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(-) Description

Title :  CRYSTAL STRUCTURE OF PHAGE DERIVED FAB BDF1 WITH HUMAN DEATH RECEPTOR 5 (DR5)
 
Authors :  S. G. Hymowitz, D. M. Compaan
Date :  09 Jun 06  (Deposition) - 08 Aug 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.32
Chains :  Asym. Unit :  A,B,H,L,R,S
Biol. Unit 1:  A,B,R  (1x)
Biol. Unit 2:  H,L,S  (1x)
Keywords :  Phage Display, Protein Engineering, Combinatorial Mutagenesis, Antibody Library, Death Receptor-5, Agonists, Immune System- Apoptosis Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. Li, S. J. Russell, D. M. Compaan, K. Totpal, S. A. Marsters, A. Ashkenazi, A. G. Cochran, S. G. Hymowitz, S. S. Sidhu
Activation Of The Proapoptotic Death Receptor Dr5 By Oligomeric Peptide And Antibody Agonists.
J. Mol. Biol. V. 361 522 2006
PubMed-ID: 16859704  |  Reference-DOI: 10.1016/J.JMB.2006.06.042

(-) Compounds

Molecule 1 - FAB BDF1, LIGHT CHAIN
    ChainsA, L
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentFAB FRAGMENT
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsPROTEIN SELECTED BY PHAGE DISPLAY
 
Molecule 2 - FAB BDF1, HEAVY CHAIN
    ChainsB, H
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentFAB FRAGMENT
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsPROTEIN SELECTED BY PHAGE DISPLAY
 
Molecule 3 - TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 10B PRECURSOR
    ChainsR, S
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System PlasmidPACGP67-B
    Expression System StrainHI5
    Expression System Taxid7108
    Expression System Vector TypeVIRUS
    FragmentEXTRA CELLULAR DOMAIN
    GeneTNFRSF10B, DR5, KILLER, TRAILR2, TRICK2, ZTNFR9
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymDEATH RECEPTOR 5, TNF-RELATED APOPTOSIS-INDUCING LIGAND RECEPTOR 2, TRAIL RECEPTOR 2, TRAIL-R2, CD262 ANTIGEN

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit ABHLRS
Biological Unit 1 (1x)AB  R 
Biological Unit 2 (1x)  HL S

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2H9G)

(-) Sites  (0, 0)

(no "Site" information available for 2H9G)

(-) SS Bonds  (19, 19)

Asymmetric Unit
No.Residues
1A:23 -A:88
2A:134 -A:194
3B:22 -B:92
4B:140 -B:196
5H:22 -H:92
6H:140 -H:196
7L:23 -L:88
8L:134 -L:194
9R:28 -R:41
10R:44 -R:60
11R:63 -R:76
12R:66 -R:84
13R:86 -R:100
14R:103 -R:117
15R:107 -R:125
16S:28 -S:41
17S:44 -S:60
18S:63 -S:76
19S:66 -S:84

(-) Cis Peptide Bonds  (10, 10)

Asymmetric Unit
No.Residues
1Ser A:7 -Pro A:8
2Thr A:94 -Pro A:95
3Tyr A:140 -Pro A:141
4Phe B:146 -Pro B:147
5Glu B:148 -Pro B:149
6Ser L:7 -Pro L:8
7Thr L:94 -Pro L:95
8Tyr L:140 -Pro L:141
9Phe H:146 -Pro H:147
10Glu H:148 -Pro H:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2H9G)

(-) PROSITE Motifs  (2, 7)

Asymmetric Unit (2, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNFR_NGFR_2PS50050 TNFR/NGFR family cysteine-rich region domain profile.TR10B_HUMAN96-137
 
138-178
  3R:43-84
S:43-84
R:85-125
2TNFR_NGFR_1PS00652 TNFR/NGFR family cysteine-rich region signature.TR10B_HUMAN97-137
 
137-178
 
  4R:44-84
S:44-84
R:84-125
S:84-84
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNFR_NGFR_2PS50050 TNFR/NGFR family cysteine-rich region domain profile.TR10B_HUMAN96-137
 
138-178
  2R:43-84
-
R:85-125
2TNFR_NGFR_1PS00652 TNFR/NGFR family cysteine-rich region signature.TR10B_HUMAN97-137
 
137-178
 
  2R:44-84
-
R:84-125
-
Biological Unit 2 (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNFR_NGFR_2PS50050 TNFR/NGFR family cysteine-rich region domain profile.TR10B_HUMAN96-137
 
138-178
  1-
S:43-84
-
2TNFR_NGFR_1PS00652 TNFR/NGFR family cysteine-rich region signature.TR10B_HUMAN97-137
 
137-178
 
  2-
S:44-84
-
S:84-84

(-) Exons   (4, 7)

Asymmetric Unit (4, 7)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002764311aENSE00001335538chr8:22926692-22926264429TR10B_HUMAN1-48480--
1.3aENST000002764313aENSE00001232611chr8:22900756-22900651106TR10B_HUMAN49-84362R:21-31
S:21-31
11
11
1.4ENST000002764314ENSE00000980145chr8:22888385-22888272114TR10B_HUMAN84-122392R:31-69
S:31-69
39
39
1.5ENST000002764315ENSE00000980146chr8:22887234-22887123112TR10B_HUMAN122-159382R:69-106
S:69-84
38
16
1.6cENST000002764316cENSE00001203553chr8:22886115-22885844272TR10B_HUMAN159-250921R:106-128
-
23
-
1.7bENST000002764317bENSE00000980148chr8:22885266-2288523532TR10B_HUMAN250-260110--
1.8bENST000002764318bENSE00001232589chr8:22884801-22884646156TR10B_HUMAN261-312520--
1.9ENST000002764319ENSE00001689788chr8:22881773-2288170173TR10B_HUMAN313-337250--
1.10dENST0000027643110dENSE00002120034chr8:22880497-228776462852TR10B_HUMAN337-4401040--

(-) Sequences/Alignments

Asymmetric 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:211
                                                                                                                                                                                                                                                    
               SCOP domains d2h9ga1 A:1-107 automated matches                                                                          d2h9ga2 A:108-211 automated matches                                                                      SCOP domains
               CATH domains 2h9gA01 A:1-108 Immunoglobulins                                                                             2h9gA02 A:109-211 Immunoglobulins                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2h9g A    1 DIQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNR  211
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210 

Chain B from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                        
               SCOP domains d2h9gb1 B:1-113 Immunoglobulin heavy chain variable domain, VH                                                          d2h9gb2 B:114-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                 SCOP domains
               CATH domains 2h9gB01 B:1-113 Immunoglobulins                                                                                         2h9gB02 B:114-213 Immunoglobulins                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeeee..............eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2h9g B    1 EVQLVESGGGLVQPGGSLRLSCAASGFSIGKSGIHWVRQAPGKGLEWVAVIYPHDGNTAYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARRLALVRMWMDYWGQGTLVTVSSASTKGPSVFPLAPSSGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||103       113       123    || 138       148       158       168       178       188       198       208     
                                                                              52A                            82A||               100A||                         128|                                                                               
                                                                                                              82B|                100B|                          134                                                                               
                                                                                                               82C                 100C                                                                                                            

Chain H from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                        
               SCOP domains d2h9gh1 H:1-113 Immunoglobulin heavy chain variable domain, VH                                                          d2h9gh2 H:114-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                 SCOP domains
               CATH domains 2h9gH01 H:1-113 Immunoglobulins                                                                                         2h9gH02 H:114-213 Immunoglobulins                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee........eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee..............eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2h9g H    1 EVQLVESGGGLVQPGGSLRLSCAASGFSIGKSGIHWVRQAPGKGLEWVAVIYPHDGNTAYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARRLALVRMWMDYWGQGTLVTVSSASTKGPSVFPLAPSSGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||103       113       123    || 138       148       158       168       178       188       198       208     
                                                                              52A                            82A||               100A||                         128|                                                                               
                                                                                                              82B|                100B|                          134                                                                               
                                                                                                               82C                 100C                                                                                                            

Chain L from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                    
               SCOP domains d2h9gl1 L:1-107 automated matches                                                                          d2h9gl2 L:108-211 automated matches                                                                      SCOP domains
               CATH domains 2h9gL01 L:1-108 Immunoglobulins                                                                             2h9gL02 L:109-211 Immunoglobulins                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2h9g L    1 DIQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNR  211
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210 

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 d2h9gr1 R:21-61                          d2h9gr2 R:62-101                        d2h9gr3 R:102-128           SCOP domains
               CATH domains 2h9gR01 R:21-61                          2h9gR02 R:62-101                        --------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eee......eee.....ee..........ee.......eeeee........eeee...ee.........ee.........ee...........ee.. 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 1 (1) Exon 1.3a  -------------------------------------Exon 1.5  PDB: R:69-106               ---------------------- Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.4  PDB: R:31-69 UniProt: 84-122 ------------------------------------Exon 1.6c [INCOMPLETE]  Transcript 1 (2)
                2h9g R   21 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVCQCEEGTFREEDSPEMCRKCRTGCPRGMVKVGDCTPWSDIECVHK  128
                                    30        40        50        60        70        80        90       100       110       120        

Chain S from PDB  Type:PROTEIN  Length:64
 aligned with TR10B_HUMAN | O14763 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:64
                                    83        93       103       113       123       133    
         TR10B_HUMAN     74 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVC  137
               SCOP domains d2h9gs1 S:21-61                          ----------------------- SCOP domains
               CATH domains ---------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee......eee.....ee..........ee...................... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------------TNFR_NGFR_2  PDB: S:43-84 UniProt: 96-137  PROSITE (1)
                PROSITE (2) -----------------------TNFR_NGFR_1  PDB: S:44-84 UniProt: 97-137 PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------T PROSITE (3)
           Transcript 1 (1) Exon 1.3a  -------------------------------------Exon 1.5         Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.4  PDB: S:31-69 UniProt: 84-122 --------------- Transcript 1 (2)
                2h9g S   21 SSPSEGLCPPGHHISEDGRDCISCKYGQDYSTHWNDLLFCLRCTRCDSGEVELSPCTTTRNTVC   84
                                    30        40        50        60        70        80    

   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  (5, 12)

Asymmetric Unit

(-) CATH Domains  (2, 10)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2H9G)

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)
Chain R,S   (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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(no "Sites" information available for 2h9g)
 
  Cis Peptide Bonds
    Glu B:148 - Pro B:149   [ RasMol ]  
    Glu H:148 - Pro H:149   [ RasMol ]  
    Phe B:146 - Pro B:147   [ RasMol ]  
    Phe H:146 - Pro H:147   [ RasMol ]  
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        TR10B_HUMAN | O147631d0g 1d4v 1du3 1za3 3x3f 4i9x 4n90 4od2

(-) Related Entries Specified in the PDB File

1d0g APO2L/TRAIL DR5 COMPLEX
1za3 YSD1 FAB DR5 COMPLEX