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(-) Description

Title :  CRYSTAL STRUCTURE OF THE Q121E MUTANTS OF C.POLYSACCHAROLYTICUS CBM16-1 BOUND TO CELLOPENTAOSE
 
Authors :  V. Agarwal, S. K. Nair
Date :  12 Aug 10  (Deposition) - 25 Aug 10  (Release) - 15 Dec 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.35
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Carbohydrate Binding Domain, Cellopentaose, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Su, V. Agarwal, D. Dodd, B. Bae, R. I. Mackie, S. K. Nair, I. K. Cann
Mutational Insights Into The Roles Of Amino Acid Residues I Ligand Binding For Two Closely Related Family 16 Carbohydrate Binding Modules.
J. Biol. Chem. V. 285 34665 2010
PubMed-ID: 20739280  |  Reference-DOI: 10.1074/JBC.M110.168302

(-) Compounds

Molecule 1 - S-LAYER ASSOCIATED MULTIDOMAIN ENDOGLUCANASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET-28
    Fragment: UNP RESIDUES 614-756
    Gene: CELA
    Mutation: YES
    Organism Scientific: CALDANAEROBIUS POLYSACCHAROLYTICUS
    Organism Taxid: 44256

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
1BGC8Ligand/IonBETA-D-GLUCOSE
2CA2Ligand/IonCALCIUM ION
3GLC2Ligand/IonALPHA-D-GLUCOSE
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1BGC4Ligand/IonBETA-D-GLUCOSE
2CA-1Ligand/IonCALCIUM ION
3GLC1Ligand/IonALPHA-D-GLUCOSE
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1BGC4Ligand/IonBETA-D-GLUCOSE
2CA-1Ligand/IonCALCIUM ION
3GLC1Ligand/IonALPHA-D-GLUCOSE
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1BGC-1Ligand/IonBETA-D-GLUCOSE
2CA-1Ligand/IonCALCIUM ION
3GLC-1Ligand/IonALPHA-D-GLUCOSE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:9 , GLU A:11 , ASN A:33 , LEU A:36 , ASP A:137 , HOH A:311BINDING SITE FOR RESIDUE CA A 200
02AC2SOFTWAREGLY B:9 , GLU B:11 , ASN B:33 , LEU B:36 , ASP B:137 , HOH B:304BINDING SITE FOR RESIDUE CA B 200
03AC3SOFTWAREASN A:97 , BGC A:202 , HOH A:396 , HOH A:411 , HOH A:434 , HOH A:460 , HOH A:500BINDING SITE FOR RESIDUE GLC A 201
04AC4SOFTWAREASP A:77 , GLN A:93 , ILE A:95 , TRP A:125 , GLC A:201 , BGC A:203 , HOH A:374 , HOH A:427 , HOH A:434 , ASP B:15 , HOH B:321 , HOH B:398 , HOH B:427BINDING SITE FOR RESIDUE BGC A 202
05AC5SOFTWAREGLN A:81 , GLN A:93 , TRP A:125 , BGC A:202 , BGC A:204 , HOH A:374BINDING SITE FOR RESIDUE BGC A 203
06AC6SOFTWARETRP A:20 , GLN A:21 , GLN A:81 , GLU A:121 , TRP A:125 , BGC A:203 , BGC A:205 , HOH A:343 , HOH A:430 , HOH A:487BINDING SITE FOR RESIDUE BGC A 204
07AC7SOFTWARETRP A:20 , GLN A:21 , BGC A:204 , HOH A:306 , HOH A:312 , HOH A:330 , HOH A:365 , HOH A:457 , HOH A:490 , BGC B:204 , BGC B:205 , HOH B:358BINDING SITE FOR RESIDUE BGC A 205
08AC8SOFTWARESER A:-1 , HOH A:346 , ILE B:95 , ASN B:97 , BGC B:202 , HOH B:342 , HOH B:424 , HOH B:513BINDING SITE FOR RESIDUE GLC B 201
09AC9SOFTWAREASP B:77 , GLN B:93 , GLC B:201 , BGC B:203 , HOH B:336 , HOH B:407 , HOH B:415 , HOH B:422 , HOH B:498 , HOH B:510BINDING SITE FOR RESIDUE BGC B 202
10BC1SOFTWAREASP B:12 , VAL B:79 , GLN B:81 , GLN B:93 , ALA B:123 , TRP B:125 , BGC B:202 , BGC B:204 , HOH B:407 , HOH B:524BINDING SITE FOR RESIDUE BGC B 203
11BC2SOFTWAREBGC A:205 , TRP B:20 , GLN B:21 , GLN B:81 , GLU B:121 , TRP B:125 , BGC B:203 , BGC B:205 , HOH B:317 , HOH B:358 , HOH B:508BINDING SITE FOR RESIDUE BGC B 204
12BC3SOFTWAREBGC A:205 , HOH A:313 , HOH A:485 , TRP B:20 , BGC B:204 , HOH B:361 , HOH B:463 , HOH B:504 , HOH B:516BINDING SITE FOR RESIDUE BGC B 205

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OEA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OEA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OEA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OEA)

(-) Exons   (0, 0)

(no "Exon" information available for 3OEA)

(-) 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:146
 aligned with Q9ZA17_9THEO | Q9ZA17 from UniProtKB/TrEMBL  Length:1097

    Alignment length:150
                                   616       626       636       646       656       666       676       686       696       706       716       726       736       746       756
         Q9ZA17_9THEO   607 VKMGEGGVNMVSNPGFEDGLDSWQDWQQDMSAVPEAAHNGALGLKIGGGKAAGGGQDIPLKPNTTYILGAWAKFDSKPAGTFDVVVQYHLKDANNTYVQHILNFNETDWTYKQLLFTTPDVFGSTPQLALWKGDTSKANLYVDDVYLVEV 756
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee----e...............ee....eeeehhhh.....eeee.....eeeeee.......eeeeeeeeee.......eeeeeeee.......eeeeeeee.....eeeeeeee.........eeeeee.......eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3oea A  -1 SHM----VNMVSNPGFEDGLDSWQDWQQDMSAVPEAAHNGALGLKIGGGKAAGGGQDIPLKPNTTYILGAWAKFDSKPAGTFDVVVQYHLKDANNTYVQHILNFNETDWTYKQLLFTTPDVFGSTPELALWKGDTSKANLYVDDVYLVEV 144
                              |    | 4        14        24        34        44        54        64        74        84        94       104       114       124       134       144
                              1    2                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:146
 aligned with Q9ZA17_9THEO | Q9ZA17 from UniProtKB/TrEMBL  Length:1097

    Alignment length:150
                                   616       626       636       646       656       666       676       686       696       706       716       726       736       746       756
         Q9ZA17_9THEO   607 VKMGEGGVNMVSNPGFEDGLDSWQDWQQDMSAVPEAAHNGALGLKIGGGKAAGGGQDIPLKPNTTYILGAWAKFDSKPAGTFDVVVQYHLKDANNTYVQHILNFNETDWTYKQLLFTTPDVFGSTPQLALWKGDTSKANLYVDDVYLVEV 756
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) -------CBM_4_9-3oeaB01 B:2-131                                                                                                           ------------- Pfam domains (1)
           Pfam domains (2) -------CBM_4_9-3oeaB02 B:2-131                                                                                                           ------------- Pfam domains (2)
         Sec.struct. author .ee----ee..............ee....eeeehhhh.....eeee.....eeeeee.......eeeeeeeeee.......eeeeeeee.......eeeeeeee.....eeeeeeee.........eeeeee.......eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3oea B  -1 SHM----VNMVSNPGFEDGLDSWQDWQQDMSAVPEAAHNGALGLKIGGGKAAGGGQDIPLKPNTTYILGAWAKFDSKPAGTFDVVVQYHLKDANNTYVQHILNFNETDWTYKQLLFTTPDVFGSTPELALWKGDTSKANLYVDDVYLVEV 144
                              |    | 4        14        24        34        44        54        64        74        84        94       104       114       124       134       144
                              1    2
   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 3OEA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OEA)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: GBD (153)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9ZA17_9THEO | Q9ZA17)
molecular function
    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: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.
    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.

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 Related Entries

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        Q9ZA17_9THEO | Q9ZA17: 2zew 2zex 2zey 2zez 3oeb

(-) Related Entries Specified in the PDB File

3oeb