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(-) Description

Title :  UDP-GALACTOSE 4-EPIMERASE COMPLEXED WITH UDP-PHENOL
 
Authors :  J. B. Thoden, A. M. Gulick, H. M. Holden
Date :  07 Mar 97  (Deposition) - 18 Mar 98  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Udp-Galactose, Epimerase, Isomerase, Galactose Metabolism (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. B. Thoden, A. M. Gulick, H. M. Holden
Molecular Structures Of The S124A, S124T, And S124V Site-Directed Mutants Of Udp-Galactose 4-Epimerase From Escherichia Coli.
Biochemistry V. 36 10685 1997
PubMed-ID: 9271499  |  Reference-DOI: 10.1021/BI9704313

(-) Compounds

Molecule 1 - UDP-GALACTOSE 4-EPIMERASE
    Cell Line: BL21
    Chains: A
    EC Number: 5.1.3.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 (DE3) PLYSS
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: EPIMERASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1NA2Ligand/IonSODIUM ION
2NAD1Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
4UPG1Ligand/IonURIDINE-5'-DIPHOSPHATE-GLUCOSE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:91 , ALA A:166 , HOH A:489BINDING SITE FOR RESIDUE NA A 412
2AC2SOFTWAREGLN A:194 , ILE A:196 , HOH A:579 , HOH A:580BINDING SITE FOR RESIDUE NA A 413
3AC3SOFTWAREGLY A:7 , GLY A:10 , TYR A:11 , ILE A:12 , ASP A:31 , ASN A:32 , LEU A:33 , CYS A:34 , ASN A:35 , SER A:36 , GLY A:57 , ASP A:58 , ILE A:59 , PHE A:80 , GLY A:82 , LYS A:84 , ASN A:99 , SER A:122 , SER A:123 , TYR A:149 , LYS A:153 , TYR A:177 , UPG A:341 , HOH A:420 , HOH A:421 , HOH A:424 , HOH A:475 , HOH A:480 , HOH A:557BINDING SITE FOR RESIDUE NAD A 340
4AC4SOFTWARETHR A:124 , TYR A:149 , PHE A:178 , ASN A:179 , ASN A:198 , ASN A:199 , LEU A:200 , LEU A:215 , ALA A:216 , ILE A:217 , PHE A:218 , ARG A:231 , TYR A:233 , ARG A:292 , ASP A:295 , TYR A:299 , NAD A:340 , HOH A:480 , HOH A:481 , HOH A:558 , HOH A:584 , HOH A:617 , HOH A:667BINDING SITE FOR RESIDUE UPG A 341
5AC5SOFTWARELEU A:250 , LYS A:253 , HOH A:755BINDING SITE FOR RESIDUE PEG A 410

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ile A:134 -Pro A:135

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1KVS)

(-) 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:338
 aligned with GALE_ECOLI | P09147 from UniProtKB/Swiss-Prot  Length:338

    Alignment length:338
                                    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        
           GALE_ECOLI     1 MRVLVTGGSGYIGSHTCVQLLQNGHDVIILDNLCNSKRSVLPVIERLGGKHPTFVEGDIRNEALMTEILHDHAIDTVIHFAGLKAVGESVQKPLEYYDNNVNGTLRLISAMRAANVKNFIFSSSATVYGDQPKIPYVESFPTGTPQSPYGKSKLMVEQILTDLQKAQPDWSIALLRYFNPVGAHPSGDMGEDPQGIPNNLMPYIAQVAVGRRDSLAIFGNDYPTEDGTGVRDYIHVMDLADGHVVAMEKLANKPGVHIYNLGAGVGNSVLDVVNAFSKACGKPVNYHFAPRREGDLPAYWADASKADRELNWRVTRTLDEMAQDTWHWQSRHPQGYPD 338
               SCOP domains d1kvsa_ A: Uridine diphosphogalactose-4-epimerase (UDP-galactose 4-epimerase)                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 1kvsA02 A:1-181,A:232-262 NAD(P)-binding Rossmann-like Domain                                                                                                                        1kvsA01 A:182-231,A:263-338                       1kvsA02 A:1-181,A:232-262      1kvsA01 A:182-231,A:263-338 UDP-galactose 4-epimerase, domain 1              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhhhhhhhh...eeeeee......hhhhhhhhhhh....eeee.....hhhhhhhhhh....eeee......hhhhhh.hhhhhhh.hhhhhhhhhhhhhh...eeeeeeehhhh...................hhhhhhhhhhhhhhhhhhh....eeeeeee.eee..................hhhhhhhhh......eeee..............eeehhhhhhhhhhhhhhh....eeeeeee.......hhhhhhhhhhh......eeee..............hhhhhhh.......hhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kvs A   1 MRVLVTGGSGYIGSHTCVQLLQNGHDVIILDNLCNSKRSVLPVIERLGGKHPTFVEGDIRNEALMTEILHDHAIDTVIHFAGLKAVGESVQKPLEYYDNNVNGTLRLISAMRAANVKNFIFSSTATVYGDNPKIPYVESFPTGTPQSPYGKSKLMVEQILTDLQKAQPDWSIALLRYFNPVGAHPSGDMGEDPQGIPNNLMPYIAQVAVGRRDSLAIFGNDYPTEDGTGVRDYIHVMDLADGHVVAMEKLANKPGVHIYNLGAGVGNSVLDVVNAFSKACGKPVNYHFAPRREGDLPAYWADASKADRELNWRVTRTLDEMAQDTWHWQSRHPQGYPD 338
                                    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
   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: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1KVS)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GALE_ECOLI | P09147)
molecular function
    GO:0070403    NAD+ binding    Interacting selectively and non-covalently with the oxidized form, NAD, of nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions.
    GO:0003978    UDP-glucose 4-epimerase activity    Catalysis of the reaction: UDP-glucose = UDP-galactose.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0016857    racemase and epimerase activity, acting on carbohydrates and derivatives    Catalysis of a reaction that alters the configuration of one or more chiral centers in a carbohydrate molecule.
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:0009242    colanic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of colanic acid, a capsular bacterial polysaccharide.
    GO:0033499    galactose catabolic process via UDP-galactose    The chemical reactions and pathways resulting in the breakdown of galactose, via the intermediate UDP-galactose.
    GO:0006012    galactose metabolic process    The chemical reactions and pathways involving galactose, the aldohexose galacto-hexose. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GALE_ECOLI | P09147: 1a9y 1a9z 1kvq 1kvr 1kvt 1kvu 1lrj 1lrk 1lrl 1nah 1nai 1uda 1udb 1udc 1xel 2udp 5gy7

(-) Related Entries Specified in the PDB File

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