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(-) Description

Title :  THE 1.18 A RESOLUTION STRUCTURE OF L-SERINE 3-DEHYDROGENASE COMPLEXED WITH NADP+ AND SULFATE ION FROM THE HYPERTHERMOPHILIC ARCHAEON PYROBACULUM CALIDIFONTIS
 
Authors :  K. Yoneda, H. Sakuraba, T. Ohshima
Date :  04 Mar 14  (Deposition) - 04 Mar 15  (Release) - 04 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.18
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  L-Serine 3-Dehydrogenase, Hyperthermophilic Archaeon, Pyrobaculum Calidifontis, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Yoneda, H. Sakuraba, T. Ohshima
The 1. 18 Resolution Structure Of L-Serine 3-Dehydrogenase Complexed With Nadp+ And Sulfate Ion From The Hyperthermophilic Archaeon Pyrobaculum Calidifontis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 6-PHOSPHOGLUCONATE DEHYDROGENASE, NAD-BINDING PROTEIN
    Chains: A
    EC Number: 1.1.1.276
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PCAL_0699
    Organism Scientific: PYROBACULUM CALIDIFONTIS
    Organism Taxid: 410359
    Strain: JCM 11548 / VA1

 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  (3, 3)

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
3SO41Ligand/IonSULFATE ION
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 6)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
3SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:-6 , GLY A:7 , LEU A:8 , GLY A:9 , ILE A:10 , MET A:11 , ASN A:30 , ARG A:31 , THR A:32 , LYS A:35 , MET A:63 , VAL A:64 , SER A:65 , ASP A:69 , GLN A:72 , VAL A:73 , SER A:94 , THR A:95 , VAL A:120 , GLY A:123 , GLY A:230 , PHE A:231 , LYS A:232 , HIS A:235 , LYS A:238 , SO4 A:302 , HOH A:402 , HOH A:404 , HOH A:406 , HOH A:411 , HOH A:423 , HOH A:427 , HOH A:466 , HOH A:474 , HOH A:485 , HOH A:494 , HOH A:511 , HOH A:599 , HOH A:611BINDING SITE FOR RESIDUE NAP A 301
2AC2SOFTWARETHR A:121 , GLY A:122 , GLY A:123 , LYS A:170 , ASN A:173 , GLN A:174 , VAL A:177 , NAP A:301 , HOH A:577 , HOH A:611 , HOH A:683BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWAREGLU A:186 , LYS A:189 , LYS A:253 , PRO A:255BINDING SITE FOR RESIDUE ACY A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3WS7)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro A:229 -Gly A:230

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3WS7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WS7)

(-) Exons   (0, 0)

(no "Exon" information available for 3WS7)

(-) 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:293
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhh..eeee....hhhhhhhhhhhh..eeeee..hhhhhhhhhh...ee..hhhhhhh...eeee...hhhhhhhhhhh..hhhhhh....eeee....hhhhhhhhhhhhhh...eeee..eehhhhhhhhh.eeeeee.hhhhhhhhhhhhhhheeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh..hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....hhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ws7 A -12 HHHSSGLVPRGSHMRVGFIGLGIMGGPMATHLLKAGFLAAVYNRTREKTKPFAEAGVYVAESPADLAKRVDVVIVMVSDAPDVEQVLFGPSGVVEGARPGLIVVDMSTNSPDWARKFAERLAQYGIEFLDAPVTGGQKGAIEGTLTIMVGGKEELFHRLLPIFKAMGRDIVYMGPVGYGQAMKLVNQVVVALNTVAMVEGLKLAKALGLDMDKVAEVLTARSGAIELYLPKLLKGDLSPGFKAEHLKKDLGYVLEEARKRGVKLPGAELAYELYRKMVEDGAGSLGIHALGFY 283
                                    -3         7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       210       220       230       240       250       260       270       280   
                                                                                                                                                                                                                                                    206|                                                                         
                                                                                                                                                                                                                                                     210
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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 3WS7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3WS7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WS7)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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    Pro A:229 - Gly A:230   [ RasMol ]  
 
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  A3MU08_PYRCJ | A3MU08
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 Related Entries

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

UniProtKB/TrEMBL
        A3MU08_PYRCJ | A3MU08: 3w6u 3w6z

(-) Related Entries Specified in the PDB File

3w6u CRYSTAL STRUCTURE OF NADP BOUND L-SERINE 3-DEHYDROGENASE FROM HYPERTHERMOPHILIC ARCHAEON PYROBACULUM CALIDIFONTIS(WILD-TYPE, SE-MET)
3w6z CRYSTAL STRUCTURE OF NADP BOUND L-SERINE 3-DEHYDROGENASE (K170M) FROM HYPERTHERMOPHILIC ARCHAEON PYROBACULUM CALIDIFONTIS