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Asym./Biol. Unit (Jmol Viewer)

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

Title :   THE MOLECULAR STRUCTURE OF TOLL-LIKE RECEPTOR 3 LIGAND BINDING DOMAIN

Authors :   J. K. Bell, I. Botos, P. R. Hall, J. Askins, J. Shiloach, D. M. Segal, D. R.

Date :   17 Jun 05 (Deposition) - 02 Aug 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym./Biol. Unit : A

Keywords :   Leucine Rich Repeat, Solenoid, Glycosylation, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. K. Bell, I. Botos, P. R. Hall, J. Askins, J. Shiloach, D. M. Segal, D. R. Davies
The Molecular Structure Of The Toll-Like Receptor 3 Ligand-Binding Domain
Proc. Natl. Acad. Sci. Usa V. 102 10976 2005
PubMed-ID: 16043704 | Reference-DOI: 10.1073/PNAS.0505077102

Molecule 1 - TOLL-LIKE RECEPTOR 3
	Chains	:	A
	Engineered	:	YES
	Expression System	:	TRICHOPLUSIA NI
	Expression System Cell Line	:	HI5
	Expression System Common	:	CABBAGE LOOPER
	Expression System Taxid	:	7111
	Expression System Vector	:	PDEST-570
	Expression System Vector Type	:	BACULOVIRUS
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CD283 ANTIGEN

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (8, 33)

No.	Name	Count	Type	Full Name
1	BMA	3	Ligand/Ion	BETA-D-MANNOSE
2	BME	1	Ligand/Ion	BETA-MERCAPTOETHANOL
3	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
4	GLC	2	Ligand/Ion	ALPHA-D-GLUCOSE
5	MAN	1	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	20	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
7	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
8	SO4	3	Ligand/Ion	SULFATE ION

Asymmetric Unit (33, 33)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:33 , ASN A:52 , NAG A:728 , HOH A:6652	BINDING SITE FOR RESIDUE NAG A 727
02	AC2	SOFTWARE	NAG A:727	BINDING SITE FOR RESIDUE NAG A 728
03	AC3	SOFTWARE	THR A:43 , GLN A:44 , VAL A:45 , ASN A:70 , NAG A:730	BINDING SITE FOR RESIDUE NAG A 729
04	AC4	SOFTWARE	GLN A:44 , NAG A:729	BINDING SITE FOR RESIDUE NAG A 730
05	AC5	SOFTWARE	GLU A:171 , ASN A:196	BINDING SITE FOR RESIDUE NAG A 1961
06	AC6	SOFTWARE	ARG A:251 , ASN A:252 , TYR A:302 , NAG A:2522 , HOH A:6717	BINDING SITE FOR RESIDUE NAG A 2521
07	AC7	SOFTWARE	NAG A:2521 , HOH A:6717	BINDING SITE FOR RESIDUE NAG A 2522
08	AC9	SOFTWARE	ASN A:265 , TRP A:296 , NAG A:2652	BINDING SITE FOR RESIDUE NAG A 2651
09	AD1	SOFTWARE	NAG A:2651 , BMA A:2653	BINDING SITE FOR RESIDUE NAG A 2652
10	AD2	SOFTWARE	NAG A:2751	BINDING SITE FOR RESIDUE NAG A 2752
11	AD3	SOFTWARE	ASN A:291 , SER A:315 , HIS A:316 , NAG A:2912 , HOH A:6434	BINDING SITE FOR RESIDUE NAG A 2911
12	AD4	SOFTWARE	SO4 A:752 , NAG A:3981 , FUC A:3986	BINDING SITE FOR RESIDUE NAG A 3982
13	AD5	SOFTWARE	GLU A:363 , SER A:387 , ASN A:413 , ASP A:437 , TYR A:462 , GLC A:753 , NAG A:4132	BINDING SITE FOR RESIDUE NAG A 4131
14	BC1	SOFTWARE	NAG A:2652	BINDING SITE FOR RESIDUE BMA A 2653
15	BC2	SOFTWARE	TRP A:273 , ASN A:275 , NAG A:2752 , HOH A:6580	BINDING SITE FOR RESIDUE NAG A 2751
16	BC5	SOFTWARE	NAG A:2911	BINDING SITE FOR RESIDUE NAG A 2912
17	BC6	SOFTWARE	ASN A:398 , GLU A:399 , SO4 A:752 , NAG A:3982 , FUC A:3986	BINDING SITE FOR RESIDUE NAG A 3981
18	BC8	SOFTWARE	NAG A:3981 , NAG A:3982	BINDING SITE FOR RESIDUE FUC A 3986
19	CC1	SOFTWARE	LYS A:416 , GLC A:753 , NAG A:4131 , BMA A:4133	BINDING SITE FOR RESIDUE NAG A 4132
20	CC2	SOFTWARE	NAG A:4132 , MAN A:4134 , BMA A:4135	BINDING SITE FOR RESIDUE BMA A 4133
21	CC3	SOFTWARE	BMA A:4133	BINDING SITE FOR RESIDUE MAN A 4134
22	CC4	SOFTWARE	BMA A:4133	BINDING SITE FOR RESIDUE BMA A 4135
23	CC5	SOFTWARE	SER A:481 , ASN A:507 , LYS A:531 , NAG A:5072 , FUC A:5076 , HOH A:6523 , HOH A:6690	BINDING SITE FOR RESIDUE NAG A 5071
24	CC6	SOFTWARE	NAG A:5071 , FUC A:5076	BINDING SITE FOR RESIDUE NAG A 5072
25	CC7	SOFTWARE	NAG A:5071 , NAG A:5072 , HOH A:6523	BINDING SITE FOR RESIDUE FUC A 5076
26	CC8	SOFTWARE	ARG A:635 , ASN A:636 , NDG A:6362	BINDING SITE FOR RESIDUE NAG A 6361
27	CC9	SOFTWARE	NAG A:6361	BINDING SITE FOR RESIDUE NDG A 6362
28	DC1	SOFTWARE	ASP A:437 , GLY A:439 , TYR A:462 , NAG A:4131 , NAG A:4132	BINDING SITE FOR RESIDUE GLC A 753
29	DC2	SOFTWARE	TYR A:556 , LYS A:559 , GLU A:580 , HOH A:6713	BINDING SITE FOR RESIDUE GLC A 754
30	DC3	SOFTWARE	NAG A:3981 , NAG A:3982 , HOH A:6646	BINDING SITE FOR RESIDUE SO4 A 752
31	DC4	SOFTWARE	TYR A:326 , ASN A:328 , HIS A:359 , ASN A:361 , HOH A:6392	BINDING SITE FOR RESIDUE SO4 A 750
32	DC5	SOFTWARE	ARG A:488 , ASN A:515 , GLN A:538 , HIS A:539 , HOH A:6414 , HOH A:6693 , HOH A:6695	BINDING SITE FOR RESIDUE SO4 A 751
33	DC6	SOFTWARE	CYS A:356	BINDING SITE FOR RESIDUE BME A 1270

Asymmetric/Biological Unit

No.	Residues
1	A:28	-	A:37
2	A:95	-	A:122
3	A:649	-	A:677
4	A:651	-	A:696

Asymmetric/Biological Unit

No.	Residues
1	Ser A:498	-	Pro A:499
2	Thr A:679	-	Pro A:680

Asymmetric/Biological Unit (4, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_052361	N	284	I	TLR3_HUMAN	Polymorphism	5743316	A	N	284	I
2	UniProt	VAR_052362	Y	307	D	TLR3_HUMAN	Polymorphism	5743317	A	Y	307	D
3	UniProt	VAR_021976	L	412	F	TLR3_HUMAN	Polymorphism	3775291	A	L	412	F
4	UniProt	VAR_054887	P	554	S	TLR3_HUMAN	Disease (HSE2)	121434431	A	P	554	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 19)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LRR	PS51450	Leucine-rich repeat profile.	TLR3_HUMAN	52-73 76-97 100-121 124-145 148-168 172-193 198-219 249-270 275-296 299-320 356-377 380-400 408-429 432-454 507-528 531-552 563-584 587-608 611-632	19	A:52-73 A:76-97 A:100-121 A:124-145 A:148-168 A:172-193 A:198-219 A:249-270 A:275-296 A:299-320 A:356-377 A:380-400 A:408-429 A:432-454 A:507-528 A:531-552 A:563-584 A:587-608 A:611-632

Asymmetric/Biological Unit (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000296795	1a	ENSE00002039207	chr4:186990306-186990402	97	TLR3_HUMAN	-	0	0	-	-
1.2	ENST00000296795	2	ENSE00001083670	chr4:186997767-186998214	448	TLR3_HUMAN	1-147	147	1	A:26-147	122
1.3	ENST00000296795	3	ENSE00001083669	chr4:186999994-187000185	192	TLR3_HUMAN	148-211	64	1	A:148-211	64
1.4f	ENST00000296795	4f	ENSE00001083667	chr4:187003474-187005326	1853	TLR3_HUMAN	212-829	618	1	A:212-696	485
1.5c	ENST00000296795	5c	ENSE00001375046	chr4:187005799-187006255	457	TLR3_HUMAN	829-904	76	0	-	-

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:671
 aligned with TLR3_HUMAN | O15455 from UniProtKB/Swiss-Prot  Length:904

    Alignment length:671
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695 
           TLR3_HUMAN    26 TKCTVSHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPELSSHYLCNTPPHYHGFPVRLFDTSSC 696
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee..eee..................eee.........hhhhhh......eee...........hhhhhh....eee.....................eee.....................eee.....................eee.........hhhhhhhhh..ee.eee..................ee.eee......hhhhhhhhhhhh......eee.......ee....hhhhhhh...eee.......ee............eee.......ee............eee................ee............eee.....................eee.........ee....hhhhh.....eee.......ee............eee......eee..hhhhh......eee.....eee.............eee.......................eee.....................eee.....hhhhhh..................eee.....................eee.....................eee.........hhhhhhhhhh...eee.....ee.hhhhhhhhhhhhhhh.....hhhhhh.eee.......hhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------I----------------------D--------------------------------------------------------------------------------------------------------F---------------------------------------------------------------------------------------------------------------------------------------------S---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------LRR  PDB: A:52-73     --LRR  PDB: A:76-97     --LRR  PDB: A:100-121   --LRR  PDB: A:124-145   --LRR  PDB: A:148-168  ---LRR  PDB: A:172-193   ----LRR  PDB: A:198-219   -----------------------------LRR  PDB: A:249-270   ----LRR  PDB: A:275-296   --LRR  PDB: A:299-320   -----------------------------------LRR  PDB: A:356-377   --LRR  PDB: A:380-400  -------LRR  PDB: A:408-429   --LRR  PDB: A:432-454    ----------------------------------------------------LRR  PDB: A:507-528   --LRR  PDB: A:531-552   ----------LRR  PDB: A:563-584   --LRR  PDB: A:587-608   --LRR  PDB: A:611-632   ---------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.2  PDB: A:26-147 UniProt: 1-147 [INCOMPLETE]                                                                       Exon 1.3  PDB: A:148-211 UniProt: 148-211                       Exon 1.4f  PDB: A:212-696 UniProt: 212-829 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                                                               Transcript 1
                 2a0z A  26 TKCTVSHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPELSSHYLCNTPPHYHGFPVRLFDTSSC 696
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695

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 '\|'

(no "SCOP Domain" information available for 2A0Z)

(no "CATH Domain" information available for 2A0Z)

(no "Pfam Domain" information available for 2A0Z)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (TLR3_HUMAN | O15455)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003725	double-stranded RNA binding	Interacting selectively and non-covalently with double-stranded RNA.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	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:0004872	receptor activity	Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
	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:0007249	I-kappaB kinase/NF-kappaB signaling	The process in which a signal is passed on to downstream components within the cell through the I-kappaB-kinase (IKK)-dependent activation of NF-kappaB. The cascade begins with activation of a trimeric IKK complex (consisting of catalytic kinase subunits IKKalpha and/or IKKbeta, and the regulatory scaffold protein NEMO) and ends with the regulation of transcription of target genes by NF-kappaB. In a resting state, NF-kappaB dimers are bound to I-kappaB proteins, sequestering NF-kappaB in the cytoplasm. Phosphorylation of I-kappaB targets I-kappaB for ubiquitination and proteasomal degradation, thus releasing the NF-kappaB dimers, which can translocate to the nucleus to bind DNA and regulate transcription.
	GO:0007252	I-kappaB phosphorylation	The process of introducing a phosphate group into an inhibitor of kappa B (I-kappaB) protein. Phosphorylation of I-kappaB targets I-kappaB for ubiquitination and proteasomal degradation, thus releasing bound NF-kappaB dimers, which can translocate to the nucleus to bind DNA and regulate transcription.
	GO:0002756	MyD88-independent toll-like receptor signaling pathway	Any series of molecular signals generated as a consequence of binding to a toll-like receptor not relying on the MyD88 adaptor molecule. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response.
	GO:0035666	TRIF-dependent toll-like receptor signaling pathway	Any series of molecular signals generated as a consequence of binding to a toll-like receptor where the TRIF adaptor mediates transduction of the signal. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response.
	GO:0007250	activation of NF-kappaB-inducing kinase activity	The stimulation of the activity of NF-kappaB-inducing kinase through phosphorylation at specific residues.
	GO:0097190	apoptotic signaling pathway	A series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered.
	GO:0035690	cellular response to drug	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 drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0071359	cellular response to dsRNA	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 double-stranded RNA stimulus.
	GO:0071360	cellular response to exogenous dsRNA	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 an exogenous double-stranded RNA stimulus.
	GO:0035458	cellular response to interferon-beta	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 an interferon-beta stimulus. Interferon-beta is a type I interferon.
	GO:0071346	cellular response to interferon-gamma	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 an interferon-gamma stimulus. Interferon gamma is the only member of the type II interferon found so far.
	GO:0071260	cellular response to mechanical stimulus	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 mechanical stimulus.
	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:0042742	defense response to bacterium	Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
	GO:0051607	defense response to virus	Reactions triggered in response to the presence of a virus that act to protect the cell or organism.
	GO:0009597	detection of virus	The series of events in which a stimulus from a virus is received and converted into a molecular signal.
	GO:0097191	extrinsic apoptotic signaling pathway	A series of molecular signals in which a signal is conveyed from the cell surface to trigger the apoptotic death of a cell. The pathway starts with either a ligand binding to a cell surface receptor, or a ligand being withdrawn from a cell surface receptor (e.g. in the case of signaling by dependence receptors), and ends when the execution phase of apoptosis is triggered.
	GO:0006972	hyperosmotic response	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 detection of, or exposure to, a hyperosmotic environment, i.e. an environment with a higher concentration of solutes than the organism or cell.
	GO:0002376	immune system process	Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
	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:0045087	innate immune response	Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
	GO:0008584	male gonad development	The process whose specific outcome is the progression of the male gonad over time, from its formation to the mature structure.
	GO:0001774	microglial cell activation	The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor.
	GO:0002282	microglial cell activation involved in immune response	The change in morphology and behavior of a microglial cell resulting from exposure to a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response.
	GO:0070266	necroptotic process	A programmed necrotic cell death process which begins when a cell receives a signal (e.g. a ligand binding to a death receptor or to a Toll-like receptor), and proceeds through a series of biochemical events (signaling pathways), characterized by activation of receptor-interacting serine/threonine-protein kinase 1 and/or 3 (RIPK1/3, also called RIP1/3) and by critical dependence on mixed lineage kinase domain-like (MLKL), and which typically lead to common morphological features of necrotic cell death. The process ends when the cell has died. The process is divided into a signaling phase, and an execution phase, which is triggered by the former.
	GO:0097527	necroptotic signaling pathway	A series of molecular signals which triggers the necroptotic death of a cell. The pathway starts with reception of a signal, is characterized by activation of receptor-interacting serine/threonine-protein kinase 1 and/or 3 (RIPK1/3, also called RIP1/3), and ends when the execution phase of necroptosis is triggered.
	GO:0034128	negative regulation of MyD88-independent toll-like receptor signaling pathway	Any process that stops, prevents, or reduces the frequency, rate, or extent of MyD88-independent toll-like receptor signaling pathway.
	GO:0045671	negative regulation of osteoclast differentiation	Any process that stops, prevents, or reduces the frequency, rate or extent of osteoclast differentiation.
	GO:0043123	positive regulation of I-kappaB kinase/NF-kappaB signaling	Any process that activates or increases the frequency, rate or extent of I-kappaB kinase/NF-kappaB signaling.
	GO:0046330	positive regulation of JNK cascade	Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the JNK cascade.
	GO:0042346	positive regulation of NF-kappaB import into nucleus	Any process that activates or increases the frequency, rate or extent of transfer of NF-kappaB, a transcription factor for eukaryotic RNA polymerase II promoters, from the cytoplasm into the nucleus, across the nuclear membrane.
	GO:0051092	positive regulation of NF-kappaB transcription factor activity	Any process that activates or increases the frequency, rate or extent of activity of the transcription factor NF-kappaB.
	GO:0043065	positive regulation of apoptotic process	Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
	GO:0045080	positive regulation of chemokine biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of chemokines.
	GO:0032722	positive regulation of chemokine production	Any process that activates or increases the frequency, rate, or extent of chemokine production.
	GO:0001819	positive regulation of cytokine production	Any process that activates or increases the frequency, rate or extent of production of a cytokine.
	GO:0010628	positive regulation of gene expression	Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
	GO:0050729	positive regulation of inflammatory response	Any process that activates or increases the frequency, rate or extent of the inflammatory response.
	GO:0045356	positive regulation of interferon-alpha biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interferon-alpha.
	GO:0045359	positive regulation of interferon-beta biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interferon-beta.
	GO:0032728	positive regulation of interferon-beta production	Any process that activates or increases the frequency, rate, or extent of interferon-beta production.
	GO:0045078	positive regulation of interferon-gamma biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interferon-gamma.
	GO:0032735	positive regulation of interleukin-12 production	Any process that activates or increases the frequency, rate, or extent of interleukin-12 production.
	GO:0032755	positive regulation of interleukin-6 production	Any process that activates or increases the frequency, rate, or extent of interleukin-6 production.
	GO:0032757	positive regulation of interleukin-8 production	Any process that activates or increases the frequency, rate, or extent of interleukin-8 production.
	GO:0001934	positive regulation of protein phosphorylation	Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to amino acids within a protein.
	GO:0034123	positive regulation of toll-like receptor signaling pathway	Any process that activates or increases the frequency, rate, or extent of toll-like receptor signaling pathway.
	GO:0045944	positive regulation of transcription from RNA polymerase II promoter	Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0032760	positive regulation of tumor necrosis factor production	Any process that activates or increases the frequency, rate, or extent of tumor necrosis factor production.
	GO:0032481	positive regulation of type I interferon production	Any process that activates or increases the frequency, rate, or extent of type I interferon production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families.
	GO:0034346	positive regulation of type III interferon production	Any process that activates or increases the frequency, rate, or extent of type III interferon production. Interferon lambda is the only member of the type III interferon found so far.
	GO:0002730	regulation of dendritic cell cytokine production	Any process that modulates the frequency, rate, or extent of dendritic cell cytokine production.
	GO:0043331	response to dsRNA	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 double-stranded RNA stimulus.
	GO:0043330	response to exogenous dsRNA	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 exogenous double-stranded RNA stimulus.
	GO:0009615	response to virus	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 from a virus.
	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.
	GO:0034138	toll-like receptor 3 signaling pathway	Any series of molecular signals generated as a consequence of binding to toll-like receptor 3.
	GO:0002224	toll-like receptor signaling pathway	Any series of molecular signals generated as a consequence of binding to a toll-like receptor. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response.
cellular component
	GO:0000139	Golgi membrane	The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005769	early endosome	A membrane-bounded organelle that receives incoming material from primary endocytic vesicles that have been generated by clathrin-dependent and clathrin-independent endocytosis; vesicles fuse with the early endosome to deliver cargo for sorting into recycling or degradation pathways.
	GO:0036020	endolysosome membrane	The lipid bilayer surrounding an endolysosome. An endolysosome is a transient hybrid organelle formed by fusion of a late endosome with a lysosome.
	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:0005789	endoplasmic reticulum membrane	The lipid bilayer surrounding the endoplasmic reticulum.
	GO:0005768	endosome	A vacuole to which materials ingested by endocytosis are delivered.
	GO:0010008	endosome membrane	The lipid bilayer surrounding an endosome.
	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:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	GO:0005765	lysosomal membrane	The lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	2a0z
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	TLR3_HUMAN \| O15455	:	1ziw 2mk9 2mka 3ulu 3ulv 5gs0

(no "Related Entries Specified in the PDB File" available for 2A0Z)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (8, 33)

Sites (33, 33)

SS Bonds (4, 4)

Cis Peptide Bonds (2, 2)

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Exons (3, 3)

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