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(-) Description

Title :  X-RAY CRYSTALLOGRAPHIC STRUCTURES SHOW CONSERVATION OF A TRIGONAL-BIPYRAMIDAL INTERMEDIATE IN A PHOSPHORYL-TRANSFER SUPERFAMILY.
 
Authors :  Z. Lu, D. Dunaway-Mariano, K. N. Allen
Date :  17 Sep 07  (Deposition) - 22 Apr 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.07
Chains :  Asym./Biol. Unit :  A
Keywords :  Had-Like Phosphatase, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Lu, D. Dunaway-Mariano, K. N. Allen
The Catalytic Scaffold Of The Haloalkanoic Acid Dehalogenas Enzyme Superfamily Acts As A Mold For The Trigonal Bipyramidal Transition State.
Proc. Natl. Acad. Sci. Usa V. 105 5687 2008
PubMed-ID: 18398008  |  Reference-DOI: 10.1073/PNAS.0710800105

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-3A-HPP-D10A
    Expression System Strain: BL21DE3PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: BACTEROIDES THETAIOTAOMICRON
    Organism Taxid: 226186
    Strain: VPI-5482

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
2WO61Ligand/IonTRIOXIDO(OXO)TUNGSTEN

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:8 , ALA A:10 , ASP A:211 , HOH A:805 , HOH A:1030BINDING SITE FOR RESIDUE MG A 701
2AC2SOFTWAREASP A:8 , ILE A:9 , ALA A:10 , THR A:43 , GLY A:44 , ARG A:45 , TRP A:174 , LYS A:188 , ASN A:214 , HOH A:805 , HOH A:1030 , HOH A:1038 , HOH A:1181BINDING SITE FOR RESIDUE WO6 A 801

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2RAV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2RAV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2RAV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2RAV)

(-) Exons   (0, 0)

(no "Exon" information available for 2RAV)

(-) Sequences/Alignments

Asymmetric/Biological 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:261
 aligned with Q8A090_BACTN | Q8A090 from UniProtKB/TrEMBL  Length:261

    Alignment length:261
                                    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 
         Q8A090_BACTN     1 MTKALFFDIDGTLVSFETHRIPSSTIEALEAAHAKGLKIFIATGRPKAIINNLSELQDRNLIDGYITMNGAYCFVGEEVIYKSAIPQEEVKAMAAFCEKKGVPCIFVEEHNISVCQPNEMVKKIFYDFLHVNVIPTVSFEEASNKEVIQMTPFITEEEEKEVLPSIPTCEIGRWYPAFADVTAKGDTKQKGIDEIIRHFGIKLEETMSFGDGGNDISMLRHAAIGVAMGQAKEDVKAAADYVTAPIDEDGISKAMKHFGII 261
               SCOP domains d2rava_ A: Sugar-phosphate phosphatase BT4131                                                                                                                                                                                                                         SCOP domains
               CATH domains 2ravA01 A:1-83,A:185-261  [code=3.40.50.1000, no name defined]                     -----------------------------------------------------------------------------------------------------2ravA01 A:1-83,A:185-261  [code=3.40.50.1000, no name defined]                CATH domains
               Pfam domains ----Hydrolase_3-2ravA01 A:5-255                                                                                                                                                                                                                                ------ Pfam domains
         Sec.struct. author ...eeee..............hhhhhhhhhhhhhh..eeeee...hhhhh..hhhhhh.....eeeehhh.eeee..eeeee...hhhhhhhhhhhhhhhh..eeee....eeee..hhhhhhhh............hhhhhhh....eeee..hhhhhhhhhhhh...eeeeee..eeeee....hhhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh.eeee....hhhhhhhh.ee..hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2rav A   1 MTKALFFDIAGTLVSFETHRIPSSTIEALEAAHAKGLKIFIATGRPKAIINNLSELQDRNLIDGYITMNGAYCFVGEEVIYKSAIPQEEVKAMAAFCEKKGVPCIFVEEHNISVCQPNEMVKKIFYDFLHVNVIPTVSFEEASNKEVIQMTPFITEEEEKEVLPSIPTCEIGRWYPAFADVTAKGDTKQKGIDEIIRHFGIKLEETMSFGDGGNDISMLRHAAIGVAMGQAKEDVKAAADYVTAPIDEDGISKAMKHFGII 261
                                    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
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: HAD (186)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8A090_BACTN | Q8A090)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016791    phosphatase activity    Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
biological process
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    GO:0044283    small molecule biosynthetic process    The chemical reactions and pathways resulting in the formation of small molecules, any low molecular weight, monomeric, non-encoded molecule.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/TrEMBL
        Q8A090_BACTN | Q8A090: 1ymq 2rar 2rb5 2rbk

(-) Related Entries Specified in the PDB File

1ymq THIS IS A D10A MUTANT COMPLEXED WITH WO4.
2rar
2rb5
2rbk