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(-) Description

Title :  BACILLUS HALMAPALUS ALPHA AMYLASE
 
Authors :  G. J. Davies, A. M. Brzozowski, Z. Dauter, M. D. Rasmussen, T. V. Borchert, K. S. Wilson
Date :  20 Oct 04  (Deposition) - 09 Feb 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Amylase, Acarbose, Bacillus, Glycoside Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. J. Davies, A. M. Brzozowski, Z. Dauter, M. D. Rasmussen, T. V. Borchert, K. S. Wilson
Structure Of A Bacillus Halmapalus Family 13 Alpha-Amylase, Bha, In Complex With An Acarbose-Derived Nonasaccharide At 2. 1 A Resolution
Acta Crystallogr. , Sect. D V. 61 190 2005
PubMed-ID: 15681870  |  Reference-DOI: 10.1107/S0907444904027118

(-) Compounds

Molecule 1 - ALPHA AMYLASE
    Chains: A
    EC Number: 3.2.1.1
    Engineered: YES
    Expression System: BACILLUS SUBTILIS
    Expression System Taxid: 1423
    Organism Scientific: BACILLUS HALMAPALUS
    Organism Taxid: 79882
    Other Details: ACARBOSE-DERIVED NONASACCHARIDE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 11)

Asymmetric/Biological Unit (5, 11)
No.NameCountTypeFull Name
1AC12Ligand/Ion6-METHYL-5-(4,5,6-TRIHYDROXY-3-HYDROXYMETHYL-CYCLOHEX-2-ENYLAMINO)-TETRAHYDRO-PYRAN-2,3,4-TRIOL
2BGC1Ligand/IonBETA-D-GLUCOSE
3CA3Ligand/IonCALCIUM ION
4GLC4Ligand/IonALPHA-D-GLUCOSE
5NA1Ligand/IonSODIUM ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:270 , GLC A:1491 , HOH A:2276 , HOH A:2278BINDING SITE FOR RESIDUE BGC A1490
02AC2SOFTWAREGLU A:194 , LYS A:239 , TRP A:268 , LEU A:340 , BGC A:1490 , AC1 A:1492 , HOH A:2279BINDING SITE FOR RESIDUE GLC A1491
03AC3SOFTWARETRP A:15 , TYR A:58 , HIS A:107 , ARG A:234 , ASP A:236 , ALA A:237 , HIS A:240 , GLU A:266 , HIS A:332 , ASP A:333 , SER A:339 , GLC A:1491 , GLC A:1493 , HOH A:2154 , HOH A:2281BINDING SITE FOR RESIDUE AC1 A1492
04AC4SOFTWARETRP A:15 , TYR A:58 , MET A:202 , ASP A:333 , SER A:339 , AC1 A:1492 , GLC A:1494 , HOH A:2282 , HOH A:2283 , HOH A:2284BINDING SITE FOR RESIDUE GLC A1493
05AC5SOFTWAREMET A:202 , TYR A:203 , GLC A:1493 , GLC A:1495 , HOH A:2285BINDING SITE FOR RESIDUE GLC A1494
06AC6SOFTWAREASP A:166 , MET A:202 , TYR A:203 , GLC A:1494 , AC1 A:1496 , HOH A:2286BINDING SITE FOR RESIDUE GLC A1495
07AC7SOFTWARELYS A:72 , GLY A:110 , ALA A:111 , TRP A:140 , TRP A:167 , TYR A:203 , GLC A:1495 , HOH A:2287 , HOH A:2288 , HOH A:2290BINDING SITE FOR RESIDUE AC1 A1496
08AC8SOFTWAREASN A:106 , ASP A:199 , ASP A:205 , HIS A:240 , HOH A:2126BINDING SITE FOR RESIDUE CA A1486
09AC9SOFTWAREASP A:163 , ALA A:186 , ASP A:188 , ASP A:207 , ASP A:209 , HOH A:2105BINDING SITE FOR RESIDUE CA A1487
10BC1SOFTWAREGLY A:305 , TYR A:307 , HIS A:408 , ASN A:409 , ASP A:432 , HOH A:2180BINDING SITE FOR RESIDUE CA A1488
11BC2SOFTWAREASP A:163 , ASP A:188 , ASP A:199 , ASP A:205 , VAL A:206BINDING SITE FOR RESIDUE NA A1489

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W9X)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Trp A:189 -Glu A:190

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W9X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1W9X)

(-) Exons   (0, 0)

(no "Exon" information available for 1W9X)

(-) 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:481
 aligned with O82839_BACSP | O82839 from UniProtKB/TrEMBL  Length:516

    Alignment length:481
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515 
         O82839_BACSP    36 TNGTMMQYFEWHLPNDGNHWNRLRDDAANLKSKGITAVWIPPAWKGTSQNDVGYGAYDLYDLGEFNQKGTVRTKYGTRSQLQGAVTSLKNNGIQVYGDVVMNHKGGADGTEMVNAVEVNRSNRNQEISGEYTIEAWTKFDFPGRGNTHSNFKWRWYHFDGTDWDQSRQLQNKIYKFRGTGKAWDWEVDIENGNYDYLMYADIDMDHPEVINELRNWGVWYTNTLNLDGFRIDAVKHIKYSYTRDWLTHVRNTTGKPMFAVAEFWKNDLAAIENYLNKTSWNHSVFDVPLHYNLYNASNSGGYFDMRNILNGSVVQKHPIHAVTFVDNHDSQPGEALESFVQSWFKPLAYALILTREQGYPSVFYGDYYGIPTHGVPSMKSKIDPLLQARQTYAYGTQHDYFDHHDIIGWTREGDSSHPNSGLATIMSDGPGGNKWMYVGKHKAGQVWRDITGNRSGTVTINADGWGNFTVNGGAVSVWVKQ 516
               SCOP domains d1w9xa2 A:5-398 Bacterial alpha-amylase                                                                                                                                                                                                                                                                                                                                                                   d1w9xa1 A:399-485 Bacterial alpha-Amylase                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------Alpha-amylase-1w9xA02 A:24-380                                                                                                                                                                                                                                                                                                                                       ---------------------------------------------DUF1939-1w9xA01 A:426-483                                 -- Pfam domains
         Sec.struct. author ....eee..........hhhhhhhhhhhhhhhh...eeee....................................hhhhhhhhhhhhhhh..eeeeee...ee....eeeeeeeeeee..eeeee....eeeeeeee...............hhh.eeee...........eeee.......................eee...hhhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhh....eeehhhhhhhhhhhhh.....hhhhh...hhhhhh...eeee...................hhhhhhhhhhhh...eeeeehhhhhh........hhhhhhhhhhhhhhh....eeee.....eeeeee..........eeeeee....eeeeee.hhhhh..eeee.......eee.....eeeeee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w9x A   5 TNGTMMQYFEWHLPNDGQHWNRLRDDASNLRNRGITAIWIPPAWKGTSQNDVGYGAYDLYDLGEFNQKGTVRTKYGTRSQLESAIHALKNNGVQVYGDVVMNHKGGADATENVLAVEVNPNNRNQEISGDYTIEAWTKFDFPGRGNTYSDFKWRWYHFDGVDWDQSRQFQNRIYKFRGDGKAWDWEVDSENGNYDYLMYADVDMDHPEVVNELRRWGEWYTNTLNLDGFRIDAVKHIKYSFTRDWLTHVRNATGKEMFAVAEFWKNDLGALENYLNKTNWNHSVFDVPLHYNLYNASNSGGNYDMAKLLNGTVVQKHPMHAVTFVDNHDSQPGESLESFVQEWFKPLAYALILTREQGYPSVFYGDYYGIPTHSVPAMKAKIDPILEARQNFAYGTQHDYFDHHNIIGWTREGNTTHPNSGLATIMSDGPGGEKWMYVGQNKAGQVWHDITGNKPGTVTINADGWANFSVNGGSVSIWVKR 485
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484
   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: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1W9X)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: GHD (106)
(-)
Clan: Glyco_hydro_tim (488)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O82839_BACSP | O82839)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    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:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.

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        O82839_BACSP | O82839: 2die

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