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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHORIBOSYL-ATP PYROPHOSPHOHYDROLASE FROM BACILLUS CEREUS. NESGC TARGET BCR13.
 
Authors :  J. Benach, A. P. Kuzin, F. Forouhar, M. Abashidze, S. M. Vorobiev, R. Shastry, X. Rong, T. B. Acton, G. T. Montelione, J. F. Hunt, Northeast Structural Genomics Consortium (Nesg)
Date :  16 Feb 05  (Deposition) - 01 Mar 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Helix Bundle, Histidine Biosynthesis, Pyrophosphatase, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Benach, A. P. Kuzin, F. Forouhar, M. Abashidze, S. M. Vorobiev, R. Shastry, X. Rong, T. B. Acton, G. T. Montelione, J. F. Hunt
Crystal Structure Of Phosphoribosyl-Atp Pyrophosphohydrolase From Bacillus Cereus At 2. 6 A Resolution.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHORIBOSYL-ATP PYROPHOSPHATASE
    Atcc: 14579
    Chains: A, B, C, D
    EC Number: 3.6.1.31
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: HISE
    Organism Scientific: BACILLUS CEREUS
    Organism Taxid: 1396
    Synonym: PRA-PH

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric/Biological Unit (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1YVW)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1YVW)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1YVW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1YVW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1YVW)

(-) Exons   (0, 0)

(no "Exon" information available for 1YVW)

(-) 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:92
 aligned with HIS2_BACCR | Q81G00 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:92
                                    13        23        33        43        53        63        73        83        93  
            HIS2_BACCR    4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEMVDVFYHCFVLLAEKNIALEDVMREVKERNGKL 95
               SCOP domains d1yvwa1 A:4-95 Phosphoribosyl-ATP pyrophosphatase HisE                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  1yvw A  4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEmVDVFYHCFVLLAEKNIALEDVmREVKERNGKL 95
                                    13        23        33        43        53        63        73        83 |      93  
                                                                                      63-MSE                85-MSE      


Chain B from PDB  Type:PROTEIN  Length:92
 aligned with HIS2_BACCR | Q81G00 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:92
                                    13        23        33        43        53        63        73        83        93  
            HIS2_BACCR    4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEMVDVFYHCFVLLAEKNIALEDVMREVKERNGKL 95
               SCOP domains d1yvwb_ B: Phosphoribosyl-ATP pyrophosphatase HisE                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  1yvw B  4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEmVDVFYHCFVLLAEKNIALEDVmREVKERNGKL 95
                                    13        23        33        43        53        63        73        83 |      93  
                                                                                      63-MSE                85-MSE      


Chain C from PDB  Type:PROTEIN  Length:92
 aligned with HIS2_BACCR | Q81G00 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:92
                                    13        23        33        43        53        63        73        83        93  
            HIS2_BACCR    4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEMVDVFYHCFVLLAEKNIALEDVMREVKERNGKL 95
               SCOP domains d1yvwc_ C: Phosphoribosyl-ATP pyrophosphatase HisE                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  1yvw C  4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEmVDVFYHCFVLLAEKNIALEDVmREVKERNGKL 95
                                    13        23        33        43        53        63        73        83 |      93  
                                                                                      63-MSE                85-MSE      


Chain D from PDB  Type:PROTEIN  Length:92
 aligned with HIS2_BACCR | Q81G00 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:92
                                    13        23        33        43        53        63        73        83        93  
            HIS2_BACCR    4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEMVDVFYHCFVLLAEKNIALEDVMREVKERNGKL 95
               SCOP domains d1yvwd_ D: Phosphoribosyl-ATP pyrophosphatase HisE                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -PRA-PH-1yvwD01 D:5-92                                                                   --- Pfam domains (1)
           Pfam domains (2) -PRA-PH-1yvwD02 D:5-92                                                                   --- Pfam domains (2)
           Pfam domains (3) -PRA-PH-1yvwD03 D:5-92                                                                   --- Pfam domains (3)
           Pfam domains (4) -PRA-PH-1yvwD04 D:5-92                                                                   --- Pfam domains (4)
         Sec.struct. author hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  1yvw D  4 AFKLLYKTIEERKGSPLPESYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEmVDVFYHCFVLLAEKNIALEDVmREVKERNGKL 95
                                    13        23        33        43        53        63        73        83 |      93  
                                                                                      63-MSE                85-MSE
   Legend:   → Mismatch (orange background)
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  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, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1YVW)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: MazG (25)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (HIS2_BACCR | Q81G00)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0004636    phosphoribosyl-ATP diphosphatase activity    Catalysis of the reaction: 1-(5-phospho-D-ribosyl)-ATP + H(2)O = 1-(5-phosphonatoribosyl)-5'-AMP + diphosphate + H(+).
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.
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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