3OU7 - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   DHPI-SAM-HEP COMPLEX

Authors :   B. Bae, S. K. Nair

Date :   14 Sep 10 (Deposition) - 27 Oct 10 (Release) - 27 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   O-Methyltransferase, Sam, Hydroxyethylphosphonic Acid, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. H. Lee, B. Bae, M. Kuemin, B. T. Circello, W. W. Metcalf, S. K. Nair, W. A. Van Der Donk
Characterization And Structure Of Dhpi, A Phosphonate O-Methyltransferase Involved In Dehydrophos Biosynthesis.
Proc. Natl. Acad. Sci. Usa V. 107 17557 2010
PubMed-ID: 20876132 | Reference-DOI: 10.1073/PNAS.1006848107

Molecule 1 - SAM-DEPENDENT METHYLTRANSFERASE
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PET-28
	Gene	:	DHPI
	Organism Scientific	:	STREPTOMYCES LURIDUS
	Organism Taxid	:	67320

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 8)

No.	Name	Count	Type	Full Name
1	2HE	1	Ligand/Ion	(2-HYDROXYETHYL)PHOSPHONIC ACID
2	SAM	4	Ligand/Ion	S-ADENOSYLMETHIONINE
3	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	2HE	1	Ligand/Ion	(2-HYDROXYETHYL)PHOSPHONIC ACID
2	SAM	2	Ligand/Ion	S-ADENOSYLMETHIONINE
3	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	2HE	-1	Ligand/Ion	(2-HYDROXYETHYL)PHOSPHONIC ACID
2	SAM	2	Ligand/Ion	S-ADENOSYLMETHIONINE
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 3 (3, 16)

No.	Name	Count	Type	Full Name
1	2HE	2	Ligand/Ion	(2-HYDROXYETHYL)PHOSPHONIC ACID
2	SAM	8	Ligand/Ion	S-ADENOSYLMETHIONINE
3	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:15 , TYR A:22 , PHE A:26 , ALA A:54 , SER A:55 , GLY A:56 , ASP A:75 , GLY A:76 , SER A:77 , MET A:80 , GLN A:97 , ASP A:98 , LEU A:99 , PHE A:100 , ALA A:114 , HIS A:115 , TRP A:116 , HIS A:119 , HOH A:221 , HOH A:265 , SO4 A:301	BINDING SITE FOR RESIDUE SAM A 300
2	AC2	SOFTWARE	TYR A:15 , ARG A:18 , HIS A:119 , ARG A:168 , LYS A:180 , SAM A:300 , HOH A:376 , HOH D:377	BINDING SITE FOR RESIDUE SO4 A 301
3	AC3	SOFTWARE	TYR B:15 , TYR B:22 , PHE B:26 , ALA B:54 , SER B:55 , GLY B:56 , TRP B:60 , ASP B:75 , GLY B:76 , SER B:77 , MET B:80 , GLN B:97 , ASP B:98 , LEU B:99 , PHE B:100 , ALA B:114 , HIS B:115 , TRP B:116 , HIS B:119 , HOH B:251 , HOH B:261 , HOH B:267 , SO4 B:301	BINDING SITE FOR RESIDUE SAM B 300
4	AC4	SOFTWARE	TYR B:15 , ARG B:18 , HIS B:119 , ARG B:168 , LYS B:180 , SAM B:300 , HOH B:380	BINDING SITE FOR RESIDUE SO4 B 301
5	AC5	SOFTWARE	TYR C:15 , TYR C:22 , PHE C:26 , ALA C:54 , SER C:55 , GLY C:56 , TRP C:60 , ASP C:75 , GLY C:76 , SER C:77 , MET C:80 , GLN C:97 , ASP C:98 , LEU C:99 , PHE C:100 , ALA C:114 , HIS C:115 , TRP C:116 , HOH C:224 , HOH C:242 , HOH C:275 , HOH C:280 , SO4 C:301	BINDING SITE FOR RESIDUE SAM C 300
6	AC6	SOFTWARE	TYR C:15 , ARG C:18 , HIS C:119 , ARG C:168 , LYS C:180 , HOH C:248 , SAM C:300 , HOH C:382	BINDING SITE FOR RESIDUE SO4 C 301
7	AC7	SOFTWARE	TYR D:15 , TYR D:22 , ALA D:54 , GLY D:56 , ASP D:75 , GLY D:76 , SER D:77 , MET D:80 , GLN D:97 , ASP D:98 , LEU D:99 , PHE D:100 , ALA D:114 , HIS D:115 , TRP D:116 , HIS D:119 , HOH D:232	BINDING SITE FOR RESIDUE SAM D 300
8	AC8	SOFTWARE	HOH A:253 , TYR D:15 , ARG D:18 , PHE D:26 , VAL D:27 , PRO D:28 , HIS D:119 , ARG D:168 , LYS D:180	BINDING SITE FOR RESIDUE 2HE D 301

(no "SS Bond" information available for 3OU7)

(no "Cis Peptide Bond" information available for 3OU7)

(no "SAP(SNP)/Variant" information available for 3OU7)

(no "PROSITE Motif" information available for 3OU7)

(no "Exon" information available for 3OU7)

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:214
 aligned with D7PC21_9ACTN | D7PC21 from UniProtKB/TrEMBL  Length:218

    Alignment length:214
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211    
         D7PC21_9ACTN     2 TTSHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh.eeeeee.hhhhhhhhhh.....eeeee...........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhh......eeeee.....eeeee....hhhhhhhhhhhh..eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ou7 A   2 TTSHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211

Chain B from PDB  Type:PROTEIN  Length:214
 aligned with D7PC21_9ACTN | D7PC21 from UniProtKB/TrEMBL  Length:218

    Alignment length:214
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214    
         D7PC21_9ACTN     5 HGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRPGPR 218
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh.eeeeee.hhhhhhhhhh.....eeeee...........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhh......eeeee.....eeeee....hhhhhhhhhhh...eeeeeeee..eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ou7 B   5 HGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRPGPR 218
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214

Chain C from PDB  Type:PROTEIN  Length:212
 aligned with D7PC21_9ACTN | D7PC21 from UniProtKB/TrEMBL  Length:218

    Alignment length:212
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213  
         D7PC21_9ACTN     4 SHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh.eeeeee.hhhhhhhhhh.....eeeee...........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhh......eeeee.....eeeee....hhhhhhhhhhhh..eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ou7 C   4 SHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213

Chain D from PDB  Type:PROTEIN  Length:213
 aligned with D7PC21_9ACTN | D7PC21 from UniProtKB/TrEMBL  Length:218

    Alignment length:213
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212   
         D7PC21_9ACTN     3 TSHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh......eeeee....hhhhhhhhhhh.eeeeee.hhhhhhhhhh.....eeeee...........eeeeeee.hhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....hhhhhhh......eeeee.....eeeee....hhhhhhhhhhh...eeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ou7 D   3 TSHGLIESQLSYYRARASEYDATFVPYMDSAAPAALERLRAGNIRGDVLELASGTGYWTRHLSGLADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFFAHWLAHVPDDRFEAFWESVRSAVAPGGVVEFVDVTDHERRLEQQDDSEPEVAVRRTLQDGRSFRIVKVFRSPAELTERLTALGWSCSVDEVHPGFLYATCRP 215
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212

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 '\|'

(no "SCOP Domain" information available for 3OU7)

(no "CATH Domain" information available for 3OU7)

(no "Pfam Domain" information available for 3OU7)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (D7PC21_9ACTN | D7PC21)

molecular function
	GO:0051539	4 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3ou7)

Biological Units
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	3ou7
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	D7PC21_9ACTN \| D7PC21	:	3ou2 3ou6

3ou2	DHPI-SAH COMPLEX STRUCTURE
3ou6	DHPI-SAM COMPLEX

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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Gene Ontology (6, 6)

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