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(-) Description

Title :  X-RAY STRUCTURE OF GALT-LIKE PROTEIN FROM ARABIDOPSIS THALIANA AT5G18200
 
Authors :  J. G. Mccoy, E. Bitto, G. N. Phillips Jr. , C. A. Bingman, Center For Eukaryotic Structural Genomics (Cesg)
Date :  29 Mar 05  (Deposition) - 19 Apr 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Galt, Zinc, Amp, Structural Genomics, Protein Structure Initiative, Psi, Cesg, Center For Eukaryotic Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. G. Mccoy, A. Arabshahi, E. Bitto, C. A. Bingman, F. J. Ruzicka, P. A. Frey, G. N. Phillips Jr.
Structure And Mechanism Of An Adp-Glucose Phosphorylase From Arabidopsis Thaliana
Biochemistry V. 45 3154 2006
PubMed-ID: 16519510  |  Reference-DOI: 10.1021/BI052232M
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GALACTOSE-1-PHOSPHATE URIDYL TRANSFERASE-LIKE PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PVP-13
    Expression System Strain: B834 P(RARE)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: AT5G18200
    Organism Common: THALE CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: GALT-LIKE PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric/Biological Unit (3, 12)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2EDO6Ligand/Ion1,2-ETHANEDIOL
3ZN4Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:63 , CYS A:66 , HIS A:133 , HIS A:184BINDING SITE FOR RESIDUE ZN A 603
02AC2SOFTWARECYS A:216 , CYS A:219 , HIS A:255 , HIS A:310BINDING SITE FOR RESIDUE ZN A 604
03AC3SOFTWARECYS B:63 , PHE B:65 , CYS B:66 , HIS B:133 , HIS B:184BINDING SITE FOR RESIDUE ZN B 605
04AC4SOFTWARECYS B:216 , CYS B:219 , HIS B:255 , HIS B:310BINDING SITE FOR RESIDUE ZN B 606
05AC5SOFTWAREPHE A:65 , GLU A:72 , CYS A:73 , ALA A:74 , ILE A:92 , GLU A:93 , ASN A:94 , LEU A:95 , TYR A:96 , ASN A:173 , ALA A:180 , SER A:181 , MET A:182 , HIS A:186 , GLN A:188 , HOH A:611 , HOH A:764BINDING SITE FOR RESIDUE AMP A 601
06AC6SOFTWAREPHE B:65 , GLU B:72 , CYS B:73 , ALA B:74 , ILE B:92 , GLU B:93 , ASN B:94 , LEU B:95 , TYR B:96 , VAL B:126 , ASN B:173 , ALA B:180 , SER B:181 , MET B:182 , HIS B:186 , GLN B:188 , HOH B:630 , HOH B:679BINDING SITE FOR RESIDUE AMP B 602
07AC7SOFTWAREALA A:242 , TYR A:244 , PRO A:245 , PHE A:246 , GLU A:247 , ASN A:334 , VAL A:336 , PRO A:338 , VAL A:341BINDING SITE FOR RESIDUE EDO A 607
08AC8SOFTWARETHR A:31 , THR A:198 , HIS A:295 , GLN A:314 , HOH A:616 , HOH A:635 , HOH A:668 , HOH A:771BINDING SITE FOR RESIDUE EDO A 608
09AC9SOFTWARETYR A:244 , VAL A:316 , GLN A:318 , SER A:320 , HOH A:632 , HOH A:662 , HOH A:742BINDING SITE FOR RESIDUE EDO A 609
10BC1SOFTWAREALA B:238 , ALA B:242 , TYR B:244 , PRO B:245 , PHE B:246 , GLU B:247 , ASN B:334 , VAL B:336 , PRO B:338 , VAL B:341BINDING SITE FOR RESIDUE EDO B 610
11BC2SOFTWARETHR B:31 , THR B:198 , HIS B:295 , GLN B:314 , HOH B:636 , HOH B:678 , HOH B:694 , HOH B:820BINDING SITE FOR RESIDUE EDO B 611
12BC3SOFTWARETYR B:244 , VAL B:316 , GLN B:318 , SER B:320 , HOH B:646 , HOH B:687 , HOH B:706BINDING SITE FOR RESIDUE EDO B 612

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Z84)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:80 -Pro A:81
2Val B:80 -Pro B:81

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Z84)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Z84)

(-) Exons   (0, 0)

(no "Exon" information available for 1Z84)

(-) 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:311
 aligned with AGLUP_ARATH | Q9FK51 from UniProtKB/Swiss-Prot  Length:351

    Alignment length:330
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351
          AGLUP_ARATH    22 SPELRKDPVTNRWVIFSPARAKRPTDFKSKSPQNPNPKPSSCPFCIGREQECAPELFRVPDHDPNWKLRVIENLYPALSRNLETQSTQPETGTSRTIVGFGFHDVVIESPVHSIQLSDIDPVGIGDILIAYKKRINQIAQHDSINYIQVFKNQGASAGASMSHSHSQMMALPVVPPTVSSRLDGTKDYFEETGKCCLCEAKSKHFVIDESSHFVSVAPFAATYPFEIWIIPKDHSSHFHHLDDVKAVDLGGLLKLMLQKIAKQLNDPPYNYMIHTSPLKVTESQLPYTHWFLQIVPQLSGVGGFEIGTGCYINPVFPEDVAKVMREVSLT 351
               SCOP domains -d1z84a1 A:23-195     Galactose       -1-phosphate uridylyltransferase                                                                                                        d1z84a2 A:196-351 Galactose-1-phosphate uridylyltransferase                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....eeeee..----hhhhh....-------.........hhhhh..eeeee........eeeee......hhhhh...--------.eee...eeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeehhhhh......eeeeeee...hhhhhhhhhhhhhhhhhhh.....hhhhhheeeee...eeeee.........eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee......hhhhhhhh..eeeeee.....hhhhhhhh..ee..hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1z84 A  22 SPELRKDPVTNRWVIFSP----RPTDFKSKS-------PSSCPFCIGREQECAPELFRVPDHDPNWKLRVIENLYPALSRNLETQS--------RTIVGFGFHDVVIESPVHSIQLSDIDPVGIGDILIAYKKRINQIAQHDSINYIQVFKNQGASAGASMSHSHSQMMALPVVPPTVSSRLDGTKDYFEETGKCCLCEAKSKHFVIDESSHFVSVAPFAATYPFEIWIIPKDHSSHFHHLDDVKAVDLGGLLKLMLQKIAKQLNDPPYNYMIHTSPLKVTESQLPYTHWFLQIVPQLSGVGGFEIGTGCYINPVFPEDVAKVMREVSLT 351
                                    31       | -  |     51|       61        71        81        91       101     |   -    |  121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351
                                            39   44      52      60                                            107      116                                                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:305
 aligned with AGLUP_ARATH | Q9FK51 from UniProtKB/Swiss-Prot  Length:351

    Alignment length:330
                                    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
          AGLUP_ARATH    21 QSPELRKDPVTNRWVIFSPARAKRPTDFKSKSPQNPNPKPSSCPFCIGREQECAPELFRVPDHDPNWKLRVIENLYPALSRNLETQSTQPETGTSRTIVGFGFHDVVIESPVHSIQLSDIDPVGIGDILIAYKKRINQIAQHDSINYIQVFKNQGASAGASMSHSHSQMMALPVVPPTVSSRLDGTKDYFEETGKCCLCEAKSKHFVIDESSHFVSVAPFAATYPFEIWIIPKDHSSHFHHLDDVKAVDLGGLLKLMLQKIAKQLNDPPYNYMIHTSPLKVTESQLPYTHWFLQIVPQLSGVGGFEIGTGCYINPVFPEDVAKVMREVSL 350
               SCOP domains --d1z84b1 B:23-195       Galac           tose-1-phosphate uridylyltransferase                                                                                                  d1z84b2 B:196-350 Galactose-1-phosphate uridylyltransferase                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee....eeeee..------.....-----------.......hhhhh..eeeee........eeeee......hhhhh...--------.eee...eeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeehhhhh......eeeeeee...hhhhhhhhhhhhhhhhhhh.....hhhhhheeeee...eeeee.........eeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee......hhhhhhhh..eeeeee.....hhhhhhhh..ee..hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1z84 B  21 QSPELRKDPVTNRWVIFSP------TDFKS-----------SCPFCIGREQECAPELFRVPDHDPNWKLRVIENLYPALSRNLETQS--------RTIVGFGFHDVVIESPVHSIQLSDIDPVGIGDILIAYKKRINQIAQHDSINYIQVFKNQGASAGASMSHSHSQMMALPVVPPTVSSRLDGTKDYFEETGKCCLCEAKSKHFVIDESSHFVSVAPFAATYPFEIWIIPKDHSSHFHHLDDVKAVDLGGLLKLMLQKIAKQLNDPPYNYMIHTSPLKVTESQLPYTHWFLQIVPQLSGVGGFEIGTGCYINPVFPEDVAKVMREVSL 350
                                    30        |-     |  50         - |      70        80        90       100      |  -     | 120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350
                                             39     46  50          62                                          107      116
   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, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Z84)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1Z84)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (AGLUP_ARATH | Q9FK51)
molecular function
    GO:0043531    ADP binding    Interacting selectively and non-covalently with ADP, adenosine 5'-diphosphate.
    GO:0008108    UDP-glucose:hexose-1-phosphate uridylyltransferase activity    Catalysis of the reaction: alpha-D-galactose 1-phosphate + UDP-D-glucose = alpha-D-glucose 1-phosphate + UDP-D-galactose.
    GO:0017103    UTP:galactose-1-phosphate uridylyltransferase activity    Catalysis of the reaction: alpha-D-galactose 1-phosphate + UTP = diphosphate + UDP-D-galactose.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0047345    ribose-5-phosphate adenylyltransferase activity    Catalysis of the reaction: D-ribose 5-phosphate + ADP + H(+) = ADP-ribose + phosphate.
    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:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
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: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.
    GO:0006006    glucose metabolic process    The chemical reactions and pathways involving glucose, the aldohexose gluco-hexose. D-glucose is dextrorotatory and is sometimes known as dextrose; it is an important source of energy for living organisms and is found free as well as combined in homo- and hetero-oligosaccharides and polysaccharides.
    GO:0080040    positive regulation of cellular response to phosphate starvation    Any process that activates or increases the frequency, rate or extent of cellular response to phosphate starvation.

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  1z84
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 Related Entries

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

UniProtKB/Swiss-Prot
        AGLUP_ARATH | Q9FK51: 1zwj 2h39 2q4h 2q4l

(-) Related Entries Specified in the PDB File

1zwj 2gdk