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(-) Description

Title :  CRYSTAL STRUCTURE OF DEATH RECEPTOR 5 (DR5) BOUND TO APO2L/TRAIL
 
Authors :  S. G. Hymowitz, H. W. Christinger, G. Fuh, M. P. O'Connell, R. F. Kelley, A. Ashkenazi, A. M. De Vos
Date :  09 Sep 99  (Deposition) - 22 Oct 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B,D,R,S,T
Keywords :  Apoptosis, Binding And Specificity, Ligand-Receptor Complex, Tnf Receptor Family (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. G. Hymowitz, H. W. Christinger, G. Fuh, M. Ultsch, M. O'Connell, R. F. Kelley, A. Ashkenazi, A. M. De Vos
Triggering Cell Death: The Crystal Structure Of Apo2L/Trail In A Complex With Death Receptor 5.
Mol. Cell V. 4 563 1999
PubMed-ID: 10549288  |  Reference-DOI: 10.1016/S1097-2765(00)80207-5
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DEATH RECEPTOR-5
    ChainsR, S, T
    EngineeredYES
    Expression SystemUNIDENTIFIED BACULOVIRUS
    Expression System Taxid10469
    Expression System VectorBACULOVIRUS WITH POLYHEDRIN PROMOTER
    FragmentEXTRACELLULAR DOMAIN RESIDUES 1-130
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymDR-5
 
Molecule 2 - APOPTOSIS-2 LIGAND
    ChainsA, B, D
    EngineeredYES
    Expression SystemBACTERIA
    Expression System CommonEUBACTERIA
    Expression System Taxid2
    Expression System VectorAP PROMOTER
    FragmentRESIDUES 114-281
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTRAIL, APO2L

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit ABDRST

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2ZN1Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:230 , CYS B:230 , CL B:400 , CYS D:230BINDING SITE FOR RESIDUE ZN A 300
2AC2SOFTWARECYS A:230 , ZN A:300 , CYS B:230 , CYS D:230BINDING SITE FOR RESIDUE CL B 400

(-) SS Bonds  (21, 21)

Asymmetric/Biological Unit
No.Residues
1R:28 -R:41
2R:44 -R:60
3R:63 -R:76
4R:66 -R:84
5R:86 -R:100
6R:103 -R:117
7R:107 -R:125
8S:28 -S:41
9S:44 -S:60
10S:63 -S:76
11S:66 -S:84
12S:86 -S:100
13S:103 -S:117
14S:107 -S:125
15T:28 -T:41
16T:44 -T:60
17T:63 -T:76
18T:66 -T:84
19T:86 -T:100
20T:103 -T:117
21T:107 -T:125

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1D0G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1D0G)

(-) PROSITE Motifs  (4, 18)

Asymmetric/Biological Unit (4, 18)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNFR_NGFR_2PS50050 TNFR/NGFR family cysteine-rich region domain profile.TR10B_HUMAN96-137
 
 
138-178
 
 
  6R:43-84
S:43-84
T:43-84
R:85-125
S:85-125
T:85-125
2TNFR_NGFR_1PS00652 TNFR/NGFR family cysteine-rich region signature.TR10B_HUMAN97-137
 
 
137-178
 
 
  6R:44-84
S:44-84
T:44-84
R:84-125
S:84-125
T:84-125
3TNF_2PS50049 TNF family profile.TNF10_HUMAN123-280
 
 
  3A:123-280
B:123-280
D:123-280
4TNF_1PS00251 TNF family signature.TNF10_HUMAN174-190
 
 
  3A:174-190
B:174-190
D:174-190

(-) Exons   (6, 18)

Asymmetric/Biological Unit (6, 18)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002412611aENSE00001929619chr3:172241297-172241043255TNF10_HUMAN1-44440--
1.3ENST000002412613ENSE00000826259chr3:172232788-172232651138TNF10_HUMAN45-90460--
1.4aENST000002412614aENSE00001015416chr3:172229449-17222940743TNF10_HUMAN91-105150--
1.5aENST000002412615aENSE00001693878chr3:172227111-172227007105TNF10_HUMAN105-140363A:119-131
B:119-131
D:119-131
13
13
13
1.7cENST000002412617cENSE00001858222chr3:172224709-1722232981412TNF10_HUMAN140-2811423A:144-281
B:144-281
D:144-281
138
138
138

2.1aENST000002764311aENSE00001335538chr8:22926692-22926264429TR10B_HUMAN1-48480--
2.3aENST000002764313aENSE00001232611chr8:22900756-22900651106TR10B_HUMAN49-84363R:21-31
S:21-31
T:21-31
11
11
11
2.4ENST000002764314ENSE00000980145chr8:22888385-22888272114TR10B_HUMAN84-122393R:31-69
S:31-69
T:31-69
39
39
39
2.5ENST000002764315ENSE00000980146chr8:22887234-22887123112TR10B_HUMAN122-159383R:69-106
S:69-106
T:69-106
38
38
38
2.6cENST000002764316cENSE00001203553chr8:22886115-22885844272TR10B_HUMAN159-250923R:106-128
S:106-130
T:106-130
23
25
25
2.7bENST000002764317bENSE00000980148chr8:22885266-2288523532TR10B_HUMAN250-260110--
2.8bENST000002764318bENSE00001232589chr8:22884801-22884646156TR10B_HUMAN261-312520--
2.9ENST000002764319ENSE00001689788chr8:22881773-2288170173TR10B_HUMAN313-337250--
2.10dENST0000027643110dENSE00002120034chr8:22880497-228776462852TR10B_HUMAN337-4401040--

(-) 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:151
 aligned with TNF10_HUMAN | P50591 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:163
                                   128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278   
          TNF10_HUMAN   119 PQRVAAHITGTRGRSNTLSSPNSKNEKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
               SCOP domains d1d0ga_ A: Ap            optosis-2 ligand, apo2l/TRAIL                                                                                                              SCOP domains
               CATH domains 1d0gA00 A:119            -281  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee....------------.....ee............eee.eeee..eeee...eeeeeeeeeeeee............eeeeeeeee......eeeeeeeee.........eeeeeeeeeeeee....eeeeee.hhhh........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------TNF_1            ------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----TNF_2  PDB: A:123-280 UniProt: 123-280                                                                                                                        - PROSITE (4)
           Transcript 1 (1) Exon 1.5a [INCOMPLETE]--------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------Exon 1.7c  PDB: A:144-281 UniProt: 140-281 [INCOMPLETE]                                                                                        Transcript 1 (2)
                 1d0g A 119 PQRVAAHITGTRG------------EKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
                                   128  |      -     | 148       158       168       178       188       198       208       218       228       238       248       258       268       278   
                                      131          144                                                                                                                                         

Chain B from PDB  Type:PROTEIN  Length:151
 aligned with TNF10_HUMAN | P50591 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:163
                                   128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278   
          TNF10_HUMAN   119 PQRVAAHITGTRGRSNTLSSPNSKNEKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
               SCOP domains d1d0gb_ B: Ap            optosis-2 ligand, apo2l/TRAIL                                                                                                              SCOP domains
               CATH domains 1d0gB00 B:119            -281  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee....------------.....ee......hhhhh.eee.eeee..eeee...eeeeeeeeeeeee............eeeeeeeee......eeeeeeeee.........eeeeeeeeeeeee....eeeeee.hhh.........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------TNF_1            ------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----TNF_2  PDB: B:123-280 UniProt: 123-280                                                                                                                        - PROSITE (4)
           Transcript 1 (1) Exon 1.5a [INCOMPLETE]--------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------Exon 1.7c  PDB: B:144-281 UniProt: 140-281 [INCOMPLETE]                                                                                        Transcript 1 (2)
                 1d0g B 119 PQRVAAHITGTRG------------EKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
                                   128  |      -     | 148       158       168       178       188       198       208       218       228       238       248       258       268       278   
                                      131          144                                                                                                                                         

Chain D from PDB  Type:PROTEIN  Length:151
 aligned with TNF10_HUMAN | P50591 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:163
                                   128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278   
          TNF10_HUMAN   119 PQRVAAHITGTRGRSNTLSSPNSKNEKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
               SCOP domains d1d0gd_ D: Ap            optosis-2 ligand, apo2l/TRAIL                                                                                                              SCOP domains
               CATH domains 1d0gD00 D:119            -281  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee....------------.....ee......hhhhh.eee.eeee..eeee...eeeeeeeeeeeee............eeeeeeeee......eeeeeeeee.........eeeeeeeeeeeee....eeeeee.hhh.........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------TNF_1            ------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----TNF_2  PDB: D:123-280 UniProt: 123-280                                                                                                                        - PROSITE (4)
           Transcript 1 (1) Exon 1.5a [INCOMPLETE]--------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------Exon 1.7c  PDB: D:144-281 UniProt: 140-281 [INCOMPLETE]                                                                                        Transcript 1 (2)
                 1d0g D 119 PQRVAAHITGTRG------------EKALGRKINSWESSRSGHSFLSNLHLRNGELVIHEKGFYYIYSQTYFRFQEEIKENTKNDKQMVQYIYKYTSYPDPILLMKSARNSCWSKDAEYGLYSIYQGGIFELKENDRIFVSVTNEHLIDMDHEASFFGAFLVG 281
                                   128  |      -     | 148       158       168       178       188       198       208       218       228       238       248       258       268       278   
                                      131          144                                                                                                                                         

Chain R from PDB  Type:PROTEIN  Length:108
 aligned with TR10B_HUMAN | O14763 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:108
                                    83        93       103       113       123       133       143       153       163       173        
          TR10B_HUMAN    74 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHK 181
               SCOP domains d1d0gr1 R:21-61                          d1d0gr2 R:62-101                        d1d0gr3 R:102-128           SCOP domains
               CATH domains 1d0gR03 R:21-61                          1d0gR01 R:62-101                        1d0gR02 R:102-128           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eee......eee.....ee..........ee.......eeeee........eeee...eeee..eeeeeee.........eeee........eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----------------------TNFR_NGFR_2  PDB: R:43-84 UniProt: 96-137 TNFR_NGFR_2  PDB: R:85-125               --- PROSITE (1)
                PROSITE (2) -----------------------TNFR_NGFR_1  PDB: R:44-84 UniProt: 97-137-------------------------------------------- PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------TNFR_NGFR_1  PDB: R:84-125                --- PROSITE (3)
           Transcript 2 (1) Exon 2.3a  -------------------------------------Exon 2.5  PDB: R:69-106               ---------------------- Transcript 2 (1)
           Transcript 2 (2) ----------Exon 2.4  PDB: R:31-69 UniProt: 84-122 ------------------------------------Exon 2.6c [INCOMPLETE]  Transcript 2 (2)
                 1d0g R  21 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHK 128
                                    30        40        50        60        70        80        90       100       110       120        

Chain S from PDB  Type:PROTEIN  Length:110
 aligned with TR10B_HUMAN | O14763 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:110
                                    83        93       103       113       123       133       143       153       163       173       183
          TR10B_HUMAN    74 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHKES 183
               SCOP domains d1d0gs1 S:21-61                          d1d0gs2 S:62-101                        d1d0gs3 S:102-130             SCOP domains
               CATH domains 1d0gS03 S:21-61                          1d0gS01 S:62-101                        1d0gS02 S:102-130             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee......eee.....ee..........ee.......eeeee........eeee...eeee..eeeeeee........eeeee........eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------TNFR_NGFR_2  PDB: S:43-84 UniProt: 96-137 TNFR_NGFR_2  PDB: S:85-125               ----- PROSITE (1)
                PROSITE (2) -----------------------TNFR_NGFR_1  PDB: S:44-84 UniProt: 97-137---------------------------------------------- PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------TNFR_NGFR_1  PDB: S:84-125                ----- PROSITE (3)
           Transcript 2 (1) Exon 2.3a  -------------------------------------Exon 2.5  PDB: S:69-106               ------------------------ Transcript 2 (1)
           Transcript 2 (2) ----------Exon 2.4  PDB: S:31-69 UniProt: 84-122 ------------------------------------Exon 2.6c  PDB: S:106-130 Transcript 2 (2)
                 1d0g S  21 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHKES 130
                                    30        40        50        60        70        80        90       100       110       120       130

Chain T from PDB  Type:PROTEIN  Length:110
 aligned with TR10B_HUMAN | O14763 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:110
                                    83        93       103       113       123       133       143       153       163       173       183
          TR10B_HUMAN    74 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHKES 183
               SCOP domains d1d0gt1 T:21-61                          d1d0gt2 T:62-101                        d1d0gt3 T:102-130             SCOP domains
               CATH domains 1d0gT03 T:21-61                          1d0gT01 T:62-101                        1d0gT02 T:102-130             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee......eee.....ee..........ee.......eeeee........eeee...ee.........ee........eeeee........eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------TNFR_NGFR_2  PDB: T:43-84 UniProt: 96-137 TNFR_NGFR_2  PDB: T:85-125               ----- PROSITE (1)
                PROSITE (2) -----------------------TNFR_NGFR_1  PDB: T:44-84 UniProt: 97-137---------------------------------------------- PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------TNFR_NGFR_1  PDB: T:84-125                ----- PROSITE (3)
           Transcript 2 (1) Exon 2.3a  -------------------------------------Exon 2.5  PDB: T:69-106               ------------------------ Transcript 2 (1)
           Transcript 2 (2) ----------Exon 2.4  PDB: T:31-69 UniProt: 84-122 ------------------------------------Exon 2.6c  PDB: T:106-130 Transcript 2 (2)
                 1d0g T  21 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHKES 130
                                    30        40        50        60        70        80        90       100       110       120       130

   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  (2, 12)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 12)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1D0G)

(-) Gene Ontology  (43, 56)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,D   (TNF10_HUMAN | P50591)
molecular function
    GO:0005125    cytokine activity    Functions to control the survival, growth, differentiation and effector function of tissues and cells.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0005164    tumor necrosis factor receptor binding    Interacting selectively and non-covalently with the tumor necrosis factor receptor.
    GO:0032813    tumor necrosis factor receptor superfamily binding    Interacting selectively and non-covalently with any member of the tumor necrosis factor receptor superfamily.
biological process
    GO:0006919    activation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that initiates the activity of the inactive enzyme cysteine-type endopeptidase in the context of an apoptotic process.
    GO:0097296    activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway    Any process that initiates the activity of an inactive cysteine-type endopeptidase involved in the apoptotic signaling pathway.
    GO:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    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: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:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:1902042    negative regulation of extrinsic apoptotic signaling pathway via death domain receptors    Any process that stops, prevents or reduces the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
    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:0043065    positive regulation of apoptotic process    Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
    GO:0043280    positive regulation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that activates or increases the activity of a cysteine-type endopeptidase involved in the apoptotic process.
    GO:2001238    positive regulation of extrinsic apoptotic signaling pathway    Any process that activates or increases the frequency, rate or extent of extrinsic apoptotic signaling pathway.
    GO:0090200    positive regulation of release of cytochrome c from mitochondria    Any process that increases the rate, frequency or extent of release of cytochrome c from mitochondria, the process in which cytochrome c is enabled to move from the mitochondrial intermembrane space into the cytosol, which is an early step in apoptosis and leads to caspase activation.
    GO:1902041    regulation of extrinsic apoptotic signaling pathway via death domain receptors    Any process that modulates the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
    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.
cellular component
    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: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: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.

Chain R,S,T   (TR10B_HUMAN | O14763)
molecular function
    GO:0045569    TRAIL binding    Interacting selectively and non-covalently with TRAIL (TNF-related apoptosis inducing ligand), a member of the tumor necrosis factor ligand family that rapidly induces apoptosis in a variety of transformed cell lines.
    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:0005031    tumor necrosis factor-activated receptor activity    Combining with tumor necrosis factor, a proinflammatory cytokine produced by monocytes and macrophages, to initiate a change in cell function.
biological process
    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:0006919    activation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that initiates the activity of the inactive enzyme cysteine-type endopeptidase in the context of an apoptotic process.
    GO:0097296    activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway    Any process that initiates the activity of an inactive cysteine-type endopeptidase involved in the apoptotic signaling pathway.
    GO:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    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: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:0008625    extrinsic apoptotic signaling pathway via death domain receptors    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 a ligand binding to a death domain receptor on the cell surface, and ends when the execution phase of apoptosis is triggered.
    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:0070059    intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress    A series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway is induced in response to a stimulus indicating endoplasmic reticulum (ER) stress, and ends when the execution phase of apoptosis is triggered. ER stress usually results from the accumulation of unfolded or misfolded proteins in the ER lumen.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:1902042    negative regulation of extrinsic apoptotic signaling pathway via death domain receptors    Any process that stops, prevents or reduces the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
    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:0042981    regulation of apoptotic process    Any process that modulates the occurrence or rate of cell death by apoptotic process.
    GO:0042127    regulation of cell proliferation    Any process that modulates the frequency, rate or extent of cell proliferation.
    GO:1902041    regulation of extrinsic apoptotic signaling pathway via death domain receptors    Any process that modulates the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
    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:0032496    response to lipopolysaccharide    Any process that results in a change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipopolysaccharide stimulus; lipopolysaccharide is a major component of the cell wall of gram-negative bacteria.
    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:0033209    tumor necrosis factor-mediated signaling pathway    A series of molecular signals initiated by the binding of a tumor necrosis factor to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    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: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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        TNF10_HUMAN | P505911d2q 1d4v 1dg6 1du3 4n90 5cir
        TR10B_HUMAN | O147631d4v 1du3 1za3 2h9g 3x3f 4i9x 4n90 4od2

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1D0G)