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(-) Description

Title :  CRYSTAL STRUCTURE OF A PLANT ENZYME
 
Authors :  M. R. Ran, M. Li, W. R. Chang
Date :  24 Feb 16  (Deposition) - 07 Dec 16  (Release) - 07 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Arabidopsis, Oxalate Degradation, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Fan, Y. Xiao, M. Li, W. Chang
Crystal Structures Of Arabidopsis Thaliana Oxalyl-Coa Synthetase Essential For Oxalate Degradation
Mol Plant V. 9 1349 2016
PubMed-ID: 27326693  |  Reference-DOI: 10.1016/J.MOLP.2016.06.002

(-) Compounds

Molecule 1 - OXALATE--COA LIGASE
    Chains: A, B
    EC Number: 6.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: AAE3, 4CLL10, AMPBP3, AT3G48990, T2J13.170
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: 4-COUMARATE--COA LIGASE ISOFORM 8,AT4CL8,4-COUMARATE--COA LIGASE-LIKE 10,ACYL-ACTIVATING ENZYME 3,ADENOSINE MONOPHOSPHATE BINDING PROTEIN 3,ATMPBP3,OXALYL-COA SYNTHETASE

 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  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1SRT4Ligand/IonS,R MESO-TARTARIC ACID
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1SRT2Ligand/IonS,R MESO-TARTARIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SRT2Ligand/IonS,R MESO-TARTARIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:214 , VAL A:215 , HIS A:216 , SER A:289 , ALA A:313 , MET A:314 , THR A:315 , HIS A:319 , LYS A:500 , HOH A:1146 , HOH A:1164 , HOH A:1383 , HOH A:1387binding site for residue SRT A 1001
2AC2SOFTWAREARG A:20 , ARG A:21 , SER A:205 , ASN A:253 , HOH A:1121 , HOH A:1178 , HOH A:1272 , HOH A:1372 , HOH A:1403 , ASP B:162 , HOH B:797binding site for residue SRT A 1002
3AC3SOFTWAREHIS B:214 , VAL B:215 , HIS B:216 , SER B:289 , ALA B:313 , MET B:314 , THR B:315 , HIS B:319 , LYS B:500 , HOH B:720 , HOH B:802 , HOH B:893 , HOH B:980 , HOH B:990binding site for residue SRT B 601
4AC4SOFTWAREASP A:162 , HOH A:1607 , ARG B:20 , ARG B:21 , SER B:205 , ASN B:253 , HOH B:701 , HOH B:707 , HOH B:717 , HOH B:778 , HOH B:842 , HOH B:880 , HOH B:975binding site for residue SRT B 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5IE0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IE0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IE0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5IE0)

(-) Exons   (0, 0)

(no "Exon" information available for 5IE0)

(-) 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:503
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh...eeeee...eeeehhhhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeeeee...hhhhhhhhhhh..eeeeee........ee............eeeeee.........eeeeehhhhhhhhhhhhhhh......eee......hhhhhhh.hhhhhhh..eeee......hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.........eeee.....hhhhhhhhhhhhh..eeeeeeehhhheeeee...............ee...eeeee............eeeeee..........hhhhhhhhee..eeeeeeeeee.....eeeeee.hhheee..eeehhhhhhhhhhh...eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhh..eeee............hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ie0 A   1 MDSDTLSGLLENVAKKFPDRRALSVSGKFNLTHARLHDLIERAASRLVSDAGIKPGDVVALTFPNTVEFVIMFLAVIRARATAAPLNAAYTAEEFEFYLSDSDSKLLLTSKEGNAPAQEAASKLKISHVTATLLDAGSDLVLSVADELVNHPDDGALFLHTSGTTSRPKGVPLTQLNLASSVKNIKAVYKLTESDSTVIVLPLFHVHGLLAGLLSSLGAGAAVTLPAAGRFSATTFWPDMKKYNATWYTAVPTIHQIILDRHASHPETEYPKLRFIRSCSASLAPVILSRLEEAFGAPVLEAYAMTEATHLMSSNPLPEEGPHKPGSVGKPVGQEMAILNEKGEIQEPNNKGEVCIRGPNVTKGYKNNPEANKAGFEFGWFHTGDIGYFDTDGYLHLVGRIKELINRGGEKISPIEVDAVLLTHPDVSQGVAFGVPDEKYGEEINCAVIPREGTTVTEEDIKAFCKKNLAAFKVPKRVFITDNLPKTASGKIQRRIVAQHFLE 512
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140     ||159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509   
                                                                                                                                                                           146|                                                                                                                                                                                                                                                                                                                                                                    
                                                                                                                                                                            156                                                                                                                                                                                                                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:503
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh...eeeee...eeeehhhhhhhhhhhhhhhhhhh......eeee....hhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhh.eeeeee....hhhhhhhhhhh..eeeeee........ee............eeeeee.........eeeeehhhhhhhhhhhhhhh......eee......hhhhhhh.hhhhhhh..eeee......hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.........eeee.....hhhhhhhhhhhhh..eeeeeeehhhheeeee...............ee...eeeee............eeeeee..........hhhhhhhhee..eeeeeeeeee.....eeeeee.hhheee..eeehhhhhhhhhhh...eeeeeeeeeee...eeeeeeeeee......hhhhhhhhhhhhhhhhhh..eeee............hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ie0 B   1 MDSDTLSGLLENVAKKFPDRRALSVSGKFNLTHARLHDLIERAASRLVSDAGIKPGDVVALTFPNTVEFVIMFLAVIRARATAAPLNAAYTAEEFEFYLSDSDSKLLLTSKEGNAPAQEAASKLKISHVTATLLDAGSDLVLSVADELVNHPDDGALFLHTSGTTSRPKGVPLTQLNLASSVKNIKAVYKLTESDSTVIVLPLFHVHGLLAGLLSSLGAGAAVTLPAAGRFSATTFWPDMKKYNATWYTAVPTIHQIILDRHASHPETEYPKLRFIRSCSASLAPVILSRLEEAFGAPVLEAYAMTEATHLMSSNPLPEEGPHKPGSVGKPVGQEMAILNEKGEIQEPNNKGEVCIRGPNVTKGYKNNPEANKAGFEFGWFHTGDIGYFDTDGYLHLVGRIKELINRGGEKISPIEVDAVLLTHPDVSQGVAFGVPDEKYGEEINCAVIPREGTTVTEEDIKAFCKKNLAAFKVPKRVFITDNLPKTASGKIQRRIVAQHFLE 512
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140     ||159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509   
                                                                                                                                                                           146|                                                                                                                                                                                                                                                                                                                                                                    
                                                                                                                                                                            156
   Legend:   → Mismatch (orange background)
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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 5IE0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5IE0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5IE0)

(-) Gene Ontology  (19, 19)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        4CLLA_ARATH | Q9SMT7: 5ie2 5ie3

(-) Related Entries Specified in the PDB File

5ie2 5ie3