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(-) Description

Title :  A CLICKABLE COVALENT ERK 1/2 INHIBITOR
 
Authors :  M. O'Reilly, D. Wright
Date :  22 Jun 16  (Deposition) - 20 Jul 16  (Release) - 31 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.89
Chains :  Asym./Biol. Unit :  A
Keywords :  Erk2 Covalent Inhibitor, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Lebraud, D. J. Wright, C. E. East, F. P. Holding, M. O'Reilly, T. D. Heightman
In-Gel Activity-Based Protein Profiling Of A Clickable Covalent Erk1/2 Inhibitor.
Mol Biosyst V. 12 2867 2016
PubMed-ID: 27385078  |  Reference-DOI: 10.1039/C6MB00367B

(-) Compounds

Molecule 1 - MITOGEN-ACTIVATED PROTEIN KINASE 1
    Chains: A
    EC Number: 2.7.11.24
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Taxid: 511693
    Expression System Variant: DE3
    Gene: MAPK1, ERK2, PRKM1, PRKM2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: CYS 129 AND CYS 163 HAVE BEEN MODIFIED IN THE CRYSTALLISATION SOLUTION TO CME.
    Synonym: MAPK 1,ERT1,EXTRACELLULAR SIGNAL-REGULATED KINASE 2,ERK-2, MAP KINASE ISOFORM P42,P42-MAPK,MITOGEN-ACTIVATED PROTEIN KINASE 2, MAPK 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric/Biological Unit (3, 7)
No.NameCountTypeFull Name
16TT1Ligand/Ion~{N}-[2-[[2-[(5-METHOXYPYRIDIN-3-YL)AMINO]-5-(TRIFLUOROMETHYL)PYRIMIDIN-4-YL]AMINO]PHENYL]PROPANAMIDE
2CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3SO44Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:191 , ARG A:194 , TYR A:233 , HOH A:505 , HOH A:580 , HOH A:627 , HOH A:632 , HOH A:767binding site for residue SO4 A 401
2AC2SOFTWAREARG A:67 , LEU A:170 , ARG A:172 , VAL A:188 , HOH A:558binding site for residue SO4 A 402
3AC3SOFTWARELEU A:116 , THR A:118 , GLN A:119 , ASN A:224 , HOH A:659 , HOH A:780binding site for residue SO4 A 403
4AC4SOFTWARELYS A:151 , SER A:153 , HOH A:618 , HOH A:745binding site for residue SO4 A 404
5AC5SOFTWAREILE A:31 , VAL A:39 , ALA A:52 , GLN A:105 , ASP A:106 , MET A:108 , GLU A:109 , ASP A:111 , LYS A:114 , LEU A:156 , CYS A:166 , HOH A:547 , HOH A:600 , HOH A:665 , HOH A:711 , HOH A:764binding site for residue 6TT A 405

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5LCK)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:22 -Pro A:23

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5LCK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5LCK)

(-) Exons   (0, 0)

(no "Exon" information available for 5LCK)

(-) 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
                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeeeeeee..eeeeeeee....eeeeeeee....hhhhhhhhhhhhhhhhhh.........eee..........eeeeee...eehhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee......ee.hhhhh..........hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhh......hhhhhh...hhhhhhhhhhhh........hhhhhhhhhhhh...hhhhh................hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lck A  11 PEMVRGQVFDVGPRYTNLSYIGEGAYGMVCSAYDNVNKVRVAIKKISPFEHQTYCQRTLREIKILLRFRHENIIGINDIIRAPTIEQMKDVYIVQDLMETDLYKLLKTQHLSNDHIcYFLYQILRGLKYIHSANVLHRDLKPSNLLLNTTcDLKICDFGLARVADPDHDHTGFLTEYVATRWYRAPEIMLNSKGYTKSIDIWSVGCILAEMLSNRPIFPGKHYLDQLNHILGILGSPSQEDLNCIINLKARNYLLSLPHKNKVPWNRLFPNADSKALDLLDKMLTFNPHKRIEVEQALAHPYLEQYYDPSDEPIAEAPFKFDMELDDLPKEKLKELIFEETARFQPG 357
                                    20        30        40        50        60        70        80        90       100       110       120      |130       140       150       160|      170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       
                                                                                                                                              127-CME                           161-CME
   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 5LCK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5LCK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5LCK)

(-) Gene Ontology  (107, 107)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:22 - Pro A:23   [ RasMol ]  
 

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  5lck
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  MK01_HUMAN | P28482
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  2.7.11.24
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 Related Entries

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

UniProtKB/Swiss-Prot
        MK01_HUMAN | P28482: 1pme 1tvo 1wzy 2ojg 2oji 2ojj 2y9q 3d42 3d44 3i5z 3i60 3sa0 3tei 3w55 4fmq 4fux 4fuy 4fv0 4fv1 4fv2 4fv3 4fv4 4fv5 4fv6 4fv7 4fv8 4fv9 4g6n 4g6o 4h3p 4h3q 4iz5 4iz7 4iza 4n0s 4nif 4o6e 4qp1 4qp2 4qp3 4qp4 4qp6 4qp7 4qp8 4qp9 4qpa 4qta 4qte 4xj0 4zxt 4zzm 4zzn 4zzo 5ax3 5bue 5bui 5buj 5bvd 5bve 5bvf 5k4i 5lcj 5ngu 5nhf 5nhh 5nhj 5nhl 5nho 5nhp 5nhv

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LCK)