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(-) Description

Title :  CRYSTAL STRUCTURE OF COMT IN COMPLEX WITH N-[(E)-3-[(2R,3S,4R,5R)-5-[6-(ETHYLAMINO)PURIN-9-YL]-3,4-DIHYDROXYOXOLAN-2-YL]PROP-2-ENYL]-5-(4-FLUOROPHENYL)-2,3-DIHYDROXYBENZAMIDE
 
Authors :  A. Ehler, C. Lerner, M. Ellermann, M. G. Rudolph
Date :  17 Aug 16  (Deposition) - 05 Oct 16  (Release) - 05 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Methyltransferase, Neurotransmitter Degradation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Lerner, M. Ellermann, M. G. Rudolph
Crystal Structure Of Comt In Complex With N-[(E)-3-[(2R, 3S, 4R, 5R)-5-[6-(Ethylamino)Purin-9-Yl]-3, 4-Dihydroxyoxolan-2-Yl]Prop-2-Enyl]-5-(4-Fluorophenyl)-2, 3-Dihydroxybenzamide
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CATECHOL O-METHYLTRANSFERASE
    ChainsA, B
    EC Number2.1.1.6
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentSOLUBLE FORM, RESIDUES 44-264
    GeneCOMT
    Organism CommonNORWAY RAT
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116

 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  (4, 8)

Asymmetric Unit (4, 8)
No.NameCountTypeFull Name
16192Ligand/IonN-[(E)-3-[(2R,3S,4R,5R)-5-(6-ETHYLAMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]PROP-2-ENYL]-5-(4-FLUOROPHENYL)-2,3-DIHYDROXY-BENZAMIDE
2BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3CL3Ligand/IonCHLORIDE ION
4MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
16191Ligand/IonN-[(E)-3-[(2R,3S,4R,5R)-5-(6-ETHYLAMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]PROP-2-ENYL]-5-(4-FLUOROPHENYL)-2,3-DIHYDROXY-BENZAMIDE
2BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3CL-1Ligand/IonCHLORIDE ION
4MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
16191Ligand/IonN-[(E)-3-[(2R,3S,4R,5R)-5-(6-ETHYLAMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]PROP-2-ENYL]-5-(4-FLUOROPHENYL)-2,3-DIHYDROXY-BENZAMIDE
2BTB-1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3CL-1Ligand/IonCHLORIDE ION
4MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:40 , GLY A:66 , TYR A:68 , GLU A:90 , MET A:91 , ASN A:92 , TYR A:95 , GLY A:117 , ALA A:118 , SER A:119 , GLN A:120 , ASP A:141 , HIS A:142 , TRP A:143 , LYS A:144 , ARG A:146 , ASP A:169 , ASN A:170 , GLU A:199 , MG A:302 , HOH A:414 , HOH A:423 , HOH A:450 , HOH A:534 , TRP B:38 , LEU B:198 , MET B:201 , 619 B:301binding site for residue 619 A 301
2AC2SOFTWAREASP A:141 , ASP A:169 , ASN A:170 , 619 A:301 , HOH A:423binding site for residue MG A 302
3AC3SOFTWAREASP A:44 , ALA A:45 , TYR A:200binding site for residue CL A 303
4AC4SOFTWAREARG A:161binding site for residue CL A 304
5AC5SOFTWARECYS A:33 , THR A:34 , LYS A:36 , TRP A:38 , TYR A:200 , HOH A:404 , HOH A:411 , TRP B:143 , LYS B:144 , ASP B:145 , PRO B:174 , 619 B:301binding site for residue BTB A 305
6AC6SOFTWARETRP A:38 , LEU A:198 , MET A:201 , 619 A:301 , BTB A:305 , MET B:40 , GLY B:66 , TYR B:68 , GLU B:90 , MET B:91 , ASN B:92 , TYR B:95 , GLY B:117 , ALA B:118 , SER B:119 , GLN B:120 , ASP B:141 , HIS B:142 , TRP B:143 , LYS B:144 , ARG B:146 , ASP B:169 , ASN B:170 , GLU B:199 , MG B:302 , CL B:303 , HOH B:428 , HOH B:498 , HOH B:516binding site for residue 619 B 301
7AC7SOFTWAREASP B:141 , ASP B:169 , ASN B:170 , 619 B:301 , HOH B:428binding site for residue MG B 302
8AC8SOFTWAREGLU A:37 , TRP B:143 , 619 B:301 , HOH B:458 , HOH B:498binding site for residue CL B 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Val A:173 -Pro A:174
2Val B:173 -Pro B:174

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5LQU)

(-) 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:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhh....eeeee.hhhhhh.hhhhhhh...eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhh..eeeeeeeee......eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lqu A   3 DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEMNPDYAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGP 215
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212   

Chain B from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhh....eeeee.hhhhhh.hhhhhh....eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhh..eeeeeeeee......eeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5lqu B   2 GDTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEMNPDYAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGP 215
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211    

   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 5LQU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (42, 42)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        COMT_RAT | P227341h1d 1jr4 1vid 2cl5 2zlb 2zth 2zvj 3a7d 3hvh 3hvi 3hvj 3hvk 3nw9 3nwb 3nwe 3oe4 3oe5 3ozr 3ozs 3ozt 3r6t 3s68 3u81 4p7g 4p7j 4p7k 4pyl 4pym 4pyn 4pyo 4pyq 5fhq 5fhr 5k01 5k03 5k05 5k09 5k0b 5k0c 5k0e 5k0f 5k0g 5k0j 5k0l 5k0n 5lqa 5lqc 5lqj 5lqk 5lqn 5lqr 5lr6 5p8w

(-) Related Entries Specified in the PDB File

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