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(-) Description

Title :  2.09 ANGSTROM RESOLUTION STRUCTURE OF A HYPOXANTHINE-GUANINE PHOSPHORIBOSYLTRANSFERASE (HPT-1) FROM BACILLUS ANTHRACIS STR. 'AMES ANCESTOR' IN COMPLEX WITH GMP
 
Authors :  A. S. Halavaty, G. Minasov, L. Shuvalova, I. Dubrovska, J. Winsor, L. Pa W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date :  20 Oct 09  (Deposition) - 27 Oct 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Hypoxanthine-Guanine Phosphoribosyltransferase, Structural Genomics, Infectious Diseases, Center For Structural Genomics Of Infectious Diseases, Glycosyltransferase, Transferase, Csgid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Halavaty, G. Minasov, L. Shuvalova, I. Dubrovska, J. Winsor, L. Papazisi, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
2. 09 Angstrom Resolution Structure Of A Hypoxanthine-Guanin Phosphoribosyltransferase (Hpt-1) From Bacillus Anthracis Str. 'Ames Ancestor' In Complex With Gmp
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOXANTHINE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B, C, D
    EC Number: 2.4.2.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BAA_0076, HPT, HPT-1
    Organism Scientific: BACILLUS ANTHRACIS STR.
    Organism Taxid: 261594
    Strain: 'AMES ANCESTOR'

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 21)

Asymmetric/Biological Unit (5, 21)
No.NameCountTypeFull Name
15GP2Ligand/IonGUANOSINE-5'-MONOPHOSPHATE
2GOL1Ligand/IonGLYCEROL
3MG2Ligand/IonMAGNESIUM ION
4PO413Ligand/IonPHOSPHATE ION
5SUC3Ligand/IonSUCROSE

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU C:42 , LYS C:43 , GLY C:44 , ARG C:165 , HOH C:184BINDING SITE FOR RESIDUE PO4 C 254
02AC2SOFTWAREASP C:103 , SER C:104 , GLY C:105 , HOH C:197BINDING SITE FOR RESIDUE PO4 C 255
03AC3SOFTWARELEU D:42 , LYS D:43 , GLY D:44 , ARG D:165 , HOH D:240BINDING SITE FOR RESIDUE PO4 D 256
04AC4SOFTWAREASP D:103 , SER D:104 , GLY D:105 , HOH D:196BINDING SITE FOR RESIDUE PO4 D 257
05AC5SOFTWARELEU A:42 , LYS A:43 , GLY A:44 , ASP A:159 , ARG A:165 , HOH A:256BINDING SITE FOR RESIDUE PO4 A 258
06AC6SOFTWARELEU B:42 , LYS B:43 , GLY B:44 , ASP B:159 , ARG B:165 , HOH B:220 , 5GP B:267BINDING SITE FOR RESIDUE PO4 B 259
07AC7SOFTWAREGLN C:17 , LYS C:54 , GLN D:17 , LYS D:54BINDING SITE FOR RESIDUE PO4 D 260
08AC8SOFTWARELYS A:131 , PRO A:149 , HIS A:150 , GLU A:151BINDING SITE FOR RESIDUE PO4 A 261
09AC9SOFTWARELYS A:174 , SER A:176BINDING SITE FOR RESIDUE PO4 A 262
10BC1SOFTWAREASN B:3 , GLN B:4 , LYS B:174 , HOH B:238 , HOH B:251BINDING SITE FOR RESIDUE PO4 B 263
11BC2SOFTWAREGLN A:-3 , THR A:34 , VAL A:35 , TYR A:59 , PHE B:-4 , GLN B:-3 , TYR B:-5BINDING SITE FOR RESIDUE PO4 B 264
12BC3SOFTWAREGLU A:61 , THR A:88 , GLU B:162BINDING SITE FOR RESIDUE PO4 A 265
13BC4SOFTWAREILE A:101 , ASP A:103 , SER A:104 , GLY A:105 , LYS A:131 , GLU A:151 , PHE A:152 , VAL A:153 , ASP A:159 , HOH A:201 , HOH A:238 , HOH A:256 , MG A:273BINDING SITE FOR RESIDUE 5GP A 266
14BC5SOFTWAREASP B:100 , ILE B:101 , ASP B:103 , SER B:104 , GLY B:105 , LYS B:131 , GLU B:151 , PHE B:152 , VAL B:153 , LEU B:158 , ASP B:159 , HOH B:191 , HOH B:219 , HOH B:220 , PO4 B:259 , MG B:272BINDING SITE FOR RESIDUE 5GP B 267
15BC6SOFTWARELYS A:19 , GLU A:22 , LEU A:23 , ILE A:26 , TYR A:143 , VAL A:144 , GLY A:145 , HOH A:207 , HOH A:208 , HOH A:231 , HOH A:246BINDING SITE FOR RESIDUE SUC A 268
16BC7SOFTWAREGLU B:7 , LYS B:32 , LYS B:174 , PRO B:175 , SER B:176BINDING SITE FOR RESIDUE GOL B 269
17BC8SOFTWARELEU D:10 , GLY D:145 , PHE D:146 , THR D:147BINDING SITE FOR RESIDUE SUC D 270
18BC9SOFTWAREGLN C:15 , LYS C:19 , GLY C:145 , PHE C:146 , THR C:147BINDING SITE FOR RESIDUE SUC C 271
19CC1SOFTWARESER B:104 , LEU B:106 , THR B:107 , 5GP B:267BINDING SITE FOR RESIDUE MG B 272
20CC2SOFTWARESER A:104 , THR A:107 , 5GP A:266BINDING SITE FOR RESIDUE MG A 273
21CC3SOFTWARELYS B:116BINDING SITE FOR RESIDUE PO4 B 274

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3KB8)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:42 -Lys A:43
2Leu B:42 -Lys B:43
3Leu C:42 -Lys C:43
4Leu D:42 -Lys D:43

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3KB8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3KB8)

(-) Exons   (0, 0)

(no "Exon" information available for 3KB8)

(-) 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:201
 aligned with B9ZW32_BACAN | B9ZW32 from UniProtKB/TrEMBL  Length:179

    Alignment length:201
                                                   1                                                                                                                                                                                 
                                     -         -   |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177 
         B9ZW32_BACAN     - -----------------------MNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 178
               SCOP domains d3kb8a_ A: automated matches                                                                                                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....hhhh.eeeeeehhhhhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhh.....eeeeeeeee.hhhhhhhh.eeeee.........eeeeeeeee..hhhhhhhhhhhhhh...eeeeeeeee.hhhh.......eeeee.....ee...............eeeehhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kb8 A -23 MHHHHHHSSGVGTENLYFQSNAMMNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 179
                                   -14||      -2         8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178 
                                    -13|                                                                                                                                                                                             
                                     -10                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:189
 aligned with B9ZW32_BACAN | B9ZW32 from UniProtKB/TrEMBL  Length:179

    Alignment length:189
                                      1                                                                                                                                                                                  
                                     -|       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170         
         B9ZW32_BACAN     - ----------MNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYSN 179
               SCOP domains d3kb8b_ B: automated matches                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhh.eeeeeehhhhhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhh.....eeeeeeeee..hhhhhhh.eeeee.........eeeeeeeee..hhhhhhhhhhhhhh...eeeeeeeee.hhhh.......eeeee......................eeee.hhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kb8 B  -8 ENLYFQSNAMMNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYSN 180
                                     1        11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171         


Chain C from PDB  Type:PROTEIN  Length:180
 aligned with B9ZW32_BACAN | B9ZW32 from UniProtKB/TrEMBL  Length:179

    Alignment length:180
                              1                                                                                                                                                                                 
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178
         B9ZW32_BACAN     - --MNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 178
               SCOP domains d3kb8c_ C: automated matches                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhh.eeeeeehhhhhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhh.....eeeeeeeee.hhhhhhhh.eeeee.........eeeeeeeee..hhhhhhhhhhhhhh...eeeeeeeee.hhhh.......eeeee......................eeee.hhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kb8 C   0 AMMNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 179
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179


Chain D from PDB  Type:PROTEIN  Length:180
 aligned with B9ZW32_BACAN | B9ZW32 from UniProtKB/TrEMBL  Length:179

    Alignment length:180
                              1                                                                                                                                                                                 
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178
         B9ZW32_BACAN     - --MNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 178
               SCOP domains d3kb8d_ D: automated matches                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhh.eeeeeehhhhhhhhhhhhhhhhhhhh.....eeeee...hhhhhhhhhhh.....eeeeeeeee...hhhhhh.eeeee.........eeeeeeeee..hhhhhhhhhhhhhh...eeeeeeeee.hhhh.......eeeee......................eeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kb8 D   0 AMMNQDIEKVLISEEQIQEKVLELGAIIAEDYKNTVPLAIGVLKGAMPFMADLLKRTDTYLEMDFMAVSSYGHSTVSTGEVKILKDLDTSVEGRDILIVEDIIDSGLTLSYLVDLFKYRKAKSVKIVTLLDKPTGRKVDLKADYVGFTVPHEFVVGYGLDYKEQYRNLPYVGVLKPSVYS 179
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179
   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) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3KB8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3KB8)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (B9ZW32_BACAN | B9ZW32)
molecular function
    GO:0052657    guanine phosphoribosyltransferase activity    Catalysis of the reaction: GMP + diphosphate = guanine + 5-phospho-alpha-D-ribose 1-diphosphate.
    GO:0004422    hypoxanthine phosphoribosyltransferase activity    Catalysis of the reaction: IMP + diphosphate = hypoxanthine + 5-phospho-alpha-D-ribose 1-diphosphate.
    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).
    GO:0006166    purine ribonucleoside salvage    Any process which produces a purine nucleoside from derivatives of it, without de novo synthesis.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

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        B9ZW32_BACAN | B9ZW32: 3hvu

(-) Related Entries Specified in the PDB File

3h83 2.06 ANGSTROM RESOLUTION STRUCTURE OF A HYPOXANTHINE- GUANINE PHOSPHORIBOSYLTRANSFERASE (HPT-1) FROM BACILLUS ANTHRACIS STR. 'AMES ANCESTOR'
3hvu 1.95 ANGSTROM CRYSTAL STRUCTURE OF COMPLEX OF HYPOXANTINE- GUANINE PHOSPHORIBOSYLTRANSFERASE FROM BACILLUS ANTHRACIS WITH 2-(N-MORPHOLINO)ETHANESULFONIC ACID (MES) RELATED ID: IDP01892 RELATED DB: TARGETDB