Carbohydrate Binding Module Family 10 - Revision history

Harry Brumer: Text replacement - "\^\^\^(.*)\^\^\^" to "$1"

2021-12-18T21:20:50Z

Text replacement - "\^\^\^(.*)\^\^\^" to "$1"

Elizabeth Ficko-Blean at 16:03, 6 March 2018

2018-03-06T16:03:08Z

Elizabeth Ficko-Blean at 16:02, 6 March 2018

2018-03-06T16:02:53Z

Harry Gilbert: /* Family Firsts */

2018-02-07T16:39:41Z

Family Firsts

Harry Gilbert: /* Functionalities */

2018-02-07T16:38:59Z

Functionalities

Harry Gilbert: /* Structural Features */

2018-02-07T16:37:48Z

Structural Features

Harry Brumer: /* Structural Features */ fixed broken image link

2018-02-05T23:39:09Z

Structural Features: fixed broken image link

Harry Gilbert: /* Structural Features */

2018-02-05T22:36:51Z

Structural Features

Harry Brumer: /* Family Firsts */

2018-01-31T19:05:42Z

Family Firsts

Harry Gilbert: /* Structural Features */

2018-01-17T11:30:52Z

Structural Features

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 <!-- RESPONSIBLE CURATORS: Please replace the {{UnderConstruction}} tag below with {{CuratorApproved}} when the page is ready for wider public consumption -->
 {{CuratorApproved}}
-* [[Author]]: ^^^Harry Gilbert^^^
+* [[Author]]: [[User:Harry Gilbert|Harry Gilbert]]
-* [[Responsible Curator]]:  ^^^Elizabeth Ficko-Blean^^^
+* [[Responsible Curator]]:  [[User:Elizabeth Ficko-Blean|Elizabeth Ficko-Blean]]
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 CBM10 modules generally comprise ~45 amino acids. The structure of the protein from the ''Cellvibrio japonicus'' GH10 xylanase Xyn10A was determined by NMR (see [{{PDBlink}}1E8R PDB ID 1E8R])   <cite>Raghothama2000</cite>. The proteins displays a oligonucleotide/oligosaccharide-binding (OB) fold and is the only CBM family, to date, to adopt this secondary structure. The structure of CBM10 consists of five β-strands, organized as two antiparallel sheets, one of three strands (β-sheet 1) and one of two (β-sheet 2) that are approximately perpendicular to each other. The structure also contains a short stretch of α-helix. The protein is stabilized by two disulfide bridges.
-The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 module with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10 members. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a [[Carbohydrate-binding_modules#Types|type A]]CBM.
+The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 module with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10 members. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a [[Carbohydrate-binding_modules#Types|type A]] CBM.
 == Functionalities ==

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 CBM10 modules generally comprise ~45 amino acids. The structure of the protein from the ''Cellvibrio japonicus'' GH10 xylanase Xyn10A was determined by NMR (see [{{PDBlink}}1E8R PDB ID 1E8R])   <cite>Raghothama2000</cite>. The proteins displays a oligonucleotide/oligosaccharide-binding (OB) fold and is the only CBM family, to date, to adopt this secondary structure. The structure of CBM10 consists of five β-strands, organized as two antiparallel sheets, one of three strands (β-sheet 1) and one of two (β-sheet 2) that are approximately perpendicular to each other. The structure also contains a short stretch of α-helix. The protein is stabilized by two disulfide bridges.
-The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 module with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10 members. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a type A CBM.
+The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 module with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10 members. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a [[Carbohydrate-binding_modules#Types|type A]]CBM.
 == Functionalities ==

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 == Family Firsts ==
-;First Identified: CBM10s were first discovered in the xylanase Xyn11A (formerly XynE) from ''C. japonicus'' <cite>Millward-Sadler1995</cite>.
+;First Identified: CBM10 modules were first discovered in the xylanase Xyn11A (formerly XynE) from ''C. japonicus'' <cite>Millward-Sadler1995</cite>.
-;First structural characterization: The first 3D structure of a CBM10, which was determined by NMR, was from the ''C. japonicus'' xylanase Xyn10A <cite>Raghothama2000</cite>.
+;First structural characterization: The first 3D structure of a CBM10 module, which was determined by NMR, was from the ''C. japonicus'' xylanase Xyn10A <cite>Raghothama2000</cite>.
 == References ==

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 == Functionalities ==
-CBM10s have been observed in characterized cellulases <cite>Hall1995</cite>, xylanases <cite>Millward-Sadler1995,Gill1999</cite>, mannanases <cite>Hogg2003</cite> and lytic polysaccharide monooxygenases (LPMOs) <cite>Crouch2016</cite>. Many of these modular enzymes contain CBMs in addition to CBM10, with CBM10-CBM2 modular motifs being particularly common in glycoside hydrolases from ''C. japonicus'' <cite>DeBoy2008</cite> and ''Saccharophagus degradans'' <cite>Weiner2008</cite>. CBM10s were shown to enhance the activity of cellulases <cite>Gill1999</cite> and LPMOs <cite>Crouch2016</cite> against crystalline cellulose, and it was proposed that this capacity to boost catalytic function was through increasing the local concentration or proximity of the enzyme in the vicinity of the substrate. CBM10-CBM2 combinations in single enzymes did not increase affinity through avidity effects or act synergistically to enhance cellulase activity <cite>Gill1999</cite>. Fluorescent imaging studies showed that the type A CBM2 and CBM10 cellulose binding modules, derived from ''C. japonicas'' Xyn10A, displayed differential binding to plant cell walls that was dependent upon cell type, tissue, and taxon of origin <cite>Blake2006</cite>. These modules are deployed in the exploration of the architecture of plant cell walls <cite>Blake2006,McCartney2004</cite>.
+CBM10 modules have been observed in characterized cellulases <cite>Hall1995</cite>, xylanases <cite>Millward-Sadler1995,Gill1999</cite>, mannanases <cite>Hogg2003</cite> and lytic polysaccharide monooxygenases (LPMOs) <cite>Crouch2016</cite>. Many of these modular enzymes contain CBMs in addition to a CBM10 member, with CBM10-CBM2 modular motifs being particularly common in glycoside hydrolases from ''C. japonicus'' <cite>DeBoy2008</cite> and ''Saccharophagus degradans'' <cite>Weiner2008</cite>. CBM10s were shown to enhance the activity of cellulases <cite>Gill1999</cite> and LPMOs <cite>Crouch2016</cite> against crystalline cellulose, and it was proposed that this capacity to boost catalytic function was through increasing the local concentration or proximity of the enzyme in the vicinity of the substrate. CBM10-CBM2 combinations in single enzymes did not increase affinity through avidity effects or act synergistically to enhance cellulase activity <cite>Gill1999</cite>. Fluorescent imaging studies showed that the type A CBM2 and CBM10 cellulose binding modules, derived from ''C. japonicas'' Xyn10A, displayed differential binding to plant cell walls that was dependent upon cell type, tissue, and taxon of origin <cite>Blake2006</cite>. These modules are deployed in the exploration of the architecture of plant cell walls <cite>Blake2006,McCartney2004</cite>.
 == Family Firsts ==

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 == Structural Features ==
-[[File:CBM10structure.png|thumb|300px|right|'''Figure 1.'''  The fold of the CBM10 from ''C. japonicus'' Xyn10A (see [{{PDBlink}}1E8R PDB ID 1E8R]) highlighting the three planar aromatic residues.]]
+[[File:CBM10structure.png|thumb|300px|right|'''Figure 1.'''  The fold of the CBM10 module from ''C. japonicus'' Xyn10A (see [{{PDBlink}}1E8R PDB ID 1E8R]) highlighting the three planar aromatic residues.]]
-CBM10s generally comprise ~45 amino acids. The structure of the protein from the ''Cellvibrio japonicus'' GH10 xylanase Xyn10A was determined by NMR (see [{{PDBlink}}1E8R PDB ID 1E8R])   <cite>Raghothama2000</cite>. The proteins displays a oligonucleotide/oligosaccharide-binding (OB) fold and is the only CBM family, to date, to adopt this secondary structure. The structure of CBM10 consists of five β-strands, organized as two antiparallel sheets, one of three strands (β-sheet 1) and one of two (β-sheet 2) that are approximately perpendicular to each other. The structure also contains a short stretch of α-helix. The protein is stabilized by two disulfide bridges.
+CBM10 modules generally comprise ~45 amino acids. The structure of the protein from the ''Cellvibrio japonicus'' GH10 xylanase Xyn10A was determined by NMR (see [{{PDBlink}}1E8R PDB ID 1E8R])   <cite>Raghothama2000</cite>. The proteins displays a oligonucleotide/oligosaccharide-binding (OB) fold and is the only CBM family, to date, to adopt this secondary structure. The structure of CBM10 consists of five β-strands, organized as two antiparallel sheets, one of three strands (β-sheet 1) and one of two (β-sheet 2) that are approximately perpendicular to each other. The structure also contains a short stretch of α-helix. The protein is stabilized by two disulfide bridges.
-The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10s. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a type A CBM.
+The CBM10 module displays a planar surface that contains three aromatic residues, two contributed by the middle strand of β-sheet 1 (Trp22 and Trp24) and one by the loop connecting the strands in β-sheet 2 (Tyr8) (Fig. 1). Chemical modification of the CBM10 module with N-bromosuccinimide in combination with mutagenesis confirmed that Trp24 and Trp22 were on the surface of the protein <cite>Ponyi2000</cite>. The position of the three planar aromatic residues indicate that they make hydrophobic interactions with glucose residues n, n+2 and n+4 in the chains of crystalline cellulose. Mutagenesis studies confirmed the critical role played by the aromatic residues in cellulose recognition <cite>Ponyi2000</cite>. The importance of the three planar residues was also proposed by their conservation (tryptophans or tyrosines) in other CBM10 members. Similarly the four cysteines that formed the two disulfide bonds are invariant in the family and it was suggested that they played a generic role in protein stabilization. The planar topography of the ligand binding site and the observed specificity for insoluble cellulose indicate that the protein module is a type A CBM.
 == Functionalities ==