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(-) Description

Title :  CRYSTAL STRUCTURE OF D-SERINE DEHYDRATASE IN COMPLEX WITH D-SERINE FROM CHICKEN KIDNEY (EDTA-TREATED)
 
Authors :  H. Tanaka, M. Senda, N. Venugopalan, A. Yamamoto, T. Senda, T. Ishida, K
Date :  25 Mar 11  (Deposition) - 15 Jun 11  (Release) - 09 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Plp-Dependent Fold-Type Iii Enzyme, D-Serine Dehydratase, Plp Binding, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Tanaka, M. Senda, N. Venugopalan, A. Yamamoto, T. Senda, T. Ishida, K. Horiike
Crystal Structure Of A Zinc-Dependent D-Serine Dehydratase From Chicken Kidney.
J. Biol. Chem. V. 286 27548 2011
PubMed-ID: 21676877  |  Reference-DOI: 10.1074/JBC.M110.201160

(-) Compounds

Molecule 1 - D-SERINE DEHYDRATASE
    Chains: A
    EC Number: 4.3.1.18
    Organism Common: CHICKENS
    Organism Scientific: GALLUS GALLUS
    Organism Taxid: 9031

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1DSN1Ligand/IonD-SERINE
2PLP1Ligand/IonPYRIDOXAL-5'-PHOSPHATE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1DSN2Ligand/IonD-SERINE
2PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:43 , LYS A:45 , ARG A:143 , TYR A:174 , HIS A:176 , TYR A:181 , SER A:221 , THR A:222 , HIS A:239 , PRO A:240 , GLY A:241 , ASN A:242 , DSN A:402 , HOH A:594BINDING SITE FOR RESIDUE PLP A 401
2AC2SOFTWARELYS A:45 , HIS A:176 , THR A:317 , GLN A:318 , PLP A:401 , HOH A:642BINDING SITE FOR RESIDUE DSN A 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3AWO)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr A:12 -Pro A:13

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3AWO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3AWO)

(-) Exons   (0, 0)

(no "Exon" information available for 3AWO)

(-) 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:368
 aligned with A9CP13_CHICK | A9CP13 from UniProtKB/TrEMBL  Length:376

    Alignment length:376
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370      
         A9CP13_CHICK     1 MWLGALLDTLPTPALTIDRTTARRNAERMRERCRALGVRLRPHVKTHKTLEGGLLATGGTRRGIAVSTLAEARFFADGGFDDILLAYPVPTARLEECAGLARRLDAFHVLLDRPEALASLRQRPLGHGKRWLVWLKLDCGNGRAGVRPTDPAALELAQAIANDAPEEVTLVGVYAHCGNTYGCSGADTIQAIARTTTNAVLSFVAALRQAGVPCPQASIGSTPSCSHPIPEMSQLTELHPGNYIFYDLQQTQLGSCQPQDVAIRVLTRVIGHYAHRGQLLVDCGWAALSLHGAGAGQGPQGCAAIDGHPELRLVGLTQEHGLLEHAGGQMDFGRFPVGSVLALIPYHACATAAMHPVYYVHEEGKVVALWHPVRGW 376
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh...eeeeehhhhhhhhhhhhhhhhhhh.ee........hhhhhhhhhh...eeeee.hhhhhhhhhhh..eeeeeeee.hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhh........eeeeee...--........hhhhhhhhhhhhhh....eeeeeee..hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee.hhhhhhh.hhhhhhh.ee..hhhhh.hhhhhhhh..hhhhh.eeeeeeeeeeehhh.eeee.............---hhhh.eee......eeeee....eeee.---...........eeeeee.hhhhhhh....eeeee..eeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3awo A   1 MWLGALLDTLPTPALTIDRTTARRNAERMRERCRALGVRLRPHVKTHKTLEGGLLATGGTRRGIAVSTLAEARFFADGGFDDILLAYPVPTARLEECAGLARRLDAFHVLLDRPEALASLRQRPLGHGKRWLVWLKLDC--GRAGVRPTDPAALELAQAIANDAPEEVTLVGVYAHCGNTYGCSGADTIQAIARTTTNAVLSFVAALRQAGVPCPQASIGSTPSCSHPIPEMSQLTELHPGNYIFYDLQQTQLGSCQPQDVAIRVLTRVIGHYAHRGQLLVDCGWAALSLHGAG---GPQGCAAIDGHPELRLVGLTQEHGLLEH---QMDFGRFPVGSVLALIPYHACATAAMHPVYYVHEEGKVVALWHPVRGW 376
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        |- |     150       160       170       180       190       200       210       220       230       240       250       260       270       280       290   |   300       310       320    |  330       340       350       360       370      
                                                                                                                                                                    139  |                                                                                                                                                     294 298                        325 329                                               
                                                                                                                                                                       142
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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 3AWO)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3AWO)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3AWO)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3AWO)

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 Related Entries

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

UniProtKB/TrEMBL
        A9CP13_CHICK | A9CP13: 3anu 3anv 3awn

(-) Related Entries Specified in the PDB File

3anu 3anv 3awn