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(-) Description

Title :  CRYSTAL STRUCTURE OF UDP-N-ACETYLGLUCOSAMINE ENOLPYRUVYL TRANSFERASE FROM HAEMOPHILUS INFLUENZAE IN COMPLEX WITH UDP-N-ACETYLGLUCOSAMINE AND FOSFOMYCIN
 
Authors :  H. J. Yoon, S. W. Suh
Date :  18 Oct 07  (Deposition) - 25 Mar 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Mura, Murz, Udp-N-Acetylglucosamine, Fosfomycin, Cell Cycle, Cell Division, Cell Shape, Cell Wall Biogenesis/Degradation, Cytoplasm, Peptidoglycan Synthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. J. Yoon, S. J. Lee, B. Mikami, H. J. Park, J. Yoo, S. W. Suh
Crystal Structure Of Udp-N-Acetylglucosamine Enolpyruvyl Transferase From Haemophilus Influenzae In Complex With Udp-N-Acetylglucosamine And Fosfomycin
Proteins V. 71 1032 2008
PubMed-ID: 18247346  |  Reference-DOI: 10.1002/PROT.21959
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UDP-N-ACETYLGLUCOSAMINE 1- CARBOXYVINYLTRANSFERASE
    Chains: A
    EC Number: 2.5.1.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-21A(+)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MURA OR MURZ
    Organism Scientific: HAEMOPHILUS INFLUENZAE
    Organism Taxid: 727
    Synonym: ENOYLPYRUVATE TRANSFERASE, UDP-N- ACETYLGLUCOSAMINE ENOLPYRUVYL TRANSFERASE, EPT

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1GG61Ligand/Ion[(1S,2S)-1,2-DIHYDROXYPROPYL]PHOSPHONIC ACID
2SO43Ligand/IonSULFATE ION
3UD11Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1GG62Ligand/Ion[(1S,2S)-1,2-DIHYDROXYPROPYL]PHOSPHONIC ACID
2SO46Ligand/IonSULFATE ION
3UD12Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:22 , ARG A:93 , ARG A:122 , ARG A:399 , HOH A:781 , HOH A:831BINDING SITE FOR RESIDUE SO4 A 713
2AC2SOFTWAREGLN A:110 , GLU A:142 , TYR A:144 , LYS A:146BINDING SITE FOR RESIDUE SO4 A 714
3AC3SOFTWAREARG A:157 , ARG A:269 , HOH A:887BINDING SITE FOR RESIDUE SO4 A 715
4AC4SOFTWARECYS A:117 , SER A:118 , ILE A:119 , HOH A:872 , HOH A:882 , HOH A:958BINDING SITE FOR RESIDUE GG6 A 425
5AC5SOFTWAREASN A:23 , ARG A:93 , TRP A:97 , ALA A:121 , ARG A:122 , PRO A:123 , ASP A:125 , LEU A:126 , HIS A:127 , LYS A:162 , SER A:164 , GLY A:166 , THR A:306 , ASP A:307 , ILE A:329 , PHE A:330 , ARG A:333 , HOH A:717 , HOH A:718 , HOH A:743 , HOH A:776 , HOH A:777 , HOH A:781 , HOH A:799 , HOH A:809 , HOH A:934 , HOH A:948BINDING SITE FOR RESIDUE UD1 A 712

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2RL2)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1His A:301 -Pro A:302

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2RL2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2RL2)

(-) Exons   (0, 0)

(no "Exon" information available for 2RL2)

(-) 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:420
 aligned with MURA_HAEIN | P45025 from UniProtKB/Swiss-Prot  Length:424

    Alignment length:420
                                    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       380       390       400       410       420
           MURA_HAEIN     1 MDKFRVYGQSRLSGSVNISGAKNAALPILFAAILATEPVKLTNVPELKDIETTLKILRQLGVVVDRDATGAVLLDASNINHFTAPYELVKTMRASIWALAPLVARFHQGQVSLPGGCSIGARPVDLHISGLEKLGADIVLEEGYVKAQVSDRLVGTRIVIEKVSVGATLSIMMAATLAKGTTVIENAAREPEIVDTADFLNKMGAKITGAGSAHITIEGVERLTGCEHSVVPDRIETGTFLIAAAISGGCVVCQNTKADTLDAVIDKLREAGAQVDVTENSITLDMLGNRPKAVNIRTAPHPGFPTDMQAQFTLLNMVAEGTSIITETIFENRFMHIPELIRMGGKAEIEGNTAVCHGVEQLSGTEVIATDLRASISLVLAGCIATGETIVDRIYHIDRGYEHIEDKLRGLGAKIERFSG 420
               SCOP domains d2rl2a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2rl2A01           --2rl2A02 A:21-230  [code=3.65.10.10, no name defined]                                                                                                                                                              -2rl2A01 A:1-18,A:232-420  [code=3.65.10.10, no name defined]                                                                                                                                  CATH domains
               Pfam domains -----EPSP_synthase-2rl2A01 A:6-408                                                                                                                                                                                                                                                                                                                                                                                      ------------ Pfam domains
         Sec.struct. author .eeeeee......eeee...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhh..eeee.....eeee.......eehhhhhhhhhhhhhhhhhhhhhhheeeee...........hhhhhhhhhhh..eeeee..eeeee........eee....hhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh...ee.....eeeee.......eeee...hhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhh..eeeee..eeeee..........ee.......hhhhhhhhhhhhhhh..eeeee........hhhhhhhhh...eeee..eeeee........eee..hhhhhhhhhhhhhhh..eeeeehhhhhhhh..hhhhhhhh...eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2rl2 A   1 MDKFRVYGQSRLSGSVNISGAKNAALPILFAAILATEPVKLTNVPELKDIETTLKILRQLGVVVDRDATGAVLLDASNINHFTAPYELVKTMRASIWALAPLVARFHQGQVSLPGGCSIGARPVDLHISGLEKLGADIVLEEGYVKAQVSDRLVGTRIVIEKVSVGATLSIMMAATLAKGTTVIENAAREPEIVDTADFLNKMGAKITGAGSAHITIEGVERLTGCEHSVVPDRIETGTFLIAAAISGGCVVCQNTKADTLDAVIDKLREAGAQVDVTENSITLDMLGNRPKAVNIRTAPHPGFPTDMQAQFTLLNMVAEGTSIITETIFENRFMHIPELIRMGGKAEIEGNTAVCHGVEQLSGTEVIATDLRASISLVLAGCIATGETIVDRIYHIDRGYEHIEDKLRGLGAKIERFSG 420
                                    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       380       390       400       410       420
   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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: EPT_RTPC (43)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A   (MURA_HAEIN | P45025)
molecular function
    GO:0008760    UDP-N-acetylglucosamine 1-carboxyvinyltransferase activity    Catalysis of the reaction: phosphoenolpyruvate + UDP-N-acetyl-alpha-D-glucosamine = phosphate + UDP-N-acetyl-3-O-(1-carboxyvinyl)-D-glucosamine.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016765    transferase activity, transferring alkyl or aryl (other than methyl) groups    Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
biological process
    GO:0019277    UDP-N-acetylgalactosamine biosynthetic process    The chemical reactions and pathways resulting in the formation of UDP-N-acetylgalactosamine, a substance composed of N-acetylgalactosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0009252    peptidoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
    GO:0008360    regulation of cell shape    Any process that modulates the surface configuration of a cell.
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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        MURA_HAEIN | P45025: 2rl1 3swe

(-) Related Entries Specified in the PDB File

2rl1