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(-) Description

Title :  BETA-AMYLASE FROM BACILLUS CEREUS VAR. MYCOIDES
 
Authors :  T. Oyama, M. Kusunoki, Y. Kishimoto, Y. Takasaki, Y. Nitta
Date :  12 Mar 99  (Deposition) - 15 Mar 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Hydrolase, Beta-Amylase, Raw-Starch Binding Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Oyama, M. Kusunoki, Y. Kishimoto, Y. Takasaki, Y. Nitta
Crystal Structure Of Beta-Amylase From Bacillus Cereus Var. Mycoides At 2. 2 A Resolution.
J. Biochem. (Tokyo) V. 125 1120 1999
PubMed-ID: 10348915
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (1,4-ALPHA-D-GLUCAN MALTOHYDROLASE.)
    Cellular Location: EXTRACELLULAR
    Chains: A, B, C, D
    EC Number: 3.2.1.2
    Organism Scientific: BACILLUS CEREUS
    Organism Taxid: 1396
    Strain: BACILLUS CEREUS
    Variant: MYCOIDES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:56 , ASP A:60 , GLN A:61 , GLU A:141 , GLU A:144 , HOH A:602BINDING SITE FOR RESIDUE CA A 601
2AC2SOFTWAREGLU B:56 , ASP B:60 , GLN B:61 , GLU B:141 , GLU B:144 , HOH B:603BINDING SITE FOR RESIDUE CA B 602
3AC3SOFTWAREGLU C:56 , ASP C:60 , GLN C:61 , GLU C:141 , GLU C:144 , HOH C:604BINDING SITE FOR RESIDUE CA C 603
4AC4SOFTWAREGLU D:56 , ASP D:60 , GLN D:61 , GLU D:141 , GLU D:144 , HOH D:605BINDING SITE FOR RESIDUE CA D 604
5CAAAUTHORGLU A:172 , GLU A:367CATALYTIC RESIDUES
6CABAUTHORGLU B:172 , GLU B:367CATALYTIC RESIDUES
7CACAUTHORGLU C:172 , GLU C:367CATALYTIC RESIDUES
8CADAUTHORGLU D:172 , GLU D:367CATALYTIC RESIDUES

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:91 -A:99
2B:91 -B:99
3C:91 -C:99
4D:91 -D:99

(-) Cis Peptide Bonds  (16, 16)

Asymmetric Unit
No.Residues
1Tyr A:186 -Pro A:187
2Tyr A:340 -Pro A:341
3Leu A:396 -Arg A:397
4Asn A:503 -Pro A:504
5Tyr B:186 -Pro B:187
6Tyr B:340 -Pro B:341
7Leu B:396 -Arg B:397
8Asn B:503 -Pro B:504
9Tyr C:186 -Pro C:187
10Tyr C:340 -Pro C:341
11Leu C:396 -Arg C:397
12Asn C:503 -Pro C:504
13Tyr D:186 -Pro D:187
14Tyr D:340 -Pro D:341
15Leu D:396 -Arg D:397
16Asn D:503 -Pro D:504

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5BCA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5BCA)

(-) Exons   (0, 0)

(no "Exon" information available for 5BCA)

(-) 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:516
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d5bcaa2 A:1-417 Bacterial beta-amylase                                                                                                                                                                                                                                                                                                                                                                                           d5bcaa1 A:418-516 beta-amylase                                                                      SCOP domains
               CATH domains 5bcaA01 A:1-416 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                    5bcaA02 A:417-516 Immunoglobulins                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.......eeeee.....hhhh..hhhhhhhhhhhhh..eeeeeeeeehhhh..........hhhhhhhhhhhh...eeeeeee.................hhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhheeeeee...hhh.........................hhhhhhhhhhhhhhh..hhhhhhhh......hhh......hhhhhh.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.................hhhh....hhhhhhhhhhh..eeee................hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhhh....eeeeeeeee........eeeeee..hhh............eee....eeeeeeeee....eeeeeeee.....eeee....eee........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bca A   1 AVNGKGMNPDYKAYLMAPLKKIPEVTNWETFENDLRWAKQNGFYAITVDFWWGDMEKNGDQQFDFSYAQRFAQSVKNAGMKMIPIISTHQCGGNVGDDCNVPIPSWVWNQKSDDSLYFKSETGTVNKETLNPLASDVIRKEYGELYTAFAAAMKPYKDVIAKIYLSGGPAGELRYPSYTTSDGTGYPSRGKFQAYTEFAKSKFRLWVLNKYGSLNEVNKAWGTKLISELAILPPSDGEQFLMNGYLSMYGKDYLEWYQGILENHTKLIGELAHNAFDTTFQVPIGAKIAGVHWQYNNPTIPHGAEKPAGYNDYSHLLDAFKSAKLDVTFTCLEMTDKGSYPEYSMPKTLVQNIATLANEKGIVLNGENALSIGNEEEYKRVAEMAFNYNFAGFTLLRYQDVMYNNSLMGKFKDLLGVTPVMQTIVVKNVPTTIGDTVYITGNRAELGSWDTKQYPIQLYYDSHSNDWRGNVVLPAERNIEFKAFIKSKDGTVKSWQTIQQSWNPVPLKTTSHTSSW 516
                                    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       450       460       470       480       490       500       510      


Chain B from PDB  Type:PROTEIN  Length:516
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d5bcab2 B:1-417 Bacterial beta-amylase                                                                                                                                                                                                                                                                                                                                                                                           d5bcab1 B:418-516 beta-amylase                                                                      SCOP domains
               CATH domains 5bcaB01 B:1-416 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                    5bcaB02 B:417-516 Immunoglobulins                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.......eeeee.....hhhh..hhhhhhhhhhhhhh...eeeeeeehhhh..........hhhhhhhhhhhhh..eeeeeee.................hhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhheeeeee...hhh.........................hhhhhhhhhhhhhhh..hhhhhhh.......hhh......hhhhhh.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.................hhhh....hhhhhhhhhh...eeeee...............hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhhhh...eeeeeeeee........eeeeee..hhh............eee....eeeeeeeee....eeeeeeee.....eeee....eee........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bca B   1 AVNGKGMNPDYKAYLMAPLKKIPEVTNWETFENDLRWAKQNGFYAITVDFWWGDMEKNGDQQFDFSYAQRFAQSVKNAGMKMIPIISTHQCGGNVGDDCNVPIPSWVWNQKSDDSLYFKSETGTVNKETLNPLASDVIRKEYGELYTAFAAAMKPYKDVIAKIYLSGGPAGELRYPSYTTSDGTGYPSRGKFQAYTEFAKSKFRLWVLNKYGSLNEVNKAWGTKLISELAILPPSDGEQFLMNGYLSMYGKDYLEWYQGILENHTKLIGELAHNAFDTTFQVPIGAKIAGVHWQYNNPTIPHGAEKPAGYNDYSHLLDAFKSAKLDVTFTCLEMTDKGSYPEYSMPKTLVQNIATLANEKGIVLNGENALSIGNEEEYKRVAEMAFNYNFAGFTLLRYQDVMYNNSLMGKFKDLLGVTPVMQTIVVKNVPTTIGDTVYITGNRAELGSWDTKQYPIQLYYDSHSNDWRGNVVLPAERNIEFKAFIKSKDGTVKSWQTIQQSWNPVPLKTTSHTSSW 516
                                    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       450       460       470       480       490       500       510      


Chain C from PDB  Type:PROTEIN  Length:516
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d5bcac2 C:1-417 Bacterial beta-amylase                                                                                                                                                                                                                                                                                                                                                                                           d5bcac1 C:418-516 beta-amylase                                                                      SCOP domains
               CATH domains 5bcaC01 C:1-416 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                    5bcaC02 C:417-516 Immunoglobulins                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.......eeeee.....hhhh..hhhhhhhhhhhhh..eeeeeeeeehhhh..........hhhhhhhhhhhh...eeeeeee.................hhhhhh........................hhhhhhhhhhhhhhhhhh.hhhhhheeeeee...hhh.........................hhhhhhhhhhhhhhh..hhhhhhhh......hhh......hhhhhh.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.................hhhh....hhhhhhhhhhh..eeee................hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhhh....eeeeeeeee........eeeeee..hhh............eee....eeeeeeeee....eeeeeeee.....eeee....eee........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bca C   1 AVNGKGMNPDYKAYLMAPLKKIPEVTNWETFENDLRWAKQNGFYAITVDFWWGDMEKNGDQQFDFSYAQRFAQSVKNAGMKMIPIISTHQCGGNVGDDCNVPIPSWVWNQKSDDSLYFKSETGTVNKETLNPLASDVIRKEYGELYTAFAAAMKPYKDVIAKIYLSGGPAGELRYPSYTTSDGTGYPSRGKFQAYTEFAKSKFRLWVLNKYGSLNEVNKAWGTKLISELAILPPSDGEQFLMNGYLSMYGKDYLEWYQGILENHTKLIGELAHNAFDTTFQVPIGAKIAGVHWQYNNPTIPHGAEKPAGYNDYSHLLDAFKSAKLDVTFTCLEMTDKGSYPEYSMPKTLVQNIATLANEKGIVLNGENALSIGNEEEYKRVAEMAFNYNFAGFTLLRYQDVMYNNSLMGKFKDLLGVTPVMQTIVVKNVPTTIGDTVYITGNRAELGSWDTKQYPIQLYYDSHSNDWRGNVVLPAERNIEFKAFIKSKDGTVKSWQTIQQSWNPVPLKTTSHTSSW 516
                                    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       450       460       470       480       490       500       510      


Chain D from PDB  Type:PROTEIN  Length:516
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d5bcad2 D:1-417 Bacterial beta-amylase                                                                                                                                                                                                                                                                                                                                                                                           d5bcad1 D:418-516 beta-amylase                                                                      SCOP domains
               CATH domains 5bcaD01 D:1-416 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                                    5bcaD02 D:417-516 Immunoglobulins                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhh.......eeeee.....hhhh..hhhhhhhhhhhhhh.eeeeeeeeehhhh..........hhhhhhhhhhhhh..eeeeeee.................hhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhheeeeee...hhh.........................hhhhhhhhhhhhhhh..hhhhhhh.......hhh......hhhhhh.hhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee................hhhh....hhhhhhhhhhh..eeee................hhhhhhhhhhhhhhh...eeee.......hhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhhh....eeeeeeeee........eeeeee..hhh............eee....eeeeeeeee....eeeeeeee.....eeee....eee........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bca D   1 AVNGKGMNPDYKAYLMAPLKKIPEVTNWETFENDLRWAKQNGFYAITVDFWWGDMEKNGDQQFDFSYAQRFAQSVKNAGMKMIPIISTHQCGGNVGDDCNVPIPSWVWNQKSDDSLYFKSETGTVNKETLNPLASDVIRKEYGELYTAFAAAMKPYKDVIAKIYLSGGPAGELRYPSYTTSDGTGYPSRGKFQAYTEFAKSKFRLWVLNKYGSLNEVNKAWGTKLISELAILPPSDGEQFLMNGYLSMYGKDYLEWYQGILENHTKLIGELAHNAFDTTFQVPIGAKIAGVHWQYNNPTIPHGAEKPAGYNDYSHLLDAFKSAKLDVTFTCLEMTDKGSYPEYSMPKTLVQNIATLANEKGIVLNGENALSIGNEEEYKRVAEMAFNYNFAGFTLLRYQDVMYNNSLMGKFKDLLGVTPVMQTIVVKNVPTTIGDTVYITGNRAELGSWDTKQYPIQLYYDSHSNDWRGNVVLPAERNIEFKAFIKSKDGTVKSWQTIQQSWNPVPLKTTSHTSSW 516
                                    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       450       460       470       480       490       500       510
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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  (2, 8)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 8)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5BCA)

(-) Gene Ontology  (9, 17)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        AMYB_BACCE | P36924: 1b90 1b9z 1cqy 1itc 1j0y 1j0z 1j10 1j11 1j12 1j18 1vem 1ven 1veo 1vep
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(-) Related Entries Specified in the PDB File

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