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(-) Description

Title :  CRYSTAL STRUCTURE OF ENGINEERED PROTEIN. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET OR62.
 
Authors :  S. Vorobiev, M. Su, S. Bjelic, Y. Kipnis, L. Wang, J. Seetharaman, S. Sah R. Xiao, C. Ciccosanti, D. Baker, J. K. Everett, T. B. Acton, G. T. Monte J. F. Hunt, L. Tong, Northeast Structural Genomics Consortium (N
Date :  08 Aug 11  (Deposition) - 24 Aug 11  (Release) - 08 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Engineered Protein, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Or62, Psi-Biology, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Bjelic, Y. Kipnis, L. Wang, Z. Pianowski, S. Vorobiev, M. Su, J. Seetharaman, R. Xiao, G. Kornhaber, J. F. Hunt, L. Tong, D. Hilvert, D. Baker
Exploration Of Alternate Catalytic Mechanisms And Optimization Strategies For Retroaldolase Design.
J. Mol. Biol. V. 426 256 2014
PubMed-ID: 24161950  |  Reference-DOI: 10.1016/J.JMB.2013.10.012

(-) Compounds

Molecule 1 - INDOLE-3-GLYCEROL PHOSPHATE SYNTHASE
    Chains: A
    EC Number: 4.1.1.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET29B+, OR62-29.1
    Expression System Strain: BL21(DE3)GOLD
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TRPC, SSO0895
    Organism Scientific: SULFOLOBUS SOLFATARICUS P2
    Organism Taxid: 273057
    Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2
    Synonym: IGPS

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2PO43Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:3 , TYR A:4 , ARG A:97 , HOH A:603 , HOH A:629 , HOH A:743BINDING SITE FOR RESIDUE PO4 A 301
2AC2SOFTWAREASN A:164 , ARG A:171 , SER A:235 , ARG A:238 , ASN A:239 , LYS A:242 , HOH A:700BINDING SITE FOR RESIDUE PO4 A 302
3AC3SOFTWAREGLU A:51 , LYS A:53 , LYS A:210 , GLU A:211 , ILE A:232 , GLY A:233 , SER A:234 , HOH A:635 , HOH A:646 , HOH A:654 , HOH A:748BINDING SITE FOR RESIDUE PO4 A 303
4AC4SOFTWAREASN A:44 , THR A:46 , GLU A:220 , ARG A:223 , HOH A:633 , HOH A:711 , HOH A:765BINDING SITE FOR RESIDUE ACY A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3TC7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3TC7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3TC7)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1IGPSPS00614 Indole-3-glycerol phosphate synthase signature.TRPC_SULSO48-62  1A:48-62

(-) Exons   (0, 0)

(no "Exon" information available for 3TC7)

(-) 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:251
 aligned with TRPC_SULSO | Q06121 from UniProtKB/Swiss-Prot  Length:248

    Alignment length:251
                                                                                                                                                                                                                                                                                248    
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241      |  - 
           TRPC_SULSO     2 PRYLKGWLKDVVQLSLRRPSFRASRQRPIISLNERILEFNKRNITAIIAEYKRKSPSGLDVERDPIEYSKFMERYAVGLSILTEEKYFNGSYETLRKIASSVSIPILMKDFIVKESQIDDAYNLGADTVLLIVKILTERELESLLEYARSYGMEPLIEINDENDLDIALRIGARFIGINSRDLETLEINKENQRKLISMIPSNVVKVAESGISERNEIEELRKLGVNAFLIGSSLMRNPEKIKEFIL----   -
               SCOP domains d3tc7a_ A: automated matches                                                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh.............hhhhhhhhhhhh....eeeee............hhhhhhhhhh....eeeee........hhhhhhhhhh.....eeee....hhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhhh....eeee.hhhhhhhhhhh...eeeee.........hhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeehhhhhhh.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------IGPS           ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tc7 A   2 PRYLKGWLEDVVQLSLRRPSVRASRQRPIISLNERILEFNKRNITAIIAEYKRKDPSGLDVERDPIEYAKFMERYAVGLFISTEEKYFNGSYETLRKIASSVSIPILMYDFIVKESQIDDAYNLGADTVALIVKILTERELESLLEYARSYGMEPLIIINDENDLDIALRIGARFIGIAARDWETGEINKENQRKLISMIPSNVVKVAKEGISERNEIEELRKLGVNAFLIGSSLMRNPEKIKELIEGSLE 252
                                    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
   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)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3TC7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3TC7)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TRPC_SULSO | Q06121)
molecular function
    GO:0016831    carboxy-lyase activity    Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
    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:0004425    indole-3-glycerol-phosphate synthase activity    Catalysis of the reaction: 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate = 1-(indol-3-yl)glycerol 3-phosphate + CO2 + H2O.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0004640    phosphoribosylanthranilate isomerase activity    Catalysis of the reaction: N-(5-phospho-beta-D-ribosyl)anthranilate = 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate.
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.
    GO:0006568    tryptophan metabolic process    The chemical reactions and pathways involving tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid.

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  TRPC_SULSO | Q06121
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  4.1.1.48
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 Related Entries

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

UniProtKB/Swiss-Prot
        TRPC_SULSO | Q06121: 1a53 1igs 1juk 1jul 1lbf 1lbl 2c3z 3nyz 3nz1 3tc6 4a29 4a2r 4a2s 4iww 4ix0 4lny 4ou1 5an7 5aou 5k7j

(-) Related Entries Specified in the PDB File

3tc6 ENGINEERED PROTEIN PROJECT
or62