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(-) Description

Title :  HISTIDINOL-PHOSPHATE AMINOTRANSFERASE FROM CORYNEBACTERIUM GLUTAMICUM IN COMPLEX WITH PMP
 
Authors :  T. Sandalova, J. Marienhagen, G. Schneider
Date :  02 Apr 08  (Deposition) - 01 Jul 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  Histidinol-Phosphate Aminotransferase, Corynebacterium Glutamicum, Plp, Pmp, Amino-Acid Biosynthesis, Histidine Biosynthesis, Pyridoxal Phosphate (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Marienhagen, T. Sandalova, H. Sahm, L. Eggeling, G. Schneider
Insights Into The Structural Basis Of Substrate Recognition By Histidinol-Phosphate Aminotransferase From Corynebacterium Glutamicum
Acta Crystallogr. , Sect. D V. 64 675 2008
PubMed-ID: 18560156  |  Reference-DOI: 10.1107/S0907444908009438
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HISTIDINOL-PHOSPHATE AMINOTRANSFERASE
    ChainsA, B, C
    EC Number2.6.1.9
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A(+)
    Expression System StrainBL21(DE3)
    Expression System Vector TypePLASMID
    GeneHISC
    Organism ScientificCORYNEBACTERIUM GLUTAMICUM
    SynonymIMIDAZOLE ACETOL-PHOSPHATE TRANSAMINASE

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit ABC
Biological Unit 1 (1x)AB 
Biological Unit 2 (2x)  C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
11443Ligand/IonTRIS-HYDROXYMETHYL-METHYL-AMMONIUM
2PMP3Ligand/Ion4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
3SO46Ligand/IonSULFATE ION
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
11442Ligand/IonTRIS-HYDROXYMETHYL-METHYL-AMMONIUM
2PMP2Ligand/Ion4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (3, 8)
No.NameCountTypeFull Name
11442Ligand/IonTRIS-HYDROXYMETHYL-METHYL-AMMONIUM
2PMP2Ligand/Ion4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE
3SO44Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:21 , TYR A:123 , ASN A:172 , ARG A:333 , ARG A:342BINDING SITE FOR RESIDUE SO4 A 402
02AC2SOFTWAREARG A:12 , GLU A:13 , ARG B:114BINDING SITE FOR RESIDUE SO4 A 403
03AC3SOFTWARETYR B:21 , TYR B:123 , ASN B:172 , ARG B:333 , ARG B:342BINDING SITE FOR RESIDUE SO4 B 402
04AC4SOFTWAREARG A:114 , GLU B:13BINDING SITE FOR RESIDUE SO4 A 404
05AC5SOFTWARETYR C:21 , TYR C:123 , ASN C:172 , ARG C:333 , ARG C:342BINDING SITE FOR RESIDUE SO4 C 402
06AC6SOFTWAREARG C:12 , GLU C:13 , ARG C:114BINDING SITE FOR RESIDUE SO4 C 403
07AC7SOFTWARETHR A:34 , ASN A:99 , TYR A:123 , TYR B:63 , PRO B:256 , TYR B:257BINDING SITE FOR RESIDUE 144 A 400
08AC8SOFTWAREGLY A:97 , SER A:98 , ASN A:99 , TYR A:123 , THR A:168 , ASN A:172 , ASP A:197 , ALA A:199 , TYR A:200 , THR A:225 , SER A:227 , LYS A:228 , ARG A:236 , TYR B:63BINDING SITE FOR RESIDUE PMP A 401
09AC9SOFTWARETYR A:63 , TYR A:257 , TYR B:21 , ALA B:23 , TYR B:123BINDING SITE FOR RESIDUE 144 A 405
10BC1SOFTWARETYR A:63 , GLY B:97 , SER B:98 , ASN B:99 , TYR B:123 , THR B:168 , ASN B:172 , ASP B:197 , ALA B:199 , TYR B:200 , THR B:225 , SER B:227 , LYS B:228 , ARG B:236BINDING SITE FOR RESIDUE PMP B 401
11BC2SOFTWARETYR C:21 , ALA C:23 , THR C:34 , ASN C:99 , TYR C:123 , TYR C:257BINDING SITE FOR RESIDUE 144 C 400
12BC3SOFTWARETYR C:63 , GLY C:97 , SER C:98 , ASN C:99 , TYR C:123 , THR C:168 , ASN C:172 , ASP C:197 , ALA C:199 , TYR C:200 , THR C:225 , SER C:227 , LYS C:228 , ARG C:236BINDING SITE FOR RESIDUE PMP C 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3CQ5)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Gln A:120 -Pro A:121
2Thr A:169 -Pro A:170
3Asn A:172 -Pro A:173
4Gly A:313 -Asp A:314
5Gln B:120 -Pro B:121
6Thr B:169 -Pro B:170
7Asn B:172 -Pro B:173
8Gly B:313 -Asp B:314
9Gln C:120 -Pro C:121
10Thr C:169 -Pro C:170
11Asn C:172 -Pro C:173
12Gly C:313 -Asp C:314

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3CQ5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3CQ5)

(-) Exons   (0, 0)

(no "Exon" information available for 3CQ5)

(-) 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:364
 aligned with HIS8_CORGL | Q9KJU4 from UniProtKB/Swiss-Prot  Length:366

    Alignment length:364
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362    
           HIS8_CORGL     3 KITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
               SCOP domains d3cq5a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh..hhhhh.............ee..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh...hhh.eeeehhhhhhhhhhhhhhh....eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhh..eeeee..hhhhh...hhhhhh......eeeeee......hhhhh.eeee..hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee.....eeeee...hhhhhhhhhhhh.ee........eeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cq5 A   3 KITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362    

Chain B from PDB  Type:PROTEIN  Length:366
 aligned with HIS8_CORGL | Q9KJU4 from UniProtKB/Swiss-Prot  Length:366

    Alignment length:366
                                    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       350       360      
           HIS8_CORGL     1 MTKITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
               SCOP domains d3cq5b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhh..hhhhh.............ee..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh...hhh.eeeehhhhhhhhhhhhhhh....eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhh..eeeee..hhhhh...hhhhhh......eeeeee......hhhhh.eeee.hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eee.....eeeee...hhhhhhhhhhhh.ee.........eeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cq5 B   1 MTKITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
                                    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       350       360      

Chain C from PDB  Type:PROTEIN  Length:364
 aligned with HIS8_CORGL | Q9KJU4 from UniProtKB/Swiss-Prot  Length:366

    Alignment length:364
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362    
           HIS8_CORGL     3 KITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
               SCOP domains d3cq5c_ C: automated matches                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh..hhhhh.............ee..........hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh...hhh.eeeehhhhhhhhhhhhhhh....eeeeee...hhhhhhhhhh..eeeeee.......hhhhhhhhhhhhh..eeeee..........hhhhhhhhhhhh..eeeee..hhhhh...hhhhhh......eeeeee......hhhhh.eeee.hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee......eeeee...hhhhhhhhhhhh.ee........eeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cq5 C   3 KITLSDLPLREELRGEHAYGAPQLNVDIRLNTNENPYPPSEALVADLVATVDKIATELNRYPERDAVELRDELAAYITKQTGVAVTRDNLWAANGSNEILQQLLQAFGGPGRTALGFQPSYSMHPILAKGTHTEFIAVSRGADFRIDMDVALEEIRAKQPDIVFVTTPNNPTGDVTSLDDVERIINVAPGIVIVDEAYAEFSPSPSATTLLEKYPTKLVVSRTMSKAFDFAGGRLGYFVANPAFIDAVMLVRLPYHLSALSQAAAIVALRHSADTLGTVEKLSVERVRVAARLEELGYAVVPSESNFVFFGDFSDQHAAWQAFLDRGVLIRDVGIAGHLRTTIGVPEENDAFLDAAAEIIKLNL 366
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362    

   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, 3)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3CQ5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3CQ5)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (HIS8_CORGL | Q9KJU4)
molecular function
    GO:0080130    L-phenylalanine:2-oxoglutarate aminotransferase activity    Catalysis of the reaction: L-phenylalanine + 2-oxoglutarate = phenylpyruvate + L-glutamate.
    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:0004400    histidinol-phosphate transaminase activity    Catalysis of the reaction: L-histidinol-phosphate + 2-oxoglutarate = 3-(imidazol-4-yl)-2-oxopropyl phosphate + L-glutamate.
    GO:0030170    pyridoxal phosphate binding    Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
    GO:0008483    transaminase activity    Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
    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:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    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.

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        HIS8_CORGL | Q9KJU43cq4 3cq6

(-) Related Entries Specified in the PDB File

3cq4 3cq6