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(-) Description

Title :  CRYSTAL STRUCTURE OF N-ACETYLGLUCOSAMINE-PHOSPHATE MUTASE, A MEMBER OF THE ALPHA-D-PHOSPHOHEXOMUTASE SUPERFAMILY, IN THE APO-FORM
 
Authors :  Y. Nishitani, D. Maruyama, T. Nonaka, A. Kita, T. A. Fukami, T. Mio, H. Yamada-Okabe, T. Yamada-Okabe, K. Miki
Date :  07 Apr 06  (Deposition) - 16 May 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Mutase, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nishitani, D. Maruyama, T. Nonaka, A. Kita, T. A. Fukami, T. Mio, H. Yamada-Okabe, T. Yamada-Okabe, K. Miki
Crystal Structures Of N-Acetylglucosamine-Phosphate Mutase, A Member Of The {Alpha}-D-Phosphohexomutase Superfamily, And Its Substrate And Product Complexes.
J. Biol. Chem. V. 281 19740 2006
PubMed-ID: 16651269  |  Reference-DOI: 10.1074/JBC.M600801200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOACETYLGLUCOSAMINE MUTASE
    Chains: A, B
    EC Number: 5.4.2.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-2T
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: CANDIDA ALBICANS
    Organism Taxid: 5476
    Synonym: PAGM, ACETYLGLUCOSAMINE PHOSPHOMUTASE, N- ACETYLGLUCOSAMINE-PHOSPHATE MUTASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2DKA)

(-) Sites  (0, 0)

(no "Site" information available for 2DKA)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PGM_PMMPS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature.AGM1_CANAX60-69
 		  2A:60-69
B:60-69
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PGM_PMMPS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature.AGM1_CANAX60-69
 		  1A:60-69
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PGM_PMMPS00710 Phosphoglucomutase and phosphomannomutase phosphoserine signature.AGM1_CANAX60-69
 		  1-
B:60-69

(-) Exons   (0, 0)

(no "Exon" information available for 2DKA)

(-) 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:519
 aligned with AGM1_CANAX | Q9P4V2 from UniProtKB/Swiss-Prot  Length:544

    Alignment length:544
                                    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       430       440       450       460       470       480       490       500       510       520       530       540    
           AGM1_CANAX     1 MSIEQTLSQYLPSHPKPQGVTFTYGTAGFRMKADKLDYVTFTVGIIASLRSKYLQGKTVGVMITASHNPPEDNGVKVVDPLGSMLESSWEKYATDLANASPSPSNDSEGEKNSLVEVIKNLVSDLKIDLSIPANVVIARDSRESSPALSMATIDGFQSVPNTKYQDFGLFTTPELHYVTRTLNDPDFGKPTEDGYYSKLAKSFQEIYTICESNNEKIDITIDAANGVGAPKIQELLEKYLHKEISFTVVNGDYKQPNLLNFDCGADYVKTNQKLPKNVKPVNNKLYASFDGDADRLICYYQNNDNKFKLLDGDKLSTLFALFLQQLFKQIDPTKISLNIGVVQTAYANGSSTKYVEDVLKIPVRCTPTGVKHLHHEAENFDIGVYFEANGHGTVIFNPEAEKKIFDYKPNNDNEAKAIKVLQNFSQLINQTVGDAISDLLAVLIVVHYLKLSPSDWDNEYTDLPNKLVKVIVPDRSIFKTTNAERTLVEPKGMQDEIDKLVAQYPNGRSFVRASGTEDAVRVYAEADTQNNVEELSKAVSELVK 544
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..............eeee...hhhhhhhhhhhhhhhhhhh...eeeeee...-....eeeeeee.......hhhhhhhhhhhhhh....------...hhhhhhhhhhhhh.......eeeeeee....hhhhhhhhhhhhhhh...eeeeeeee.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.-----..eeeeee....hhhhhhhhhhhhhh...eeeeee.....hhhhh....hhhhhhhhh.............eeee......eeeeee.....eeeehhhhhhhhhhhhhhhhhh..........eeeee....hhhhhhhhhhh....eee...hhhhhhhhhh...eeeee.....eeeeehhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhh......eeeeee-------........-..-..hhhhhhhhhhh.....eeeee..----.eeeeee..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------PGM_PMM   ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dka A   1 MSIEQTLSQYLPSHPKPQGVTFTYGTAGFRMKADKLDYVTFTVGIIASLRSKYLQGKTVGVMITAS-NPPEDNGVKVVDPLGSMLESSWEKYATDLANASPSP------EKNSLVEVIKNLVSDLKIDLSIPANVVIARDSRESSPALSMATIDGFQSVPNTKYQDFGLFTTPELHYVTRTLNDPDFGKPTEDGYYSKLAKSFQEIYTI-----EKIDITIDAANGVGAPKIQELLEKYLHKEISFTVVNGDYKQPNLLNFDCGADYVKTNQKLPKNVKPVNNKLYASFDGDADRLICYYQNNDNKFKLLDGDKLSTLFALFLQQLFKQIDPTKISLNIGVVQTAYANGSSTKYVEDVLKIPVRCTPTGVKHLHHEAENFDIGVYFEANGHGTVIFNPEAEKKIFDYKPNNDNEAKAIKVLQNFSQLINQTVGDAISDLLAVLIVVHYLKLSPSDWDNEYTDLPNKLVKV-------FKTTNAER-LV-PKGMQDEIDKLVAQYPNGRSFVRAS----AVRVYAEADTQNNVEELSKAVSELVK 544
                                    10        20        30        40        50        60     | |70        80        90       100  |    110       120       130       140       150       160       170       180       190       200        |-    |  220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480    | |490       500       510   |   520       530       540    
                                                                                            66 |                                103    110                                                                                                209   215                                                                                                                                                                                                                                                            470     478    485 || |                     514  519                         
                                                                                              68                                                                                                                                                                                                                                                                                                                                                                                                                                487| |                                                      
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 488 |                                                      
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   490                                                      


Chain B from PDB  Type:PROTEIN  Length:461
 aligned with AGM1_CANAX | Q9P4V2 from UniProtKB/Swiss-Prot  Length:544

    Alignment length:527
                                    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       430       440       450       460       470       480       490       500       510       520       
           AGM1_CANAX     1 MSIEQTLSQYLPSHPKPQGVTFTYGTAGFRMKADKLDYVTFTVGIIASLRSKYLQGKTVGVMITASHNPPEDNGVKVVDPLGSMLESSWEKYATDLANASPSPSNDSEGEKNSLVEVIKNLVSDLKIDLSIPANVVIARDSRESSPALSMATIDGFQSVPNTKYQDFGLFTTPELHYVTRTLNDPDFGKPTEDGYYSKLAKSFQEIYTICESNNEKIDITIDAANGVGAPKIQELLEKYLHKEISFTVVNGDYKQPNLLNFDCGADYVKTNQKLPKNVKPVNNKLYASFDGDADRLICYYQNNDNKFKLLDGDKLSTLFALFLQQLFKQIDPTKISLNIGVVQTAYANGSSTKYVEDVLKIPVRCTPTGVKHLHHEAENFDIGVYFEANGHGTVIFNPEAEKKIFDYKPNNDNEAKAIKVLQNFSQLINQTVGDAISDLLAVLIVVHYLKLSPSDWDNEYTDLPNKLVKVIVPDRSIFKTTNAERTLVEPKGMQDEIDKLVAQYPNGRSFVRASGTEDAVRVYAEAD 527
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..............eeee...hhhhhhhhhhhhhhhhhhh...eeeeee........eeeeeee.......hhhhhhhhhhhhh.....--------.hhhhhhhhhhhhh.......eeeeeee....hhhhhhhhhhhhhh....eeeeeeee.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.----...eeeeee....hhhhhhhhhhhhhh...eeeeee.....hhhhh....hhhhhhhhh.............eeee......eeeeee.....eeeehhhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh....eeee..hhhhhhhhhh...eeeee.....eeeeehhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhh......-----------------------------------------.....-------------.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------PGM_PMM   -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2dka B   1 MSIEQTLSQYLPSHPKPQGVTFTYGTAGFRMKADKLDYVTFTVGIIASLRSKYLQGKTVGVMITASHNPPEDNGVKVVDPLGSMLESSWEKYATDLANASPSP--------NSLVEVIKNLVSDLKIDLSIPANVVIARDSRESSPALSMATIDGFQSVPNTKYQDFGLFTTPELHYVTRTLNDPDFGKPTEDGYYSKLAKSFQEIYTI----NEKIDITIDAANGVGAPKIQELLEKYLHKEISFTVVNGDYKQPNLLNFDCGADYVKTNQKLPKNVKPVNNKLYASFDGDADRLICYYQNNDNKFKLLDGDKLSTLFALFLQQLFKQIDPTKISLNIGVVQTAYANGSSTKYVEDVLKIPVRCTPTGVKHLHHEAENFDIGVYFEANGHGTVIFNPEAEKKIFDYKPNNDNEAKAIKVLQNFSQLINQTVGDAISDLLAVLIVVHYLKLSPSDWDNEYTDLP-----------------------------------------NGRSF-------------AEAD 527
                                    10        20        30        40        50        60        70        80        90       100  |      - |     120       130       140       150       160       170       180       190       200        |-   |   220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460   |     -         -         -         -     | 510         -   |   
                                                                                                                                103      112                                                                                              209  214                                                                                                                                                                                                                                                       464                                       506 510           524
   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  (0, 0)

(no "SCOP Domain" information available for 2DKA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2DKA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DKA)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (AGM1_CANAX | Q9P4V2)
molecular function
    GO:0016868    intramolecular transferase activity, phosphotransferases    Catalysis of the transfer of a phosphate group from one position to another within a single molecule.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004610    phosphoacetylglucosamine mutase activity    Catalysis of the reaction: N-acetyl-alpha-D-glucosamine 1-phosphate = N-acetyl-D-glucosamine 6-phosphate.
biological process
    GO:0006048    UDP-N-acetylglucosamine biosynthetic process    The chemical reactions and pathways resulting in the formation of UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate.
    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: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:0071704    organic substance metabolic process    The chemical reactions and pathways involving an organic substance, any molecular entity containing carbon.

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 Related Entries

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        AGM1_CANAX | Q9P4V2: 2dkc 2dkd

(-) Related Entries Specified in the PDB File

2dkc 2dkd