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(-) Description

Title :  HISTIDINOL PHOSPHATE PHOSPHATASE COMPLEXED WITH SULFATE
 
Authors :  R. Omi
Date :  26 Apr 07  (Deposition) - 27 Nov 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Metal-Dependent, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Omi, M. Goto, I. Miyahara, M. Manzoku, A. Ebihara, K. Hirotsu
Crystal Structure Of Monofunctional Histidinol Phosphate Phosphatase From Thermus Thermophilus Hb8.
Biochemistry V. 46 12618 2007
PubMed-ID: 17929834  |  Reference-DOI: 10.1021/BI701204R

(-) Compounds

Molecule 1 - HISTIDINOL PHOSPHATASE
    Chains: A, B
    EC Number: 3.1.3.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274
    Synonym: HISTIDINOL PHOSPHATE PHOSPHATASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric Unit (4, 10)
No.NameCountTypeFull Name
1FE4Ligand/IonFE (III) ION
2GOL2Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
4ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2GOL4Ligand/IonGLYCEROL
3SO44Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:7 , HIS A:13 , HIS A:38 , GLU A:80 , HIS A:108 , ASP A:224 , HIS A:226 , ZN A:501 , FE A:502 , FE A:503 , HOH A:2059 , HOH A:2077 , HOH A:2082 , HOH A:2123BINDING SITE FOR RESIDUE SO4 A 2001
02AC2SOFTWAREHIS B:7 , HIS B:13 , HIS B:38 , GLU B:80 , HIS B:108 , ASP B:224 , HIS B:226 , ZN B:1501 , FE B:1502 , FE B:1503 , HOH B:2070 , HOH B:2073 , HOH B:2075 , HOH B:2132BINDING SITE FOR RESIDUE SO4 B 2002
03AC3SOFTWAREHIS A:13 , HIS A:38 , HIS A:226 , SO4 A:2001BINDING SITE FOR RESIDUE ZN A 501
04AC4SOFTWAREGLU A:80 , HIS A:108 , HIS A:154 , FE A:503 , SO4 A:2001 , HOH A:2123BINDING SITE FOR RESIDUE FE A 502
05AC5SOFTWAREHIS A:5 , HIS A:7 , GLU A:80 , ASP A:224 , FE A:502 , SO4 A:2001 , HOH A:2123BINDING SITE FOR RESIDUE FE A 503
06AC6SOFTWAREGLU B:80 , HIS B:108 , HIS B:154 , FE B:1503 , SO4 B:2002 , HOH B:2132BINDING SITE FOR RESIDUE ZN B 1501
07AC7SOFTWAREHIS B:13 , HIS B:38 , HIS B:226 , SO4 B:2002BINDING SITE FOR RESIDUE FE B 1502
08AC8SOFTWAREHIS B:5 , HIS B:7 , GLU B:80 , ASP B:224 , ZN B:1501 , SO4 B:2002 , HOH B:2132BINDING SITE FOR RESIDUE FE B 1503
09AC9SOFTWARELEU A:10 , GLY A:12 , PRO A:47 , ARG A:50 , ARG A:52 , HOH B:2130BINDING SITE FOR RESIDUE GOL A 2003
10BC1SOFTWAREARG B:26 , ARG B:69 , ALA B:70 , HOH B:2016 , HOH B:2034BINDING SITE FOR RESIDUE GOL B 2004

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Tyr A:203 -Pro A:204
2Tyr B:203 -Pro B:204

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2YXO)

(-) 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:263
 aligned with Q5SLG2_THET8 | Q5SLG2 from UniProtKB/TrEMBL  Length:267

    Alignment length:263
                                    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   
         Q5SLG2_THET8     1 MVDSHVHTPLCGHAEGHPEAYLEEARAKGLKGVVFTDHSPMPPWYDPESRMRLEALPFYLLALERVRERAQDLYVGIGLEADFHPGTEGFLAQLLRRYPFDYVIGSVHYLGAWPLDHPDHQEEYAWRDLKEVFRAYFQEVEKAARSGLFHAIGHLDLPKKFGHRLPEEALLELAEPALRAVAEAGLFLDVNTAGLRRPAKEVYPAPALLRRARELGIGLVLGSDAHRPEEVGFAFPEVQALLAGLGFREAYYFVEGSPVAYPL 263
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.hhhhh....hhhhhhhhhhhh...eeeeeee.......hhhhh.hhhhhhhhhhhhhhhhhhh...eeeeeeeee....hhhhhhhhhhh.....eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....ee...hhhhh.....hhhhhhhhhhhhhhhhhhhh.eeeee.hhhh........hhhhhhhhhhhh..eeee....hhhhh..hhhhhhhhhhhhh..eeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yxo A   1 MVDSHVHTPLCGHAEGHPEAYLEEARAKGLKGVVFTDHSPMPPWYDPESRMRLEALPFYLLALERVRERAQDLYVGIGLEADFHPGTEGFLAQLLRRYPFDYVIGSVHYLGAWPLDHPDHQEEYAWRDLKEVFRAYFQEVEKAARSGLFHAIGHLDLPKKFGHRLPEEALLELAEPALRAVAEAGLFLDVNTAGLRRPAKEVYPAPALLRRARELGIGLVLGSDAHRPEEVGFAFPEVQALLAGLGFREAYYFVEGSPVAYPL 263
                                    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   


Chain B from PDB  Type:PROTEIN  Length:265
 aligned with Q5SLG2_THET8 | Q5SLG2 from UniProtKB/TrEMBL  Length:267

    Alignment length:265
                                    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     
         Q5SLG2_THET8     1 MVDSHVHTPLCGHAEGHPEAYLEEARAKGLKGVVFTDHSPMPPWYDPESRMRLEALPFYLLALERVRERAQDLYVGIGLEADFHPGTEGFLAQLLRRYPFDYVIGSVHYLGAWPLDHPDHQEEYAWRDLKEVFRAYFQEVEKAARSGLFHAIGHLDLPKKFGHRLPEEALLELAEPALRAVAEAGLFLDVNTAGLRRPAKEVYPAPALLRRARELGIGLVLGSDAHRPEEVGFAFPEVQALLAGLGFREAYYFVEGSPVAYPLSR 265
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -PHP-2yxoB01 B:2-204                                                                                                                                                                                        ----PHP_C-2yxoB03 B:209-244             --------------------- Pfam domains (1)
           Pfam domains (2) -PHP-2yxoB02 B:2-204                                                                                                                                                                                        ----PHP_C-2yxoB04 B:209-244             --------------------- Pfam domains (2)
         Sec.struct. author .eeeee.hhhhh....hhhhhhhhhhhh...eeeeeee.......hhhhh.hhhhhhhhhhhhhhhhhhh...eeeeeeeee....hhhhhhhhhh......eeee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....ee...hhhhh.....hhhhhhhhhhhhhhhhhhh..eeeee.hhhh........hhhhhhhhhhh...eeee....hhhhh..hhhhhhhhhhhh...eeeeee..eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yxo B   1 MVDSHVHTPLCGHAEGHPEAYLEEARAKGLKGVVFTDHSPMPPWYDPESRMRLEALPFYLLALERVRERAQDLYVGIGLEADFHPGTEGFLAQLLRRYPFDYVIGSVHYLGAWPLDHPDHQEEYAWRDLKEVFRAYFQEVEKAARSGLFHAIGHLDLPKKFGHRLPEEALLELAEPALRAVAEAGLFLDVNTAGLRRPAKEVYPAPALLRRARELGIGLVLGSDAHRPEEVGFAFPEVQALLAGLGFREAYYFVEGSPVAYPLSR 265
                                    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
   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  (0, 0)

(no "SCOP Domain" information available for 2YXO)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2YXO)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: Amidohydrolase (126)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5SLG2_THET8 | Q5SLG2)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003887    DNA-directed DNA polymerase activity    Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); the synthesis of DNA from deoxyribonucleotide triphosphates in the presence of a DNA template and a 3'hydroxyl group.
    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:0004401    histidinol-phosphatase activity    Catalysis of the reaction: L-histidinol phosphate + H(2)O = L-histidinol + phosphate.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0071897    DNA biosynthetic process    The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one.
    GO:0006260    DNA replication    The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    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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 Related Entries

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        Q5SLG2_THET8 | Q5SLG2: 2yz5 2z4g

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