3MGB - JenaLib

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Biol. Unit 1 - sites (Jmol Viewer)

Title :   TEG 12 TERNARY STRUCTURE COMPLEXED WITH PAP AND THE TEICOPLANIN AGLYCONE

Authors :   M. J. Bick, J. J. Banik, S. A. Darst, S. F. Brady

Date :   05 Apr 10 (Deposition) - 09 Jun 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.04

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

Keywords :   Sulfotransferase, Glycopeptide, Antibiotic, Transferase-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. J. Bick, J. J. Banik, S. A. Darst, S. F. Brady
Crystal Structures Of The Glycopeptide Sulfotransferase Teg12 In A Complex With The Teicoplanin Aglycone.
Biochemistry V. 49 4159 2010
PubMed-ID: 20361791 | Reference-DOI: 10.1021/BI100150V

Molecule 1 - TEG12
	Chains	:	A, B
	EC Number	:	2.8.2.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	TEG1, TEG12
	Organism Scientific	:	UNCULTURED SOIL BACTERIUM
	Organism Taxid	:	164851

Molecule 2 - TEICOPLANIN AGLYCONE
	Chains	:	C, D
	Organism Scientific	:	NONOMURAEA SP. ATCC 39727
	Organism Taxid	:	93944

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (7, 19)

No.	Name	Count	Type	Full Name
1	3FG	4	OTHER	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	3MY	2	OTHER	3-CHLORO-D-TYROSINE
3	ACT	2	Ligand/Ion	ACETATE ION
4	CL	1	Ligand/Ion	CHLORIDE ION
5	GHP	6	OTHER	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
6	OMY	2	OTHER	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
7	PAP	2	Ligand/Ion	3'-PHOSPHATE-ADENOSINE-5'-DIPHOSPHATE

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	3FG	-1	OTHER	(2S)-AMINO(3,5-DIHYDROXYPHENYL)ETHANOIC ACID
2	3MY	-1	OTHER	3-CHLORO-D-TYROSINE
3	ACT	-1	Ligand/Ion	ACETATE ION
4	CL	-1	Ligand/Ion	CHLORIDE ION
5	GHP	-1	OTHER	(2R)-AMINO(4-HYDROXYPHENYL)ETHANOIC ACID
6	OMY	-1	OTHER	(BETAR)-3-CHLORO-BETA-HYDROXY-L-TYROSINE
7	PAP	-1	Ligand/Ion	3'-PHOSPHATE-ADENOSINE-5'-DIPHOSPHATE

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:12 , ALA A:13 , GLY A:14 , ASN A:15 , THR A:16 , TRP A:17 , ARG A:90 , SER A:98 , ARG A:101 , TYR A:167 , SER A:203 , THR A:204 , LEU A:205 , MET A:208 , PHE A:243 , GLY A:245 , GLU A:246 , GLY A:247 , HOH A:2183 , HOH A:2184 , HOH A:2185 , HOH A:2186 , HOH A:2187 , HOH A:2188	BINDING SITE FOR RESIDUE PAP A 286
2	AC2	SOFTWARE	TYR A:25 , ASP A:195 , HOH A:2189	BINDING SITE FOR RESIDUE ACT A 287
3	AC3	SOFTWARE	HIS A:-27 , HIS A:-24 , HOH A:2190	BINDING SITE FOR RESIDUE ACT A 288
4	AC4	SOFTWARE	HIS A:-24 , 3FG D:393	BINDING SITE FOR RESIDUE CL A 289
5	AC5	SOFTWARE	LYS B:12 , ALA B:13 , GLY B:14 , ASN B:15 , THR B:16 , TRP B:17 , ARG B:90 , SER B:98 , ARG B:101 , TYR B:167 , SER B:203 , THR B:204 , LEU B:205 , MET B:208 , PHE B:243 , GLY B:245 , GLU B:246 , GLY B:247 , HOH B:2127 , HOH B:2128 , HOH B:2129 , HOH B:2130 , HOH B:2131	BINDING SITE FOR RESIDUE PAP B 286
6	AC6	SOFTWARE	SER A:-23 , SER A:-22 , HIS A:-24 , HIS A:-25 , HIS A:-26 , LYS A:213 , MET A:232 , LYS A:233 , GLY A:234 , GLY A:235 , GLY A:238 , ALA A:239 , ARG A:240 , GLN A:242 , ASP B:192 , GLU B:194 , ASP B:195 , ARG B:198 , GLY B:270 , ASP B:271 , LYS B:279 , HOH C:2001 , HOH C:2002 , HOH C:2004 , HOH C:2005 , HOH C:2006 , HOH C:2007 , HOH C:2008 , HOH C:2009 , 3MY D:388 , 3FG D:389 , GHP D:390	BINDING SITE FOR CHAIN C OF TEICOPLANIN AGLYCONE
7	AC7	SOFTWARE	HIS A:-25 , SER A:-23 , HIS A:-26 , HIS A:-27 , HIS A:-28 , SER A:-30 , HIS A:-29 , MET A:1 , ASN A:2 , MET A:59 , GLU A:60 , GLY A:188 , GLY A:189 , LYS A:213 , MET A:232 , CL A:289 , HOH A:2120 , HOH A:2124 , LYS B:279 , GLN B:280 , GHP C:391 , OMY C:392 , HOH C:2008 , HOH D:2002 , HOH D:2003 , HOH D:2004 , HOH D:2005 , HOH D:2006 , HOH D:2007 , HOH D:2008 , HOH D:2009 , HOH D:2010	BINDING SITE FOR CHAIN D OF TEICOPLANIN AGLYCONE

(no "SS Bond" information available for 3MGB)

Asymmetric Unit

No.	Residues
1	Ghp C:391	-	Omy C:392
2	3fg D:389	-	Ghp D:390
3	Ghp D:391	-	Omy D:392

(no "SAP(SNP)/Variant" information available for 3MGB)

(no "PROSITE Motif" information available for 3MGB)

(no "Exon" information available for 3MGB)

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:286
 aligned with B7T1D7_9BACT | B7T1D7 from UniProtKB/TrEMBL  Length:285

    Alignment length:296
                                       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      
         B7T1D7_9BACT     - -----------MNGIRWIASYPKAGNTWVRCMLAAYITGKAPQVWNDIDAESLTLEAMLRFGDLPPAEPMEPVLVKTHLKADVPVLGLYGEATAKVLYLVRNPRDMLLSSMRMASISRDDVEKSRDFARKFIANEGLGWNALGAGGGVGLGSWPENVRSWTESSSDRFPNADVLTMRYEDLKGDPVARFSEIVEFLDLGGPVDIEDIRRAVAASTLERMRELEKRSEQQGGGSPIRHGDARMMKGGPGGARPQFVGEGRYDQSLSFLGEDIESDYQELLHGDSGFALYAKQYGYAG 285
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.......eeeeeee....hhhhhhhhhhhhhhh....hhhhhhh..eehhhhhh...........eeeeee.......hhhhhh..eeeeeeee.hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.......hhhhh....hhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh.hhhhhhhhhhhh----.....------....hhhhh.............hhhhhhhhhhhhhhhhh..hhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mgb A -31 SSHHHHHHSSSMNGIRWIASYPKAGNTWVRCMLAAYITGKAPQVWNDIDAESLTLEAMLRFGDLPPAEPMEPVLVKTHLKADVPVLGLYGEATAKVLYLVRNPRDMLLSSMRMASISRDDVEKSRDFARKFIANEGLGWNALGAGGGVGLGSWPENVRSWTESSSDRFPNADVLTMRYEDLKGDPVARFSEIVEFLDLGGPVDIEDIRRAVAASTLERMRELEKRS----GGSPI------MMKGGPGGARPQFVGEGRYDQSLSFLGEDIESDYQELLHGDSGFALYAKQYGYAG 285
                                   -22|        9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     |   -|   |    - |     239       249       259       269       279      
                                   -22|                                                                                                                                                                                                                    215  220 224    231                                                      
                                      0

Chain B from PDB  Type:PROTEIN  Length:264
 aligned with B7T1D7_9BACT | B7T1D7 from UniProtKB/TrEMBL  Length:285

    Alignment length:285
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280     
         B7T1D7_9BACT     1 MNGIRWIASYPKAGNTWVRCMLAAYITGKAPQVWNDIDAESLTLEAMLRFGDLPPAEPMEPVLVKTHLKADVPVLGLYGEATAKVLYLVRNPRDMLLSSMRMASISRDDVEKSRDFARKFIANEGLGWNALGAGGGVGLGSWPENVRSWTESSSDRFPNADVLTMRYEDLKGDPVARFSEIVEFLDLGGPVDIEDIRRAVAASTLERMRELEKRSEQQGGGSPIRHGDARMMKGGPGGARPQFVGEGRYDQSLSFLGEDIESDYQELLHGDSGFALYAKQYGYAG 285
               SCOP domains d3mgbb_ B: automated matches                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----Sulfotransfer_1-3mgbB01 B:5-243                                                                                                                                                                                                                ------------------------------------------ Pfam domains (1)
           Pfam domains (2) ----Sulfotransfer_1-3mgbB02 B:5-243                                                                                                                                                                                                                ------------------------------------------ Pfam domains (2)
         Sec.struct. author ..eeeeeee....hhhhhhhhhhhhhhh....hhhhhhh..eehhhhhh...........eeeeee.....hhhhhh....eeeeeeee.hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.....------.....hhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh.hhhhhhhhhhhhhhhh.....---------------.............hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mgb B   1 MNGIRWIASYPKAGNTWVRCMLAAYITGKAPQVWNDIDAESLTLEAMLRFGDLPPAEPMEPVLVKTHLKADVPVLGLYGEATAKVLYLVRNPRDMLLSSMRMASISRDDVEKSRDFARKFIANEGLGWN------GVGLGSWPENVRSWTESSSDRFPNADVLTMRYEDLKGDPVARFSEIVEFLDLGGPVDIEDIRRAVAASTLERMRELEKRSEQQGGGSPI---------------RPQFVGEGRYDQSLSFLGEDIESDYQELLHGDSGFALYAKQYGYAG 285
                                    10        20        30        40        50        60        70        80        90       100       110       120        |-     | 140       150       160       170       180       190       200       210       220   |     -       240       250       260       270       280     
                                                                                                                                                          129    136                                                                                     224             240

Chain C from PDB  Type:OTHER  Length:7
                                       
                 3mgb C 387 xxxxxxx 393
                            |||||||
                          387-GHP||
                           388-3MY|
                            389-3FG
                             390-GHP
                              391-GHP
                               392-OMY
                                393-3FG

Chain D from PDB  Type:OTHER  Length:7
                                       
                 3mgb D 387 xxxxxxx 393
                            |||||||
                            |||||||
                          387-GHP||
                           388-3MY|
                            389-3FG
                             390-GHP
                              391-GHP
                               392-OMY
                                393-3FG

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: automated matches (303)

Protein domain: automated matches (303)

Uncultured soil [TaxId: 164851] (3)

d3mgbb_

(no "CATH Domain" information available for 3MGB)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: P-loop_NTPase (1112)

Family: Sulfotransfer_1 (24)

uncultured soil bacterium (4)

1a	Sulfotransfer_1-3mgbB01	B:5-243
1b	Sulfotransfer_1-3mgbB02	B:5-243

Asymmetric Unit(hide GO term definitions)

Chain A,B (B7T1D7_9BACT | B7T1D7)

molecular function
	GO:0008146		sulfotransferase activity		Catalysis of the transfer of a sulfate group from 3'-phosphoadenosine 5'-phosphosulfate to the hydroxyl group of an acceptor, producing the sulfated derivative and 3'-phosphoadenosine 5'-phosphate.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		3FG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		3MY	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ACT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		3fg D:389 - Ghp D:390	[ RasMol ]
		Ghp C:391 - Omy C:392	[ RasMol ]
		Ghp D:391 - Omy D:392	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	2.8.2.-
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	B7T1D7_9BACT \| B7T1D7	:	3mg9 3mgc

2wdx	THE COMPLEXED CRYSTAL STRUCTURE OF THE PRIMARY HEXOSE OXIDASE (DBV29) IN ANTIBIOTIC A40926 BIOSYNTHESIS
3mg9	TEG 12 BINARY STRUCTURE COMPLEXED WITH THE TEICOPLANIN AGLYCONE
3mgc	TEG12 APO

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (7, 19)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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