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(-) Description

Title :  HUMANIZED RAT APO-COMT IN COMPLEX WITH A UREIDO-BENZAMIDINE
 
Authors :  A. Ehler, J. Benz, D. Schlatter, M. G. Rudolph
Date :  27 Mar 14  (Deposition) - 11 Jun 14  (Release) - 27 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.39
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Methyltransferase, Neurotransmitter Degradation, Alternative Initiation, Catecholamine Metabolism, Cell Membrane, Magnesium, Membrane, Metal-Binding, Phosphoprotein, Signal-Anchor, Transmembrane Anchor, Enzyme Mechanism, Conformational Change, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Ehler, J. Benz, D. Schlatter, M. G. Rudolph
Mapping The Conformational Space Accessible To Catechol-O-Methyltransferase.
Acta Crystallogr. , Sect. D V. 70 2163 2014
PubMed-ID: 25084335  |  Reference-DOI: 10.1107/S1399004714012917

(-) Compounds

Molecule 1 - CATECHOL O-METHYLTRANSFERASE
    Chains: A, B
    EC Number: 2.1.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 44-264
    Gene: COMT
    Mutation: YES
    Organism Common: BROWN RAT,RAT,RATS
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 11)

Asymmetric/Biological Unit (5, 11)
No.NameCountTypeFull Name
12X12Ligand/Ion4-({[3-(AMINOMETHYL)PHENYL]CARBAMOYL}AMINO)BENZENECARBOXIMIDAMIDE
2ACT2Ligand/IonACETATE ION
3CL1Ligand/IonCHLORIDE ION
4NA2Ligand/IonSODIUM ION
5SO44Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREILE A:134 , ASN A:135 , PRO A:136 , TRP A:186 , ASP A:188BINDING SITE FOR RESIDUE 2X1 A 301
02AC2SOFTWARELEU A:108 , GLY A:109 , SER A:162 , ASP A:184 , TRP A:186 , ARG A:189 , ASP A:193 , HOH A:440BINDING SITE FOR RESIDUE ACT A 302
03AC3SOFTWAREVAL A:226 , ARG A:227 , SER A:229 , PHE A:232 , GLU B:242 , HOH B:401BINDING SITE FOR RESIDUE NA A 303
04AC4SOFTWAREALA A:110 , TYR A:111 , CYS A:112 , GLY A:113 , TYR A:114 , SER A:115 , ASP A:184 , HOH A:402BINDING SITE FOR RESIDUE SO4 A 304
05AC5SOFTWAREARG A:51 , TYR A:75 , LYS A:79BINDING SITE FOR RESIDUE SO4 A 305
06AC6SOFTWAREGLU A:242 , HOH A:489 , VAL B:226 , ARG B:227 , SER B:229 , PHE B:232BINDING SITE FOR RESIDUE NA B 301
07AC7SOFTWAREILE B:134 , ASN B:135 , PRO B:136 , TRP B:186 , ASP B:188 , ARG B:189BINDING SITE FOR RESIDUE 2X1 B 302
08AC8SOFTWARELEU B:108 , GLY B:109 , SER B:162 , ASP B:184 , TRP B:186 , ARG B:189 , ASP B:193 , HOH B:468BINDING SITE FOR RESIDUE ACT B 303
09AC9SOFTWAREGLY B:86 , ARG B:118BINDING SITE FOR RESIDUE CL B 304
10BC1SOFTWARETYR B:111 , CYS B:112 , GLY B:113 , TYR B:114 , SER B:115 , ASP B:184 , HOH B:427BINDING SITE FOR RESIDUE SO4 B 305
11BC2SOFTWAREARG B:51 , TYR B:75 , LYS B:79 , HOH B:466BINDING SITE FOR RESIDUE SO4 B 306

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:216 -Pro A:217
2Val B:216 -Pro B:217

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PYQ)

(-) 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:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhh.eeeee.hhhhhh.hhhhhhh...eeeeee..hhhhhhhhhhhhhhh..eeeeeeeeee......hhhhhhhhhhh..eeeeeeeeee......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyq A  46 DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGP 258
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255   


Chain B from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhh......eeeeee.hhhhhhhhhhhhhhhhhhh.eeeee.hhhhhh.hhhhhhh...eeeeee..hhhhhhhhhhhhhhh..eeeeeeeeee......hhhhhhhhhhh..eeeeeeeeee......eeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyq B  46 DTKEQRILRYVQQNAKPGDPQSVLEAIDTYCTQKEWAMNVGDAKGQIMDAVIREYSPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDMVFLDHWKDRYLPDTLLLEKCGLLRKGTVLLADNVIVPGTPDFLAYVRGSSSFECTHYSSYLEYMKVVDGLEKAIYQGP 258
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4PYQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (42, 42)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Val A:216 - Pro A:217   [ RasMol ]  
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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 5fhq 5fhr 5k01 5k03 5k05 5k09 5k0b 5k0c 5k0e 5k0f 5k0g 5k0j 5k0l 5k0n 5lqa 5lqc 5lqj 5lqk 5lqn 5lqr 5lqu 5lr6 5p8w

(-) Related Entries Specified in the PDB File

4p7f 4p7g 4p7j 4p7k 4pyi 4pyj 4pyk 4pyl 4pym 4pyn 4pyo