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Title :   CRYSTAL STRUCTURE OF METHYLTRANSFERASE MBOIIA (MORAXELLA BOVIS)

Authors :   J. Osipiuk, M. A. Walsh, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)

Date :   02 Nov 00 (Deposition) - 01 May 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.74

Chains :   Asym./Biol. Unit : A,B

Keywords :   Structural Genomics, Moraxella Bovis, Dna Methylation, S- Adenosylmethionine, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Osipiuk, M. A. Walsh, A. Joachimiak
Crystal Structure Of Mboiia Methyltransferase.
Nucleic Acids Res. V. 31 5440 2003
PubMed-ID: 12954781 | Reference-DOI: 10.1093/NAR/GKG713
(for further references see the PDB file header)

Molecule 1 - ADENINE-SPECIFIC METHYLTRANSFERASE MBOIIA
	Chains	:	A, B
	EC Number	:	2.1.1.72
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24A
	Expression System Strain	:	BL21(DE3)PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	MORAXELLA BOVIS
	Organism Taxid	:	476
	Synonym	:	MODIFICATION METHYLASE MBOIIA

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	NA	2	Ligand/Ion	SODIUM ION
2	SAM	2	Ligand/Ion	S-ADENOSYLMETHIONINE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE A:93	BINDING SITE FOR RESIDUE NA B 402
2	AC2	SOFTWARE	MET A:10 , ASN A:11 , CYS A:12 , ASP A:30 , TRP A:40 , PRO A:196 , LYS A:197 , PHE A:220 , MET A:221 , GLY A:222 , SER A:223 , THR A:225 , ASP A:241 , MET A:242 , TYR A:246 , HOH A:524 , HOH A:561 , HOH A:572 , HOH A:583 , HOH A:586 , HOH A:588	BINDING SITE FOR RESIDUE SAM A 500
3	AC3	SOFTWARE	MET B:10 , ASN B:11 , CYS B:12 , ASP B:30 , TRP B:40 , PRO B:196 , LYS B:197 , PHE B:220 , MET B:221 , GLY B:222 , SER B:223 , THR B:225 , ASP B:241 , MET B:242 , TYR B:246 , HOH B:537 , HOH B:538 , HOH B:570 , HOH B:609	BINDING SITE FOR RESIDUE SAM B 501

(no "SS Bond" information available for 1G60)

(no "Cis Peptide Bond" information available for 1G60)

(no "SAP(SNP)/Variant" information available for 1G60)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	N6_MTASE	PS00092	N-6 Adenine-specific DNA methylases signature.	MTM2_MORBO	27-33	2	A:27-33 B:27-33

(no "Exon" information available for 1G60)

Asymmetric/Biological 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:238
 aligned with MTM2_MORBO | P23192 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:256
                                    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      
           MTM2_MORBO     1 MLEINKIHQMNCFDFLDQVENKSVQLAVIDPPYNLSKADWDSFDSHNEFLPFTYRWIDKVLDKLDKDGSLYIFNTPFNCAFICQYLVSKGMIFQNWITWDKRDGMGSAKRGFSTGQETILFFSKSKNHTFNYDEVRVPYESTDRIKHASEKGILKNGKRWFPNPNGRLCGEVWHFSSQRHKEKVNGKTVKLTHITPKPRDLIERIIRASSNPNDLVLDCFMGSGTTAIVAKKLGRNFIGCDMNAEYVNQANFVLNQ 256
               SCOP domains d1g60a_ A: Methyltransferase mboII                                                                                                                                                                                                                               SCOP domains
               CATH domains 1g60A00 A:1-256 Vaccinia Virus protein VP39                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.hhhhhhhhh....eeeeee........hhhhh..hhhhhhhhhhhhhhhhhhheeeeeeeeeeehhhhhhhhhhhhhhh..eeeeeeee.................eeeeeee.......hhhhh....hhhhhhhhhhhhh...................ee...------------------...hhhhhhhhhhhhh....eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------N6_MTAS------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1g60 A   1 MLEINKIHQMNCFDFLDQVENKSVQLAVIDPPYNLSKADWDSFDSHNEFLAFTYRWIDKVLDKLDKDGSLYIFNTPFNCAFICQYLVSKGMIFQNWITWDKRDGMGSAKRRFSTGQETILFFSKSKNHTFNYDEVRVPYESTDRIKHASEKGILKNGKRWFPNPNGRLCGEVWHFS------------------TPKPRDLIERIIRASSNPNDLVLDCFMGSGTTAIVAKKLGRNFIGCDMNAEYVNQANFVLNQ 256
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     |   -         -    |  200       210       220       230       240       250      
                                                                                                                                                                                                         176                195

Chain B from PDB  Type:PROTEIN  Length:228
 aligned with MTM2_MORBO | P23192 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:256
                                    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      
           MTM2_MORBO     1 MLEINKIHQMNCFDFLDQVENKSVQLAVIDPPYNLSKADWDSFDSHNEFLPFTYRWIDKVLDKLDKDGSLYIFNTPFNCAFICQYLVSKGMIFQNWITWDKRDGMGSAKRGFSTGQETILFFSKSKNHTFNYDEVRVPYESTDRIKHASEKGILKNGKRWFPNPNGRLCGEVWHFSSQRHKEKVNGKTVKLTHITPKPRDLIERIIRASSNPNDLVLDCFMGSGTTAIVAKKLGRNFIGCDMNAEYVNQANFVLNQ 256
               SCOP domains d1g60b_ B: Methyltransferase mboII                                                                                                                                                                                                                               SCOP domains
               CATH domains 1g60B00 B:1-256 Vaccinia Virus protein VP39                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee.hhhhhhhhh....eeeeee........hhhhh..hhhhhhhhhhhhhhhhhhheeeeeeeeeeehhhhhhhhhhhhhhh..eeeeeeee.................eeeeeee.......hhhhh....------------.eee..eee...........ee....----------------....hhhhhhhhhhhhh....eeee.....hhhhhhhhhh..eeeeee.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------N6_MTAS------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1g60 B   1 MLEINKIHQMNCFDFLDQVENKSVQLAVIDPPYNLSKADWDSFDSHNEFLAFTYRWIDKVLDKLDKDGSLYIFNTPFNCAFICQYLVSKGMIFQNWITWDKRDGMGSAKRRFSTGQETILFFSKSKNHTFNYDEVRVPY------------GILKNGKRWFPNPNGRLCGEVWHFSS----------------ITPKPRDLIERIIRASSNPNDLVLDCFMGSGTTAIVAKKLGRNFIGCDMNAEYVNQANFVLNQ 256
                                    10        20        30        40        50        60        70        80        90       100       110       120       130        |-         - |     160       170      |  -         -   |   200       210       220       230       240       250      
                                                                                                                                                                    139          152                      177              194

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/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: S-adenosyl-L-methionine-dependent methyltransferases (533)

Superfamily: S-adenosyl-L-methionine-dependent methyltransferases (533)

Family: Type II DNA methylase (7)

Protein domain: Methyltransferase mboII (1)

Moraxella bovis [TaxId: 476] (1)

1a	d1g60a_	A:
1b	d1g60b_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: Vaccinia Virus protein VP39 (378)

Moraxella bovis. Organism_taxid: 476. (1)

1a	1g60B00	B:1-256
1b	1g60A00	A:1-256

(no "Pfam Domain" information available for 1G60)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (MTM2_MORBO | P23192)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0008170	N-methyltransferase activity	Catalysis of the transfer of a methyl group to the nitrogen atom of an acceptor molecule.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0009007	site-specific DNA-methyltransferase (adenine-specific) activity	Catalysis of the reaction: S-adenosyl-L-methionine + DNA adenine = S-adenosyl-L-homocysteine + DNA 6-methylaminopurine.
	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:0006306	DNA methylation	The covalent transfer of a methyl group to either N-6 of adenine or C-5 or N-4 of cytosine.
	GO:0032775	DNA methylation on adenine	The covalent transfer of a methyl group to N-6 of adenine in a DNA molecule.
	GO:0009307	DNA restriction-modification system	A defense process found in many bacteria and archaea that protects the organism from invading foreign DNA by cleaving it with a restriction endonuclease. The organism's own DNA is protected by methylation of a specific nucleotide, which occurs immediately following replication, in the same target site as the restriction enzyme.
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.

Asymmetric/Biological Unit
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Ligands, Modified Residues, Ions (2, 4)

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