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(-) Description

Title :  HUMAN G9A IN COMPLEX WITH INHIBITOR A-366
 
Authors :  R. F. Sweis, M. Pliushchev, P. J. Brown, J. Guo, F. Li, D. Maag, A. M. Petro N. B. Soni, C. Tse, M. Vedadi, M. R. Michaelides, G. G. Chiang, W. N. Papp
Date :  05 Dec 13  (Deposition) - 15 Jan 14  (Release) - 16 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lysine Methyl Transferase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. F. Sweis, M. Pliushchev, P. J. Brown, J. Guo, F. Li, D. Maag, A. M. Petros, N. B. Soni, C. Tse, M. Vedadi, M. R. Michaelides, G. G. Chiang, W. N. Pappano
Discovery And Development Of Potent And Selective Inhibitor Of Histone Methyltransferase G9A.
Acs Med Chem Lett V. 5 205 2014
PubMed-ID: 24900801  |  Reference-DOI: 10.1021/ML400496H

(-) Compounds

Molecule 1 - HISTONE-LYSINE N-METHYLTRANSFERASE EHMT2
    Chains: A, B
    EC Number: 2.1.1.-, 2.1.1.43
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: EHMT2, BAT8, C6ORF30, G9A, KMT1C, NG36
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: EUCHROMATIC HISTONE-LYSINE N-METHYLTRANSFERASE 2, HLA-B- ASSOCIATED TRANSCRIPT 8, HISTONE H3-K9 METHYLTRANSFERASE 3, H3-K9- HMTASE 3, LYSINE N-METHYLTRANSFERASE 1C, PROTEIN G9A

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric/Biological Unit (3, 12)
No.NameCountTypeFull Name
12OD2Ligand/Ion5'-METHOXY-6'-[3-(PYRROLIDIN-1-YL)PROPOXY]SPIRO[CYCLOBUTANE-1,3'-INDOL]-2'-AMINE
2SAH2Ligand/IonS-ADENOSYL-L-HOMOCYSTEINE
3ZN8Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:1067 , ASP A:1074 , ALA A:1077 , ASP A:1078 , ASP A:1083 , SER A:1084 , LEU A:1086 , ASP A:1088 , PHE A:1152 , TYR A:1154 , ARG A:1157 , PHE A:1158 , HOH A:1356 , HOH A:1433BINDING SITE FOR RESIDUE 2OD A 1201
02AC2SOFTWAREMET A:1048 , GLY A:1049 , TRP A:1050 , SER A:1084 , TYR A:1085 , ARG A:1109 , PHE A:1110 , ASN A:1112 , HIS A:1113 , TYR A:1154 , PHE A:1158 , PHE A:1166 , THR A:1167 , CYS A:1168 , GLN A:1169BINDING SITE FOR RESIDUE SAH A 1202
03AC3SOFTWARECYS A:974 , CYS A:987 , CYS A:1017 , CYS A:1021 , ZN A:1204BINDING SITE FOR RESIDUE ZN A 1203
04AC4SOFTWARECYS A:974 , CYS A:976 , CYS A:980 , CYS A:985 , ZN A:1203BINDING SITE FOR RESIDUE ZN A 1204
05AC5SOFTWARECYS A:980 , CYS A:1017 , CYS A:1023 , CYS A:1027 , HOH A:1425BINDING SITE FOR RESIDUE ZN A 1205
06AC6SOFTWARECYS A:1115 , CYS A:1168 , CYS A:1170 , CYS A:1175BINDING SITE FOR RESIDUE ZN A 1206
07AC7SOFTWAREMET B:1048 , TRP B:1050 , SER B:1084 , TYR B:1085 , ARG B:1109 , PHE B:1110 , ASN B:1112 , HIS B:1113 , TYR B:1154 , PHE B:1158 , PHE B:1166 , THR B:1167 , CYS B:1168 , GLN B:1169 , HOH B:1395BINDING SITE FOR RESIDUE SAH B 1201
08AC8SOFTWARETYR B:1067 , ASP B:1074 , ALA B:1077 , ASP B:1078 , ASP B:1083 , SER B:1084 , LEU B:1086 , ASP B:1088 , PHE B:1152 , TYR B:1154 , ARG B:1157 , PHE B:1158 , ILE B:1161 , HOH B:1359BINDING SITE FOR RESIDUE 2OD B 1202
09AC9SOFTWARECYS B:980 , CYS B:1017 , CYS B:1023 , CYS B:1027BINDING SITE FOR RESIDUE ZN B 1203
10BC1SOFTWARECYS B:974 , CYS B:976 , CYS B:980 , CYS B:985BINDING SITE FOR RESIDUE ZN B 1204
11BC2SOFTWARECYS B:974 , CYS B:987 , CYS B:1017 , CYS B:1021BINDING SITE FOR RESIDUE ZN B 1205
12BC3SOFTWARECYS B:1115 , CYS B:1168 , CYS B:1170 , CYS B:1175BINDING SITE FOR RESIDUE ZN B 1206

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NVQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NVQ)

(-) 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:267
                                                                                                                                                                                                                                                                                                            
               SCOP domains d4nvqa_ A: automated matches                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.............eee...........ee....ee........hhhhh.............hhhhhhh......................ee...............hhhhh....eeeee.....eeeee........eeeee.eeeeehhhhhh......eee....eeeeeeeee.hhhhhee.....eeeeeee.........eeeeee..........ee..hhhhhhhhh.............hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nvq A  916 IRTEKIICRDVARGYENVPIPCVNGVDGEPCPEDYKYISENCETSTMNIDRNITHLQHCTCVDDCSSSNCLCGQLSIRCWYDKDGRLLQEFNKIEPPLIFECNQACSCWRNCKNRVVQSGIKVRLQLYRTAKMGWGVRALQTIPQGTFICEYVGELISDAEADVREDDSYLFDLGEVYCIDARYYGNISRFINHLCDPNIIPVRVFMLHQDLRFPRIAFFSSRDIRTGEELGFDYGDRFWDIKSYFTCQCGSEKCKHSAEAIALEQS 1187
                                   925       935       945       955       965       975       985       995      1005      1015      1025      1035      1045      1055      1065      1075      1085   || 1099      1109      1119      1129      1139      1149      1159   || 1170      1180       
                                                                                                                                                                                                      1089|                                                                 1163|                      
                                                                                                                                                                                                       1094                                                                  1165                      


Chain B from PDB  Type:PROTEIN  Length:263
                                                                                                                                                                                                                                                                                                        
               SCOP domains d4nvqb_ B: automated matches                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.............eee...........ee....ee........hhhhh.....................................ee...............hhhhh....eeeee.....eeeee........eeeee.eeeeehhhhhhh.....eee...eeeeeeeee.hhhhhee.....eeeeeee.........eeeeee..........ee..hhhhhhhhh...............hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4nvq B  918 TEKIICRDVARGYENVPIPCVNGVDGEPCPEDYKYISENCETSTMNIDRNITHLQHCTCVDDCSSSNCLCRCWYDKDGRLLQEFNKIEPPLIFECNQACSCWRNCKNRVVQSGIKVRLQLYRTAKMGWGVRALQTIPQGTFICEYVGELISDAEADVREDDSYLFDLDVYCIDARYYGNISRFINHLCDPNIIPVRVFMLHQDLRFPRIAFFSSRDIRTGEELGFDYGDRFWDIKSKYFTCQCGSEKCKHSAEAIALEQSRLA 1190
                                   927       937       947       957       967       977       987|     1002      1012      1022      1032      1042      1052      1062      1072      1082      1097      1107      1117      1127      1137      1147      1157      1167      1177      1187   
                                                                                               987|                                                                                             1090|                                                                                              
                                                                                                993                                                                                              1096
   Legend:   → Mismatch (orange background)
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    → 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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  4nvq
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UniProtKB/Swiss-Prot
        EHMT2_HUMAN | Q96KQ7: 2o8j 3dm1 3k5k 3rjw 5jhn 5jin 5jiy 5jj0 5t0k 5t0m 5ttf 5tuy 5vsc

(-) Related Entries Specified in the PDB File

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