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(-) Description

Title :  ESTABLISHING WILD-TYPE LEVELS OF CATALYTIC ACTIVITY ON NATURAL AND ARTIFICIAL (BA)8-BARREL PROTEIN SCAFFOLDS
 
Authors :  J. Claren, C. Malisi, B. Hocker, R. Sterner
Date :  21 Dec 08  (Deposition) - 17 Feb 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Isomerase, Histidine Biosynthesis, Amino-Acid Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Claren, C. Malisi, B. Hocker, R. Sterner
Establishing Wild-Type Levels Of Catalytic Activity On Natural And Artificial (Beta Alpha)8- Barrel Protein Scaffolds.
Proc. Natl. Acad. Sci. Usa V. 106 3704 2009
PubMed-ID: 19237570  |  Reference-DOI: 10.1073/PNAS.0810342106

(-) Compounds

Molecule 1 - 1-(5-PHOSPHORIBOSYL)-5-[(5-PHOSPHORIBOSYLAMINO) METHYLIDENEAMINO] IMIDAZOLE-4-CARBOXAMIDE ISOMERASE
    Chains: A, B
    EC Number: 5.3.1.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A-HISA-II
    Expression System Strain: T7-EXPRESS
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Synonym: PHOSPHORIBOSYLFORMIMINO-5-AMINOIMIDAZOLE CARBOXAMIDE RIBOTIDE ISOMERASE, N-PHOSPHORIBOSYL-FORMIMINO-AMINOIMIDAZOL-CARBOXAMID RIBONUCLEOTID ISOMERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY B:170 , ARG B:224BINDING SITE FOR RESIDUE CL B1242

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2W79)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2W79)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2W79)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2W79)

(-) Exons   (0, 0)

(no "Exon" information available for 2W79)

(-) Sequences/Alignments

Asymmetric 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:241
 aligned with HIS4_THEMA | Q9X0C7 from UniProtKB/Swiss-Prot  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
           HIS4_THEMA     1 MLVVPAIDLFRGKVARMIKGRKENTIFYEKDPVELVEKLIEEGFTLIHVVDLSNAIENSGENLPVLEKLSEFAEHIQIGGGIRSLDYAEKLRKLGYRRQIVSSKVLEDPSFLKSLREIDVEPVFSLDTRGGRVAFKGWLAEEEIDPVSLLKRLKEYGLEEIVHTEIEKDGTLQEHDFSLTKKIAIEAEVKVLAAGGISSENSLKTAQKVHTETNGLLKGVIVGRAFLEGILTVEVMKRYAR 241
               SCOP domains d2w79a_ A: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains 2w79A00 A:1-241 Aldolase class I                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee..eeeee.hhhhh.eee...hhhhhhhhhhhh....eeeeehhhhhhh...hhhhhhhhhhhhh.eeee....hhhhhhhhhhh...eeeehhhhhhh.hhhhhhhhh..eeeeeeeee..........hhhhhhhhhhhhhhhh....eeeeee.hhh......hhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w79 A   1 MLVVPAIDLFRGKVARMIKGRKENTIFYEKDPVELVEKLIEEGFTLIHVVDLSNAIENSGENLPVLEKLSEFAEYIQIGGGIRSLDYAEKLRKLGYRRQIVSSKVLEDPSSLKSLREIDVEPVFSLVTRGGRVAFKGWLAEEEIDPVSLLKRLKEYGLEEIVHTEIEKVGTLQEHDFSLTKKIAIEAEVKVLAAGGISSENSLKTAQKVHTETNGLLKGVIVGRAFLEGILTVEVMKRYAR 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 


Chain B from PDB  Type:PROTEIN  Length:239
 aligned with HIS4_THEMA | Q9X0C7 from UniProtKB/Swiss-Prot  Length:241

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
           HIS4_THEMA     1 MLVVPAIDLFRGKVARMIKGRKENTIFYEKDPVELVEKLIEEGFTLIHVVDLSNAIENSGENLPVLEKLSEFAEHIQIGGGIRSLDYAEKLRKLGYRRQIVSSKVLEDPSFLKSLREIDVEPVFSLDTRGGRVAFKGWLAEEEIDPVSLLKRLKEYGLEEIVHTEIEKDGTLQEHDFSLTKKIAIEAEVKVLAAGGISSENSLKTAQKVHTETNGLLKGVIVGRAFLEGILTVEVMKRYAR 241
               SCOP domains d2w79b_ B: automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains 2w79B00 B:1-241 Aldolase class I                                                                                                                                                                                                                  CATH domains
           Pfam domains (1) -His_biosynth-2w79B01 B:2-232                                                                                                                                                                                                           --------- Pfam domains (1)
           Pfam domains (2) -His_biosynth-2w79B02 B:2-232                                                                                                                                                                                                           --------- Pfam domains (2)
         Sec.struct. author .eeeeeeeee..eeeee.hhhhh.eeee..hhhhhhhhhhhh....eeeeehhhhhhh...hhhhhhhhhhhhh.eeee....hhhhhhhhhhh...eeeehhhhhhh.hhhhhhhhh..eeeeeeeee............--.hhhhhhhhhhh....eeeeee.hhh......hhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w79 B   1 MLVVPAIDLFRGKVARMIKGRKENTIFYEKDPVELVEKLIEEGFTLIHVVDLSNAIENSGENLPVLEKLSEFAEYIQIGGGIRSLDYAEKLRKLGYRRQIVSSKVLEDPSSLKSLREIDVEPVFSLVTRGGRVAFKGWLAE--IDPVSLLKRLKEYGLEEIVHTEIEKVGTLQEHDFSLTKKIAIEAEVKVLAAGGISSENSLKTAQKVHTETNGLLKGVIVGRAFLEGILTVEVMKRYAR 241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140|  |   150       160       170       180       190       200       210       220       230       240 
                                                                                                                                                                      141  |                                                                                                 
                                                                                                                                                                         144
   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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: TIM_barrel (694)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (HIS4_THEMA | Q9X0C7)
molecular function
    GO:0003949    1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity    Catalysis of the reaction: 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide = 5-[(5-phospho-1-deoxy-D-ribulos-1-ylimino)methylamino]-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide.
    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:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    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:0000105    histidine biosynthetic process    The chemical reactions and pathways resulting in the formation of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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  2w79
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  5.3.1.16
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 Related Entries

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

UniProtKB/Swiss-Prot
        HIS4_THEMA | Q9X0C7: 1qo2 2cff

(-) Related Entries Specified in the PDB File

1qo2 CRYSTAL STRUCTURE OF N-((5'-PHOSPHORIBOSYL)- FORMIMINO)-5-AMINOIMIDAZOL-4-CARBOXAMID RIBONUCLEOTID ISOMERASE (EC 3.1.3.15., HISA)
2cff CRYSTAL STRUCTURE OF N-((5'-PHOSPHORIBOSYL)- FORMIMINO)-5- AMINOIMIDAZOL-4-CARBOXAMID RIBONUCLEOTID ISOMERASE MUTANT D127V (EC 3.1 .3.15, HISA)