3PFG - JenaLib

Title :   X-RAY CRYSTAL STRUCTURE THE N,N-DIMETHYLTRANSFERASE TYLM1 FROM STREPTOMYCES FRADIAE IN COMPLEX WITH SAM AND DTDP-PHENOL

Authors :   A. E. Carney, H. M. Holden

Date :   28 Oct 10 (Deposition) - 15 Dec 10 (Release) - 16 Feb 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.35

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

Keywords :   N, N-Dimethyltransferase, Sam Binding, Dtdp-Linked Sugar Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. E. Carney, H. M. Holden
Molecular Architecture Of Tylm1 From Streptomyces Fradiae: An N, N-Dimethyltransferase Involved In The Production Of Dtdp-D-Mycaminose .
Biochemistry V. 50 780 2011
PubMed-ID: 21142177 | Reference-DOI: 10.1021/BI101733Y

Compounds

Molecule 1 - N-METHYLTRANSFERASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET31
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	TYLM1, TYLMI(ORF3*)
	Organism Scientific	:	STREPTOMYCES FRADIAE
	Organism Taxid	:	1906

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (3, 3)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	SAM	1	Ligand/Ion	S-ADENOSYLMETHIONINE
3	TLO	1	Ligand/Ion	5'-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
2	SAM	2	Ligand/Ion	S-ADENOSYLMETHIONINE
3	TLO	2	Ligand/Ion	5'-O-[(S)-HYDROXY{[(S)-HYDROXY(PHENOXY)PHOSPHORYL]OXY}PHOSPHORYL]THYMIDINE

Sites (3, 3)

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:14 , TYR A:22 , TYR A:33 , ALA A:58 , GLY A:60 , HIS A:64 , GLU A:79 , LEU A:80 , MET A:84 , ASP A:101 , MET A:102 , MET A:117 , PHE A:118 , SER A:120 , HIS A:123 , HOH A:271 , TLO A:301 , HOH A:326 , HOH A:332 , HOH A:370 , HOH A:429 , HOH A:455	BINDING SITE FOR RESIDUE SAM A 264
2	AC2	SOFTWARE	TYR A:22 , HIS A:26 , ARG A:177 , VAL A:192 , GLU A:208 , TLO A:301 , HOH A:348	BINDING SITE FOR RESIDUE EDO A 265
3	AC3	SOFTWARE	HIS A:26 , LYS A:29 , PHE A:118 , TRP A:153 , PHE A:158 , THR A:159 , TYR A:162 , ARG A:177 , SER A:179 , GLU A:184 , ILE A:190 , ARG A:211 , ILE A:212 , ARG A:241 , SAM A:264 , EDO A:265 , HOH A:290 , HOH A:322 , HOH A:334 , HOH A:349 , HOH A:364 , HOH A:389 , HOH A:391 , HOH A:410 , HOH A:422	BINDING SITE FOR RESIDUE TLO A 301

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:241
 aligned with TYLM1_STRFR | P95748 from UniProtKB/Swiss-Prot  Length:255

    Alignment length:241
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249 
          TYLM1_STRFR    10 PQADYSGEIAELYDLVHQGKGKDYHREAADLAALVRRHSPKAASLLDVACGTGMHLRHLADSFGTVEGLELSADMLAIARRRNPDAVLHHGDMRDFSLGRRFSAVTCMFSSIGHLAGQAELDAALERFAAHVLPDGVVVVEPWWFPENFTPGYVAAGTVEAGGTTVTRVSHSSREGEATRIEVHYLVAGPDRGITHHEESHRITLFTREQYERAFTAAGLSVEFMPGGPSGRGLFTGLPGA 250
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhh....eeeeee.hhhhhhhhhhhh...eeee...........eeeeee..hhhhhhhhhhhhhhhhhhhhhheeeeeeeee............eeeeeeeee..eeeeeeeeeeee..eeeeeeeeeeee...eeeeeeeeeeee..hhhhhhhhhhhh.eeeeee........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pfg A  10 PQADYSGEIAELYDLVHQGKGKDYHREAADLAALVRRHSPKAASLLDVACGTGMHLRHLADSFGTVEGLELSADMLAIARRRNPDAVLHHGDMRDFSLGRRFSAVTCMFSSIGHLAGQAELDAALERFAAHVLPDGVVVVEPWWFPENFTPGYVAAGTVEAGGTTVTRVSHSSREGEATRIEVHYLVAGPDRGITHHEESHRITLFTREQYERAFTAAGLSVEFMPGGPSGRGLFTGLPGA 250
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249

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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, 6)

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	Cis Peptide Bonds
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Biological Unit
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	3pfg
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