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(-) Description

Title :  CRYSTAL STRUCTURE OF MURG:GLCNAC COMPLEX
 
Authors :  Y. Hu, L. Chen, S. Ha, B. Gross, B. Falcone, D. Walker, M. Mokhtarzadeh, S
Date :  07 Jan 03  (Deposition) - 11 Feb 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Rossmann Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Hu, L. Chen, S. Ha, B. Gross, B. Falcone, D. Walker, M. Mokhtarzadeh, S. Walker
Crystal Structure Of Murg:Udp-Glcnac Complex Reveals Common Structural Principles Of A Superfamily Of Glycosyltransferases
Proc. Natl. Acad. Sci. Usa V. 100 845 2003
PubMed-ID: 12538870  |  Reference-DOI: 10.1073/PNAS.0235749100

(-) Compounds

Molecule 1 - UDP-N-ACETYLGLUCOSAMINE--N-ACETYLMURAMYL-(PENTAPEPTIDE) PYROPHOSPHORYL-UNDECAPRENOL N-ACETYLGLUCOSAMINE TRANSFERASE
    Chains: A, B
    EC Number: 2.4.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: MURG OR B0090
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: PENTAPEPTIDE, PYROPHOSPHORYL-UNDECAPRENOL N- ACETYLGLUCOSAMINE TRANSFERASE EC 2.4.1.-, UNDECAPRENYL-PP-MURNAC- PENTAPEPTIDE-UDPGLCNAC GLCNAC TRANSFERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2UD12Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:18 , ASN A:128 , ARG A:164 , GLY A:191 , SER A:192 , GLN A:218 , PHE A:244 , ILE A:245 , MET A:248 , GLY A:263 , ALA A:264 , LEU A:265 , THR A:266 , GLU A:269 , PHE A:282 , GLN A:288 , GLN A:289 , ASN A:292 , GOL A:502 , HOH A:515 , HOH A:526 , HOH A:531BINDING SITE FOR RESIDUE UD1 A 401
2AC2SOFTWARETHR B:16 , GLY B:17 , GLY B:18 , PHE B:21 , ARG B:164 , GLY B:191 , SER B:192 , GLN B:193 , GLN B:218 , PHE B:244 , ILE B:245 , MET B:248 , GLY B:263 , ALA B:264 , LEU B:265 , THR B:266 , GLU B:269 , HOH B:510 , HOH B:516 , HOH B:525BINDING SITE FOR RESIDUE UD1 B 402
3AC3SOFTWAREPHE A:149 , GLY A:160 , ASN A:161 , SER A:268 , ALA A:271 , ALA A:337 , HOH A:506 , HOH A:510BINDING SITE FOR RESIDUE GOL A 501
4AC4SOFTWAREPHE A:21 , ARG A:164 , UD1 A:401BINDING SITE FOR RESIDUE GOL A 502
5AC5SOFTWAREGLY A:194 , ALA A:195 , ARG A:261 , PHE A:282 , HOH A:525 , HOH A:534BINDING SITE FOR RESIDUE GOL A 503
6AC6SOFTWARESER B:117BINDING SITE FOR RESIDUE GOL B 504

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1NLM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1NLM)

(-) 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:350
 aligned with MURG_ECOLI | P17443 from UniProtKB/Swiss-Prot  Length:355

    Alignment length:350
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355
           MURG_ECOLI     6 KRLMVMAGGTGGHVFPGLAVAHHLMAQGWQVRWLGTADRMEADLVPKHGIEIDFIRISGLRGKGIKALIAAPLRIFNAWRQARAIMKAYKPDVVLGMGGYVSGPGGLAAWSLGIPVVLHEQNGIAGLTNKWLAKIATKVMQAFPGAFPNAEVVGNPVRTDVLALPLPQQRLAGREGPVRVLVVGGSQGARILNQTMPQVAAKLGDSVTIWHQSGKGSQQSVEQAYAEAGQPQHKVTEFIDDMAAAYAWADVVVCRSGALTVSEIAAAGLPALFVPFQHKDRQQYWNALPLEKAGAAKIIEQPQLSVDAVANTLAGWSRETLLTMAERARAASIPDATERVANEVSRVARA 355
               SCOP domains d1nlma_ A: Peptidoglycan biosynthesis glycosyltransferase MurG                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1nlmA01 A:7-162,A:339-356 Glycogen Phosphorylase B;                                                                                                         1nlmA02 A:163-338 Glycogen Phosphorylase B;                                                                                                                                     1nlmA01            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhh.eeee..hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhh...eeeee.....hhhhhhhhhhh.eeee.........ee.....hhhhhh..hhhhhh......eeeeee.....hhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh.....eee....hhhhhhhhh.eeee..hhhhhhhhhhhh..eee.......hhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nlm A   7 KRLMVMAGGTGGHVFPGLAVAHHLMAQGWQVRWLGTADRMEADLVPKHGIEIDFIRISGLRGKGIKALIAAPLRIFNAWRQARAIMKAYKPDVVLGMGGYVSGPGGLAAWSLGIPVVLHEQNGIAGLTNKWLAKIATKVMQAFPGAFPNAEVVGNPVRTDVLALPLPQQRLAGREGPVRVLVVGGSQGARILNQTMPQVAAKLGDSVTIWHQSGKGSQQSVEQAYAEAGQPQHKVTEFIDDMAAAYAWADVVVCRSGALTVSEIAAAGLPALFVPFQHKDRQQYWNALPLEKAGAAKIIEQPQLSVDAVANTLAGWSRETLLTMAERARAASIPDATERVANEVSRVARA 356
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356


Chain B from PDB  Type:PROTEIN  Length:350
 aligned with MURG_ECOLI | P17443 from UniProtKB/Swiss-Prot  Length:355

    Alignment length:350
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355
           MURG_ECOLI     6 KRLMVMAGGTGGHVFPGLAVAHHLMAQGWQVRWLGTADRMEADLVPKHGIEIDFIRISGLRGKGIKALIAAPLRIFNAWRQARAIMKAYKPDVVLGMGGYVSGPGGLAAWSLGIPVVLHEQNGIAGLTNKWLAKIATKVMQAFPGAFPNAEVVGNPVRTDVLALPLPQQRLAGREGPVRVLVVGGSQGARILNQTMPQVAAKLGDSVTIWHQSGKGSQQSVEQAYAEAGQPQHKVTEFIDDMAAAYAWADVVVCRSGALTVSEIAAAGLPALFVPFQHKDRQQYWNALPLEKAGAAKIIEQPQLSVDAVANTLAGWSRETLLTMAERARAASIPDATERVANEVSRVARA 355
               SCOP domains d1nlmb_ B: Peptidoglycan biosynthesis glycosyltransferase MurG                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1nlmB01 B:7-162,B:339-356 Glycogen Phosphorylase B;                                                                                                         1nlmB02 B:163-338 Glycogen Phosphorylase B;                                                                                                                                     1nlmB01            CATH domains
           Pfam domains (1) --Glyco_transf_28-1nlmB03 B:9-147                                                                                                            -------------------------------------Glyco_tran_28_C-1nlmB01 B:185-348                                                                                                                                   -------- Pfam domains (1)
           Pfam domains (2) --Glyco_transf_28-1nlmB04 B:9-147                                                                                                            -------------------------------------Glyco_tran_28_C-1nlmB02 B:185-348                                                                                                                                   -------- Pfam domains (2)
         Sec.struct. author .eeeee...hhhhhhhhhhhhhhhhh...eeeeee....hhhhhhhhh..eeee..hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhh...eeeee.....hhhhhhhh....eeee.........ee.....hhhhhh..hhhhhhh.....eeeeee.....hhhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhh....eee....hhhhhhhhh.eeee..hhhhhhhhhhhh..eee.......hhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nlm B   7 KRLMVMAGGTGGHVFPGLAVAHHLMAQGWQVRWLGTADRMEADLVPKHGIEIDFIRISGLRGKGIKALIAAPLRIFNAWRQARAIMKAYKPDVVLGMGGYVSGPGGLAAWSLGIPVVLHEQNGIAGLTNKWLAKIATKVMQAFPGAFPNAEVVGNPVRTDVLALPLPQQRLAGREGPVRVLVVGGSQGARILNQTMPQVAAKLGDSVTIWHQSGKGSQQSVEQAYAEAGQPQHKVTEFIDDMAAAYAWADVVVCRSGALTVSEIAAAGLPALFVPFQHKDRQQYWNALPLEKAGAAKIIEQPQLSVDAVANTLAGWSRETLLTMAERARAASIPDATERVANEVSRVARA 356
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356
   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, 2)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: GT-B (132)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MURG_ECOLI | P17443)
molecular function
    GO:0051991    UDP-N-acetyl-D-glucosamine:N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine-diphosphoundecaprenol 4-beta-N-acetylglucosaminlytransferase activity    Catalysis of the reaction: N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine-diphosphoundecaprenol + UDP-N-acetyl-D-glucosamine = N-acetylmuramoyl-L-alanyl-D-glutamyl-meso-2,6-diaminopimelyl-D-alanyl-D-alanine-diphosphoundecaprenyl-N-acetylglucosamine + UDP.
    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:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
    GO:0016758    transferase activity, transferring hexosyl groups    Catalysis of the transfer of a hexosyl group from one compound (donor) to another (acceptor).
    GO:0050511    undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase activity    Catalysis of the reaction: Mur2Ac(oyl-L-Ala-gamma-D-Glu-L-Lys-D-Ala-D-Ala)-diphosphoundecaprenol + UDP-N-acetyl-D-glucosamine = GlcNAc-(1,4)-Mur2Ac(oyl-L-Ala-gamma-D-Glu-L-Lys-D-Ala-D-Ala)-diphosphoundecaprenol + UDP.
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: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:0030259    lipid glycosylation    Covalent attachment of a glycosyl residue to a lipid molecule.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        MURG_ECOLI | P17443: 1f0k

(-) Related Entries Specified in the PDB File

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