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(-) Description

Title :  CRYSTAL STRUCTURE OF GIARDIA GUANINE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH A TRANSITION STATE ANALOGUE
 
Authors :  W. Shi, N. R. Munagala, C. C. Wang, C. M. Li, P. C. Tyler, R. H. Furneaux, C. Grubmeyer, V. L. Schramm, S. C. Almo
Date :  04 Jan 00  (Deposition) - 26 Jul 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein-Inhibitor Complex, Mg Ions, Pyrophosphate, Transition State Analogue, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Shi, N. R. Munagala, C. C. Wang, C. M. Li, P. C. Tyler, R. H. Furneaux, C. Grubmeyer, V. L. Schramm, S. C. Almo
Crystal Structures Of Giardia Lamblia Guanine Phosphoribosyltransferase At 1. 75 A(, ).
Biochemistry V. 39 6781 2000
PubMed-ID: 10841757  |  Reference-DOI: 10.1021/BI000128T
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GUANINE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.2.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: GIARDIA INTESTINALIS
    Organism Taxid: 5741

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1IMU2Ligand/IonPHOSPHORIC ACID MONO-[5-(2-AMINO-4-OXO-4,5-DIHYDRO-3H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)-3,4-DIHYDROXY-PYRROLIDIN-2-YLMETHYL] ESTER
2IPA1Ligand/IonISOPROPYL ALCOHOL
3MG2Ligand/IonMAGNESIUM ION
4POP2Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:125 , GLU A:126 , IMU A:300 , HOH A:776 , HOH A:800BINDING SITE FOR RESIDUE MG A 450
2AC2SOFTWAREASP A:187 , POP A:400 , HOH A:558 , HOH A:849 , HOH A:853BINDING SITE FOR RESIDUE MG A 451
3AC3SOFTWAREASP A:125 , GLU A:126 , TYR A:127 , ASP A:129 , SER A:130 , GLY A:131 , HIS A:132 , THR A:133 , TRP A:180 , LEU A:181 , ASP A:187 , POP A:400 , MG A:450 , HOH A:551 , HOH A:558 , HOH A:642 , HOH A:754 , HOH A:800 , HOH A:817 , HOH A:850BINDING SITE FOR RESIDUE IMU A 300
4AC4SOFTWARELEU A:69 , THR A:70 , GLY A:71 , ASP A:187 , ARG A:193 , IMU A:300 , MG A:451 , HOH A:558 , HOH A:760 , HOH A:776 , HOH A:849 , HOH A:850BINDING SITE FOR RESIDUE POP A 400
5AC5SOFTWAREASP B:125 , GLU B:126 , TYR B:127 , ASP B:129 , SER B:130 , GLY B:131 , HIS B:132 , THR B:133 , TRP B:180 , LEU B:181 , LEU B:186 , ASP B:187 , POP B:401 , HOH B:523BINDING SITE FOR RESIDUE IMU B 301
6AC6SOFTWARELEU B:69 , THR B:70 , GLY B:71 , ASP B:187 , ARG B:193 , IMU B:301 , HOH B:537 , HOH B:571 , HOH B:851 , HOH B:949BINDING SITE FOR RESIDUE POP B 401
7AC7SOFTWAREPHE B:18 , ASP B:20 , ARG B:21 , VAL B:24 , VAL B:29 , THR B:100BINDING SITE FOR RESIDUE IPA B 500

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:69 -Thr A:70
2Thr A:173 -Pro A:174
3Leu B:69 -Thr B:70
4Thr B:173 -Pro B:174

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1DQN)

(-) 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:230
 aligned with Q24973_GIAIN | Q24973 from UniProtKB/TrEMBL  Length:230

    Alignment length:230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
         Q24973_GIAIN     1 MICSVTGKPVKDVLSTFFKDRNDVLESEVKKFHLLATFEECKALAADTARRMNEYYKDVAEPVTLVALLTGAYLYASLLTVHLTFPYTLHFVKVSSYKGTRQESVVFDEEDLKQLKEKREVVLIDEYVDSGHTIFSIQEQIKHAKICSCFVKDVDAIKKHSALADTKMFYGYTPMPKGSWLIGFGLDDNGLRRGWAHLFDINLSESEVTEFRRRLTEHIKGLNINGVNRY 230
               SCOP domains d1dqna_ A: Guanine PRTase                                                                                                                                                                                                              SCOP domains
               CATH domains 1dqnA00 A:1-230  [code=3.40.50.2020, no name defined]                                                                                                                                                                                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhh.....hhhhhhhheeeehhhhhhhhhhhhhhhhhhhhh.....eeeeee...hhhhhhhhhh.....eeeeee..eeee....eeee.hhhhhhhhhhh..eeeeeeee..hhhhhhhhhhh...eeeeeee.hhhhhhh........eeeee........ee...............eee...hhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqn A   1 MICSVTGKPVKDVLSTFFKDRNDVLESEVKKFHLLATFEECKALAADTARRMNEYYKDVAEPVTLVALLTGAYLYASLLTVHLTFPYTLHFVKVSSYKGTRQESVVFDEEDLKQLKEKREVVLIDEYVDSGHTIFSIQEQIKHAKICSCFVKDVDAIKKHSALADTKMFYGYTPMPKGSWLIGFGLDDNGLRRGWAHLFDINLSESEVTEFRRRLTEHIKGLNINGVNRY 230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230


Chain B from PDB  Type:PROTEIN  Length:230
 aligned with Q24973_GIAIN | Q24973 from UniProtKB/TrEMBL  Length:230

    Alignment length:230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
         Q24973_GIAIN     1 MICSVTGKPVKDVLSTFFKDRNDVLESEVKKFHLLATFEECKALAADTARRMNEYYKDVAEPVTLVALLTGAYLYASLLTVHLTFPYTLHFVKVSSYKGTRQESVVFDEEDLKQLKEKREVVLIDEYVDSGHTIFSIQEQIKHAKICSCFVKDVDAIKKHSALADTKMFYGYTPMPKGSWLIGFGLDDNGLRRGWAHLFDINLSESEVTEFRRRLTEHIKGLNINGVNRY 230
               SCOP domains d1dqnb_ B: Guanine PRTase                                                                                                                                                                                                              SCOP domains
               CATH domains 1dqnB00 B:1-230  [code=3.40.50.2020, no name defined]                                                                                                                                                                                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhh.....hhhhhhhheeeehhhhhhhhhhhhhhhhhhhh......eeeeee...hhhhhhhhhh.....eeeeee..eeee....eeee.hhhhhhhhh....eeeeeeee..hhhhhhhhhhh...eeeeeee.hhhhhhh........eeeee........ee...............eee...hhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dqn B   1 MICSVTGKPVKDVLSTFFKDRNDVLESEVKKFHLLATFEECKALAADTARRMNEYYKDVAEPVTLVALLTGAYLYASLLTVHLTFPYTLHFVKVSSYKGTRQESVVFDEEDLKQLKEKREVVLIDEYVDSGHTIFSIQEQIKHAKICSCFVKDVDAIKKHSALADTKMFYGYTPMPKGSWLIGFGLDDNGLRRGWAHLFDINLSESEVTEFRRRLTEHIKGLNINGVNRY 230
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q24973_GIAIN | Q24973)
molecular function
    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).
biological process
    GO:0009116    nucleoside metabolic process    The chemical reactions and pathways involving a nucleoside, a nucleobase linked to either beta-D-ribofuranose (a ribonucleoside) or 2-deoxy-beta-D-ribofuranose, (a deoxyribonucleoside), e.g. adenosine, guanosine, inosine, cytidine, uridine and deoxyadenosine, deoxyguanosine, deoxycytidine and thymidine (= deoxythymidine).

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 Related Entries

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        Q24973_GIAIN | Q24973: 1dqp

(-) Related Entries Specified in the PDB File

1dqp 1DQP CONTAINS THE SAME PROTEIN WITH IMMUCILLING