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(-) Description

Title :  STRUCTURE OF ENDOGLUCANASE 12A (CEL12A) FROM RHODOTHERMUS MARINUS IN COMPLEX WITH CELLOPENTAOSE, 20 MINUTE SOAK.
 
Authors :  S. J. Crennell, E. Nordberg-Karlsson
Date :  13 Jul 05  (Deposition) - 21 Dec 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.68
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hydrolase, Endoglucanase, Cellulase, Glycoside Hydrolase Family 12, Cellopentaose (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. J. Crennell, D. Cook, A. Minns, D. Svergun, R. L. Andersen, E. Nordberg-Karlsson
Dimerisation And An Increase In Active Site Aromatic Groups As Adaptations To High Temperatures: X-Ray Solution Scattering And Substrate-Bound Crystal Structures Of Rhodothermus Marinus Endoglucanase Cel12A.
J. Mol. Biol. V. 356 57 2006
PubMed-ID: 16343530  |  Reference-DOI: 10.1016/J.JMB.2005.11.004

(-) Compounds

Molecule 1 - ENDOGLUCANASE
    Chains: A, B
    EC Number: 3.2.1.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: (SP, L)CEL12A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Variant: DE3
    Organism Scientific: RHODOTHERMUS MARINUS
    Organism Taxid: 29549
    Other Details: MARINE THERMOPHILIC EUBACTERIUM IOSLATED FROM ALKALINE SUBMARINE HOT SPRINGS
    Strain: ITI-378

 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  (4, 17)

Asymmetric Unit (4, 17)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2GLC2Ligand/IonALPHA-D-GLUCOSE
3GOL11Ligand/IonGLYCEROL
4SO41Ligand/IonSULFATE ION
Biological Unit 1 (4, 10)
No.NameCountTypeFull Name
1BGC2Ligand/IonBETA-D-GLUCOSE
2GLC1Ligand/IonALPHA-D-GLUCOSE
3GOL6Ligand/IonGLYCEROL
4SO41Ligand/IonSULFATE ION
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GLC1Ligand/IonALPHA-D-GLUCOSE
3GOL5Ligand/IonGLYCEROL
4SO4-1Ligand/IonSULFATE ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:26 , TYR A:59 , ASP A:106 , TRP A:108 , GLU A:124 , MET A:126 , TRP A:159 , TRP A:161 , TYR A:163 , GLU A:207 , GOL A:1002 , BGC A:1004 , HOH A:2248BINDING SITE FOR RESIDUE GLC A1003
02AC2SOFTWAREASN A:24 , TRP A:26 , HIS A:67 , TRP A:68 , GLC A:1003 , BGC A:1005 , HOH A:2249BINDING SITE FOR RESIDUE BGC A1004
03AC3SOFTWARETRP A:9 , TRP A:68 , BGC A:1004 , GOL A:1228 , HOH A:2250 , ASN B:114BINDING SITE FOR RESIDUE BGC A1005
04AC4SOFTWARETRP B:26 , TYR B:59 , ASP B:106 , TRP B:108 , GLU B:124 , TRP B:159 , TRP B:161 , TYR B:163 , GLU B:207 , GOL B:1002 , BGC B:1004BINDING SITE FOR RESIDUE GLC B1003
05AC5SOFTWAREASN B:24 , TYR B:59 , HIS B:67 , TRP B:68 , GLC B:1003 , HOH B:2203 , HOH B:2204BINDING SITE FOR RESIDUE BGC B1004
06AC6SOFTWARETHR A:113 , ASN A:114 , ARG A:190 , HOH A:2159 , HOH A:2160 , HOH A:2254 , HOH A:2256BINDING SITE FOR RESIDUE SO4 A3001
07AC7SOFTWAREGLY A:139 , TRP A:159 , GOL A:1002BINDING SITE FOR RESIDUE GOL A1001
08AC8SOFTWAREVAL A:56 , MET A:126 , TRP A:128 , GLY A:138 , TRP A:159 , TYR A:163 , GLU A:207 , GOL A:1001 , GLC A:1003 , HOH A:2082BINDING SITE FOR RESIDUE GOL A1002
09AC9SOFTWAREGLY A:53 , ASN A:54 , ARG A:100 , VAL A:135 , MET A:136 , TRP A:209 , HOH A:2152BINDING SITE FOR RESIDUE GOL A1006
10BC1SOFTWAREARG A:20 , ILE A:22 , TYR A:63 , HIS A:67 , TRP A:68 , ALA A:70 , BGC A:1005 , HOH A:2251 , ASN B:117BINDING SITE FOR RESIDUE GOL A1228
11BC2SOFTWAREARG A:168 , THR A:170 , PRO A:171 , GOL A:1230 , HOH A:2253BINDING SITE FOR RESIDUE GOL A1229
12BC3SOFTWAREALA A:150 , THR A:151 , THR A:169 , GOL A:1229BINDING SITE FOR RESIDUE GOL A1230
13BC4SOFTWAREGLY B:138 , GLY B:139 , GOL B:1002 , HOH B:2131BINDING SITE FOR RESIDUE GOL B1001
14BC5SOFTWAREVAL B:56 , MET B:126 , TRP B:128 , GLY B:138 , TRP B:159 , TYR B:163 , GLU B:207 , GOL B:1001 , GLC B:1003BINDING SITE FOR RESIDUE GOL B1002
15BC6SOFTWAREARG B:88 , ALA B:148 , HOH B:2205 , HOH B:2206BINDING SITE FOR RESIDUE GOL B1228
16BC7SOFTWARETRP B:131 , ASN B:132 , GLY B:133 , GLY B:134BINDING SITE FOR RESIDUE GOL B1229
17BC8SOFTWAREASP A:13 , TRP B:9 , ARG B:20 , ASN B:24 , HIS B:67 , HOH B:2014 , HOH B:2207BINDING SITE FOR RESIDUE GOL B1230

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:6 -A:33
2A:66 -A:71
3B:6 -B:33
4B:66 -B:71

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Leu A:77 -Pro A:78
2Leu B:77 -Pro B:78

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BWA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BWA)

(-) Exons   (0, 0)

(no "Exon" information available for 2BWA)

(-) 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:226
 aligned with O33897_RHOMR | O33897 from UniProtKB/TrEMBL  Length:260

    Alignment length:226
                                                                                                                  125                                                                                                                                         
                                                                                                                124 |                                                                                                                                    260  
                                    47        57        67        77        87        97       107       117      |126       136       146       156       166       176       186       196       206       216       226       236       246       256   |  
         O33897_RHOMR    38 TVELCGRWDARDVAGGRYRVINNVWGAETAQCIEVGLETGNFTITRADHDNGNNVAAYPAIYFGCHWAPARAIRDCAARAGAVRRAH-ELDVTPITTGRWNAAYDIWFSPVTNSGNGYSGGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWNYIAYRRTTPTTSVSELDLKAFIDDAVARGYIRPEWYLHAVETGFELWEGGAGLRTADFSVTVQ--   -
               SCOP domains d2bwaa_ A: Family 12 endo-1,4-beta-glucanase (cellulase) catalytic domain                                                                                                                                                          SCOP domains
               CATH domains 2bwaA00 A:2-227  [code=2.60.120.180, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.....eeee....eeee.........eeeee......eeeeee............eeeeeee..ee............eeeeeeeeeee......eeeeeeeeee............eeeeeeeeee.......eeeeeee...eeeeeeeee...eeeeeee.....eeeeeehhhhhhhhhhh.......eeeeeeee..........eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bwa A   2 TVELCGRWDARDVAGGRYRVINNVWGAETAQCIEVGLETGNFTITRADHDNGNNVAAYPAIYFGCHWGACTSNSGLPRRVQELSDVRTSWTLTPITTGRWNAAYDIWFSPVTNSGNGYSGGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWNYIAYRRTTPTTSVSELDLKAFIDDAVARGYIRPEWYLHAVETGFELWEGGAGLRSADFSVTVQKL 227
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221      


Chain B from PDB  Type:PROTEIN  Length:226
 aligned with O33897_RHOMR | O33897 from UniProtKB/TrEMBL  Length:260

    Alignment length:226
                                                                                                                  125                                                                                                                                         
                                                                                                                124 |                                                                                                                                    260  
                                    47        57        67        77        87        97       107       117      |126       136       146       156       166       176       186       196       206       216       226       236       246       256   |  
         O33897_RHOMR    38 TVELCGRWDARDVAGGRYRVINNVWGAETAQCIEVGLETGNFTITRADHDNGNNVAAYPAIYFGCHWAPARAIRDCAARAGAVRRAH-ELDVTPITTGRWNAAYDIWFSPVTNSGNGYSGGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWNYIAYRRTTPTTSVSELDLKAFIDDAVARGYIRPEWYLHAVETGFELWEGGAGLRTADFSVTVQ--   -
               SCOP domains d2bwab_ B: Family 12 endo-1,4-beta-glucanase (cellulase) catalytic domain                                                                                                                                                          SCOP domains
               CATH domains 2bwaB00 B:2-227  [code=2.60.120.180, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.....eeee....eeee.........eeeee......eeeeee............eeeeeee..ee............eeeeeeeeeee......eeeeeeeeee............eeeeeeeeee.......eeeeeee...eeeeeeeee...eeeeeee.....eeeeeehhhhhhhhhhh.......eeeeeeee..........eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bwa B   2 TVELCGRWDARDVAGGRYRVINNVWGAETAQCIEVGLETGNFTITRADHDNGNNVAAYPAIYFGCHWGACTSNSGLPRRVQELSDVRTSWTLTPITTGRWNAAYDIWFSPVTNSGNGYSGGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWNYIAYRRTTPTTSVSELDLKAFIDDAVARGYIRPEWYLHAVETGFELWEGGAGLRSADFSVTVQKL 227
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221
   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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BWA)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (O33897_RHOMR | O33897)
molecular function
    GO:0008810    cellulase activity    Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
    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.
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.
    GO:0000272    polysaccharide catabolic process    The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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 Related Entries

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

UniProtKB/TrEMBL
        O33897_RHOMR | O33897: 1h0b 2bw8 2bwc 3b7m

(-) Related Entries Specified in the PDB File

1h0b ENDOGLUCANASE CEL12A FROM RHODOTHERMUS MARINUS
2bw8 NATIVE STRUCTURE OF ENDOGLUCANASE 12A (CEL12A ) FROM RHODOTHERMUS MARINUS
2bwc STRUCTURE OF ENDOGLUCANASE 12A (CEL12A) FROM RHODOTHERMUS MARINUS IN COMPLEX WITH CELLOPENTAOSE (5 MINUTE SOAK)