User:Steven Tuyishime
From Proteopedia
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Glutamine Synthetase (GS) has 2 prominent CATH domains. CATH is an acronym for Class (C), Architecture (A), Topology (T), and Homologous superfamily (H). Each of these is a way to classify molecules. A molecule can be classified by any one of 4 classes: Mainly Alpha, Mainly Beta, Alpha Beta, and Few Secondary Structures (1). Another level of classification which is on a lower order than class is Architecture. This level of classification is used to identify the shape of the domain structure using the orientation of secondary structures but ignoring the way they are connected to each other (1). A third level of classification is Topology, which is also called Fold Group. This classification concerns the shared similarity of overall shape and connectivity of the secondary structures in the domain core (1). The Homologous superfamily refers to a fourth classification type. This hierarchy groups together protein domains which are thought to share a common ancestor, according to specific criteria (1). | Glutamine Synthetase (GS) has 2 prominent CATH domains. CATH is an acronym for Class (C), Architecture (A), Topology (T), and Homologous superfamily (H). Each of these is a way to classify molecules. A molecule can be classified by any one of 4 classes: Mainly Alpha, Mainly Beta, Alpha Beta, and Few Secondary Structures (1). Another level of classification which is on a lower order than class is Architecture. This level of classification is used to identify the shape of the domain structure using the orientation of secondary structures but ignoring the way they are connected to each other (1). A third level of classification is Topology, which is also called Fold Group. This classification concerns the shared similarity of overall shape and connectivity of the secondary structures in the domain core (1). The Homologous superfamily refers to a fourth classification type. This hierarchy groups together protein domains which are thought to share a common ancestor, according to specific criteria (1). | ||
| - | Looking at Glutamine Synthetase in ''Salmonella typhimurium'', we can identify 2 CATH domains. Each of the domains are of the class Alpha Beta, however, that is the only common aspect between the two. Alpha Beta includes both alternating alpha/beta structures and alpha+beta structures. One domain begins at residue 104 and goes to residue 456 | + | Looking at Glutamine Synthetase in ''Salmonella typhimurium'', we can identify 2 CATH domains. Each of the domains are of the class Alpha Beta, however, that is the only common aspect between the two. Alpha Beta includes both alternating alpha/beta structures and alpha+beta structures. One domain begins at residue 104 and goes to residue 456 <scene name='User:Steven_Tuyishime/Domain_from_104_to_456/1'>Domain from 104 to 456</scene>. For this domain, the Architecture is a 2 layer sandwich [[<Show what this sandwich looks like>]]. The Topology is Creatine Kinase; Chain A, domain 2 [[<Show the topology within sandwich>]] and the Homologous superfamily is Creatine Kinase; Chain [[<Add this chain to previous structure>]]. This domain is the larger of the two and has a COOH terminus. |
| - | The second domain in ''S. typhimurium'' begins at residue 1 and goes to residue 103 | + | The second domain in ''S. typhimurium'' [begins at residue 1 and goes to residue 103 <scene name='User:Steven_Tuyishime/Domain_from_1_to_103/1'>Domain from 1 to 103</scene>. In this domain, the architecture is a roll [[<Show what this structure looks like>]]. The topology is ubiquitin-like, or a UB-roll [[<Show the topology within previous>]] and the Homologous superfamily has no defined name. This domain is smaller and has an NH2 terminus. It is covalently linked to the larger COOH terminus (the first domain described in prior paragraph. [[< Insert wiki of covalent linkage>]]. This NH2 terminus is exposed compared to the buried COOH terminus of the larger domain. |
Revision as of 23:23, 15 December 2008
Undergraduate student at UMBC, Group consisits of Sindhu Lakkur, Ejiofor Ezekwe and Steven Tuyishime- Dr. Thomas Gluick Biol 430
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Glutamine Synthetase (GS) has 2 prominent CATH domains. CATH is an acronym for Class (C), Architecture (A), Topology (T), and Homologous superfamily (H). Each of these is a way to classify molecules. A molecule can be classified by any one of 4 classes: Mainly Alpha, Mainly Beta, Alpha Beta, and Few Secondary Structures (1). Another level of classification which is on a lower order than class is Architecture. This level of classification is used to identify the shape of the domain structure using the orientation of secondary structures but ignoring the way they are connected to each other (1). A third level of classification is Topology, which is also called Fold Group. This classification concerns the shared similarity of overall shape and connectivity of the secondary structures in the domain core (1). The Homologous superfamily refers to a fourth classification type. This hierarchy groups together protein domains which are thought to share a common ancestor, according to specific criteria (1).
Looking at Glutamine Synthetase in Salmonella typhimurium, we can identify 2 CATH domains. Each of the domains are of the class Alpha Beta, however, that is the only common aspect between the two. Alpha Beta includes both alternating alpha/beta structures and alpha+beta structures. One domain begins at residue 104 and goes to residue 456 . For this domain, the Architecture is a 2 layer sandwich [[<Show what this sandwich looks like>]]. The Topology is Creatine Kinase; Chain A, domain 2 [[<Show the topology within sandwich>]] and the Homologous superfamily is Creatine Kinase; Chain [[<Add this chain to previous structure>]]. This domain is the larger of the two and has a COOH terminus.
The second domain in S. typhimurium [begins at residue 1 and goes to residue 103 . In this domain, the architecture is a roll [[<Show what this structure looks like>]]. The topology is ubiquitin-like, or a UB-roll [[<Show the topology within previous>]] and the Homologous superfamily has no defined name. This domain is smaller and has an NH2 terminus. It is covalently linked to the larger COOH terminus (the first domain described in prior paragraph. [[< Insert wiki of covalent linkage>]]. This NH2 terminus is exposed compared to the buried COOH terminus of the larger domain.
References 1. CATH Protein Structure Classification." CATH. 03 Sep 2008. Orengo group projects. 7 Dec 2008 <http://www.cathdb.info/>. 2. Yamashita MM, Almassy RJ, Janson CA, Cascio D, EisenberDg . 1989. JBiol Chem 264:17681-17690. Refined atomic model of glutamine synthetase at 3.5 A resolution.
