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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN AN INACTIVE MUTANT OF PSYCHROPHILIC ALPHA-AMYLASE (D174N) AND ACARBOSE
 
Authors :  N. Aghajari, R. Haser
Date :  31 Jan 02  (Deposition) - 19 Jun 02  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  (Beta/Alpha)8 Barrel, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Aghajari, M. Roth, R. Haser
Crystallographic Evidence Of A Transglycosylation Reaction: Ternary Complexes Of A Psychrophilic Alpha-Amylase.
Biochemistry V. 41 4273
PubMed-ID: 11914073  |  Reference-DOI: 10.1021/BI0160516
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ALPHA-AMYLASE
    Chains: A
    EC Number: 3.2.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: PSEUDOALTEROMONAS HALOPLANKTIS
    Organism Taxid: 228

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ACR1Ligand/IonALPHA-ACARBOSE
2CA1Ligand/IonCALCIUM ION
3CL1Ligand/IonCHLORIDE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:47 , TYR A:50 , GLN A:51 , HIS A:89 , VAL A:140 , ASN A:174 , ALA A:175 , ASN A:192 , GLU A:200 , ASP A:264 , HIS A:269 , HOH A:1128 , HOH A:1375BINDING SITE FOR RESIDUE ACR A 598
2AC2SOFTWAREASN A:88 , GLN A:135 , ASP A:144 , HIS A:178 , HOH A:1091 , HOH A:1107 , HOH A:1108BINDING SITE FOR RESIDUE CA A 800
3AC3SOFTWAREARG A:172 , ASN A:262 , LYS A:300BINDING SITE FOR RESIDUE CL A 900

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:20 -A:74
2A:120 -A:137
3A:328 -A:335
4A:402 -A:416

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1KXH)

(-) 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:448
 aligned with AMY_PSEHA | P29957 from UniProtKB/Swiss-Prot  Length:669

    Alignment length:448
                                    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        
            AMY_PSEHA    25 TPTTFVHLFEWNWQDVAQECEQYLGPKGYAAVQVSPPNEHITGSQWWTRYQPVSYELQSRGGNRAQFIDMVNRCSAAGVDIYVDTLINHMAAGSGTGTAGNSFGNKSFPIYSPQDFHESCTINNSDYGNDRYRVQNCELVGLADLDTASNYVQNTIAAYINDLQAIGVKGFRFDASKHVAASDIQSLMAKVNGSPVVFQEVIDQGGEAVGASEYLSTGLVTEFKYSTELGNTFRNGSLAWLSNFGEGWGFMPSSSAVVFVDNHDNQRGHGGAGNVITFEDGRLYDLANVFMLAYPYGYPKVMSSYDFHGDTDAGGPNVPVHNNGNLECFASNWKCEHRWSYIAGGVDFRNNTADNWAVTNWWDNTNNQISFGRGSSGHMAINKEDSTLTATVQTDMASGQYCNVLKGELSADAKSCSGEVITVNSDGTINLNIGAWDAMAIHKNAKLN 472
               SCOP domains d1kxha2 A:1-354 Bacterial alpha-amylase                                                                                                                                                                                                                                                                                                                           d1kxha1 A:355-448 Bacterial alpha-Amylase                                                      SCOP domains
               CATH domains 1kxhA01 A:1-354 Glycosidases                                                                                                                                                                                                                                                                                                                                      1kxhA02 A:355-447 Golgi alpha-mannosidase II                                                 - CATH domains
               Pfam domains ----------Alpha-amylase-1kxhA02 A:11-303                                                                                                                                                                                                                                                                       ---------------------------------------------------------Alpha-amylase_C-1kxhA01 A:361-446                                                     -- Pfam domains
         Sec.struct. author ....eeee...hhhhhhhhhhhhhhhhh..eeee..........hhhhhhh...........hhhhhhhhhhhhhhh..eeeeeee..ee....ee.....ee........hhhhh........hhhhhhhhhhhhh.....ee....hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhh.....eeee..........hhhhhh...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eee.....hhhhh........hhhhhhhhhhhhhhhhhh...eeeeee.................ee..ee........hhhhhhhhhhhhhhhhhh......eeeee....eeeee....eeeeee........eee.....eeee.................eeee....eee......eeeeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kxh A   1 TPTTFVHLFEWNWQDVAQECEQYLGPKGYAAVQVSPPNEHITGSQWWTRYQPVSYELQSRGGNRAQFIDMVNRCSAAGVDIYVDTLINHMAAGSGTGTAGNSFGNKSFPIYSPQDFHESCTINNSDYGNDRYRVQNCELVGLADLDTASNYVQNTIAAYINDLQAIGVKGFRFNASKHVAASDIQSLMAKVNGSPVVFQEVIDQGGEAVGASEYLSTGLVTEFKYSTELGNTFRNGSLAWLSNFGEGWGFMPSSSAVVFVDNHDNQRGHGGAGNVITFEDGRLYDLANVFMLAYPYGYPKVMSSYDFHGDTDAGGPNVPVHNNGNLECFASNWKCEHRWSYIAGGVDFRNNTADNWAVTNWWDNTNNQISFGRGSSGHMAINKEDSTLTATVQTDMASGQYCNVLKGELSADAKSCSGEVITVNSDGTINLNIGAWDAMAIHKNAKLN 448
                                    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       370       380       390       400       410       420       430       440
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (2, 2)

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

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AMY_PSEHA | P29957)
molecular function
    GO:0004556    alpha-amylase activity    Catalysis of the endohydrolysis of (1->4)-alpha-D-glucosidic linkages in polysaccharides containing three or more alpha-(1->4)-linked D-glucose units.
    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:0043169    cation binding    Interacting selectively and non-covalently with cations, charged atoms or groups of atoms with a net positive charge.
    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:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any 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.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  3.2.1.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        AMY_PSEHA | P29957: 1aqh 1aqm 1b0i 1g94 1g9h 1jd7 1jd9 1l0p

(-) Related Entries Specified in the PDB File

1aqh NATIVE STRUCTURE OF WILDTYPE AHA
1aqm COMPLEX NATIVE AHA/TRIS
1boi NATIVE STRUCTURE OF RECOMBINANT AHA
1g94 COMPLEX NATIVE AHA/ACARBOSE/TRIS
1g9h COMPLEX NATIVE AHA/COMPONENT II/TRIS