2AXQ - JenaLib

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Title :   APO HISTIDINE-TAGGED SACCHAROPINE DEHYDROGENASE (L-GLU FORMING) FROM SACCHAROMYCES CEREVISIAE

Authors :   B. Andi, P. F. Cook, A. H. West

Date :   05 Sep 05 (Deposition) - 15 Aug 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Rossmann Fold Variant, Saccharopine Reductase Fold (Domain Ii), Alpha/Beta Protein, Alpha-Aminoadipate Pathway, Fungal Lysine Biosynthesis, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. Andi, P. F. Cook, A. H. West
Crystal Structure Of The His-Tagged Saccharopine Reductase From Saccharomyces Cerevisiae At 1. 7-A Resolution.
Cell Biochem. Biophys. V. 46 17 2006
PubMed-ID: 16943620 | Reference-DOI: 10.1385/CBB:46:1:17
(for further references see the PDB file header)

Molecule 1 - SACCHAROPINE DEHYDROGENASE
	Chains	:	A
	EC Number	:	1.5.1.10
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-16B-LYS9
	Expression System Strain	:	BL21-STAR(DE3)-RIL
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	LYS9, LYS13
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Other Details	:	L-GLU FORMING
	Synonym	:	SACCHAROPINE REDUCTASE

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 8)

No.	Name	Count	Type	Full Name
1	SO4	8	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:155 , GLY A:156 , ARG A:246 , HOH A:584 , HOH A:733	BINDING SITE FOR RESIDUE SO4 A 501
2	AC2	SOFTWARE	TYR A:77 , SER A:98 , HOH A:642	BINDING SITE FOR RESIDUE SO4 A 502
3	AC3	SOFTWARE	ASN A:222 , ARG A:223 , ARG A:242 , HOH A:652	BINDING SITE FOR RESIDUE SO4 A 503
4	AC4	SOFTWARE	ARG A:354 , LYS A:384 , VAL A:385 , HOH A:571	BINDING SITE FOR RESIDUE SO4 A 504

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

Asymmetric Unit

No.	Residues
1	Asp A:125	-	Pro A:126
2	Ser A:172	-	Trp A:173
3	Gly A:413	-	Pro A:414

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

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

Asymmetric Unit (1, 1)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	YNR050C	1	YNR050C.1	XIV:715391-714051	1341	LYS9_YEAST	1-446	446	1	A:2-446	445

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:445
 aligned with LYS9_YEAST | P38999 from UniProtKB/Swiss-Prot  Length:446

    Alignment length:445
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441     
           LYS9_YEAST     2 GKNVLLLGSGFVAQPVIDTLAANDDINVTVACRTLANAQALAKPSGSKAISLDVTDDSALDKVLADNDVVISLIPYTFHPNVVKSAIRTKTDVVTSSYISPALRELEPEIVKAGITVMNEIGLDPGIDHLYAVKTIDEVHRAGGKLKSFLSYCGGLPAPEDSDNPLGYKFSWSSRGVLLALRNSAKYWKDGKIETVSSEDLMATAKPYFIYPGYAFVCYPNRDSTLFKDLYHIPEAETVIRGTLRYQGFPEFVKALVDMGMLKDDANEIFSKPIAWNEALKQYLGAKSTSKEDLIASIDSKATWKDDEDRERILSGFAWLGLFSDAKITPRGNALDTLCARLEELMQYEDNERDMVVLQHKFGIEWADGTTETRTSTLVDYGKVGGYSSMAATVGYPVAIATKFVLDGTIKGPGLLAPYSPEINDPIMKELKDKYGIYLKEKTVA 446
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2axqA01 A:2-124,A:388-438 NAD(P)-binding Rossmann-like Domain                                                              2axqA02 A:125-248,A:349-387,A:439-446 Dihydrodipicolinate Reductase; domain 2                                               2axqA03 A:249-348 Domain 3, Saccharopine reductase                                                  2axqA02 A:125-248,A:349-387,A:439-446  2axqA01 A:2-124,A:388-438                          2axqA02  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee....hhhhhhhhhhh...eeeeeee.hhhhhhhhhh....eeee....hhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhh.eee.......hhhhhhhhhhhhhhhhh..eeeeeeeeeeeee.hhhh...........hhhhhhhhhh.eeeee..eeeee...hhhhhhee........eeeee.....hhhhhh......eeeeeeeee.hhhhhhhhhhhh.......hhhhh...hhhhhhhhhhh....hhhhhhhhhhh.....hhhhhhhhhhhhhhh............hhhhhhhhhhhhhh.......eeeeeeeeeeee.....eeeeeeeeeee......hhhhhhhhhhhhhhhhhhhh......eee...hhhhhhhhhhhhhhhhh...eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:2-446 UniProt: 1-446 [INCOMPLETE]                                                                                                                                                                                                                                                                                                                                                                                                            Transcript 1
                 2axq A   2 GKNVLLLGSGFVAQPVIDTLAANDDINVTVACRTLANAQALAKPSGSKAISLDVTDDSALDKVLADNDVVISLIPYTFHPNVVKSAIRTKTDVVTSSYISPALRELEPEIVKAGITVMNEIGLDPGIDHLYAVKTIDEVHRAGGKLKSFLSYCGGLPAPEDSDNPLGYKFSWSSRGVLLALRNSAKYWKDGKIETVSSEDLMATAKPYFIYPGYAFVCYPNRDSTLFKDLYHIPEAETVIRGTLRYQGFPEFVKALVDMGMLKDDANEIFSKPIAWNEALKQYLGAKSTSKEDLIASIDSKATWKDDEDRERILSGFAWLGLFSDAKITPRGNALDTLCARLEELMQYEDNERDMVVLQHKFGIEWADGTTETRTSTLVDYGKVGGYSSMAATVGYPVAIATKFVLDGTIKGPGLLAPYSPEINDPIMKELKDKYGIYLKEKTVA 446
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441

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 '\|'

(no "SCOP Domain" information available for 2AXQ)

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

Asymmetric Unit(hide GO term definitions)

Chain A (LYS9_YEAST | P38999)

molecular function
	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:0004755	saccharopine dehydrogenase (NADP+, L-glutamate-forming) activity	Catalysis of the reaction: L-saccharopine + H(2)O + NADP(+) = L-allysine + L-glutamate + H(+) + NADPH.
biological process
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0009085	lysine biosynthetic process	The chemical reactions and pathways resulting in the formation of lysine, 2,6-diaminohexanoic acid.
	GO:0019878	lysine biosynthetic process via aminoadipic acid	The chemical reactions and pathways resulting in the formation of lysine by the aminoadipic pathway.
	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.

Asymmetric Unit
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	Cis Peptide Bonds
		Asp A:125 - Pro A:126	[ RasMol ]
		Gly A:413 - Pro A:414	[ RasMol ]
		Ser A:172 - Trp A:173	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	2axq
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	1.5.1.10
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(no "Entries Sharing at Least One Protein Chain" available for 2AXQ)

1e5l	CRYSTAL STRUCTURE OF APO SACCHAROPINE REDUCTASE FROM MAGNAPORTHE GRISEA
1e5q	CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF SACCHAROPINE REDUCTASE FROM MAGNAPORTHE GRISEA, NADPH AND SACCHAROPINE
1ff9	CRYSTAL STRUCTURE OF APO SACCHAROPINE REDUCTASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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SAPs(SNPs)/Variants (0, 0)

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Exons (1, 1)

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Gene Ontology (6, 6)

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