3SF6 - JenaLib

Title :   CRYSTAL STRUCTURE OF GLUTARYL-COA DEHYDROGENASE FROM MYCOBACTERIUM SMEGMATIS

Authors :   Seattle Structural Genomics Center For Infectious Disease (S

Date :   12 Jun 11 (Deposition) - 29 Jun 11 (Release) - 22 Apr 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Ssgcid, Nih, Niaid, Sbri, Uw, Emerald Biostructures, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Baugh, I. Phan, D. W. Begley, M. C. Clifton, B. Armour, D. M. Dranow, B. M. Taylor, M. M. Muruthi, J. Abendroth, J. W. Fairman, D. Fox, S. H. Dieterich, B. L. Staker, A. S. Gardberg, R. Choi, S. N. Hewitt, A. J. Napuli, J. Myers, L. K. Barrett, Y. Zhang, M. Ferrell, E. Mundt, K. Thompkins, N. Tran, S. Lyons-Abbott, A. Abramov, A. Sekar, D. Serbzhinskiy, D. Lorimer, G. W. Buchko, R. Stacy, L. J. Stewart, T. E. Edwards, W. C. Van Voorhis, P. J. Myler
Increasing The Structural Coverage Of Tuberculosis Drug Targets.
Tuberculosis (Edinb) V. 95 142 2015
PubMed-ID: 25613812 | Reference-DOI: 10.1016/J.TUBE.2014.12.003

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 18)

Sites (9, 9)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:144 , LEU A:146 , THR A:147 , GLY A:152 , SER A:153 , TRP A:177 , ILE A:178 , THR A:179 , LEU A:220 , ARG A:283 , GLN A:285 , PHE A:286 , ILE A:290 , PHE A:293 , GLN A:294 , THR A:351 , VAL A:352 , ALA A:355 , SER A:373 , THR A:376 , TYR A:377 , THR A:380 , GLU A:382 , MET A:383 , PHE A:398 , HOH A:429 , HOH A:431 , HOH A:439 , HOH A:446 , HOH A:449 , HOH A:684	BINDING SITE FOR RESIDUE FDA A 400
2	AC2	SOFTWARE	THR A:36 , GLY A:71 , HOH A:420 , HOH A:571	BINDING SITE FOR RESIDUE EDO A 410
3	AC3	SOFTWARE	ARG A:192 , GLY A:196 , ILE A:197 , SER A:246 , LEU A:247 , HOH A:668 , HOH A:681	BINDING SITE FOR RESIDUE SO4 A 411
4	AC4	SOFTWARE	TYR A:90 , VAL A:108 , GLY A:112 , SER A:113 , HOH A:471	BINDING SITE FOR RESIDUE CL A 412
5	AC5	SOFTWARE	ASP A:17 , ILE A:22 , ARG A:34 , GLU A:96 , ARG A:270 , TYR A:307 , HOH A:529	BINDING SITE FOR RESIDUE EDO A 413
6	AC6	SOFTWARE	GLY A:173 , THR A:174 , LEU A:230 , ASP A:231 , HOH A:649	BINDING SITE FOR RESIDUE EDO A 414
7	AC7	SOFTWARE	GLU A:54 , LYS A:215 , SER A:216 , ARG A:221 , HOH A:555 , HOH A:711	BINDING SITE FOR RESIDUE SO4 A 415
8	AC8	SOFTWARE	GLY A:396 , ALA A:397 , PHE A:398 , ARG A:399	BINDING SITE FOR RESIDUE CL A 416
9	AC9	SOFTWARE	SER A:27 , ALA A:28 , ARG A:31 , ARG A:234 , HOH A:428 , HOH A:541 , HOH A:638	BINDING SITE FOR RESIDUE SO4 A 417

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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:387
 aligned with A0QV68_MYCS2 | A0QV68 from UniProtKB/TrEMBL  Length:399

    Alignment length:387
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       
         A0QV68_MYCS2    13 RRGADDLIGINAVLSAEEREIRDTVRSVVQRRIKPHIASWYEDGELPARELAVELGELGLLGMHLKGYGCAGMSAVAYGLACLELEAGDSGIRSLVSVQGSLAMYAIHAFGSDEQKDQWLPDMASGHRIGCFGLTEPDHGSDPAGMRTRATRSGDDWILTGTKMWITNGSVADVAVVWARTDEGIRGFVVPTDTPGFTANTIKSKMSLRASVTSELVLDGVRLPDSARLPGATSLGAPLRCLNEARFGIVFGALGAARDCLETALAYACSREQFDRPIGGFQLTQQKLADMTLEYGKGFLLALHLGRQKDAGELAPEQVSLGKLNNVREAIEIARTARTVLGASGITGEYPVMRHANNLESVLTYEGTSEMHTLIIGQALTGVGAFR 399
               SCOP domains d3sf6a1 A:13-246 automated matches                                                                                                                                                                                                        d3sf6a2 A:247-399 automated matches                                                                                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------Acyl-CoA_dh_N-3sf6A03 A:27-139                                                                                   ---Acyl-CoA_dh_M-3sf6A02 A:143-195                      ---------------------------------------------------Acyl-CoA_dh_1-3sf6A01 A:247-393                                                                                                                    ------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee........hhhhh..eeeee..eeeeeeeeeeee.hhhh.eeeeeeee..eeeeeeee.....eeeee...........eeeeeeeeeeee.hhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee..ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sf6 A  13 RRGADDLIGINAVLSAEEREIRDTVRSVVQRRIKPHIASWYEDGELPARELAVELGELGLLGMHLKGYGCAGMSAVAYGLACLELEAGDSGIRSLVSVQGSLAMYAIHAFGSDEQKDQWLPDMASGHRIGCFGLTEPDHGSDPAGMRTRATRSGDDWILTGTKMWITNGSVADVAVVWARTDEGIRGFVVPTDTPGFTANTIKSKMSLRASVTSELVLDGVRLPDSARLPGATSLGAPLRCLNEARFGIVFGALGAARDCLETALAYACSREQFDRPIGGFQLTQQKLADMTLEYGKGFLLALHLGRQKDAGELAPEQVSLGKLNNVREAIEIARTARTVLGASGITGEYPVMRHANNLESVLTYEGTSEMHTLIIGQALTGVGAFR 399
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392

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 (2, 2)

CATH Domains (0, 0)

Pfam Domains (3, 3)

Gene Ontology (6, 6)

Asymmetric Unit(hide GO term definitions)

Chain A (A0QV68_MYCS2 | A0QV68)

molecular function
	GO:0003995	acyl-CoA dehydrogenase activity	Catalysis of the reaction: acyl-CoA + acceptor = 2,3-dehydroacyl-CoA + reduced acceptor.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
	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:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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