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(-) Description

Title :  CRYSTAL STRUCTURE OF ARABIDOPSIS GH3.12 (PBS3) IN COMPLEX WITH AMP
 
Authors :  C. S. Westfall, C. Zubieta, J. Herrmann, U. Kapp, M. H. Nanao, J. M. Jez
Date :  17 Apr 12  (Deposition) - 20 Jun 12  (Release) - 25 Jul 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Anl Superfamily, Acyl Acid-Amido Synthetase, Adenylation, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. S. Westfall, C. Zubieta, J. Herrmann, U. Kapp, M. H. Nanao, J. M. Jez
Structural Basis For Prereceptor Modulation Of Plant Hormones By Gh3 Proteins.
Science V. 336 1708 2012
PubMed-ID: 22628555  |  Reference-DOI: 10.1126/SCIENCE.1221863

(-) Compounds

Molecule 1 - 4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12
    Chains: A
    EC Number: 6.3.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GH3.12, GDG1, PBS3, WIN3, AT5G13320, T22N19.5, T31B5.140
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: AUXIN-RESPONSIVE GH3-LIKE PROTEIN 12, ATGH3-12, PROTEIN GH3- LIKE DEFENSE GENE 1, PROTEIN GRETCHEN HAGEN 3.12, PROTEIN HOPW1-1- INTERACTING 3, PROTEIN AVRPPHB SUSCEPTIBLE 3

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:95 , SER A:96 , VAL A:299 , THR A:301 , THR A:324 , TYR A:325 , GLY A:326 , SER A:327 , SER A:328 , TYR A:347 , ASP A:398 , PHE A:414 , ARG A:417BINDING SITE FOR RESIDUE AMP A 601
2AC2SOFTWAREGLY A:97 , THR A:98 , LYS A:104 , ARG A:417 , ASN A:430BINDING SITE FOR RESIDUE SO4 A 602

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Phe A:464 -Pro A:465

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EPM)

(-) 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:554
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh......hhhhhhhhh...hhhhhhhhhhhhhh..hhhhh......eeeeeeeee..eeeeeeehhhhhhhhhhhhhhhhhhhhhhh......eeee.......ee.....eeehhhhhhhhhhhhhh...hhhhh...hhhhhh..hhhhhhhhhhhhhhhh...eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh..hhhhhhhhhhhhh.....hhhhhhh....eeeee.hhhhhhhhhhhhhhhh...ee..eee....eeee......hhhhh.eee.....eeeeee.........ee.hhh....eeeeeee.......ee..eeeeeeeee..eeeeeeeee..eee......eehhhhhhhhhhhhhhhhh...eeeeeeeeee......eeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeee..hhhhhhhhhhhhh..........hhhhhhhhhhheeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4epm A   9 ETFEKQLKDLTSNVKSIQDNLLEEIITPNTKTEYLQRFLIDRFDKELFKKNVPIVSYEDIKPYLDRVVNGESSDVISARTITGFLLSSGTSGGAQKMMPWNNKYLDNLTFIYDLRMQVITKHVKGVEEGKGMMFLFTKQESMTPSGLPARVATSSYFKSDYFKNRPSNWYYSYTSPDEVILCPNNTESLYCHLLCGLVQRDEVVRTGSIFASVMVRAIEVLKNSWEELCSNIRSGHLSNWVTDLGCQNSVSLVLGGPRPELADTIEEICNQNSWKGIVKRLWPNTKYIETVVTGSMGQYVPMLNYYCNDLPLVSTTYGSSETTFGINLDPLCKPEDVSYTFMPNMSYFEFIPMDGGDKNDVVDLEDVKLGCTYEPVVTNFAGLYRMRVGDIVLVTGFYNNAPQFKFVRRENVVLSIDSDKTNEEDLFKAVSQAKLVLESSGLDLKDFTSYADTSTFPGHYVVYLEVDTQFELDEEALSTCCLVMEESLDNVYKRCRFKDGSIGPLEIRVVRQGTFDSLMDFFISQGAYKTPRCIKSGKALQVLETCVVAKFFSI 575
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       487       497       507       517       527       537      |551       561       571    
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             476|                                                       544|                          
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              486                                                        549
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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 4EPM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        GH312_ARATH | Q9LYU4: 4eq4 4eql 4ewv 4l39

(-) Related Entries Specified in the PDB File

4epl 4eql 4ewv