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(-) Description

Title :  2.0 A STRUCTURE OF GLYCEROL METABOLISM PROTEIN FROM E. COLI
 
Authors :  R. Sanishvili, J. Brunzelle, A. Savchenko, A. M. Edwards, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  23 Dec 02  (Deposition) - 15 Jul 03  (Release) - 10 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Two Domain Structure Of Two Alpha/Beta Folds, Extended Beta Sheets, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Brown, A. Singer, V. V. Lunin, M. Proudfoot, T. Skarina, R. Flick, S. Kochinyan, R. Sanishvili, A. Joachimiak, A. M. Edwards, A. Savchenko, A. F. Yakunin
Structural And Biochemical Characterization Of The Type Ii Fructose-1, 6-Bisphosphatase Glpx From Escherichia Coli.
J. Biol. Chem. V. 284 3784 2009
PubMed-ID: 19073594  |  Reference-DOI: 10.1074/JBC.M808186200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN GLPX
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GLPX OR B3925
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:0 , ARG A:2 , ARG A:3 , GLU A:4 , ARG A:309 , LYS A:311BINDING SITE FOR RESIDUE SO4 A 400
2AC2SOFTWAREARG A:11 , ARG A:309 , SER A:312 , THR A:314 , ARG A:316 , HOH A:425BINDING SITE FOR RESIDUE SO4 A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1NI9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:-1 -His A:0
2Gly A:260 -Ile A:261

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NI9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1NI9)

(-) Exons   (0, 0)

(no "Exon" information available for 1NI9)

(-) 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:292
 aligned with GLPX_ECOLI | P0A9C9 from UniProtKB/Swiss-Prot  Length:336

    Alignment length:328
                              1                                                                                                                                                                                                                                                                                                                                     
                              |      8        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        
           GLPX_ECOLI     - --MRRELAIEFSRVTESAALAGYKWLGRGDKNTADGAAVNAMRIMLNQVNIDGTIVIGEGEIDEAPMLYIGEKVGTGRGDAVDIAVDPIEGTRMTAMGQANALAVLAVGDKGCFLNAPDMYMEKLIVGPGAKGTIDLNLPLADNLRNVAAALGKPLSELTVTILAKPRHDAVIAEMQQLGVRVFAIPDGDVAASILTCMPDSEVDVLYGIGGAPEGVVSAAVIRALDGDMNGRLLARHDVKGDNEENRRIGEQELARCKAMGIEAGKVLRLGDMARSDNVIFSATGITKGDLLEGISRKGNIATTETLLIRGKSRTIRRIQSIHYLDR 326
               SCOP domains d1ni9a_ A: Glycerol metabolism protein GlpX                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1ni9A01 A:-1-109,A:277-326 Fructose-1,6-Bisphosphatase, subun   it A, domain 1                                 1ni9A02 A:110-276  [code=3.40.190.90, no name defined]                                                                                                                 1ni9A01 A:-1-109,A:277-326                         CATH domains
               Pfam domains ---FBPase_glpX-1ni9A01 A:2-322                                                                                                                                                                                                                                                                                                      ---- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....eeeeee....---........ee......eeeeeeeeee..------....eeeeeeee..........eeeeeeehhhhh.......hhhhhhhhhhhhh..hhhh.eeeee..--hhhhhhhhhhh..eeeee..hhhhhhhhhhh......eeeeeeehhhhhhhhhhhhhh..eeeeeee.-------------------------......eeehhhhh....eeeeeee..........eee..eeeeeeeeee....eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ni9 A  -1 GHMRRELAIEFSRVTESAALAGYKWLGRGDKNTADGAAVNAMRIMLNQVNIDGTIVIGEGE---APMLYIGEKVGTGRGDAVDIAVDPIEGT------QANALAVLAVGDKGCFLNAPDMYMEKLIVGPGAKGTIDLNLPLADNLRNVAAALGKPLSELTVTILAK--HDAVIAEMQQLGVRVFAIPDGDVAASILTCMPDSEVDVLYGIGGAPEGVVSAAVIRALDGDMNGRLLA-------------------------GIEAGKVLRLGDMARSDNVIFSATGITKGDLLEGISRKGNIATTETLLIRGKSRTIRRIQSIHYLDR 326
                                     8        18        28        38        48        58|   |   68        78        88 |      98       108       118       128       138       148       158     | 168       178       188       198       208       218       228     |   -         -         - |     268       278       288       298       308       318        
                                                                                       59  63                         90     97                                                                164  |                                                                234                       260                                                                  
                                                                                                                                                                                                  167
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Phospoesterase (42)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GLPX_ECOLI | P0A9C9)
molecular function
    GO:0042132    fructose 1,6-bisphosphate 1-phosphatase activity    Catalysis of the reaction: D-fructose 1,6-bisphosphate + H2O = D-fructose 6-phosphate + phosphate.
    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:0030145    manganese ion binding    Interacting selectively and non-covalently with manganese (Mn) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    GO:0006094    gluconeogenesis    The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.
    GO:0006071    glycerol metabolic process    The chemical reactions and pathways involving glycerol, 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
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

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UniProtKB/Swiss-Prot
        GLPX_ECOLI | P0A9C9: 2r8t 3big 3bih 3d1r

(-) Related Entries Specified in the PDB File

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