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Title :   SELINADIENE SYNTHASE APO AND IN COMPLEX WITH DIPHOSPHATE

Authors :   P. Baer, P. Rabe, K. Fischer, C. A. Citron, T. Klapschinski, M. Groll, J. S. Dickschat

Date :   22 Jan 14 (Deposition) - 11 Jun 14 (Release) - 06 Aug 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Sesquiterpene, Cyclase, Terpenoid, Induced Fit, Open And Closed Conformation, Pyrophosphate Sensor, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Baer, P. Rabe, K. Fischer, C. A. Citron, T. A. Klapschinski, M. Groll J. S. Dickschat
Induced-Fit Mechanism In Class I Terpene Cyclases.
Angew. Chem. Int. Ed. Engl. V. 53 7652 2014
PubMed-ID: 24890698 | Reference-DOI: 10.1002/ANIE.201403648

Molecule 1 - TERPENE SYNTHASE METAL-BINDING DOMAIN-CONTAINING PROTEIN
	Chains	:	A, B, C, D
	EC Number	:	2.5.1.21
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	SSDG_02809, ZP_06911744
	Organism Scientific	:	STREPTOMYCES PRISTINAESPIRALIS
	Organism Taxid	:	457429

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 12)

No.	Name	Count	Type	Full Name
1	MG	9	Ligand/Ion	MAGNESIUM ION
2	PPV	3	Ligand/Ion	PYROPHOSPHATE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PPV	1	Ligand/Ion	PYROPHOSPHATE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PPV	1	Ligand/Ion	PYROPHOSPHATE

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PPV	1	Ligand/Ion	PYROPHOSPHATE

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	PPV	-1	Ligand/Ion	PYROPHOSPHATE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:87 , MG A:902 , PPV A:904 , HOH A:1072 , HOH A:1202 , HOH A:1204	BINDING SITE FOR RESIDUE MG A 901
02	AC2	SOFTWARE	ASP A:82 , GLU A:87 , MG A:901 , PPV A:904 , HOH A:1125 , HOH A:1191 , HOH A:1203	BINDING SITE FOR RESIDUE MG A 902
03	AC3	SOFTWARE	ASN A:224 , SER A:228 , GLU A:232 , PPV A:904 , HOH A:1196	BINDING SITE FOR RESIDUE MG A 903
04	AC4	SOFTWARE	PHE A:79 , ASP A:82 , GLU A:87 , ARG A:178 , ASN A:224 , SER A:228 , LYS A:231 , GLU A:232 , ARG A:310 , TYR A:311 , MG A:901 , MG A:902 , MG A:903 , HOH A:1020 , HOH A:1072 , HOH A:1191 , HOH A:1202 , HOH A:1203 , HOH A:1204	BINDING SITE FOR RESIDUE PPV A 904
05	AC5	SOFTWARE	GLU B:87 , MG B:902 , PPV B:904 , HOH B:1213 , HOH B:1218 , HOH B:1230	BINDING SITE FOR RESIDUE MG B 901
06	AC6	SOFTWARE	ASP B:82 , GLU B:87 , MG B:901 , PPV B:904 , HOH B:1003 , HOH B:1017 , HOH B:1107	BINDING SITE FOR RESIDUE MG B 902
07	AC7	SOFTWARE	ASN B:224 , SER B:228 , GLU B:232 , PPV B:904 , HOH B:1236	BINDING SITE FOR RESIDUE MG B 903
08	AC8	SOFTWARE	ASP B:82 , GLU B:87 , ARG B:178 , ASN B:224 , SER B:228 , LYS B:231 , GLU B:232 , ARG B:310 , TYR B:311 , MG B:901 , MG B:902 , MG B:903 , HOH B:1017 , HOH B:1047 , HOH B:1107 , HOH B:1213 , HOH B:1218 , HOH B:1230 , HOH B:1236	BINDING SITE FOR RESIDUE PPV B 904
09	AC9	SOFTWARE	ASP C:82 , GLU C:87 , MG C:902 , PPV C:904 , HOH C:1010 , HOH C:1186 , HOH C:1206	BINDING SITE FOR RESIDUE MG C 901
10	BC1	SOFTWARE	ASP C:82 , GLU C:87 , MG C:901 , PPV C:904 , HOH C:1023 , HOH C:1086 , HOH C:1205	BINDING SITE FOR RESIDUE MG C 902
11	BC2	SOFTWARE	ASN C:224 , SER C:228 , GLU C:232 , PPV C:904 , HOH C:1202	BINDING SITE FOR RESIDUE MG C 903
12	BC3	SOFTWARE	ASP C:82 , GLU C:87 , ARG C:178 , ASN C:224 , SER C:228 , LYS C:231 , GLU C:232 , ARG C:310 , TYR C:311 , MG C:901 , MG C:902 , MG C:903 , HOH C:1010 , HOH C:1016 , HOH C:1086 , HOH C:1186 , HOH C:1202 , HOH C:1205 , HOH C:1206	BINDING SITE FOR RESIDUE PPV C 904

(no "SS Bond" information available for 4OKM)

(no "Cis Peptide Bond" information available for 4OKM)

(no "SAP(SNP)/Variant" information available for 4OKM)

(no "PROSITE Motif" information available for 4OKM)

(no "Exon" information available for 4OKM)

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:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh....hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh...........................hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4okm A   4 ELTVPPLFSPIRQAIHPKHADIDVQTAAWAETFRIGSEELRGKLVTQDIGTFSARILPEGREEVVSLLADFILWLFGVDDGHCEEGELGHRPGDLAGLLHRLIRVAQNPEAPMMQDDPLAAGLRDLRMRVDRFGTAGQTARWVDALREYFFSVVWEAAHRRAGTVPDLNDYTLMRLYDGATSVVLPMLEMGHGYELQPYERDRTAVRAVAEMASFIITWDNDIFSYHKERRGSGYYLNALRVLEQERGLTPAQALDAAISQRDRVMCLFTTVSEQLAEQGSPQLRQYLHSLRCFIRGAQDWGISSVRYTTPDDPANMPSVFTDVPTDDSTEPLDIPAVSWWWDLLA 349
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343

Chain B from PDB  Type:PROTEIN  Length:345
                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh...........................hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4okm B   4 ELTVPPLFSPIRQAIHPKHADIDVQTAAWAETFRIGSEELRGKLVTQDIGTFSARILPEGREEVVSLLADFILWLFGVDDGHCEEGELGHRPGDLAGLLHRLIRVAQNPEAPMMQDDPLAAGLRDLRMRVDRFGTAGQTARWVDALREYFFSVVWEAAHRRAGTVPDLNDYTLMRLYDGATSVVLPMLEMGHGYELQPYERDRTAVRAVAEMASFIITWDNDIFSYHKERRGSGYYLNALRVLEQERGLTPAQALDAAISQRDRVMCLFTTVSEQLAEQGSPQLRQYLHSLRCFIRGAQDWGISSVRYTTPDDPANMPSVFTDVPTDDSTEPLDIPAVSWWWDLL 348
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343

Chain C from PDB  Type:PROTEIN  Length:345
                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........................hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4okm C   4 ELTVPPLFSPIRQAIHPKHADIDVQTAAWAETFRIGSEELRGKLVTQDIGTFSARILPEGREEVVSLLADFILWLFGVDDGHCEEGELGHRPGDLAGLLHRLIRVAQNPEAPMMQDDPLAAGLRDLRMRVDRFGTAGQTARWVDALREYFFSVVWEAAHRRAGTVPDLNDYTLMRLYDGATSVVLPMLEMGHGYELQPYERDRTAVRAVAEMASFIITWDNDIFSYHKERRGSGYYLNALRVLEQERGLTPAQALDAAISQRDRVMCLFTTVSEQLAEQGSPQLRQYLHSLRCFIRGAQDWGISSVRYTTPDDPANMPSVFTDVPTDDSTEPLDIPAVSWWWDLL 348
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343

Chain D from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.........hhhhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.ee...............hhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4okm D   7 VPPLFSPIRQAIHPKHADIDVQTAAWAETFRIGSEELRGKLVTQDIGTFSARILPEGREEVVSLLADFILWLFGVDDGPGDLAGLLHRLIRVAQNPEAPMMQDDPLAAGLRDLRMRVDRFGTAGQTARWVDALREYFFSVVWEAAHRRAGTVPDLNDYTLMRLYDGATSVVLPMLEMGHGYELQPYERDRTAVRAVAEMASFIITWDNDIFSYYLNALRVLEQERGLTPAQALDAAISQRDRVMCLFTTVSEQLAEQGSPQLRQYLHSLRCFIRGAQDWGISVFTDVPTDDSTEPLDIPAVSWWWDLL 348
                                    16        26        36        46        56        66        76       |96       106       116       126       136       146       156       166       176       186       196       206       216       226  ||   245       255       265       275       285       295       305 ||    330       340        
                                                                                                        84|                                                                                                                                   229|                                                                 307|                         
                                                                                                         95                                                                                                                                    239                                                                  323

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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 "SCOP Domain" information available for 4OKM)

(no "CATH Domain" information available for 4OKM)

(no "Pfam Domain" information available for 4OKM)

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1ps1	PENTALENENE SYNTHASE
4mc0	HEDYCARYOL APO
4mc3	HEDYCARYOL SYNTHASE IN COMPLEX WITH NEROLIDOL
4okz

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 12)

Sites (12, 12)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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