1LRK - JenaLib

Title :   CRYSTAL STRUCTURE OF ESCHERICHIA COLI UDP-GALACTOSE 4-EPIMERASE MUTANT Y299C COMPLEXED WITH UDP-N-ACETYLGLUCOSAMINE

Authors :   J. B. Thoden, J. M. Henderson, J. L. Fridovich-Keil, H. M. Holden

Date :   15 May 02 (Deposition) - 26 Jul 02 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Epimerase, Short Chain Dehydrogenase, Galactosemia, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. B. Thoden, J. M. Henderson, J. L. Fridovich-Keil, H. M. Holden
Structural Analysis Of The Y299C Mutant Of Escherichia Coli Udp-Galactose 4-Epimerase. Teaching An Old Dog New Tricks.
J. Biol. Chem. V. 277 27528 2002
PubMed-ID: 12019271 | Reference-DOI: 10.1074/JBC.M204413200

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:91 , HOH A:437 , HOH A:438 , HOH A:484 , HOH A:588 , HOH A:676	BINDING SITE FOR RESIDUE NA A 342
2	AC2	SOFTWARE	GLN A:334 , HOH A:388 , HOH A:558 , HOH A:559 , HOH A:878	BINDING SITE FOR RESIDUE NA A 343
3	AC3	SOFTWARE	GLY 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 , ALA A:81 , GLY A:82 , LYS A:84 , ASN A:99 , SER A:123 , SER A:124 , TYR A:149 , LYS A:153 , TYR A:177 , PHE A:178 , HOH A:349 , HOH A:350 , HOH A:380 , HOH A:430 , HOH A:431 , HOH A:678 , HOH A:704	BINDING SITE FOR RESIDUE NAD A 340
4	AC4	SOFTWARE	VAL A:86 , THR A:126 , ASN A:179 , ASN A:198 , ASN A:199 , LEU A:200 , LEU A:215 , ALA A:216 , ILE A:217 , PHE A:218 , GLY A:229 , ARG A:231 , TYR A:233 , VAL A:269 , ARG A:292 , ASP A:295 , HOH A:455 , HOH A:628 , HOH A:670 , HOH A:673 , HOH A:679 , HOH A:688 , HOH A:702	BINDING SITE FOR RESIDUE UD1 A 341
5	AC5	SOFTWARE	LEU A:250 , LYS A:253 , TYR A:259	BINDING SITE FOR RESIDUE PGE A 344

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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: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 d1lrka_ A: Uridine diphosphogalactose-4-epimerase (UDP-galactose 4-epimerase)                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 1lrkA02 A:1-181,A:232-262 NAD(P)-binding Rossmann-like Domain                                                                                                                        1lrkA01 A:182-231,A:263-338                       1lrkA02 A:1-181,A:232-262      1lrkA01 A:182-231,A:263-338 UDP-galactose 4-epimerase, domain 1              CATH domains
               Pfam domains --Epimerase-1lrkA01 A:3-262                                                                                                                                                                                                                                           ------------Epimerase_Csub-1lrkA02 A:275-336                              -- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhhh...eeee....hhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhh.................hhhhhhhhhhhhhhhhhhhhh...eeeeee..eee.................hhhhhhhhhhh.....eeee...........ee.eeehhhhhhhhhhhhhhhh...eeeeee......eehhhhhhhhhhhhh....eeee.............hhhhhhhhh.....hhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lrk A   1 MRVLVTGGSGYIGSHTCVQLLQNGHDVIILDNLCNSKRSVLPVIERLGGKHPTFVEGDIRNEALMTEILHDHAIDTVIHFAGLKAVGESVQKPLEYYDNNVNGTLRLISAMRAANVKNFIFSSSATVYGDNPKIPYVESFPTGTPQSPYGKSKLMVEQILTDLQKAQPDWSIALLRYFNPVGAHPSGDMGEDPQGIPNNLMPYIAQVAVGRRDSLAIFGNDYPTEDGTGVRDYIHVMDLADGHVVAMEKLANKPGVHIYNLGAGVGNSVLDVVNAFSKACGKPVNYHFAPRREGDLPACWADASKADRELNWRVTRTLDEMAQDTWHWQSRHPQGYPD 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)

CATH Domains (2, 2)

Pfam Domains (2, 2)

Gene Ontology (12, 12)

Asymmetric 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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