinsic apoptotic signaling pathway via death domain receptors	Any process that activates or increases the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
	GO:0010763	positive regulation of fibroblast migration	Any process that increases the rate, frequency or extent of fibroblast cell migration. Fibroblast cell migration is accomplished by extension and retraction of a pseudopodium.
	GO:0043032	positive regulation of macrophage activation	Any process that stimulates, induces or increases the rate of macrophage activation.
	GO:0010759	positive regulation of macrophage chemotaxis	Any process that increases the rate, frequency or extent of macrophage chemotaxis. Macrophage chemotaxis is the movement of a macrophage in response to an external stimulus.
	GO:0042327	positive regulation of phosphorylation	Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule.
	GO:0051897	positive regulation of protein kinase B signaling	Any process that activates or increases the frequency, rate or extent of protein kinase B signaling, a series of reactions mediated by the intracellular serine/threonine kinase protein kinase B.
	GO:2000379	positive regulation of reactive oxygen species metabolic process	Any process that activates or increases the frequency, rate or extent of reactive oxygen species metabolic process.
	GO:0030511	positive regulation of transforming growth factor beta receptor signaling pathway	Any process that activates or increases the frequency, rate or extent of TGF-beta receptor signaling pathway activity.
	GO:0032914	positive regulation of transforming growth factor beta1 production	Any process that activates or increases the frequency, rate, or extent of production of transforming growth factor-beta1.
	GO:0045727	positive regulation of translation	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
	GO:0042535	positive regulation of tumor necrosis factor biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of tumor necrosis factor, an inflammatory cytokine produced by macrophages/monocytes during acute inflammation and which is responsible for a diverse range of signaling events within cells, leading to necrosis or apoptosis.
	GO:0036066	protein O-linked fucosylation	The process of transferring a fucosyl group to a serine or threonine residues in a protein acceptor molecule, to form an O-linked protein-sugar linkage.
	GO:0030823	regulation of cGMP metabolic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving cGMP.
	GO:0051592	response to calcium ion	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a calcium ion stimulus.
	GO:0042493	response to drug	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0034976	response to endoplasmic reticulum stress	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stress acting at the endoplasmic reticulum. ER stress usually results from the accumulation of unfolded or misfolded proteins in the ER lumen.
	GO:0009749	response to glucose	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a glucose stimulus.
	GO:0001666	response to hypoxia	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
	GO:0032026	response to magnesium ion	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a magnesium ion stimulus.
	GO:0032570	response to progesterone	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a progesterone stimulus.
	GO:0006986	response to unfolded protein	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an unfolded protein stimulus.
	GO:0002040	sprouting angiogenesis	The extension of new blood vessels from existing capillaries into avascular tissues resulting from the proliferation of blood vessel endothelial cells.
cellular component
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0005783	endoplasmic reticulum	The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
	GO:0005788	endoplasmic reticulum lumen	The volume enclosed by the membranes of the endoplasmic reticulum.
	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:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0031012	extracellular matrix	A structure lying external to one or more cells, which provides structural support for cells or tissues.
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0005577	fibrinogen complex	A highly soluble, elongated protein complex found in blood plasma and involved in clot formation. It is converted into fibrin monomer by the action of thrombin. In the mouse, fibrinogen is a hexamer, 46 nm long and 9 nm maximal diameter, containing two sets of nonidentical chains (alpha, beta, and gamma) linked together by disulfide bonds.
	GO:0031091	platelet alpha granule	A secretory organelle found in blood platelets, which is unique in that it exhibits further compartmentalization and acquires its protein content via two distinct mechanisms: (1) biosynthesis predominantly at the megakaryocyte (MK) level (with some vestigial platelet synthesis) (e.g. platelet factor 4) and (2) endocytosis and pinocytosis at both the MK and circulating platelet levels (e.g. fibrinogen (Fg) and IgG).
	GO:0031093	platelet alpha granule lumen	The volume enclosed by the membrane of the platelet alpha granule.
	GO:0016529	sarcoplasmic reticulum	A fine reticular network of membrane-limited elements that pervades the sarcoplasm of a muscle cell; continuous over large portions of the cell and with the nuclear envelope; that part of the endoplasmic reticulum specialized for calcium release, uptake and storage.
	GO:0030141	secretory granule	A small subcellular vesicle, surrounded by a membrane, that is formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion. Secretory granules move towards the periphery of the cell and upon stimulation, their membranes fuse with the cell membrane, and their protein load is exteriorized. Processing of the contained protein may take place in secretory granules.

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	1ux6
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	TSP1_HUMAN \| P07996	:	1lsl 1z78 1za4 2erf 2es3 2ouh 2ouj 3r6b 5foe

1lsl	CRYSTAL STRUCTURE OF THE THROMBOSPONDIN-1 TYPE 1 REPEATS

Description

Compounds

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Ligands, Modified Residues, Ions (1, 16)

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