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(-) Description

Title :  1.8 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF TRANSALDOLASE FROM FRANCISELLA TULARENSIS (PHOSPHATE-FREE)
 
Authors :  S. H. Light, G. Minasov, A. S. Halavaty, L. Shuvalova, L. Papazisi, W. F. Center For Structural Genomics Of Infectious Diseases (Csgi
Date :  02 Mar 12  (Deposition) - 14 Mar 12  (Release) - 05 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Niaid, National Institute Of Allergy And Infectious Diseases, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha-Beta Barrel/Tim Barrel, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Light, G. Minasov, M. E. Duban, W. F. Anderson
Adherence To Burgi-Dunitz Stereochemical Principles Require Significant Structural Rearrangements In Schiff-Base Formation: Insights From Transaldolase Complexes.
Acta Crystallogr. , Sect. D V. 70 544 2014
PubMed-ID: 24531488  |  Reference-DOI: 10.1107/S1399004713030666

(-) Compounds

Molecule 1 - TRANSALDOLASE
    Chains: A, B
    EC Number: 2.2.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: TRANSALDOLASE (TALA)
    Gene: FTT_1093C, TALA
    Organism Scientific: FRANCISELLA TULARENSIS SUBSP. TULARENSIS
    Organism Taxid: 177416
    Strain: SCHU S4 / SCHU 4

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:695 , HOH A:849 , HOH A:850 , HOH A:851 , HOH A:852 , HOH B:755BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREARG B:184 , SER B:230 , ARG B:232 , HOH B:613 , HOH B:691BINDING SITE FOR RESIDUE ACT B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4E0C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4E0C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E0C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E0C)

(-) Exons   (0, 0)

(no "Exon" information available for 4E0C)

(-) 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:313
 aligned with Q5NFX0_FRATT | Q5NFX0 from UniProtKB/TrEMBL  Length:321

    Alignment length:321
                                    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 
         Q5NFX0_FRATT     1 MQKSVLEQLKQVTMVVADTGDFELIKKYKPVDATTNPSLILKAVKEQKYSNLVAETISKVKANNPDLNSDDLVKEIAIEILVSFGIKILDVIEGKVSSEVDARVSFNSATTIDYAKRIIARYESNGIPKDRVLIKIAATWEGIKAAKLLQKEGINCNLTLIFDKAQAKACAEAGVYLVSPFVGRITDWQMQQNNLKTFPAIADDDGVNSVKAIYKLYKSHGFKTIVMGASFRNVEQVIALAGCDALTISPVLLEELKNRDEHLEVKLTKNDDVVTQSPQISEADFRWLMNENAMATHKLAEGIRLFTKDTIELENIIKQNL 321
               SCOP domains d4e0ca_ A: automated matches                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhheeeee..hhhhhhh....eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.....eeee.hhhhh.hhhhhhhhhhhhhhhhhhh..hhh.eeeeee.hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh...eeee....hhhhhhh.....eeeehhhhhhhhhh...........--------...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e0c A   1 MQKSVLEQLKQVTMVVADTGDFELIKKYKPVDATTNPSLILKAVKEQKYSNLVAETISKVKANNPDLNSDDLVKEIAIEILVSFGIKILDVIEGKVSSEVDARVSFNSATTIDYAKRIIARYESNGIPKDRVLIKIAATWEGIKAAKLLQKEGINCNLTLIFDKAQAKACAEAGVYLVSPFVGRITDWQMQQNNLKTFPAIADDDGVNSVKAIYKLYKSHGFKTIVMGASFRNVEQVIALAGCDALTISPVLLEELKNRDEHLEVKLTK--------PQISEADFRWLMNENAMATHKLAEGIRLFTKDTIELENIIKQNL 321
                                    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        |-       280       290       300       310       320 
                                                                                                                                                                                                                                                                                                      269      278                                           


Chain B from PDB  Type:PROTEIN  Length:310
 aligned with Q5NFX0_FRATT | Q5NFX0 from UniProtKB/TrEMBL  Length:321

    Alignment length:320
                                    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
         Q5NFX0_FRATT     2 QKSVLEQLKQVTMVVADTGDFELIKKYKPVDATTNPSLILKAVKEQKYSNLVAETISKVKANNPDLNSDDLVKEIAIEILVSFGIKILDVIEGKVSSEVDARVSFNSATTIDYAKRIIARYESNGIPKDRVLIKIAATWEGIKAAKLLQKEGINCNLTLIFDKAQAKACAEAGVYLVSPFVGRITDWQMQQNNLKTFPAIADDDGVNSVKAIYKLYKSHGFKTIVMGASFRNVEQVIALAGCDALTISPVLLEELKNRDEHLEVKLTKNDDVVTQSPQISEADFRWLMNENAMATHKLAEGIRLFTKDTIELENIIKQNL 321
               SCOP domains d4e0cb_ B: automated matches                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhh..eeeee..hhhhhhhhh..eee.hhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.....eeee.hhhhh.hhhhhhhhhhhhhhhhhhh..hhh.eeeeee.hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeeehhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh...eeee....hhhhhhhh....eeeehhhhhhhhhhh.........----------..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e0c B   2 QKSVLEQLKQVTMVVADTGDFELIKKYKPVDATTNPSLILKAVKEQKYSNLVAETISKVKANNPDLNSDDLVKEIAIEILVSFGIKILDVIEGKVSSEVDARVSFNSATTIDYAKRIIARYESNGIPKDRVLIKIAATWEGIKAAKLLQKEGINCNLTLIFDKAQAKACAEAGVYLVSPFVGRITDWQMQQNNLKTFPAIADDDGVNSVKAIYKLYKSHGFKTIVMGASFRNVEQVIALAGCDALTISPVLLEELKNRDEHLEVKLT----------QISEADFRWLMNENAMATHKLAEGIRLFTKDTIELENIIKQNL 321
                                    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      |  -       281       291       301       311       321
                                                                                                                                                                                                                                                                                                    268        279
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E0C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E0C)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5NFX0_FRATT | Q5NFX0)
molecular function
    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:0004801    sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity    Catalysis of the reaction: sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-erythrose 4-phosphate + D-fructose 6-phosphate.
    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.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0006098    pentose-phosphate shunt    The glucose-6-phosphate catabolic process in which, coupled to NADPH synthesis, glucose-6-P is oxidized with the formation of carbon dioxide (CO2) and ribulose 5-phosphate; ribulose 5-P then enters a series of reactions interconverting sugar phosphates. The pentose phosphate pathway is a major source of reducing equivalents for biosynthesis reactions and is also important for the conversion of hexoses to pentoses.
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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  4e0c
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  2.2.1.2
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 Related Entries

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

UniProtKB/TrEMBL
        Q5NFX0_FRATT | Q5NFX0: 3igx 3te9 3tk7 3tkf 3tno 3upb

(-) Related Entries Specified in the PDB File

3igx PHOSPHATE ANION BOUND AT ACTIVE SITE
3te9 K135M MUTANT IN NON-COVALENT COMPLEX WITH FRUCTOSE-6- PHOSPHATE
3tk7 COVALENT COMPLEX WITH FRUCTOSE-6-PHOSPHATE
3tkf K135M MUTANT IN NON-COVALENT COMPLEX WITH SEDOHEPTULOSE-7- PHOSPHATE RELATED ID: IDP02095 RELATED DB: TARGETTRACK
3tno COVALENT COMPLEX WITH SEDOHEPTULOSE-7-PHOSPHATE
3upb COVALENT COMPLEX WITH ARABINOSE-5-PHOSPHATE