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(-) Description

Title :  TETRAHYDROPYRROLO-DIAZEPENONES AS INHIBITORS OF ERK2 KINASE
 
Authors :  X. Ma, S. Steven
Date :  05 Jun 15  (Deposition) - 09 Sep 15  (Release) - 09 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Inhibitor, Kinase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. T. Bagdanoff, R. Jain, W. Han, S. Zhu, A. M. Madiera, P. S. Lee, X. Ma, D. Poon
Tetrahydropyrrolo-Diazepenones As Inhibitors Of Erk2 Kinase
Bioorg. Med. Chem. Lett. V. 25 3788 2015
PubMed-ID: 26259804  |  Reference-DOI: 10.1016/J.BMCL.2015.07.091

(-) Compounds

Molecule 1 - MITOGEN-ACTIVATED PROTEIN KINASE 1
    Chains: A
    EC Number: 2.7.11.24
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MAPK1, ERK2, PRKM1, PRKM2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    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  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
14VF1Ligand/Ion2-[(1S)-1-(3-CHLOROPHENYL)-2-HYDROXYETHYL]-7-[2-(TETRAHYDRO-2H-PYRAN-4-YLAMINO)PYRIMIDIN-4-YL]-3,4-DIHYDROPYRROLO[1,2-A]PYRAZIN-1(2H)-ONE
2SO45Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:31 , GLY A:32 , TYR A:34 , GLY A:35 , MET A:36 , VAL A:37 , ALA A:50 , LYS A:52 , ASP A:104 , MET A:106 , GLU A:107 , THR A:108 , ASP A:109 , LYS A:112 , ASN A:152 , LEU A:154 , ASP A:165 , HOH A:537 , HOH A:665binding site for residue 4VF A 401
2AC2SOFTWARELYS A:46 , HIS A:267 , LYS A:340 , HOH A:531binding site for residue SO4 A 402
3AC3SOFTWAREGLU A:58 , HIS A:59 , GLN A:60 , THR A:61binding site for residue SO4 A 403
4AC4SOFTWAREARG A:13 , SER A:27 , TYR A:28 , HOH A:528binding site for residue SO4 A 404
5AC5SOFTWAREARG A:189 , ARG A:192 , HIS A:230 , TYR A:231 , GLN A:304 , HOH A:696binding site for residue SO4 A 405
6AC6SOFTWARETHR A:61 , ARG A:65 , ARG A:146 , ARG A:170 , HOH A:506binding site for residue SO4 A 406

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:20 -Pro A:21

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5BVD)

(-) 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:330
                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee..eee.....eeeeeeeeee..eeeeeeee....eeeeeeee....hhhhhhhhhhhhhhhhhh.........eee..........eeeeee...eehhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee........hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhhhhhhh.......hhhhhh...hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhh...hhhhh...........hhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bvd A   7 AGPEMVRGQVFDVGPRYTNLSYIGEGAYGMVCSAYDNVNKVRVAIKKISPFEHQTYCQRTLREIKILLRFRHENIIGINDIIRAPTIEQMKDVYIVQDLMETDLYKLLKTQHLSNDHICYFLYQILRGLKYIHSANVLHRDLKPSNLLLNTTCDLKICDFGLARVTRWYRAPEIMLNTKSIDIWSVGCILAEMLSNRPIFPGKHYLDQLNHILGILGSPSQEDLNCIINLKARNYLLSLPHKNKVPWNRLFPNADSKALDLLDKMLTFNPHKRIEVEQALAHPYLEQYYDPSDEPIAEAPFKFDMELDDLPKEKLKELIFEETARFQPGY 356
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166    || 192      |206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356
                                                                                                                                                                                              171|        199|                                                                                                                                                        
                                                                                                                                                                                               188         204
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  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 5BVD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (107, 107)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:20 - Pro A:21   [ RasMol ]  
 

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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 5bve 5bvf 5k4i 5lcj 5lck 5ngu 5nhf 5nhh 5nhj 5nhl 5nho 5nhp 5nhv

(-) Related Entries Specified in the PDB File

5bve 5bvf