2BTH - JenaLib

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NMR Structure - model 1 (Jmol Viewer)

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Title :   PERIPHERAL-SUBUNIT BINDING DOMAINS FROM MESOPHILIC, THERMOPHILIC, AND HYPERTHERMOPHILIC BACTERIA FOLD BY ULTRAFAST, APPARENTLY TWO-STATE TRANSITIONS

Authors :   N. Ferguson, M. D. Allen

Date :   31 May 05 (Deposition) - 24 May 06 (Release) - 19 Apr 17 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)
NMR Structure *: A  (1x)

Keywords :   Acyltransferase, Lipoyl, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. Ferguson, T. D. Sharpe, P. J. Schartau, S. Sato, M. D. Allen, C. M. Johnson, T. J. Rutherford, A. R. Fersht
Ultra-Fast Barrier-Limited Folding In The Peripheral Subunit-Binding Domain Family.
J. Mol. Biol. V. 353 427 2005
PubMed-ID: 16168437 | Reference-DOI: 10.1016/J.JMB.2005.08.031

Molecule 1 - DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX
	Chains	:	A
	EC Number	:	2.3.1.61
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	C41
	Expression System Taxid	:	562
	Expression System Vector	:	MODIFIED PRSETA
	Fragment	:	RESIDUES 108-152
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	E3-BINDING DOMAIN, E2

		1
NMR Structure (20x)	:	A
NMR Structure * (1x)	:	A

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2BTH)

(no "Site" information available for 2BTH)

(no "SS Bond" information available for 2BTH)

(no "Cis Peptide Bond" information available for 2BTH)

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

NMR Structure (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PSBD	PS51826	Peripheral subunit-binding (PSBD) domain profile.	ODO2_ECO57	113-150	1	A:130-167
1	PSBD	PS51826	Peripheral subunit-binding (PSBD) domain profile.	ODO2_ECOLI	113-150	1	A:130-167

NMR Structure * (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PSBD	PS51826	Peripheral subunit-binding (PSBD) domain profile.	ODO2_ECO57	113-150	1	A:130-167
1	PSBD	PS51826	Peripheral subunit-binding (PSBD) domain profile.	ODO2_ECOLI	113-150	1	A:130-167

(no "Exon" information available for 2BTH)

NMR Structure

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:45
 aligned with ODO2_ECO57 | P0AFG7 from UniProtKB/Swiss-Prot  Length:405

    Alignment length:45
                                   118       128       138       148     
           ODO2_ECO57   109 QNNDALSPAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKHLAKA 153
               SCOP domains d2btha_ A: automated matches                  SCOP domains
               CATH domains --------------------------------------------- CATH domains
               Pfam domains --------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhh.hhhhh.........hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------- SAPs(SNPs)
                    PROSITE ----PSBD  PDB: A:130-167 UniProt: 113-150 --- PROSITE
                 Transcript --------------------------------------------- Transcript
                 2bth A 126 QNNDALSPAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKWLAKA 170
                                   135       145       155       165

Chain A from PDB  Type:PROTEIN  Length:45
 aligned with ODO2_ECOLI | P0AFG6 from UniProtKB/Swiss-Prot  Length:405

    Alignment length:45
                                   118       128       138       148     
           ODO2_ECOLI   109 QNNDALSPAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKHLAKA 153
               SCOP domains d2btha_ A: automated matches                  SCOP domains
               CATH domains --------------------------------------------- CATH domains
               Pfam domains --------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhh.hhhhh.........hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------- SAPs(SNPs)
                PROSITE (2) ----PSBD  PDB: A:130-167 UniProt: 113-150 --- PROSITE (2)
                 Transcript --------------------------------------------- Transcript
                 2bth A 126 QNNDALSPAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKWLAKA 170
                                   135       145       155       165

Legend:		→ Mismatch	(orange background)
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	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 '\|'

(no "CATH Domain" information available for 2BTH)

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

NMR Structure(hide GO term definitions)

Chain A (ODO2_ECO57 | P0AFG7)

molecular function
	GO:0004149	dihydrolipoyllysine-residue succinyltransferase activity	Catalysis of the reaction: succinyl-CoA + dihydrolipoamide = CoA + S-succinyldihydrolipoamide.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016746	transferase activity, transferring acyl groups	Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
	GO:0033512	L-lysine catabolic process to acetyl-CoA via saccharopine	The chemical reactions and pathways resulting in the breakdown of L-lysine into other compounds, including acetyl-CoA, via the intermediate saccharopine.
	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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0045252	oxoglutarate dehydrogenase complex	A complex of multiple copies of three enzymatic components: oxoglutarate dehydrogenase (lipoamide) ; EC:1.2.4.2 (E1), dihydrolipoamide S-succinyltransferase ; EC:2.3.1.61 (E2) and dihydrolipoamide dehydrogenase ; EC:1.8.1.4 (E3); catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and carbon dioxide (CO2).

Chain A (ODO2_ECOLI | P0AFG6)

molecular function
	GO:0004149	dihydrolipoyllysine-residue succinyltransferase activity	Catalysis of the reaction: succinyl-CoA + dihydrolipoamide = CoA + S-succinyldihydrolipoamide.
	GO:0031405	lipoic acid binding	Interacting selectively and non-covalently with lipoic acid, 1,2-dithiolane-3-pentanoic acid.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016746	transferase activity, transferring acyl groups	Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
	GO:0033512	L-lysine catabolic process to acetyl-CoA via saccharopine	The chemical reactions and pathways resulting in the breakdown of L-lysine into other compounds, including acetyl-CoA, via the intermediate saccharopine.
	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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0045252	oxoglutarate dehydrogenase complex	A complex of multiple copies of three enzymatic components: oxoglutarate dehydrogenase (lipoamide) ; EC:1.2.4.2 (E1), dihydrolipoamide S-succinyltransferase ; EC:2.3.1.61 (E2) and dihydrolipoamide dehydrogenase ; EC:1.8.1.4 (E3); catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and carbon dioxide (CO2).

NMR Structure
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1bal	DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE (E3-BINDING DOMAIN) CORE FROM THE 2-OXOGLUTARATE DEHYDROGENASE MULTIENZYME COMPLEX OF (NMR, 56 SIMULATED ANNEALING STRUCTURES)
1bbl	DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE (E3-BINDING DOMAIN) CORE FROM THE 2-OXOGLUTARATE DEHYDROGENASE MULTIENZYME COMPLEX OF ESCHERICHIA COLI (NMR, MINIMIZED AVERAGE STRUCTURE)
1c4t	CATALYTIC DOMAIN FROM TRIMERIC DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE
1e2o	CATALYTIC DOMAIN FROM DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE
1pmr	LIPOYL DOMAIN FROM THE DIHYDROLIPOYL SUCCINYLTRANSFERASE COMPONENT OF THE 2- OXOGLUTARATE DEHYDROGENASE MULTIENZYME COMPLEX OF ESCHERICHIA COLI, NMR, 25 STRUCTURES
1scz	IMPROVED STRUCTURAL MODEL FOR THE CATALYTIC DOMAIN OFE.COLI DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE
2btg	LIPOYL DOMAIN FROM THE DIHYDROLIPOYL SUCCINYLTRANSFERASE COMPONENT OF THE 2- OXOGLUTARATE DEHYDROGENASE MULTIENZYME COMPLEX OF ESCHERICHIA COLI, NMR, 20 STRUCTURES

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