Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
(-)Biological Unit 2
(-)Biological Unit 3
(-)Biological Unit 4
(-)Biological Unit 5
(-)Biological Unit 6
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)
Image Biological Unit 3
Biological Unit 3  (Jmol Viewer)
Image Biological Unit 4
Biological Unit 4  (Jmol Viewer)
Image Biological Unit 5
Biological Unit 5  (Jmol Viewer)
Image Biological Unit 6
Biological Unit 6  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF C-CBL-TKB DOMAIN COMPLEXED WITH ITS BINDING MOTIF IN C-MET
 
Authors :  C. Ng, R. A. Jackson, J. P. Buschdorf, Q. Sun, G. R. Guy, J. Sivaraman
Date :  03 Jan 08  (Deposition) - 26 Feb 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  A,B  (1x)
Biol. Unit 6:  C,D  (1x)
Keywords :  Cbl, Tkb, Ligase, Signal Transduction, Proto-Oncogene, Complex, Atp-Binding, Glycoprotein, Kinase, Membrane, Nucleotide-Binding, Phosphoprotein, Receptor, Transferase, Transmembrane, Tyrosine-Protein Kinase, Calcium, Cytoplasm, Metal-Binding, Sh2 Domain, Ubl Conjugation Pathway, Zinc, Zinc-Finger, Ligase/Signaling Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Ng, R. A. Jackson, J. P. Buschdorf, Q. Sun, G. R. Guy, J. Sivaraman
Structural Basis For A Novel Intrapeptidyl H-Bond And Reverse Binding Of C-Cbl-Tkb Domain Substrates
Embo J. V. 27 804 2008
PubMed-ID: 18273061  |  Reference-DOI: 10.1038/EMBOJ.2008.18
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 13-MERIC PEPTIDE FROM HEPATOCYTE GROWTH FACTOR RECEPTOR
    ChainsA, C
    EngineeredYES
    FragmentUNP RESIDUES 997-1009, PTYR-1003 PHOSPHOPEPTIDE
    Other DetailsSYNTHETIC CONSTRUCT
    SynonymHGF RECEPTOR, SCATTER FACTOR RECEPTOR, SF RECEPTOR, HGF/SF RECEPTOR, MET PROTO-ONCOGENE TYROSINE KINASE, C-MET
    SyntheticYES
 
Molecule 2 - E3 UBIQUITIN-PROTEIN LIGASE CBL
    ChainsB, D
    EC Number6.3.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX4T1
    Expression System StrainROSETTA
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentC-CBL TKB DOMAIN, CBL N-TERMINAL, UNP RESIDUES 23-351
    GeneCBL, CBL2, RNF55
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSIGNAL TRANSDUCTION PROTEIN CBL, PROTO-ONCOGENE C- CBL, CASITAS B-LINEAGE LYMPHOMA PROTO-ONCOGENE, RING FINGER PROTEIN 55

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)A   
Biological Unit 2 (1x) B  
Biological Unit 3 (1x)  C 
Biological Unit 4 (1x)   D
Biological Unit 5 (1x)AB  
Biological Unit 6 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1PTR2Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1PTR1Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1PTR-1Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1PTR1Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1PTR-1Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 5 (1, 1)
No.NameCountTypeFull Name
1PTR1Mod. Amino AcidO-PHOSPHOTYROSINE
Biological Unit 6 (1, 1)
No.NameCountTypeFull Name
1PTR1Mod. Amino AcidO-PHOSPHOTYROSINE

(-) Sites  (0, 0)

(no "Site" information available for 3BUX)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BUX)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Pro B:81 -Pro B:82
2Gln B:249 -Pro B:250
3Pro D:81 -Pro D:82
4Gln D:249 -Pro D:250

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 4)

Asymmetric Unit (2, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_071040K287RCBL_HUMANUnclassified  ---B/DK287R
2UniProtVAR_076585Y1003SMET_HUMANDisease  ---A/CY1003S

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
2UniProtVAR_076585Y1003SMET_HUMANDisease  ---AY1003S

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_071040K287RCBL_HUMANUnclassified  ---BK287R

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 3 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
2UniProtVAR_076585Y1003SMET_HUMANDisease  ---CY1003S

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 4 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_071040K287RCBL_HUMANUnclassified  ---DK287R

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 5 (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_071040K287RCBL_HUMANUnclassified  ---BK287R
2UniProtVAR_076585Y1003SMET_HUMANDisease  ---AY1003S

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 6 (2, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_071040K287RCBL_HUMANUnclassified  ---DK287R
2UniProtVAR_076585Y1003SMET_HUMANDisease  ---CY1003S

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

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  2B:47-351
D:47-351
Biological Unit 1 (, 0)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  0-
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  1B:47-351
-
Biological Unit 3 (, 0)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  0-
-
Biological Unit 4 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  1-
D:47-351
Biological Unit 5 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  1B:47-351
-
Biological Unit 6 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBL_PTBPS51506 Cbl-type phosphotyrosine-binding (Cbl-PTB) domain profile.CBL_HUMAN47-351
 
  1-
D:47-351

(-) Exons   (8, 16)

Asymmetric Unit (8, 16)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002640331ENSE00001240819chr11:119076752-119077322571CBL_HUMAN1-65652B:47-65
D:47-65
19
19
1.2ENST000002640332ENSE00001240799chr11:119103158-119103405248CBL_HUMAN66-148832B:66-148
D:66-148
83
83
1.3ENST000002640333ENSE00001240795chr11:119142445-119142591147CBL_HUMAN148-197502B:148-197
D:148-197
50
50
1.4ENST000002640334ENSE00001240790chr11:119144578-119144734157CBL_HUMAN197-249532B:197-249
D:197-249
53
53
1.5ENST000002640335ENSE00001240782chr11:119145542-119145663122CBL_HUMAN250-290412B:250-290
D:250-290
41
41
1.6ENST000002640336ENSE00001240776chr11:119146707-119146844138CBL_HUMAN290-336472B:290-336
D:290-336
47
47
1.7ENST000002640337ENSE00001128289chr11:119148467-11914855488CBL_HUMAN336-365302B:336-351
D:336-351
16
16
1.8ENST000002640338ENSE00001795866chr11:119148876-119149007132CBL_HUMAN366-409440--
1.9ENST000002640339ENSE00001128273chr11:119149220-119149423204CBL_HUMAN410-477680--
1.10ENST0000026403310ENSE00000796209chr11:119155679-119155810132CBL_HUMAN478-521440--
1.11ENST0000026403311ENSE00001206751chr11:119155899-119156276378CBL_HUMAN522-6471260--
1.12ENST0000026403312ENSE00000796211chr11:119158562-11915865695CBL_HUMAN648-679320--
1.13ENST0000026403313ENSE00000796212chr11:119167628-119167744117CBL_HUMAN679-718400--
1.14ENST0000026403314ENSE00000796213chr11:119168094-11916819198CBL_HUMAN718-751340--
1.15ENST0000026403315ENSE00000796214chr11:119169068-119169250183CBL_HUMAN751-812620--
1.16ENST0000026403316ENSE00001238481chr11:119170205-1191776517447CBL_HUMAN812-906950--

2.1cENST000003977521cENSE00001865305chr7:116312446-116312631186MET_HUMAN-00--
2.3cENST000003977523cENSE00001238915chr7:116339125-1163403381214MET_HUMAN1-4004000--
2.6ENST000003977526ENSE00000717722chr7:116371722-116371913192MET_HUMAN401-464640--
2.7ENST000003977527ENSE00000717724chr7:116380004-116380138135MET_HUMAN465-509450--
2.8ENST000003977528ENSE00000717726chr7:116380906-116381079174MET_HUMAN510-567580--
2.9bENST000003977529bENSE00000717728chr7:116395409-116395569161MET_HUMAN568-621540--
2.10ENST0000039775210ENSE00000717730chr7:116397491-116397593103MET_HUMAN621-655350--
2.11bENST0000039775211bENSE00000717732chr7:116397692-116397828137MET_HUMAN656-701460--
2.12aENST0000039775212aENSE00000717735chr7:116398513-116398674162MET_HUMAN701-755550--
2.13bENST0000039775213bENSE00001530016chr7:116399445-116399544100MET_HUMAN755-788340--
2.14ENST0000039775214ENSE00000717791chr7:116403104-116403322219MET_HUMAN789-861730--
2.15aENST0000039775215aENSE00000717803chr7:116409699-116409845147MET_HUMAN862-910490--
2.16ENST0000039775216ENSE00000717811chr7:116411552-116411708157MET_HUMAN911-963530--
2.17ENST0000039775217ENSE00000717833chr7:116411903-116412043141MET_HUMAN963-1010482A:998-1005
C:998-1005
8
8
2.18bENST0000039775218bENSE00000717861chr7:116414935-116415165231MET_HUMAN1010-1087780--
2.19ENST0000039775219ENSE00000717879chr7:116417443-11641752381MET_HUMAN1087-1114280--
2.20ENST0000039775220ENSE00000717895chr7:116418830-116419011182MET_HUMAN1114-1174610--
2.21ENST0000039775221ENSE00000717902chr7:116422042-116422151110MET_HUMAN1175-1211370--
2.22ENST0000039775222ENSE00000717928chr7:116423358-116423523166MET_HUMAN1211-1266560--
2.23ENST0000039775223ENSE00000717937chr7:116435709-116435845137MET_HUMAN1267-1312460--
2.24bENST0000039775224bENSE00000881894chr7:116435941-1164384402500MET_HUMAN1312-1390790--

(-) 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:8
 aligned with MET_HUMAN | P08581 from UniProtKB/Swiss-Prot  Length:1390

    Alignment length:8
           MET_HUMAN    998 NESVDYRA 1005
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -----S-- SAPs(SNPs)
                    PROSITE -------- PROSITE
               Transcript 2 2.17     Transcript 2
                3bux A  998 NESVDyRA 1005
                                 |  
                              1003-PTR

Chain B from PDB  Type:PROTEIN  Length:305
 aligned with CBL_HUMAN | P22681 from UniProtKB/Swiss-Prot  Length:906

    Alignment length:305
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346     
           CBL_HUMAN     47 PPGTVDKKMVEKCWKLMDKVVRLCQNPKLALKNSPPYILDLLPDTYQHLRTILSRYEGKMETLGENEYFRVFMENLMKKTKQTISLFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIFPSGLFQGDTFRITKADAAEFWRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQPWSSLLRNWNSLAVTHPGYMAFLTYDEVKARLQKFIHKPGSYIFRLSCTRLGQWAIGYVTADGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTG  351
               SCOP domains -d3buxb2 B:48-177 N-terminal domain of cbl (N-cbl)                                                                                 d3buxb1 B:178-263 Cbl                                                                 d3buxb3 B:264-351 Cbl                                                                    SCOP domains
               CATH domains 3buxB01 B:47-175  [code=1.20.930.20, no name defined]                                                                            3buxB02 B:176-264 EF-hand                                                                3buxB03 B:265-350 SHC Adaptor Protein                                                 - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhh...eeehhhhhhhhhhhh...hhhhhhhhhhhhh.....eeehhhhhhhhhhh.hhhhhhhhhhhhh..........hhhhhhhhhhhhh....eeeeee.......eeeeee.....eeee.....hhhhhhhhhhhh....ee........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CBL_PTB  PDB: B:47-351 UniProt: 47-351                                                                                                                                                                                                                                                                            PROSITE
           Transcript 1 (1) Exon 1.1           Exon 1.2  PDB: B:66-148 UniProt: 66-148                                            ------------------------------------------------Exon 1.4  PDB: B:197-249 UniProt: 197-249            Exon 1.5  PDB: B:250-290 UniProt: 250-290---------------------------------------------Exon 1.7         Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------------Exon 1.3  PDB: B:148-197 UniProt: 148-197         --------------------------------------------------------------------------------------------Exon 1.6  PDB: B:290-336 UniProt: 290-336      --------------- Transcript 1 (2)
                3bux B   47 PPGTVDKKMVEKCWKLMDKVVRLCQNPKLALKNSPPYILDLLPDTYQHLRTILSRYEGKMETLGENEYFRVFMENLMKKTKQTISLFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIFPSGLFQGDTFRITKADAAEFWRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQPWSSLLRNWNSLAVTHPGYMAFLTYDEVKARLQKFIHKPGSYIFRLSCTRLGQWAIGYVTADGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTG  351
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346     

Chain C from PDB  Type:PROTEIN  Length:8
 aligned with MET_HUMAN | P08581 from UniProtKB/Swiss-Prot  Length:1390

    Alignment length:8
           MET_HUMAN    998 NESVDYRA 1005
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -----S-- SAPs(SNPs)
                    PROSITE -------- PROSITE
               Transcript 2 2.17     Transcript 2
                3bux C  998 NESVDyRA 1005
                                 |  
                                 |  
                              1003-PTR

Chain D from PDB  Type:PROTEIN  Length:305
 aligned with CBL_HUMAN | P22681 from UniProtKB/Swiss-Prot  Length:906

    Alignment length:305
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346     
           CBL_HUMAN     47 PPGTVDKKMVEKCWKLMDKVVRLCQNPKLALKNSPPYILDLLPDTYQHLRTILSRYEGKMETLGENEYFRVFMENLMKKTKQTISLFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIFPSGLFQGDTFRITKADAAEFWRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQPWSSLLRNWNSLAVTHPGYMAFLTYDEVKARLQKFIHKPGSYIFRLSCTRLGQWAIGYVTADGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTG  351
               SCOP domains -d3buxd2 D:48-177 N-terminal domain of cbl (N-cbl)                                                                                 d3buxd1 D:178-263 Cbl                                                                 d3buxd3 D:264-351 Cbl                                                                    SCOP domains
               CATH domains 3buxD01 D:47-175  [code=1.20.930.20, no name defined]                                                                            3buxD02 D:176-264 EF-hand                                                                3buxD03 D:265-350 SHC Adaptor Protein                                                 - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhh...eeehhhhhhhhhhhh...hhhhhhhhhhhhh.....eeehhhhhhhhhhh.hhhhhhhhhhhhh..........hhhhhhhhhhhhh....eeeeee.......eeeeee.....eeee.....hhhhhhhhhhhh....ee........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CBL_PTB  PDB: D:47-351 UniProt: 47-351                                                                                                                                                                                                                                                                            PROSITE
           Transcript 1 (1) Exon 1.1           Exon 1.2  PDB: D:66-148 UniProt: 66-148                                            ------------------------------------------------Exon 1.4  PDB: D:197-249 UniProt: 197-249            Exon 1.5  PDB: D:250-290 UniProt: 250-290---------------------------------------------Exon 1.7         Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------------------------------------------------Exon 1.3  PDB: D:148-197 UniProt: 148-197         --------------------------------------------------------------------------------------------Exon 1.6  PDB: D:290-336 UniProt: 290-336      --------------- Transcript 1 (2)
                3bux D   47 PPGTVDKKMVEKCWKLMDKVVRLCQNPKLALKNSPPYILDLLPDTYQHLRTILSRYEGKMETLGENEYFRVFMENLMKKTKQTISLFKEGKERMYEENSQPRRNLTKLSLIFSHMLAELKGIFPSGLFQGDTFRITKADAAEFWRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQPWSSLLRNWNSLAVTHPGYMAFLTYDEVKARLQKFIHKPGSYIFRLSCTRLGQWAIGYVTADGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTG  351
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346     

   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, 6)

Asymmetric Unit

(-) CATH Domains  (3, 6)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BUX)

(-) Gene Ontology  (61, 65)

Asymmetric Unit(hide GO term definitions)
Chain A,C   (MET_HUMAN | P08581)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0005008    hepatocyte growth factor-activated receptor activity    Combining with hepatocyte growth factor and transmitting the signal across the plasma membrane 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: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: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:0019903    protein phosphatase binding    Interacting selectively and non-covalently with any protein phosphatase.
    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:0048754    branching morphogenesis of an epithelial tube    The process in which the anatomical structures of branches in an epithelial tube are generated and organized. A tube is a long hollow cylinder.
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    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:0001886    endothelial cell morphogenesis    The change in form (cell shape and size) that occurs during the differentiation of an endothelial cell.
    GO:0048012    hepatocyte growth factor receptor signaling pathway    The series of molecular signals generated as a consequence of the hepatocyte growth factor receptor binding to one of its physiological ligands.
    GO:0010507    negative regulation of autophagy    Any process that stops, prevents, or reduces the frequency, rate or extent of autophagy. Autophagy is the process in which cells digest parts of their own cytoplasm.
    GO:1901299    negative regulation of hydrogen peroxide-mediated programmed cell death    Any process that stops, prevents or reduces the frequency, rate or extent of hydrogen peroxide-mediated programmed cell death.
    GO:0018108    peptidyl-tyrosine phosphorylation    The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.
    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:0050918    positive chemotaxis    The directed movement of a motile cell or organism towards a higher concentration of a chemical.
    GO:2001028    positive regulation of endothelial cell chemotaxis    Any process that activates or increases the frequency, rate or extent of endothelial cell chemotaxis.
    GO:0045944    positive regulation of transcription from RNA polymerase II promoter    Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0071526    semaphorin-plexin signaling pathway    A series of molecular signals generated as a consequence of a semaphorin receptor (composed of a plexin and a neurophilin) binding to a semaphorin ligand.
    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: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:0009925    basal plasma membrane    The region of the plasma membrane located at the basal end of the cell. Often used in reference to animal polarized epithelial membranes, where the basal membrane is the part attached to the extracellular matrix, or in plant cells, where the basal membrane is defined with respect to the zygotic axis.
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    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: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.
    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.

Chain B,D   (CBL_HUMAN | P22681)
molecular function
    GO:0017124    SH3 domain binding    Interacting selectively and non-covalently with a SH3 domain (Src homology 3) of a protein, small protein modules containing approximately 50 amino acid residues found in a great variety of intracellular or membrane-associated proteins.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0046875    ephrin receptor binding    Interacting selectively and non-covalently with an ephrin receptor.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0001784    phosphotyrosine residue binding    Interacting selectively and non-covalently with a phosphorylated tyrosine residue within a protein.
    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:0019901    protein kinase binding    Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
    GO:0004871    signal transducer activity    Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0061630    ubiquitin protein ligase activity    Catalysis of the transfer of ubiquitin to a substrate protein via the reaction X-ubiquitin + S -> X + S-ubiquitin, where X is either an E2 or E3 enzyme, the X-ubiquitin linkage is a thioester bond, and the S-ubiquitin linkage is an amide bond: an isopeptide bond between the C-terminal glycine of ubiquitin and the epsilon-amino group of lysine residues in the substrate or, in the linear extension of ubiquitin chains, a peptide bond the between the C-terminal glycine and N-terminal methionine of ubiquitin residues.
    GO:0004842    ubiquitin-protein transferase activity    Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    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:0007173    epidermal growth factor receptor signaling pathway    A series of molecular signals initiated by binding of a ligand to the tyrosine kinase receptor EGFR (ERBB1) on the surface of a cell. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0008543    fibroblast growth factor receptor signaling pathway    The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands.
    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:0042059    negative regulation of epidermal growth factor receptor signaling pathway    Any process that stops, prevents, or reduces the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
    GO:0045742    positive regulation of epidermal growth factor receptor signaling pathway    Any process that activates or increases the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
    GO:0014068    positive regulation of phosphatidylinositol 3-kinase signaling    Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the phosphatidylinositol 3-kinase cascade.
    GO:0048260    positive regulation of receptor-mediated endocytosis    Any process that activates or increases the frequency, rate or extent of receptor mediated endocytosis, the uptake of external materials by cells, utilizing receptors to ensure specificity of transport.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.
    GO:0042787    protein ubiquitination involved in ubiquitin-dependent protein catabolic process    The process in which a ubiquitin group, or multiple groups, are covalently attached to the target protein, thereby initiating the degradation of that protein.
    GO:0023051    regulation of signaling    Any process that modulates the frequency, rate or extent of a signaling process.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0007179    transforming growth factor beta receptor signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a transforming growth factor beta receptor on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0016600    flotillin complex    A protein complex that contains flotillin-1 and flotillin-2, and may contain associated proteins. Flotillins associate into membrane microdomains resembling caveolae.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    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.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    PTR  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 3bux)
 
  Cis Peptide Bonds
    Gln B:249 - Pro B:250   [ RasMol ]  
    Gln D:249 - Pro D:250   [ RasMol ]  
    Pro B:81 - Pro B:82   [ RasMol ]  
    Pro D:81 - Pro D:82   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]
    Biological Unit 3  [ Jena3D ]
    Biological Unit 4  [ Jena3D ]
    Biological Unit 5  [ Jena3D ]
    Biological Unit 6  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3bux
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  CBL_HUMAN | P22681
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
  MET_HUMAN | P08581
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  6.3.2.-
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  CBL_HUMAN | P22681
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  MET_HUMAN | P08581
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        CBL_HUMAN | P226811b47 1fbv 1yvh 2cbl 2juj 2k4d 2oo9 2y1m 2y1n 3bum 3bun 3buo 3buw 3ob1 3ob2 3plf 4a49 4a4b 4a4c 4gpl 5hkw 5hkx 5hky 5hkz 5hl0 5j3x
        MET_HUMAN | P085811fyr 1r0p 1r1w 1shy 1ssl 1ux3 2cew 2g15 2rfn 2rfs 2uzx 2uzy 2wd1 2wgj 2wkm 3a4p 3c1x 3ccn 3cd8 3ce3 3cth 3ctj 3dkc 3dkf 3dkg 3efj 3efk 3f66 3f82 3i5n 3l8v 3lq8 3q6u 3q6w 3qti 3r7o 3rhk 3u6h 3u6i 3vw8 3zbx 3zc5 3zcl 3zxz 3zze 4aoi 4ap7 4deg 4deh 4dei 4eev 4gg5 4gg7 4iwd 4k3j 4knb 4mxc 4o3t 4o3u 4r1v 4r1y 4xmo 4xyf 5dg5 5eob 5eyc 5eyd 5hlw 5hni 5ho6 5hoa 5hor 5hti 5t3q 5uab 5uad 5uaf

(-) Related Entries Specified in the PDB File

3bum C-CBL-TKB DOMAIN COMPLEXED WITH ITS BINDING MOTIF IN SPROUTY2
3bun C-CBL-TKB DOMAIN COMPLEXED WITH ITS BINDING MOTIF IN SPROUTY4
3buo C-CBL-TKB DOMAIN COMPLEXED WITH ITS BINDING MOTIF IN EGF RECEPTOR
3buw C-CBL-TKB DOMAIN COMPLEXED WITH ITS BINDING MOTIF IN SYK