1O9B - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   QUINATE/SHIKIMATE DEHYDROGENASE YDIB COMPLEXED WITH NADH

Authors :   G. Michel, M. Cygler

Date :   12 Dec 02 (Deposition) - 01 Feb 03 (Release) - 30 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Oxidoreductase, Quinate, Shikimate, Nad, Montreal-Kingston Bacterial Structural Genomics Initiative, Bsgi, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Michel, A. W. Roszak, V. Sauve, J. Mclean, A. Matte, J. R. Coggins, M. Cygler, A. J. Lapthorn
Structures Of Shikimate Dehydrogenase Aroe And Its Paralog Ydib: A Common Structural Framework For Different Activities
J. Biol. Chem. V. 278 19463 2003
PubMed-ID: 12637497 | Reference-DOI: 10.1074/JBC.M300794200

Molecule 1 - HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB
	Atcc	:	47035
	Chains	:	A, B
	EC Number	:	1.1.1.25
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGEX-4T1
	Expression System Strain	:	DL41(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	GST-TAG, SELEMETHIONYL PROTEIN
	Strain	:	MC1061 P3

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 27)

No.	Name	Count	Type	Full Name
1	MSE	20	Mod. Amino Acid	SELENOMETHIONINE
2	NAI	2	Ligand/Ion	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
3	PO4	5	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (3, 14)

No.	Name	Count	Type	Full Name
1	MSE	10	Mod. Amino Acid	SELENOMETHIONINE
2	NAI	1	Ligand/Ion	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
3	PO4	3	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (3, 13)

No.	Name	Count	Type	Full Name
1	MSE	10	Mod. Amino Acid	SELENOMETHIONINE
2	NAI	1	Ligand/Ion	1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE
3	PO4	2	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:67 , LYS A:71 , ASP A:107 , NAI A:301 , HOH A:2088	BINDING SITE FOR RESIDUE PO4 A 302
2	AC2	SOFTWARE	MSE A:68 , PRO A:69 , ASN A:70 , LYS A:71 , GLN A:72	BINDING SITE FOR RESIDUE PO4 A 303
3	AC3	SOFTWARE	LYS A:32 , TYR A:100 , LYS A:149 , GLU A:150 , LYS A:152 , SER A:196	BINDING SITE FOR RESIDUE PO4 A 304
4	AC4	SOFTWARE	SER B:67 , LYS B:71 , ASP B:107 , NAI B:301 , HOH B:2065	BINDING SITE FOR RESIDUE PO4 B 302
5	AC5	SOFTWARE	MSE B:68 , PRO B:69 , ASN B:70 , LYS B:71 , GLN B:72 , HOH B:2062 , HOH B:2066	BINDING SITE FOR RESIDUE PO4 B 303
6	AC6	SOFTWARE	ALA A:132 , GLY A:133 , GLY A:134 , ALA A:135 , ASN A:155 , ARG A:156 , PHE A:160 , GLY A:203 , THR A:204 , LYS A:205 , VAL A:206 , MSE A:208 , CYS A:232 , TYR A:234 , GLY A:255 , MSE A:258 , LEU A:259 , PO4 A:302 , HOH A:2058	BINDING SITE FOR RESIDUE NAI A 301
7	AC7	SOFTWARE	ASP B:107 , ALA B:132 , GLY B:133 , GLY B:134 , ALA B:135 , ASN B:155 , ARG B:156 , ASP B:158 , PHE B:160 , GLY B:203 , THR B:204 , LYS B:205 , VAL B:206 , MSE B:208 , CYS B:232 , VAL B:233 , TYR B:234 , GLY B:255 , MSE B:258 , LEU B:259 , PO4 B:302 , HOH B:2044 , HOH B:2062 , HOH B:2063 , HOH B:2064	BINDING SITE FOR RESIDUE NAI B 301

(no "SS Bond" information available for 1O9B)

Asymmetric Unit

No.	Residues
1	Tyr A:15	-	Pro A:16
2	Mse A:68	-	Pro A:69
3	Lys A:209	-	Pro A:210
4	Asn A:235	-	Pro A:236
5	Tyr B:15	-	Pro B:16
6	Mse B:68	-	Pro B:69
7	Lys B:209	-	Pro B:210
8	Asn B:235	-	Pro B:236

(no "SAP(SNP)/Variant" information available for 1O9B)

(no "PROSITE Motif" information available for 1O9B)

(no "Exon" information available for 1O9B)

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:281
 aligned with YDIB_ECOL6 | P0A6D6 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:281
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286 
           YDIB_ECOL6     7 YELIGLMAYPIRHSLSPEMQNKALEKAGLPFTYMAFEVDNDSFPGAIEGLKALKMRGTGVSMPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTMVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGYGMLLWQGAEQFTLWTGKDFPLEYVKQVMGFG 287
               SCOP domains d1o9ba2 A:7-106 Putative shikimate dehydrogenase YdiB                                               d1o9ba1 A:107-287 Putative shikimate dehydrogenase YdiB                                                                                                                               SCOP domains
               CATH domains 1o9bA01 A:7-104,A:254-287 Leucine Dehydrogenase, chain A, domain 1                                1o9bA02 A:105-253 NAD(P)-binding Rossmann-like Domain                                                                                                1o9bA01 A:7-104,A:254-287          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee......hhhhhhhhhhhh....eeeeeee....hhhhhhhhhhhh...eeee.....hhhhhhh...hhhhhhhh...eeeee..eeeeehhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh..eeeee.......hhhhhhhh.eeee.........................eeee.......hhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhh...hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o9b A   7 YELIGLmAYPIRHSLSPEmQNKALEKAGLPFTYmAFEVDNDSFPGAIEGLKALKmRGTGVSmPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTmVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGmKPLENESLVNDISLLHPGLLVTECVYNPHmTKLLQQAQQAGCKTIDGYGmLLWQGAEQFTLWTGKDFPLEYVKQVmGFG 287
                                  | 16        26        36   |    46        56    |   66 |      76        86        96       106       116       126|      136       146       156       166       176       186       196       206 |     216       226       236 |     246       256 |     266       276       286 
                                 13-MSE      25-MSE         40-MSE               61-MSE 68-MSE                                                    127-MSE                                                                          208-MSE                       238-MSE             258-MSE                   284-MSE

Chain A from PDB  Type:PROTEIN  Length:281
 aligned with YDIB_ECOLI | P0A6D5 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:281
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286 
           YDIB_ECOLI     7 YELIGLMAYPIRHSLSPEMQNKALEKAGLPFTYMAFEVDNDSFPGAIEGLKALKMRGTGVSMPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTMVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGYGMLLWQGAEQFTLWTGKDFPLEYVKQVMGFG 287
               SCOP domains d1o9ba2 A:7-106 Putative shikimate dehydrogenase YdiB                                               d1o9ba1 A:107-287 Putative shikimate dehydrogenase YdiB                                                                                                                               SCOP domains
               CATH domains 1o9bA01 A:7-104,A:254-287 Leucine Dehydrogenase, chain A, domain 1                                1o9bA02 A:105-253 NAD(P)-binding Rossmann-like Domain                                                                                                1o9bA01 A:7-104,A:254-287          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee......hhhhhhhhhhhh....eeeeeee....hhhhhhhhhhhh...eeee.....hhhhhhh...hhhhhhhh...eeeee..eeeeehhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh..eeeee.......hhhhhhhh.eeee.........................eeee.......hhhhhhhhhhh.eeehhhhhhhhhhhhhhhhhhh...hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o9b A   7 YELIGLmAYPIRHSLSPEmQNKALEKAGLPFTYmAFEVDNDSFPGAIEGLKALKmRGTGVSmPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTmVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGmKPLENESLVNDISLLHPGLLVTECVYNPHmTKLLQQAQQAGCKTIDGYGmLLWQGAEQFTLWTGKDFPLEYVKQVmGFG 287
                                  | 16        26        36   |    46        56    |   66 |      76        86        96       106       116       126|      136       146       156       166       176       186       196       206 |     216       226       236 |     246       256 |     266       276       286 
                                 13-MSE      25-MSE         40-MSE               61-MSE 68-MSE                                                    127-MSE                                                                          208-MSE                       238-MSE             258-MSE                   284-MSE

Chain B from PDB  Type:PROTEIN  Length:281
 aligned with YDIB_ECOL6 | P0A6D6 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:281
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286 
           YDIB_ECOL6     7 YELIGLMAYPIRHSLSPEMQNKALEKAGLPFTYMAFEVDNDSFPGAIEGLKALKMRGTGVSMPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTMVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGYGMLLWQGAEQFTLWTGKDFPLEYVKQVMGFG 287
               SCOP domains d1o9bb2 B:7-106 Putative shikimate dehydrogenase YdiB                                               d1o9bb1 B:107-287 Putative shikimate dehydrogenase YdiB                                                                                                                               SCOP domains
               CATH domains 1o9bB01 B:7-107,B:259-287 Leucine Dehydrogenase, chain A, domain 1                                   1o9bB02 B:108-257 NAD(P)-binding Rossmann-like Domain                                                                                                 -1o9bB01 B:7-107,B:259-287     CATH domains
           Pfam domains (1) -----Shikimate_dh_N-1o9bB03 B:12-94                                                     -------------------Shikimate_DH-1o9bB01 B:114-230                                                                                       --------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----Shikimate_dh_N-1o9bB04 B:12-94                                                     -------------------Shikimate_DH-1o9bB02 B:114-230                                                                                       --------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .eeeeeee......hhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhh...eeee...hhhhhh....eehhhhhhhh...eeeee..eeeeehhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhh..eeee.........................eeee.......hhhhhhhh....eeehhhhhhhhhhhhhhhhhhh...hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o9b B   7 YELIGLmAYPIRHSLSPEmQNKALEKAGLPFTYmAFEVDNDSFPGAIEGLKALKmRGTGVSmPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTmVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGmKPLENESLVNDISLLHPGLLVTECVYNPHmTKLLQQAQQAGCKTIDGYGmLLWQGAEQFTLWTGKDFPLEYVKQVmGFG 287
                                  | 16        26        36   |    46        56    |   66 |      76        86        96       106       116       126|      136       146       156       166       176       186       196       206 |     216       226       236 |     246       256 |     266       276       286 
                                 13-MSE      25-MSE         40-MSE               61-MSE 68-MSE                                                    127-MSE                                                                          208-MSE                       238-MSE             258-MSE                   284-MSE

Chain B from PDB  Type:PROTEIN  Length:281
 aligned with YDIB_ECOLI | P0A6D5 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:281
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286 
           YDIB_ECOLI     7 YELIGLMAYPIRHSLSPEMQNKALEKAGLPFTYMAFEVDNDSFPGAIEGLKALKMRGTGVSMPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTMVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGYGMLLWQGAEQFTLWTGKDFPLEYVKQVMGFG 287
               SCOP domains d1o9bb2 B:7-106 Putative shikimate dehydrogenase YdiB                                               d1o9bb1 B:107-287 Putative shikimate dehydrogenase YdiB                                                                                                                               SCOP domains
               CATH domains 1o9bB01 B:7-107,B:259-287 Leucine Dehydrogenase, chain A, domain 1                                   1o9bB02 B:108-257 NAD(P)-binding Rossmann-like Domain                                                                                                 -1o9bB01 B:7-107,B:259-287     CATH domains
           Pfam domains (1) -----Shikimate_dh_N-1o9bB03 B:12-94                                                     -------------------Shikimate_DH-1o9bB01 B:114-230                                                                                       --------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----Shikimate_dh_N-1o9bB04 B:12-94                                                     -------------------Shikimate_DH-1o9bB02 B:114-230                                                                                       --------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .eeeeeee......hhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhh...eeee...hhhhhh....eehhhhhhhh...eeeee..eeeeehhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhh..eeee.........................eeee.......hhhhhhhh....eeehhhhhhhhhhhhhhhhhhh...hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1o9b B   7 YELIGLmAYPIRHSLSPEmQNKALEKAGLPFTYmAFEVDNDSFPGAIEGLKALKmRGTGVSmPNKQLACEYVDELTPAAKLVGAINTIVNDDGYLRGYNTDGTGHIRAIKESGFDIKGKTmVLLGAGGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVGmKPLENESLVNDISLLHPGLLVTECVYNPHmTKLLQQAQQAGCKTIDGYGmLLWQGAEQFTLWTGKDFPLEYVKQVmGFG 287
                                  | 16        26        36   |    46        56    |   66 |      76        86        96       106       116       126|      136       146       156       166       176       186       196       206 |     216       226       236 |     246       256 |     266       276       286 
                                 13-MSE      25-MSE         40-MSE               61-MSE 68-MSE                                                    127-MSE                                                                          208-MSE                       238-MSE             258-MSE                   284-MSE

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 '\|'

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Leucine Dehydrogenase; Chain A, domain 1 (52)

Homologous Superfamily: Leucine Dehydrogenase, chain A, domain 1 (52)

Escherichia coli. Organism_taxid: 562. Strain: mc1061 p3. (1)

1a	1o9bA01	A:7-104,A:254-287
1b	1o9bB01	B:7-107,B:259-287

Topology: Rossmann fold (7312)

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Escherichia coli. Organism_taxid: 562. Strain: mc1061 p3. (1)

2a	1o9bB02	B:108-257
2b	1o9bA02	A:105-253

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: NADP_Rossmann (1239)

Family: Shikimate_DH (16)

Escherichia coli (strain K12) (3)

1a	Shikimate_DH-1o9bB01	B:114-230
1b	Shikimate_DH-1o9bB02	B:114-230

Clan: no clan defined [family: Shikimate_dh_N] (15)

Family: Shikimate_dh_N (15)

Escherichia coli (strain K12) (3)

2a	Shikimate_dh_N-1o9bB03	B:12-94
2b	Shikimate_dh_N-1o9bB04	B:12-94

Asymmetric Unit(hide GO term definitions)

Chain A,B (YDIB_ECOL6 | P0A6D6)

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:0030266	quinate 3-dehydrogenase (NAD+) activity	Catalysis of the reaction: (-)-quinate + NAD+ = (-)-3-dehydroquinate + NADH + H+.
	GO:0052733	quinate 3-dehydrogenase (NADP+) activity	Catalysis of the reaction: quinate + NADP+ = 3-dehydroquinate + NADPH + H+.
	GO:0052734	shikimate 3-dehydrogenase (NAD+) activity	Catalysis of the reaction: shikimate + NAD+ = 3-dehydroshikimate + NADH + H+.
	GO:0004764	shikimate 3-dehydrogenase (NADP+) activity	Catalysis of the reaction: shikimate + NADP+ = 3-dehydroshikimate + NADPH + H+.
biological process
	GO:0009073	aromatic amino acid family biosynthetic process	The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	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:0009423	chorismate biosynthetic process	The chemical reactions and pathways resulting in the formation of the unsymmetrical ether derived from phosphoenolpyruvate and 5-phosphoshikimic acid formed as an intermediate in the biosynthesis of aromatic amino acids and many other compounds.
	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.

Chain A,B (YDIB_ECOLI | P0A6D5)

molecular function
	GO:0051287	NAD binding	Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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:0030266	quinate 3-dehydrogenase (NAD+) activity	Catalysis of the reaction: (-)-quinate + NAD+ = (-)-3-dehydroquinate + NADH + H+.
	GO:0052733	quinate 3-dehydrogenase (NADP+) activity	Catalysis of the reaction: quinate + NADP+ = 3-dehydroquinate + NADPH + H+.
	GO:0052734	shikimate 3-dehydrogenase (NAD+) activity	Catalysis of the reaction: shikimate + NAD+ = 3-dehydroshikimate + NADH + H+.
	GO:0004764	shikimate 3-dehydrogenase (NADP+) activity	Catalysis of the reaction: shikimate + NADP+ = 3-dehydroshikimate + NADPH + H+.
biological process
	GO:0009073	aromatic amino acid family biosynthetic process	The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	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:0009423	chorismate biosynthetic process	The chemical reactions and pathways resulting in the formation of the unsymmetrical ether derived from phosphoenolpyruvate and 5-phosphoshikimic acid formed as an intermediate in the biosynthesis of aromatic amino acids and many other compounds.
	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
		Asn A:235 - Pro A:236	[ RasMol ]
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		Lys A:209 - Pro A:210	[ RasMol ]
		Lys B:209 - Pro B:210	[ RasMol ]
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		Tyr B:15 - Pro B:16	[ RasMol ]

Biological Units
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	1o9b
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	YDIB_ECOLI \| P0A6D5
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	1.1.1.25
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	YDIB_ECOL6 \| P0A6D6
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	YDIB_ECOLI \| P0A6D5	:	1npd 1vi2

(no "Related Entries Specified in the PDB File" available for 1O9B)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 27)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 4)

CATH Domains (2, 4)

Pfam Domains (2, 4)

Gene Ontology (12, 21)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File