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(-) Description

Title :  CRYSTAL STRUCTURE OF COMT IN COMPLEX WITH 5-[5-[1-(4-METHOXYPHENYL) CYCLOPROPYL]-1H-PYRAZOL-3-YL]-2,4-DIMETHYL-1,3-THIAZOLE
 
Authors :  A. Ehler, R. M. Rodriguez-Sarmiento, M. G. Rudolph
Date :  17 May 16  (Deposition) - 07 Sep 16  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Methyltransferase, Neurotransmitter Degradation, Catechol, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Lerner, R. Jakob-Roetne, B. Buettelmann, A. Ehler, M. Rudolph, R. M. Rodriguez Sarmiento
Design Of Potent And Druglike Nonphenolic Inhibitors For Catechol O-Methyltransferase Derived From A Fragment Screening Approach Targeting The S-Adenosyl-L-Methionine Pocket.
J. Med. Chem. V. 59 10163 2016
PubMed-ID: 27685665  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B00927

(-) Compounds

Molecule 1 - CATECHOL O-METHYLTRANSFERASE
    Chains: A, B, C, D
    EC Number: 2.1.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: COMT
    Organism Common: NORWAY RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric Unit (4, 18)
No.NameCountTypeFull Name
16P24Ligand/Ion5-{3-[1-(4-METHOXYPHENYL)CYCLOPROPYL]-1H-PYRAZOL-5-YL}-2,4-DIMETHYL-1,3-THIAZOLE
2K4Ligand/IonPOTASSIUM ION
3MG4Ligand/IonMAGNESIUM ION
4NHE6Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
16P21Ligand/Ion5-{3-[1-(4-METHOXYPHENYL)CYCLOPROPYL]-1H-PYRAZOL-5-YL}-2,4-DIMETHYL-1,3-THIAZOLE
2K-1Ligand/IonPOTASSIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NHE1Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
16P21Ligand/Ion5-{3-[1-(4-METHOXYPHENYL)CYCLOPROPYL]-1H-PYRAZOL-5-YL}-2,4-DIMETHYL-1,3-THIAZOLE
2K-1Ligand/IonPOTASSIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NHE1Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
Biological Unit 3 (2, 3)
No.NameCountTypeFull Name
16P21Ligand/Ion5-{3-[1-(4-METHOXYPHENYL)CYCLOPROPYL]-1H-PYRAZOL-5-YL}-2,4-DIMETHYL-1,3-THIAZOLE
2K-1Ligand/IonPOTASSIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NHE2Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
Biological Unit 4 (2, 3)
No.NameCountTypeFull Name
16P21Ligand/Ion5-{3-[1-(4-METHOXYPHENYL)CYCLOPROPYL]-1H-PYRAZOL-5-YL}-2,4-DIMETHYL-1,3-THIAZOLE
2K-1Ligand/IonPOTASSIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NHE2Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:41 , ASP A:141 , ASP A:169 , ASN A:170 , HOH A:482binding site for residue MG A 301
02AC2SOFTWAREASN A:41 , GLY A:66 , TYR A:68 , MET A:89 , GLU A:90 , ILE A:91 , GLY A:117 , ALA A:118 , SER A:119 , GLN A:120 , HIS A:142 , TRP A:143 , ARG A:146binding site for residue 6P2 A 302
03AC3SOFTWARELYS A:5 , GLU A:6 , ASN A:92 , TRP C:143 , LYS C:144 , ASP C:145 , HOH C:420binding site for residue NHE A 303
04AC4SOFTWAREVAL A:183 , ARG A:184 , SER A:186 , PHE A:189 , HOH A:477 , HOH A:511binding site for residue K A 304
05AC5SOFTWAREASN B:41 , ASP B:141 , ASN B:170 , HOH B:428 , HOH B:498binding site for residue MG B 301
06AC6SOFTWAREMET B:40 , ASN B:41 , GLY B:66 , TYR B:68 , GLU B:90 , ILE B:91 , GLY B:117 , ALA B:118 , SER B:119 , GLN B:120 , HIS B:142 , TRP B:143 , ARG B:146 , 6P2 D:302binding site for residue 6P2 B 302
07AC7SOFTWARETRP B:143 , LYS B:144 , ASP B:145 , HOH B:450 , LYS D:5 , GLU D:6 , TRP D:38 , ASN D:92binding site for residue NHE B 303
08AC8SOFTWAREVAL B:183 , ARG B:184 , SER B:186 , PHE B:189 , HOH B:513 , HOH B:534binding site for residue K B 304
09AC9SOFTWAREASN C:41 , ASP C:141 , ASP C:169 , ASN C:170 , NHE C:303 , HOH C:401binding site for residue MG C 301
10AD1SOFTWAREMET C:40 , ASN C:41 , GLY C:66 , TYR C:68 , GLU C:90 , ILE C:91 , SER C:119 , GLN C:120 , HIS C:142 , TRP C:143 , ARG C:146binding site for residue 6P2 C 302
11AD2SOFTWARETRP C:38 , MET C:40 , ASN C:41 , ASN C:170 , TYR C:200 , MET C:201 , MG C:301 , HOH C:433 , HOH C:542binding site for residue NHE C 303
12AD3SOFTWARETRP A:143 , LYS A:144 , ASP A:145 , LYS C:5 , GLU C:6 , TRP C:38 , CYS C:95 , HOH C:417 , HOH C:448binding site for residue NHE C 304
13AD4SOFTWAREVAL C:183 , ARG C:184 , SER C:186 , PHE C:189 , HOH C:506binding site for residue K C 305
14AD5SOFTWAREASN D:41 , ASP D:141 , LYS D:144 , ASN D:170 , NHE D:303 , HOH D:402 , HOH D:434binding site for residue MG D 301
15AD6SOFTWARE6P2 B:302 , ASN D:41 , GLY D:66 , TYR D:68 , MET D:89 , GLU D:90 , ILE D:91 , GLY D:117 , SER D:119 , GLN D:120 , HIS D:142 , TRP D:143 , ARG D:146binding site for residue 6P2 D 302
16AD7SOFTWARETRP D:38 , ASN D:41 , ASN D:170 , LEU D:198 , TYR D:200 , MG D:301 , HOH D:464 , HOH D:494binding site for residue NHE D 303
17AD8SOFTWARELYS B:5 , GLU B:6 , CYS B:95 , TRP D:143 , LYS D:144 , ASP D:145 , HOH D:418binding site for residue NHE D 304
18AD9SOFTWAREVAL D:183 , ARG D:184 , SER D:186 , PHE D:189 , HOH D:510 , HOH D:522binding site for residue K D 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5K0L)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:173 -Pro A:174
2Val B:173 -Pro B:174
3Val C:173 -Pro C:174
4Val D:173 -Pro D:174

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5K0L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5K0L)

(-) Exons   (0, 0)

(no "Exon" information available for 5K0L)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhh....eeeee.hhhhhh.hhhhhh....eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhh..eeeeeeeeee....eeeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k0l A   2 GDTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGPSSPDK 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211         


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhh....eeeee.hhhhhh.hhhhhh....eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhh..eeeeeeeee......eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k0l B   3 DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGPSSPDK 220
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212        


Chain C from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhh.eeeee.hhhhhh.hhhhhh......eeee..hhhhhhhhhhhhhhh.......eeee.......hhhhhhhhhhh..eeeeeeeee......eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k0l C   2 GDTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGPSSPDK 220
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211         


Chain D from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhh.eeeee.hhhhhh.hhhhhhh...eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee.......hhhhhhhhhhh..eeeeeeeee......eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5k0l D   2 GDTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGPSSPDK 220
                                    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)
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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  (0, 0)

(no "SCOP Domain" information available for 5K0L)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5K0L)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5K0L)

(-) Gene Ontology  (42, 42)

Asymmetric Unit(hide GO term definitions)

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  5k0l
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  COMT_RAT | P22734
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 Related Entries

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

UniProtKB/Swiss-Prot
        COMT_RAT | P22734: 1h1d 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 5k0n 5lqa 5lqc 5lqj 5lqk 5lqn 5lqr 5lqu 5lr6 5p8w

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