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(-) Description

Title :  STRUCTURE OF THE EXTRACELLULAR SEGMENT OF HUMAN TRKA IN COMPLEX WITH NERVE GROWTH FACTOR
 
Authors :  X. He, K. C. Garcia
Date :  20 Sep 06  (Deposition) - 13 Feb 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym./Biol. Unit :  A,B,E,F
Keywords :  Trk, Trka, Ngf, Nerve Growth Factor, Receptor-Ligand Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Wehrman, X. He, B. Raab, A. Dukipatti, H. Blau, K. C. Garcia
Structural And Mechanistic Insights Into Nerve Growth Facto Interactions With The Trka And P75 Receptors.
Neuron V. 53 25 2007
PubMed-ID: 17196528  |  Reference-DOI: 10.1016/J.NEURON.2006.09.034

(-) Compounds

Molecule 1 - HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR
    ChainsA, B
    EC Number2.7.10.1
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System PlasmidPACGP67A
    Expression System StrainTN5
    Expression System Taxid7108
    Expression System Vector TypePLASMID
    GeneNTRK1, TRK
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymNEUROTROPHIC TYROSINE KINASE RECEPTOR TYPE 1, TRK1 TRANSFORMING TYROSINE KINASE PROTEIN, P140-TRKA, TRK-A
 
Molecule 2 - BETA-NERVE GROWTH FACTOR
    ChainsE, F
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System CommonFALL ARMYWORM
    Expression System Taxid7108
    GeneNGFB
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymBETA-NGF

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 34)

Asymmetric/Biological Unit (4, 34)
No.NameCountTypeFull Name
1BMA6Ligand/IonBETA-D-MANNOSE
2MAN4Ligand/IonALPHA-D-MANNOSE
3NAG7Ligand/IonN-ACETYL-D-GLUCOSAMINE
4NDG17Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

(-) Sites  (34, 34)

Asymmetric Unit (34, 34)
No.NameEvidenceResiduesDescription
01AC1SOFTWARENDG A:2 , ARG A:157 , ASN A:188BINDING SITE FOR RESIDUE NAG A 1
02AC2SOFTWARENAG A:1BINDING SITE FOR RESIDUE NDG A 2
03AC3SOFTWAREASN A:262 , SER A:277 , NDG A:384BINDING SITE FOR RESIDUE NAG A 383
04AC4SOFTWARENAG A:383 , MAN A:385BINDING SITE FOR RESIDUE NDG A 384
05AC5SOFTWARENDG A:384BINDING SITE FOR RESIDUE MAN A 385
06AC6SOFTWAREARG A:260 , ASN A:281 , GLN A:308 , NDG A:387BINDING SITE FOR RESIDUE NAG A 386
07AC7SOFTWARENAG A:386 , BMA A:388BINDING SITE FOR RESIDUE NDG A 387
08AC8SOFTWARENDG A:387BINDING SITE FOR RESIDUE BMA A 388
09AC9SOFTWAREASN A:358 , NDG A:390BINDING SITE FOR RESIDUE NDG A 389
10BC1SOFTWARENDG A:389 , BMA A:391BINDING SITE FOR RESIDUE NDG A 390
11BC2SOFTWARENDG A:390 , ARG B:314BINDING SITE FOR RESIDUE BMA A 391
12BC3SOFTWAREGLU A:70 , ARG A:94 , ASN A:95 , ARG A:119 , NDG A:393 , NDG A:395BINDING SITE FOR RESIDUE NDG A 392
13BC4SOFTWARENDG A:392 , MAN A:394BINDING SITE FOR RESIDUE NDG A 393
14BC5SOFTWARENDG A:393BINDING SITE FOR RESIDUE MAN A 394
15BC6SOFTWARETHR A:97 , ASN A:121 , SER A:123 , NDG A:392 , NDG A:396BINDING SITE FOR RESIDUE NDG A 395
16BC7SOFTWARENDG A:395 , BMA A:397BINDING SITE FOR RESIDUE NDG A 396
17BC8SOFTWARENDG A:396BINDING SITE FOR RESIDUE BMA A 397
18BC9SOFTWARENDG B:2 , ARG B:157 , ASN B:188BINDING SITE FOR RESIDUE NAG B 1
19CC1SOFTWARENAG B:1BINDING SITE FOR RESIDUE NDG B 2
20CC2SOFTWAREASN B:262 , SER B:277 , NDG B:384BINDING SITE FOR RESIDUE NAG B 383
21CC3SOFTWARENAG B:383 , MAN B:385BINDING SITE FOR RESIDUE NDG B 384
22CC4SOFTWARENDG B:384BINDING SITE FOR RESIDUE MAN B 385
23CC5SOFTWAREASN B:281 , GLN B:308 , NDG B:387BINDING SITE FOR RESIDUE NAG B 386
24CC6SOFTWARENAG B:386 , BMA B:388BINDING SITE FOR RESIDUE NDG B 387
25CC7SOFTWARENDG B:387BINDING SITE FOR RESIDUE BMA B 388
26CC8SOFTWAREASN B:358 , MET B:375 , NDG B:390BINDING SITE FOR RESIDUE NAG B 389
27CC9SOFTWARENAG B:389 , BMA B:391BINDING SITE FOR RESIDUE NDG B 390
28DC1SOFTWAREARG A:314 , NDG B:390BINDING SITE FOR RESIDUE BMA B 391
29DC2SOFTWAREGLU B:70 , ASN B:95 , NDG B:393 , NDG B:395BINDING SITE FOR RESIDUE NDG B 392
30DC3SOFTWAREARG B:119 , NDG B:392 , MAN B:394BINDING SITE FOR RESIDUE NDG B 393
31DC4SOFTWARENDG B:393BINDING SITE FOR RESIDUE MAN B 394
32DC5SOFTWAREASN B:121 , NDG B:392 , NDG B:396BINDING SITE FOR RESIDUE NDG B 395
33DC6SOFTWAREPHE B:124 , NDG B:395 , BMA B:397BINDING SITE FOR RESIDUE NDG B 396
34DC7SOFTWARENDG B:396BINDING SITE FOR RESIDUE BMA B 397

(-) SS Bonds  (18, 18)

Asymmetric/Biological Unit
No.Residues
1A:36 -A:41
2A:40 -A:50
3A:152 -A:177
4A:154 -A:191
5A:215 -A:265
6A:300 -A:345
7B:36 -B:41
8B:40 -B:50
9B:152 -B:177
10B:154 -B:191
11B:215 -B:265
12B:300 -B:345
13E:15 -E:80
14E:58 -E:108
15E:68 -E:110
16F:15 -F:80
17F:58 -F:108
18F:68 -F:110

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Cys A:36 -Pro A:37
2Gln A:308 -Pro A:309
3Cys B:36 -Pro B:37
4Gln B:308 -Pro B:309

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (10, 20)

Asymmetric/Biological Unit (10, 20)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_041461Q80RNTRK1_HUMANPolymorphism55891455A/BQ80R
02UniProtVAR_009623R85SNTRK1_HUMANPolymorphism543320028A/BR85S
03UniProtVAR_009624L93PNTRK1_HUMANDisease (CIPA)  ---A/BL93P
04UniProtVAR_030659R221WNGF_HUMANDisease (HSAN5)11466112E/FR100W
05UniProtVAR_041462A107VNTRK1_HUMANUnclassified540521894A/BA107V
06UniProtVAR_009625L213PNTRK1_HUMANDisease (CIPA)747711259A/BL213P
07UniProtVAR_041463T237MNTRK1_HUMANPolymorphism55909005A/BT237M
08UniProtVAR_041464V238GNTRK1_HUMANPolymorphism56000394A/BV238G
09UniProtVAR_041465R260GNTRK1_HUMANPolymorphism35116695A/BR260G
10UniProtVAR_068481Y359CNTRK1_HUMANDisease (CIPA)121964869A/BY359C

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

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1NGF_2PS50270 Nerve growth factor family profile.NGF_HUMAN126-239
 
  2E:5-115
F:5-116
2NGF_1PS00248 Nerve growth factor family signature.NGF_HUMAN188-201
 
  2E:67-80
F:67-80

(-) Exons   (1, 2)

Asymmetric/Biological Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003695121ENSE00001020911chr1:115880857-11588082533NGF_HUMAN-00--
1.2ENST000003695122ENSE00001020912chr1:115836371-115836248124NGF_HUMAN-00--
1.3ENST000003695123ENSE00001450208chr1:115829428-115828539890NGF_HUMAN1-2452452E:2-115 (gaps)
F:2-116 (gaps)
114
115

(-) 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:347
 aligned with NTRK1_HUMAN | P04629 from UniProtKB/Swiss-Prot  Length:796

    Alignment length:347
                                    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       
          NTRK1_HUMAN    36 CPDACCPHGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSCALRWLQRWEEEGLGGVPEQKLQCHGQGPLAHMPNASCGVPTLKVQVPNASVDVGDDVLLRCQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCWAENDVGRAEVSVQVNVSFPASVQLHTAVEMHHWCIPFSVDGQPAPSLRWLFNGSVLNETSFIFTEFLEPAANETVRHGCLRLNQPTHVNNGNYTLLAANPFGQASASIMAAFMDNP 382
               SCOP domains d2ifga3 A:36-191 High affinity nerve growth factor receptor, N-terminal domain                                                                              d2ifga1 A:192-283 High affinity nerve growth factor receptor TrkA, different domains        -d2ifga2 A:285-382 High affinity nerve growth factor receptor TrkA, different domains               SCOP domains
               CATH domains 2ifgA01 A:36-191 Ribonuclease Inhibitor                                                                                                                     -2ifgA02 A:193-282 Immunoglobulins                                                         2ifgA03 A:283-381 Immunoglobulins                                                                  - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............ee....................eee........eehhhhh.......eee.......ee..hhhhh.....eee....................eee........hhhhhhhhhhhhh....hhhhh....................eeeee...........eeeeeeee........eee......eee.......eeeeeee..........eee..ee..ee..eee.....eeeeeee...ee...eeeeeeeeee...eeeeee..ee......eeeee.........eeeeeee...hhhhheeeeeeeee..eeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------R----S-------P-------------V---------------------------------------------------------------------------------------------------------P-----------------------MG---------------------G--------------------------------------------------------------------------------------------------C----------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ifg A  36 CPDACCPHGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSCALRWLQRWEEEGLGGVPEQKLQCHGQGPLAHMPNASCGVPTLKVQVPNASVDVGDDVLLRCQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCWAENDVGRAEVSVQVNVSFPASVQLHTAVEMHHWCIPFSVDGQPAPSLRWLFNGSVLNETSFIFTEFLEPAANETVRHGCLRLNQPTHVNNGNYTLLAANPFGQASASIMAAFMDNP 382
                                    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       

Chain B from PDB  Type:PROTEIN  Length:347
 aligned with NTRK1_HUMAN | P04629 from UniProtKB/Swiss-Prot  Length:796

    Alignment length:347
                                    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       
          NTRK1_HUMAN    36 CPDACCPHGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSCALRWLQRWEEEGLGGVPEQKLQCHGQGPLAHMPNASCGVPTLKVQVPNASVDVGDDVLLRCQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCWAENDVGRAEVSVQVNVSFPASVQLHTAVEMHHWCIPFSVDGQPAPSLRWLFNGSVLNETSFIFTEFLEPAANETVRHGCLRLNQPTHVNNGNYTLLAANPFGQASASIMAAFMDNP 382
               SCOP domains d2ifgb3 B:36-191 High affinity nerve growth factor receptor, N-terminal domain                                                                              d2ifgb1 B:192-283 High affinity nerve growth factor receptor TrkA, different domains        -d2ifgb2 B:285-382 High affinity nerve growth factor receptor TrkA, different domains               SCOP domains
               CATH domains 2ifgB01 B:36-191 Ribonuclease Inhibitor                                                                                                                     -2ifgB02 B:193-282 Immunoglobulins                                                         2ifgB03 B:283-381 Immunoglobulins                                                                  - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee....................eee........eehhhhhh......eee.......ee..hhhhh.....eee.........hhhhh......eee........hhhhhhhhhhhhh....hhhhh....................eeeee...........eeeeeeee........eee......eee.......eeeeeee..hhhhh...eee..........eee.....eeeeeee...ee...eeeeeeeeee...eeeeee..ee......eeeee.........eeeeeee...hhhhheeeeeeeee..eeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------R----S-------P-------------V---------------------------------------------------------------------------------------------------------P-----------------------MG---------------------G--------------------------------------------------------------------------------------------------C----------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ifg B  36 CPDACCPHGSSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGNPLHCSCALRWLQRWEEEGLGGVPEQKLQCHGQGPLAHMPNASCGVPTLKVQVPNASVDVGDDVLLRCQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCWAENDVGRAEVSVQVNVSFPASVQLHTAVEMHHWCIPFSVDGQPAPSLRWLFNGSVLNETSFIFTEFLEPAANETVRHGCLRLNQPTHVNNGNYTLLAANPFGQASASIMAAFMDNP 382
                                    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       

Chain E from PDB  Type:PROTEIN  Length:108
 aligned with NGF_HUMAN | P01138 from UniProtKB/Swiss-Prot  Length:241

    Alignment length:114
                                   132       142       152       162       172       182       192       202       212       222       232    
            NGF_HUMAN   123 SSHPIFHRGEFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNINNSVFKQYFFETKCRDPNPVDSGCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSRK 236
               SCOP domains d2ifge1 E:2-115 beta-Nerve growth factor                                                                           SCOP domains
               CATH domains 2ifgE00 E:2-115 Cystine-knot cytokines                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhheee...eeeeee....eee.....eeee..eee....eee..eeeeee..------.........eeeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------W--------------- SAPs(SNPs)
                PROSITE (1) ---NGF_2  PDB: E:5-115 UniProt: 126-239                                                                            PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------NGF_1         ----------------------------------- PROSITE (2)
               Transcript 1 Exon 1.3  PDB: E:2-115 (gaps) UniProt: 1-245 [INCOMPLETE]                                                          Transcript 1
                 2ifg E   2 SSHPIFHRGEFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNINNSVFKQYFFETKCRD------GCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSRK 115
                                    11        21        31        41        51        |-     |  71        81        91       101       111    
                                                                                     60     67                                                

Chain F from PDB  Type:PROTEIN  Length:109
 aligned with NGF_HUMAN | P01138 from UniProtKB/Swiss-Prot  Length:241

    Alignment length:115
                                   132       142       152       162       172       182       192       202       212       222       232     
            NGF_HUMAN   123 SSHPIFHRGEFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNINNSVFKQYFFETKCRDPNPVDSGCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSRKA 237
               SCOP domains d2ifgf1 F:2-115 beta-Nerve growth factor                                                                          - SCOP domains
               CATH domains 2ifgF00 F:2-116 Cystine-knot cytokines                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhheee...eeeeee....eee.....eeee..eeee..eeee..eeeeee..------.........eeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------W---------------- SAPs(SNPs)
                PROSITE (1) ---NGF_2  PDB: F:5-116 UniProt: 126-239                                                                             PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------NGF_1         ------------------------------------ PROSITE (2)
               Transcript 1 Exon 1.3  PDB: F:2-116 (gaps) UniProt: 1-245 [INCOMPLETE]                                                           Transcript 1
                 2ifg F   2 SSHPIFHRGEFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNINNSVFKQYFFETKCRD------GCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSRKA 116
                                    11        21        31        41        51        |-     |  71        81        91       101       111     
                                                                                     60     67                                                 

   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  (3, 8)

Asymmetric/Biological Unit

(-) CATH Domains  (3, 8)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (109, 117)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (NTRK1_HUMAN | P04629)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0005004    GPI-linked ephrin receptor activity    Combining with a GPI-anchored ephrin to initiate a change in cell activity.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0019900    kinase binding    Interacting selectively and non-covalently with a kinase, any enzyme that catalyzes the transfer of a phosphate group.
    GO:0048406    nerve growth factor binding    Interacting selectively and non-covalently with nerve growth factor (NGF).
    GO:0010465    nerve growth factor receptor activity    Combining with nerve growth factor (NGF), to prevent apoptosis in neurons and promote nerve growth, or to initiate a change in cell activity.
    GO:0043121    neurotrophin binding    Interacting selectively and non-covalently with a neurotrophin, any of a family of growth factors that prevent apoptosis in neurons and promote nerve growth.
    GO:0005166    neurotrophin p75 receptor binding    Interacting selectively and non-covalently with the neurotrophin p75 receptor.
    GO:0005030    neurotrophin receptor activity    Combining with a neurotrophin, any of a family of growth factors that prevent apoptosis in neurons and promote nerve growth, and transmitting the signal to initiate a change in cell activity.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    GO:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004713    protein tyrosine kinase activity    Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0004714    transmembrane receptor protein tyrosine kinase activity    Combining with a signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity by catalysis of the reaction: ATP + a protein-L-tyrosine = ADP + a protein-L-tyrosine phosphate.
biological process
    GO:0030183    B cell differentiation    The process in which a precursor cell type acquires the specialized features of a B cell. A B cell is a lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity.
    GO:0060009    Sertoli cell development    The process whose specific outcome is the progression of a Sertoli cell over time, from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a Sertoli cell fate.
    GO:0000186    activation of MAPKK activity    The initiation of the activity of the inactive enzyme MAP kinase kinase (MAPKK).
    GO:0007568    aging    A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700).
    GO:0007411    axon guidance    The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
    GO:0060385    axonogenesis involved in innervation    The neurite development process that generates a long process of a neuron, as it invades a target tissue.
    GO:0061368    behavioral response to formalin induced pain    Any process that results in a change in the behaviour of an organism as a result of a formalin pain stimulus.
    GO:0030154    cell differentiation    The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
    GO:0071363    cellular response to growth factor 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 growth factor stimulus.
    GO:1990090    cellular response to nerve growth factor stimulus    A 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 nerve growth factor stimulus.
    GO:0071316    cellular response to nicotine    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 nicotine stimulus.
    GO:0007623    circadian rhythm    Any biological process in an organism that recurs with a regularity of approximately 24 hours.
    GO:0050966    detection of mechanical stimulus involved in sensory perception of pain    The series of events involved in the perception of pain in which a mechanical stimulus is received and converted into a molecular signal.
    GO:0050965    detection of temperature stimulus involved in sensory perception of pain    The series of events involved in the perception of pain in which a temperature stimulus is received and converted into a molecular signal.
    GO:0048013    ephrin receptor signaling pathway    The series of molecular signals generated as a consequence of an ephrin receptor binding to an ephrin.
    GO:0060384    innervation    The process in which a nerve invades a tissue and makes functional synaptic connection within the tissue.
    GO:0007611    learning or memory    The acquisition and processing of information and/or the storage and retrieval of this information over time.
    GO:0042490    mechanoreceptor differentiation    The process in which a relatively unspecialized cell acquires specialized features of a mechanoreceptor, a cell specialized to transduce mechanical stimuli and relay that information centrally in the nervous system.
    GO:0007018    microtubule-based movement    A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules.
    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:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:1901215    negative regulation of neuron death    Any process that stops, prevents or reduces the frequency, rate or extent of neuron death.
    GO:0038180    nerve growth factor signaling pathway    A series of molecular signals initiated by the binding of nerve growth factor (NGF) to a receptor on the surface of the target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0007399    nervous system development    The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.
    GO:0048011    neurotrophin TRK receptor signaling pathway    A series of molecular signals initiated by the binding of a neurotrophin to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0021553    olfactory nerve development    The process whose specific outcome is the progression of the olfactory nerve over time, from its formation to the mature structure. The olfactory nerve is a collection of sensory nerve rootlets that extend down from the olfactory bulb to the olfactory mucosa of the upper parts of the nasal cavity. This nerve conducts odor information to the brainstem.
    GO:0018108    peptidyl-tyrosine phosphorylation    The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.
    GO:0048015    phosphatidylinositol-mediated signaling    A series of molecular signals in which a cell uses a phosphatidylinositol-mediated signaling to convert a signal into a response. Phosphatidylinositols include phosphatidylinositol (PtdIns) and its phosphorylated derivatives.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0070374    positive regulation of ERK1 and ERK2 cascade    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    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:0046579    positive regulation of Ras protein signal transduction    Any process that activates or increases the frequency, rate or extent of Ras protein signal transduction.
    GO:0045766    positive regulation of angiogenesis    Any process that activates or increases angiogenesis.
    GO:0010976    positive regulation of neuron projection development    Any process that increases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites).
    GO:0043068    positive regulation of programmed cell death    Any process that activates or increases the frequency, rate or extent of programmed cell death, cell death resulting from activation of endogenous cellular processes.
    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:0051965    positive regulation of synapse assembly    Any process that activates, maintains or increases the frequency, rate or extent of synapse assembly, the aggregation, arrangement and bonding together of a set of components to form a synapse.
    GO:0051968    positive regulation of synaptic transmission, glutamatergic    Any process that activates, maintains or increases the frequency, rate or extent of glutamatergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter glutamate.
    GO:0010623    programmed cell death involved in cell development    The activation of endogenous cellular processes that result in the death of a cell as part of its development.
    GO:0046777    protein autophosphorylation    The phosphorylation by a protein of one or more of its own amino acid residues (cis-autophosphorylation), or residues on an identical protein (trans-autophosphorylation).
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0014823    response to activity    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 activity stimulus.
    GO:0048678    response to axon injury    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 axon injury stimulus.
    GO:0042493    response to drug    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
    GO:0051602    response to electrical stimulus    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 electrical stimulus.
    GO:0045471    response to ethanol    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 ethanol stimulus.
    GO:0051599    response to hydrostatic pressure    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 hydrostatic pressure stimulus. Hydrostatic pressure is the force acting on an object in a system where the fluid is at rest (as opposed to moving). The weight of the fluid above the object creates pressure on it.
    GO:0035094    response to nicotine    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 nicotine stimulus.
    GO:0031667    response to nutrient levels    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 reflecting the presence, absence, or concentration of nutrients.
    GO:0009314    response to radiation    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 electromagnetic radiation stimulus. Electromagnetic radiation is a propagating wave in space with electric and magnetic components. These components oscillate at right angles to each other and to the direction of propagation.
    GO:0019233    sensory perception of pain    The series of events required for an organism to receive a painful stimulus, convert it to a molecular signal, and recognize and characterize the signal. Pain is medically defined as the physical sensation of discomfort or distress caused by injury or illness, so can hence be described as a harmful stimulus which signals current (or impending) tissue damage. Pain may come from extremes of temperature, mechanical damage, electricity or from noxious chemical substances. This is a neurological process.
    GO:0048485    sympathetic nervous system development    The process whose specific outcome is the progression of the sympathetic nervous system over time, from its formation to the mature structure. The sympathetic nervous system is one of the two divisions of the vertebrate autonomic nervous system (the other being the parasympathetic nervous system). The sympathetic preganglionic neurons have their cell bodies in the thoracic and lumbar regions of the spinal cord and connect to the paravertebral chain of sympathetic ganglia. Innervate heart and blood vessels, sweat glands, viscera and the adrenal medulla. Most sympathetic neurons, but not all, use noradrenaline as a post-ganglionic neurotransmitter.
    GO:0007169    transmembrane receptor protein tyrosine kinase signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0030424    axon    The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.
    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:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0030425    dendrite    A neuron projection that has a short, tapering, often branched, morphology, receives and integrates signals from other neurons or from sensory stimuli, and conducts a nerve impulse towards the axon or the cell body. In most neurons, the impulse is conveyed from dendrites to axon via the cell body, but in some types of unipolar neuron, the impulse does not travel via the cell body.
    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:0031901    early endosome membrane    The lipid bilayer surrounding an early endosome.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    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:0005770    late endosome    A prelysosomal endocytic organelle differentiated from early endosomes by lower lumenal pH and different protein composition. Late endosomes are more spherical than early endosomes and are mostly juxtanuclear, being concentrated near the microtubule organizing center.
    GO:0031902    late endosome membrane    The lipid bilayer surrounding a late endosome.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0043025    neuronal cell body    The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
    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.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0043235    receptor complex    Any protein complex that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.

Chain E,F   (NGF_HUMAN | P01138)
molecular function
    GO:0004857    enzyme inhibitor activity    Binds to and stops, prevents or reduces the activity of an enzyme.
    GO:0008083    growth factor activity    The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation.
    GO:0008191    metalloendopeptidase inhibitor activity    Stops, prevents or reduces the activity of metalloendopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain and contain a chelated metal ion at their active sites which is essential to their catalytic activity.
    GO:0005163    nerve growth factor receptor binding    Interacting selectively and non-covalently with the nerve growth factor receptor.
    GO:0030414    peptidase inhibitor activity    Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
    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.
biological process
    GO:0000186    activation of MAPKK activity    The initiation of the activity of the inactive enzyme MAP kinase kinase (MAPKK).
    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: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: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:0007018    microtubule-based movement    A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules.
    GO:0043066    negative regulation of apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
    GO:0043154    negative regulation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of a cysteine-type endopeptidase activity involved in the apoptotic process.
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:0010466    negative regulation of peptidase activity    Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
    GO:0032455    nerve growth factor processing    The generation of a mature nerve growth factor (NGF) by proteolysis of a precursor.
    GO:0048812    neuron projection morphogenesis    The process in which the anatomical structures of a neuron projection are generated and organized. A neuron projection is any process extending from a neural cell, such as axons or dendrites.
    GO:0048011    neurotrophin TRK receptor signaling pathway    A series of molecular signals initiated by the binding of a neurotrophin to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0048015    phosphatidylinositol-mediated signaling    A series of molecular signals in which a cell uses a phosphatidylinositol-mediated signaling to convert a signal into a response. Phosphatidylinositols include phosphatidylinositol (PtdIns) and its phosphorylated derivatives.
    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:0050772    positive regulation of axonogenesis    Any process that activates or increases the frequency, rate or extent of axonogenesis.
    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:0043281    regulation of cysteine-type endopeptidase activity involved in apoptotic process    Any process that modulates the activity of a cysteine-type endopeptidase involved in apoptosis.
    GO:0045664    regulation of neuron differentiation    Any process that modulates the frequency, rate or extent of neuron differentiation.
    GO:0007169    transmembrane receptor protein tyrosine kinase signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0005796    Golgi lumen    The volume enclosed by the membranes of any cisterna or subcompartment of the Golgi apparatus, including the cis- and trans-Golgi networks.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        NGF_HUMAN | P011381sg1 1www 4edw 4edx 4zbn 5jz7
        NTRK1_HUMAN | P046291he7 1shc 1wwa 1www 2n90 4aoj 4crp 4f0i 4gt5 4pmm 4pmp 4pms 4pmt 4yne 4yps 5h3q 5jfs 5jfv 5jfw 5jfx 5kmi 5kmj 5kmk 5kml 5kmm 5kmn 5kmo

(-) Related Entries Specified in the PDB File

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