3WQN - JenaLib

Title :   CRYSTAL STRUCTURE OF RV3378C_Y51F WITH TPP

Authors :   H. C. Chan, X. Feng, T. P. Ko, C. H. Huang, Y. Hu, Y. Zheng, S. Bogue, C. Naka T. Hoshino, L. Zhang, P. Lv, W. Liu, D. C. Crick, P. H. Liang, A. H. Wang, E. Oldfield, R. T. Guo

Date :   28 Jan 14 (Deposition) - 26 Feb 14 (Release) - 01 Oct 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

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

Keywords :   Diterpene Synthase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. C. Chan, X. Feng, T. P. Ko, C. H. Huang, Y. Hu, Y. Zheng, S. Bogue, C. Nakano, T. Hoshino, L. Zhang, P. Lv, W. Liu, D. C. Crick, P. H. Liang, A. H. Wang, E. Oldfield, R. T. Guo
Structure And Inhibition Of Tuberculosinol Synthase And Decaprenyl Diphosphate Synthase From Mycobacterium Tuberculosis.
J. Am. Chem. Soc. V. 136 2892 2014
PubMed-ID: 24475925 | Reference-DOI: 10.1021/JA413127V

Compounds

Molecule 1 - DITERPENE SYNTHASE
	Chains	:	A
	EC Number	:	3.1.7.9, 3.1.7.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	RV3378C, MT3488
	Mutation	:	YES
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Organism Taxid	:	1773
	Strain	:	H37RV
	Synonym	:	ISOTUBERCULOSINOL SYNTHASE, NOSYBERKOL SYNTHASE, TUBERCULOSINOL SYNTHASE

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	PO4	2	Ligand/Ion	PHOSPHATE ION
2	TIP	1	Ligand/Ion	(2E)-3-METHYL-5-[(1R,2S,8AS)-1,2,5,5-TETRAMETHYL-1,2,3,5,6,7,8,8A-OCTAHYDRONAPHTHALEN-1-YL]PENT-2-EN-1-YLTRIHYDROGEN DIPHOSPHATE

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	PO4	4	Ligand/Ion	PHOSPHATE ION
2	TIP	2	Ligand/Ion	(2E)-3-METHYL-5-[(1R,2S,8AS)-1,2,5,5-TETRAMETHYL-1,2,3,5,6,7,8,8A-OCTAHYDRONAPHTHALEN-1-YL]PENT-2-EN-1-YLTRIHYDROGEN DIPHOSPHATE

Sites (3, 3)

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:35 , THR A:36 , ARG A:37 , ARG A:38 , ALA A:55 , LEU A:56 , SER A:59 , ILE A:78 , PHE A:79 , TYR A:90 , GLY A:97 , TYR A:233 , HOH A:451	BINDING SITE FOR RESIDUE TIP A 301
2	AC2	SOFTWARE	ASP A:81 , ASN A:163 , ASP A:214 , SER A:220 , GLY A:221 , HOH A:463 , HOH A:464	BINDING SITE FOR RESIDUE PO4 A 302
3	AC3	SOFTWARE	ARG A:209 , SER A:211 , GLY A:221 , LYS A:222 , THR A:223 , SER A:224 , ARG A:251	BINDING SITE FOR RESIDUE PO4 A 303

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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:292
 aligned with TUBOL_MYCTO | P9WJ60 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:297
                             1                                                                                                                                                                                                                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       
          TUBOL_MYCTO     - -MNLVSEKEFLDLPLVSVAEIVRCRGPKVSVFPFDGTRRWFHLECNPQYDDYQQAALRQSIRILKMLFEHGIETVISPIFSDDLLDRGDRYIVQALEGMALLANDEEILSFYKEHEVHVLFYGDYKKRLPSTAQGAAVVKSFDDLTISTSSNTEHRLCFGVFGNDAAESVAQFSISWNETHGKPPTRREIIEGYYGEYVDKADMFIGFGRFSTFDFPLLSSGKTSLYFTVAPSYYMTETTLRRILYDHIYLRHFRPKPDYSAMSADQLNVLRNRYRAQPDRVFGVGCVHDGIWFAEG 296
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhh..eee....hhhhhhh...-----.hhhhhhhhhhhhhhhhhhh...eeeeeeehhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhhh..hhhhhhhhhhhhhhhhhh.....eeeeeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhh.......eeeee................eeeee..hhhhhhhhhhhhhhhhhhhh.......hhhhh..hhhhhhhhhhhh........eeee..eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wqn A   0 AMNLVSEKEFLDLPLVSVAEIVRCRGPKVSVFPFDGTRRWFHLEC-----DFQQAALRQSIRILKMLFEHGIETVISPIFSDDLLDRGDRYIVQALEGMALLANDEEILSFYKEHEVHVLFYGDYKKRLPSTAQGAAVVKSFDDLTISTSSNTEHRLCFGVFGNDAAESVAQFSISWNETHGKPPTRREIIEGYYGEYVDKADMFIGFGRFSTFDFPLLSSGKTSLYFTVAPSYYMTETTLRRILYDHIYLRHFRPKPDYSAMSADQLNVLRNRYRAQPDRVFGVGCVHDGIWFAEG 296
                                     9        19        29        39    |    -|       59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       
                                                                       44    50

Chain A from PDB  Type:PROTEIN  Length:292
 aligned with TUBOL_MYCTU | P9WJ61 from UniProtKB/Swiss-Prot  Length:296

    Alignment length:297
                             1                                                                                                                                                                                                                                                                                                       
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       
          TUBOL_MYCTU     - -MNLVSEKEFLDLPLVSVAEIVRCRGPKVSVFPFDGTRRWFHLECNPQYDDYQQAALRQSIRILKMLFEHGIETVISPIFSDDLLDRGDRYIVQALEGMALLANDEEILSFYKEHEVHVLFYGDYKKRLPSTAQGAAVVKSFDDLTISTSSNTEHRLCFGVFGNDAAESVAQFSISWNETHGKPPTRREIIEGYYGEYVDKADMFIGFGRFSTFDFPLLSSGKTSLYFTVAPSYYMTETTLRRILYDHIYLRHFRPKPDYSAMSADQLNVLRNRYRAQPDRVFGVGCVHDGIWFAEG 296
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhh..eee....hhhhhhh...-----.hhhhhhhhhhhhhhhhhhh...eeeeeeehhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee.hhhhhh..hhhhhhhhhhhhhhhhhh.....eeeeeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhh.......eeeee................eeeee..hhhhhhhhhhhhhhhhhhhh.......hhhhh..hhhhhhhhhhhh........eeee..eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wqn A   0 AMNLVSEKEFLDLPLVSVAEIVRCRGPKVSVFPFDGTRRWFHLEC-----DFQQAALRQSIRILKMLFEHGIETVISPIFSDDLLDRGDRYIVQALEGMALLANDEEILSFYKEHEVHVLFYGDYKKRLPSTAQGAAVVKSFDDLTISTSSNTEHRLCFGVFGNDAAESVAQFSISWNETHGKPPTRREIIEGYYGEYVDKADMFIGFGRFSTFDFPLLSSGKTSLYFTVAPSYYMTETTLRRILYDHIYLRHFRPKPDYSAMSADQLNVLRNRYRAQPDRVFGVGCVHDGIWFAEG 296
                                     9        19        29        39    |    -|       59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       
                                                                       44    50

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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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (6, 8)

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Description