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(-) Description

Title :  CRYSTAL STRUCTURE OF A BRAF KINASE DOMAIN MONOMER
 
Authors :  D. A. Critton
Date :  15 Oct 14  (Deposition) - 03 Dec 14  (Release) - 14 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.83
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Kinase, Monomer, Inhibitor, Complex, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  N. Thevakumaran, H. Lavoie, D. A. Critton, A. Tebben, A. Marinier, F. Sicheri, M. Therrien
Crystal Structure Of A Braf Kinase Domain Monomer Explains Basis For Allosteric Regulation.
Nat. Struct. Mol. Biol. V. 22 37 2015
PubMed-ID: 25437913  |  Reference-DOI: 10.1038/NSMB.2924

(-) Compounds

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE B-RAF
    ChainsA, B
    EC Number2.7.11.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28
    Expression System StrainDH5[ALPHA]
    Expression System Taxid668369
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 444-723
    GeneBRAF, BRAF1, RAFB1
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPROTO-ONCOGENE B-RAF,P94,V-RAF MURINE SARCOMA VIRAL ONCOGENE HOMOLOG B1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
13242Ligand/IonN-{3-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)CARBONYL]-2,4-DIFLUOROPHENYL}PROPANE-1-SULFONAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
13241Ligand/IonN-{3-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)CARBONYL]-2,4-DIFLUOROPHENYL}PROPANE-1-SULFONAMIDE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
13241Ligand/IonN-{3-[(5-CHLORO-1H-PYRROLO[2,3-B]PYRIDIN-3-YL)CARBONYL]-2,4-DIFLUOROPHENYL}PROPANE-1-SULFONAMIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:463 , VAL A:471 , ALA A:481 , VAL A:482 , LYS A:483 , LEU A:505 , LEU A:514 , THR A:529 , GLN A:530 , TRP A:531 , CYS A:532 , SER A:535 , PHE A:583 , GLY A:593 , ASP A:594 , PHE A:595 , GLY A:596binding site for residue 324 A 801
2AC2SOFTWAREVAL B:471 , ALA B:481 , VAL B:482 , LYS B:483 , LEU B:514 , THR B:529 , GLN B:530 , TRP B:531 , CYS B:532 , PHE B:583 , ASP B:594 , PHE B:595 , HOH B:911binding site for residue 324 B 801

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4WO5)

(-) Cis Peptide Bonds  (11, 11)

Asymmetric Unit
No.Residues
1Lys A:522 -Pro A:523
2Ala A:543 -Ser A:544
3Glu A:586 -Asp A:587
4Ser A:614 -Gly A:615
5Asn A:631 -Pro A:632
6Arg A:719 -Glu A:720
7Ser B:467 -Phe B:468
8His B:477 -Gly B:478
9Asp B:587 -Asn B:588
10Gly B:596 -Leu B:597
11Ala B:718 -Arg B:719

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WO5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WO5)

(-) Exons   (0, 0)

(no "Exon" information available for 4WO5)

(-) 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:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eee....eeeeeee...eeeeeee.....hhhhhhhhhhhhhhhh.........eeeee.....eeeee.....hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...........eeee...eeee....hhhhhhhh.hhhhh......hhhhhh....hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhh.....hhhhh....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wo5 A 448 DDWEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYHHLHASEKFEMKKLIDIARQTARGMDYLHAKSIIHRDLKSNNIFLHEDNTVKIGDFGLATVKSRWSFEQLSGSILWMAPEVIRMNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIEMVGRGSLSPDLSKVRSNCPKRMKRLMAECLKKKRDERPSFPRILAEIEELAREL 721
                                   457       467       477       487       497       507       517       527       537       548       558       568       578       588       598      |612       622    || 635       645       655       665       675       685       695       705       715      
                                                                                                                           545|                                                       605|              627|                                                                                          
                                                                                                                            547                                                        610               631                                                                                          

Chain B from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeee...eeeeeee...eeeeeee.....hhhhhhhhhhhhhhhhhh.......eeeee.....eeeee.....hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh...........eee.....eee........hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.....hhhhh....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wo5 B 450 WEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYHHLHASETKFEMKKLIDIARQTARGMDYLHAKSIIHRDLKSNNIFLHEDNTVKIGDFGLATGSILWMAPEVIRMQDSNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIEMVGRGSLSPDLSKVRSNCPKRMKRLMAECLKKKRDERPSFPRILAEIEELAREL 721
                                   459       469       479       489       499       509       519       529       539       549       559       569       579       589       599|      624       634       644       654       664       674       684       694       704       714       
                                                                                                                                                                               599|                                                                                                          
                                                                                                                                                                                615                                                                                                          

   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  (0, 0)

(no "SCOP Domain" information available for 4WO5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WO5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WO5)

(-) Gene Ontology  (64, 64)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:543 - Ser A:544   [ RasMol ]  
    Ala B:718 - Arg B:719   [ RasMol ]  
    Arg A:719 - Glu A:720   [ RasMol ]  
    Asn A:631 - Pro A:632   [ RasMol ]  
    Asp B:587 - Asn B:588   [ RasMol ]  
    Glu A:586 - Asp A:587   [ RasMol ]  
    Gly B:596 - Leu B:597   [ RasMol ]  
    His B:477 - Gly B:478   [ RasMol ]  
    Lys A:522 - Pro A:523   [ RasMol ]  
    Ser A:614 - Gly A:615   [ RasMol ]  
    Ser B:467 - Phe B:468   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        BRAF_HUMAN | P150561uwh 1uwj 2fb8 2l05 3c4c 3d4q 3idp 3ii5 3ny5 3og7 3ppj 3ppk 3prf 3pri 3psb 3psd 3q4c 3q96 3skc 3tv4 3tv6 4cqe 4dbn 4e26 4e4x 4ehe 4ehg 4fc0 4fk3 4g9c 4g9r 4h58 4jvg 4ksp 4ksq 4mbj 4mne 4mnf 4pp7 4r5y 4rzv 4rzw 4xv1 4xv2 4xv3 4xv9 4yht 5c9c 5csw 5csx 5ct7 5fd2 5hi2 5hid 5hie 5ita 5j17 5j18 5j2r 5jrq 5jsm 5jt2 5val 5vam

(-) Related Entries Specified in the PDB File

3c4c 3C4C CONTAINS THE SAME PROTEIN COMPLEXED WITH THE SAME LIGAND.