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(-) Description

Title :  THE STRUCTURE OF WILD-TYPE MALL FROM BACILLUS SUBTILIS
 
Authors :  J. K. Hobbs, W. Jiao, A. D. Easter, E. J. Parker, L. A. Schipper, V. L. Arcu
Date :  08 Aug 13  (Deposition) - 02 Oct 13  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Tim Barrel, Glucosidase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. K. Hobbs, W. Jiao, A. D. Easter, E. J. Parker, L. A. Schipper, V. L. Arcus
Change In Heat Capacity For Enzyme Catalysis Determines Temperature Dependence Of Enzyme Catalyzed Rates.
Acs Chem. Biol. V. 8 2388 2013
PubMed-ID: 24015933  |  Reference-DOI: 10.1021/CB4005029

(-) Compounds

Molecule 1 - OLIGO-1,6-GLUCOSIDASE 1
    Chains: A, B
    EC Number: 3.2.1.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTB
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PPROEX
    Gene: MALL, YVDL, BSU34560
    Organism Scientific: BACILLUS SUBTILIS SUBSP. SUBTILIS
    Organism Taxid: 224308
    Strain: 168
    Synonym: DEXTRIN 6-ALPHA-D-GLUCANOHYDROLASE, OLIGOSACCHARIDE ALPHA-1, 6-GLUCOSIDASE 1, SUCRASE-ISOMALTASE 1, ISOMALTASE 1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1GLO2Ligand/IonD-GLUCOSE IN LINEAR FORM
2GOL2Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1GLO1Ligand/IonD-GLUCOSE IN LINEAR FORM
2GOL1Ligand/IonGLYCEROL
3SO4-1Ligand/IonSULFATE ION
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
1GLO1Ligand/IonD-GLUCOSE IN LINEAR FORM
2GOL1Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:59 , TYR A:62 , HIS A:102 , ILE A:143 , PHE A:144 , PHE A:163 , ASP A:199 , VAL A:200 , GLU A:255 , LYS A:296 , ASP A:332 , GLU A:389 , ARG A:418 , HOH A:710 , HOH A:953BINDING SITE FOR RESIDUE GLO A 601
2AC2SOFTWARETHR A:280 , HIS A:283 , MET A:311 , ASN A:324 , THR A:325BINDING SITE FOR RESIDUE GOL A 602
3AC3SOFTWARELYS B:266 , ARG B:272 , HOH B:1086BINDING SITE FOR RESIDUE SO4 B 601
4AC4SOFTWAREHIS B:283 , MET B:311 , TRP B:314 , ASN B:324 , THR B:325 , LEU B:326 , TYR B:327BINDING SITE FOR RESIDUE GOL B 602
5AC5SOFTWAREASP B:59 , ASP B:199 , VAL B:200 , GLU B:255 , LYS B:296 , ASP B:332 , GLU B:389 , ARG B:418 , HOH B:866 , HOH B:966BINDING SITE FOR RESIDUE GLO B 603

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M56)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4M56)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M56)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M56)

(-) Exons   (0, 0)

(no "Exon" information available for 4M56)

(-) 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:555
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4m56a1 A:3-482 automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                            d4m56a2 A:483-561 automated matches                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeehhhhh.........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.hhhhhhhhhhhhhhhhhhh..eeeeee........hhhhhhhh......hhhhh.ee....................eee......eee.............hhhhhhhhhhhhhhhhh....eeee.hhhhh................hhhhh...hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee...hhhhhh.....hhhhh....hhhhhhhhhhhhhhhh......ee........hhhhhhh....hhhhhhhhhhhhhhh...eeeee.hhhhh......hhhhh.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.......hhhhhh...........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..eee......eeeeeeee..eeeeeeee.....eeee.hhhhh...eeeeee.........eeee....eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m56 A   3 EWWKEAVVYQIYPRSFYDANGDGFGDLQGVIQKLDYIKNLGADVIWLSPVFDSPQDDNGYDISDYKNMYEKFGTNEDMFQLIDEVHKRGMKIVMDLVVNHTSDEHAWFAESRKSKDNPYRDYYLWKDPKPDGSEPNNWGSIFSGSAWTYDEGTGQYYLHYFSKKQPDLNWENEAVRREVYDVMRFWMDRGVDGWRMDVIGSISKYTDFPDYETRSYIVGRYHSNGPRLHEFIQEMNREVLSHYDCMTVGEANGSDIEEAKKYTDASRQELNMIFTFEHMDIDKEQNSPNGKWQIKPFDLIALKKTMTRWQTGLMNVGWNTLYFENHDQPRVISRWGNDRKLRKECAKAFATVLHGMKGTPFIYQGEEIGMVNSDMPLEMYDDLEIKNAYRELVVENKTMSEKEFVKAVMIKGRDHARTPMQWDAGKHAGFTAGDPWIPVNSRYQDINVKESLEDQDSIFFYYQKLIQLRKQYKIMIYGDYQLLQENDPQVFSYLREYRGEKLLVVVNLSEEKALFEAPPELIHERWKVLISNYPQRADLKSISLKPYEAVMGISI 561
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212  ||   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       525       535    || 546       556     
                                                                                                                                                                                                                                              215|                                                                                                                                                                                                                                                                                                                              540|                   
                                                                                                                                                                                                                                               219                                                                                                                                                                                                                                                                                                                               542                   


Chain B from PDB  Type:PROTEIN  Length:556
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4m56b1 B:3-482 automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                            d4m56b2 B:483-561 automated matches                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeehhhhh.........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.....hhhhhhhhhhhhhhh..eeeeee........hhhhhhhh......hhhhh.ee....................eee......eee.............hhhhhhhhhhhhhhhhh....eeee.hhhhh................hhhhh...hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee...hhhhhh.....hhhhh....hhhhhhhhhhhhhhhh......ee........hhhhhhh....hhhhhhhhhhhhhhh...eeeee.hhhhh......hhhhh.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.......hhhhhh...........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..eee......eeeeeeee..eeeeeeee.....eeee.hhhhh...eeeeee..........eeee....eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m56 B   3 EWWKEAVVYQIYPRSFYDANGDGFGDLQGVIQKLDYIKNLGADVIWLSPVFDSPQDDNGYDISDYKNMYEKFGTNEDMFQLIDEVHKRGMKIVMDLVVNHTSDEHAWFAESRKSKDNPYRDYYLWKDPKPDGSEPNNWGSIFSGSAWTYDEGTGQYYLHYFSKKQPDLNWENEAVRREVYDVMRFWMDRGVDGWRMDVIGSISKYTDFPDYETRSYIVGRYHSNGPRLHEFIQEMNREVLSHYDCMTVGEANGSDIEEAKKYTDASRQELNMIFTFEHMDIDKEQNSPNGKWQIKPFDLIALKKTMTRWQTGLMNVGWNTLYFENHDQPRVISRWGNDRKLRKECAKAFATVLHGMKGTPFIYQGEEIGMVNSDMPLEMYDDLEIKNAYRELVVENKTMSEKEFVKAVMIKGRDHARTPMQWDAGKHAGFTAGDPWIPVNSRYQDINVKESLEDQDSIFFYYQKLIQLRKQYKIMIYGDYQLLQENDPQVFSYLREYRGEKLLVVVNLSEEKALFEAPPELIHERWKVLISNYPQERADLKSISLKPYEAVMGISI 561
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212  ||   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       525       535       545       555      
                                                                                                                                                                                                                                              215|                                                                                                                                                                                                                                                                                                                                                      
                                                                                                                                                                                                                                               219
   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, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M56)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M56)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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        O16G1_BACSU | O06994: 4m8u 4maz 4mb1

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