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(-) Description

Title :  CRYSTAL STRUCTURE OF STACHYDRINE DEMETHYLASE WITH N-METHYL PROLINE FROM LOW X-RAY DOSE COMPOSITE DATASETS
 
Authors :  R. Agarwal, B. Andi, A. Gizzi, J. B. Bonanno, S. C. Almo, A. M. Orville
Date :  11 Jul 14  (Deposition) - 15 Jul 15  (Release) - 09 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Composite Datasets, Photoelectron, Enzyme-Catalyzed Reactions, Cyanide, Synchrotron, Rieske Type Monoxygenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Agarwal, B. Andi, A. Gizzi, J. B. Bonanno, S. C. Almo, A. M. Orville
Tracking Photoelectron Induced In-Crystallo Enzyme Catalysi
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MONOXYGENASE; DEMETHYLASE
    Chains: A
    EC Number: 1.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PSGC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SMA0751
    Organism Common: ENSIFER MELILOTI
    Organism Scientific: SINORHIZOBIUM MELILOTI 1021
    Organism Taxid: 266834
    Synonym: STACHYDRINE DEMETHYLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 6)

Asymmetric Unit (6, 6)
No.NameCountTypeFull Name
13BY1Ligand/Ion1-METHYL-L-PROLINE
2FE1Ligand/IonFE (III) ION
3FES1Ligand/IonFE2/S2 (INORGANIC) CLUSTER
4GOL1Ligand/IonGLYCEROL
5NCO1Ligand/IonCOBALT HEXAMMINE(III)
6TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (5, 15)
No.NameCountTypeFull Name
13BY3Ligand/Ion1-METHYL-L-PROLINE
2FE-1Ligand/IonFE (III) ION
3FES3Ligand/IonFE2/S2 (INORGANIC) CLUSTER
4GOL3Ligand/IonGLYCEROL
5NCO3Ligand/IonCOBALT HEXAMMINE(III)
6TRS3Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:86 , HIS A:88 , ARG A:89 , CYS A:106 , HIS A:109 , TRP A:111BINDING SITE FOR RESIDUE FES A 501
2AC2SOFTWAREHIS A:204 , HIS A:209 , ASP A:360 , 3BY A:503 , HOH A:786BINDING SITE FOR RESIDUE FE A 502
3AC3SOFTWAREASN A:199 , GLU A:201 , CYS A:202 , HIS A:204 , CYS A:205 , HIS A:209 , THR A:356 , ASP A:360 , FE A:502 , HOH A:786 , HOH A:860BINDING SITE FOR RESIDUE 3BY A 503
4AC4SOFTWAREARG A:14 , ARG A:15 , LEU A:16 , GLU A:22 , HOH A:787 , HOH A:823 , HOH A:831BINDING SITE FOR RESIDUE TRS A 504
5AC5SOFTWARETHR A:61 , LEU A:62 , ARG A:63 , GLU A:68 , LYS A:95BINDING SITE FOR RESIDUE GOL A 505
6AC6SOFTWARELEU A:12 , ASP A:13 , ARG A:15 , HOH A:821 , HOH A:822BINDING SITE FOR RESIDUE NCO A 506

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:202 -A:205

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:289 -Pro A:290
2Tyr A:301 -Pro A:302

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4QUP)

(-) 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:414
                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...hhhhhhhhh......hhhhhhhhhhhhhhhhhh.....eeeee.hhhh...eeeeeee..eeeeeee.....eeeee..............eee...ee......ee.....eee........hhhhh...eeeeeee..eeeee.......hhhhhhhhhhhhhhhhhh.eeeeeeeeeee..hhhhhhhhhh...hhhhhhhhhhh....hhhhhhhhhhh.hhhhhhhhhhhhhh......ee.....eeeeee..............................eeeeee...eeeee....eeeeeeeeee..eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qup A  -9 GTENLYFQSMMTANPTSIHQRLDRRLSGFSLEQPFYTSPEVYALDLQHIFYKQWLYAVPVCQLAKAGSYTTLRVGAYEVVIVRSRDGEVRAFHNSCRHRGSLICKARQGQVAKLVCPYHQWTYELDGKLIWANDMGPDFDASKYGLKPVNLRNLDGLIYICLSDTPPDFQTFAQLARPYLEVHDLKDAKVAFTSTIIEKGNWKLVWENNRECYHCSSNHPALCRSFPDPEVAGVQADGGVSKKLQAHFDRCEAAGTPAQFVLAGDGQYRLARMPLQEKALSYTMDGKAAVSRHLGRVAPPDAGTLLMFHYPSTWNHFLPDHSLTFRVMPISPTETEVTTTWLVHKDAVEGVDYDLKRLTEVWIATNDEDREIVETNQQGILSPAYVPGPYSPGQESGVMQFVDWYAASLERALA 405
                                     0        10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210      |221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401    
                                                                                                                                                                                                                                                            217|                                                                                                                                                                                          
                                                                                                                                                                                                                                                             219
   Legend:   → Mismatch (orange background)
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  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 4QUP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:289 - Pro A:290   [ RasMol ]  
    Tyr A:301 - Pro A:302   [ RasMol ]  
 
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  4qup
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 Related Entries

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UniProtKB/TrEMBL
        Q92ZP9_RHIME | Q92ZP9: 3vca 3vcp 4quq 4qur 5hl4

(-) Related Entries Specified in the PDB File

3vca 3vcp 4quq 4qur