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(-) Description

Title :  ANTHRANILATE PHOSPHORIBOSYL-TRANSFERASE (TRPD) DOUBLE MUTANT D83G F149S FROM S. SOLFATARICUS
 
Authors :  M. Bruning, S. Schlee, M. Deuss, A. Ivens, O. Mayans, R. Sterner
Date :  20 Feb 09  (Deposition) - 15 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Amino-Acid Biosynthesis, Aromatic Amino Acid Biosynthesis, Glycosyltransferase, Tryptophan Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Schlee, M. Deuss, M. Bruning, A. Ivens, T. Schwab, N. Hellmann, O. Mayans, R. Sterner
Activation Of Anthranilate Phosphoribosyltransferase From Sulfolobus Solfataricus By Removal Of Magnesium Inhibition And Acceleration Of Product Release
Biochemistry V. 48 5199 2009
PubMed-ID: 19385665  |  Reference-DOI: 10.1021/BI802335S

(-) Compounds

Molecule 1 - ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE
    Chains: A, B
    EC Number: 2.4.2.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE40
    Expression System Strain: W3310 TRPEA2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TRPD
    Mutation: YES
    Organism Scientific: SULFOLOBUS SOLFATARICUS
    Organism Taxid: 2287

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MN4Ligand/IonMANGANESE (II) ION
3PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
4PRP2Ligand/IonALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:78 , GLY A:79 , THR A:80 , ASN A:89 , VAL A:90 , SER A:91 , THR A:92 , LYS A:106 , GLY A:117 , SER A:118 , GLU A:224 , HOH A:375 , HOH A:380 , HOH A:428 , HOH A:443 , HOH A:444 , HOH A:447 , MN A:501 , MN A:502BINDING SITE FOR RESIDUE PRP A 401
02AC2SOFTWAREASP A:223 , GLU A:224 , PRP A:401 , HOH A:443 , MN A:502BINDING SITE FOR RESIDUE MN A 501
03AC3SOFTWARESER A:91 , GLU A:224 , PRP A:401 , HOH A:444 , MN A:501BINDING SITE FOR RESIDUE MN A 502
04AC4SOFTWAREALA B:78 , GLY B:79 , THR B:80 , GLY B:81 , ASN B:89 , VAL B:90 , SER B:91 , THR B:92 , LYS B:106 , GLY B:117 , SER B:118 , GLU B:224 , HOH B:362 , HOH B:374 , HOH B:394 , HOH B:435 , HOH B:472 , HOH B:481 , HOH B:484 , HOH B:495 , MN B:503BINDING SITE FOR RESIDUE PRP B 402
05AC5SOFTWARESER B:91 , GLU B:224 , PRP B:402 , HOH B:481 , HOH B:484BINDING SITE FOR RESIDUE MN B 503
06AC6SOFTWAREASP B:223 , GLU B:224 , HOH B:374 , HOH B:484BINDING SITE FOR RESIDUE MN B 504
07AC7SOFTWAREGLU A:35 , ILE A:36 , GLU B:35 , ILE B:36 , HOH B:351 , HOH B:368 , HOH B:457BINDING SITE FOR RESIDUE PEG B 346
08AC8SOFTWAREILE B:228 , PRO B:255BINDING SITE FOR RESIDUE PEG B 347
09AC9SOFTWAREGLU B:50 , ARG B:170 , THR B:171 , ILE B:172 , ILE B:175 , HOH B:480BINDING SITE FOR RESIDUE GOL B 348
10BC1SOFTWAREGLU B:123 , GLY B:126 , TYR B:127 , GLY B:331 , ASP B:332 , LYS B:335BINDING SITE FOR RESIDUE GOL B 349

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Glu A:219 -Pro A:220
2Ser B:113 -Gly B:114
3Glu B:219 -Pro B:220

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3GBR)

(-) 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:341
 aligned with TRPD_SULSO | P50384 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:344
                                    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       340    
           TRPD_SULSO     1 MNINEILKKLINKSDLEINEAEELAKAIIRGEVPEILVSAILVALRMKGESKNEIVGFARAMRELAIKIDVPNAIDTAGTGGDGLGTVNVSTASAILLSLVNPVAKHGNRAVSGKSGSADVLEALGYNIIVPPERAKELVNKTNFVFLFAQYYHPAMKNVANVRKTLGIRTIFNILGPLTNPANAKYQLMGVFSKDHLDLLSKSAYELDFNKIILVYGEPGIDEVSPIGNTFMKIVSKRGIEEVKLNVTDFGISPIPIEKLIVNSAEDSAIKIVRAFLGKDEHVAEFIKINTAVALFALDRVGDFREGYEYADHLIEKSLDKLNEIISMNGDVTKLKTIVVKSS 344
               SCOP domains d3gbra1 A:1-70 Anthranilate phosphoribosyltransferase (TrpD)          d3gbra2 A:71-344 Anthranilate phosphoribo   syltransferase (TrpD)                                                                                                                                                                                                                  SCOP domains
               CATH domains 3gbrA01 A:1-70,A:150-181                                              -3gbrA02 A:72-149,A:182-344                                                    3gbrA01 A:1-70,A:150-181        3gbrA02 A:72-149,A:182-344 Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh........eeeee.........hhhhhhhhhhh....eeeee...---..hhhhhhhhhh.....hhhhhhhhhhhhheeeeehhhhhhhhhhhhhhhhhhh..hhhhhhhhhh......eeeee..hhhhhhhhhhhhhh....eeeeeee...........eeeeeeee..eeeeeeee.hhhh....hhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gbr A   1 MNINEILKKLINKSDLEINEAEELAKAIIRGEVPEILVSAILVALRMKGESKNEIVGFARAMRELAIKIDVPNAIDTAGTGGGGLGTVNVSTASAILLSLVNPVAKHGNRA---KSGSADVLEALGYNIIVPPERAKELVNKTNFVFLSAQYYHPAMKNVANVRKTLGIRTIFNILGPLTNPANAKYQLMGVFSKDHLDLLSKSAYELDFNKIILVYGEPGIDEVSPIGNTFMKIVSKRGIEEVKLNVTDFGISPIPIEKLIVNSAEDSAIKIVRAFLGKDEHVAEFIKINTAVALFALDRVGDFREGYEYADHLIEKSLDKLNEIISMNGDVTKLKTIVVKSS 344
                                    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       340    
                                                                                                                                        111 115                                                                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:343
 aligned with TRPD_SULSO | P50384 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:343
                                    11        21        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   
           TRPD_SULSO     2 NINEILKKLINKSDLEINEAEELAKAIIRGEVPEILVSAILVALRMKGESKNEIVGFARAMRELAIKIDVPNAIDTAGTGGDGLGTVNVSTASAILLSLVNPVAKHGNRAVSGKSGSADVLEALGYNIIVPPERAKELVNKTNFVFLFAQYYHPAMKNVANVRKTLGIRTIFNILGPLTNPANAKYQLMGVFSKDHLDLLSKSAYELDFNKIILVYGEPGIDEVSPIGNTFMKIVSKRGIEEVKLNVTDFGISPIPIEKLIVNSAEDSAIKIVRAFLGKDEHVAEFIKINTAVALFALDRVGDFREGYEYADHLIEKSLDKLNEIISMNGDVTKLKTIVVKSS 344
               SCOP domains d3gbrb1 B:2-70 Anthranilate phosphoribosyltransferase (TrpD)         d3gbrb2 B:71-344 Anthranilate phosphoribosyltransferase (TrpD)                                                                                                                                                                                                                     SCOP domains
               CATH domains 3gbrB01 B:2-70,B:150-181                                             -3gbrB02 B:72-149,B:182-344                                                    3gbrB01 B:2-70,B:150-181        3gbrB02 B:72-149,B:182-344 Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhh....hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.........eeeee.........hhhhhhhhhhhh...eeeee........hhhhhhhhhh.....hhhhhhhhhhhhheeeeehhhhhhhhhhhhhhhhhhh..hhhhhhhhhh......eeeee..hhhhhhhhhhhhh.....eeeeeee...........eeeeeeee..eeeeeeee.hhhh....hhhhh...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gbr B   2 NINEILKKLINKSDLEINEAEELAKAIIRGEVPEILVSAILVALRMKGESKNEIVGFARAMRELAIKIDVPNAIDTAGTGGGGLGTVNVSTASAILLSLVNPVAKHGNRAVSGKSGSADVLEALGYNIIVPPERAKELVNKTNFVFLSAQYYHPAMKNVANVRKTLGIRTIFNILGPLTNPANAKYQLMGVFSKDHLDLLSKSAYELDFNKIILVYGEPGIDEVSPIGNTFMKIVSKRGIEEVKLNVTDFGISPIPIEKLIVNSAEDSAIKIVRAFLGKDEHVAEFIKINTAVALFALDRVGDFREGYEYADHLIEKSLDKLNEIISMNGDVTKLKTIVVKSS 344
                                    11        21        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
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (TRPD_SULSO | P50384)
molecular function
    GO:0004048    anthranilate phosphoribosyltransferase activity    Catalysis of the reaction: N-(5-phospho-beta-D-ribosyl)anthranilate + diphosphate = 5-phospho-alpha-D-ribose 1-diphosphate + anthranilate.
    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:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0009073    aromatic amino acid family biosynthetic process    The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
    GO:0008652    cellular amino acid biosynthetic process    The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0000162    tryptophan biosynthetic process    The chemical reactions and pathways resulting in the formation of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid; tryptophan is synthesized from chorismate via anthranilate.
cellular component
    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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  TRPD_SULSO | P50384
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 Related Entries

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

UniProtKB/Swiss-Prot
        TRPD_SULSO | P50384: 1gxb 1o17 1zxy 1zyk 2gvq

(-) Related Entries Specified in the PDB File

1gxb ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE IN COMPLEX WITH PYROPHOSPHATE AND MAGNESIUM
1o17 ANTHRANILATE PHOSPHORIBOSYL-TRANSFERASE (TRPD)
2gvq ANTHRANILATE PHOSPHORIBOSYL-TRANSFERASE (TRPD) FROM S. SOLFATARICUS IN COMPLEX WITH ANTHRANILATE