1VLM - JenaLib

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Title :   CRYSTAL STRUCTURE OF SAM-DEPENDENT METHYLTRANSFERASE, POSSIBLE HISTAMINE N-METHYLTRANSFERASE (TM1293) FROM THERMOTOGA MARITIMA AT 2.20 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   04 Aug 04 (Deposition) - 24 Aug 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Tm1293, Sam-Dependent Methyltransferase, Possible Histamine N- Methyltransferase, Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Joint Center For Structural Genomics, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Sam-Dependent Methyltransferase, Possible Histamine N-Methyltransferase (Tm1293) From Thermotoga Maritima At 2. 20 A Resolution
To Be Published
PubMed: search

Molecule 1 - SAM-DEPENDENT METHYLTRANSFERASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	TM1293
	Mutation	:	YES
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	243274
	Other Details	:	POSSIBLE HISTAMINE N-METHYLTRANSFERASE
	Strain	:	MSB8

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 11)

No.	Name	Count	Type	Full Name
1	MSE	10	Mod. Amino Acid	SELENOMETHIONINE
2	NA	1	Ligand/Ion	SODIUM ION

Biological Unit 1 (1, 5)

No.	Name	Count	Type	Full Name
1	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
2	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (1, 5)

No.	Name	Count	Type	Full Name
1	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
2	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:43 , VAL A:97 , THR A:98 , THR A:99 , HOH A:309 , HOH A:335	BINDING SITE FOR RESIDUE NA A 300

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

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

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

(no "PROSITE Motif" information available for 1VLM)

(no "Exon" information available for 1VLM)

Asymmetric Unit

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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:207
 aligned with Q9X119_THEMA | Q9X119 from UniProtKB/TrEMBL  Length:207

    Alignment length:208
                             1                                                                                                                                                                                                              
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        
         Q9X119_THEMA     - -MWHIFERFVNEYERWFLVHRFAYLSELQAVKCLLPEGRGVEIGVGTGRFAVPLKIKIGVEPSERMAEIARKRGVFVLKGTAENLPLKDESFDFALMVTTICFVDDPERALKEAYRILKKGGYLIVGIVDRESFLGREYEKNKEKSVFYKNARFFSTEELMDLMRKAGFEEFKVVQTLFKHPSELSEIEPVKEGYGEGAFVVIRGTKK 207
               SCOP domains d1vlma_ A: Possible histamine N-methyltransferase TM1293                                                                                                                                                         SCOP domains
               CATH domains 1vlmA00 A:0-207 Vaccinia Virus protein VP39                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee......hhhhhh..eeee.hhhhhhhhhhh..eeee............eeeeeee.hhhhh.hhhhhhhhhhhheeeeeeeeeeee...hhhhhhhhhh...-.........hhhhhhhhhhhh..eeeeeeee...hhhhh......ee......eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vlm A   0 HmWHIFERFVNEYERWFLVHRFAYLSELQAVKCLLPEGRGVEIGVGTGRFAVPLKIKIGVEPSERmAEIARKRGVFVLKGTAENLPLKDESFDFALmVTTICFVDDPERALKEAYRILKKGGYLIVGIVDRESFLGREYEKNKEK-VFYKNARFFSTEELmDLmRKAGFEEFKVVQTLFKHPSELSEIEPVKEGYGEGAFVVIRGTKK 207
                             |       9        19        29        39        49        59     |  69        79        89      | 99       109       119       129       139    | |149       159|  |   169       179       189       199        
                             |                                                              65-MSE                         96-MSE                                         144 |           160-MSE                                           
                             1-MSE                                                                                                                                          146              163-MSE

Chain B from PDB  Type:PROTEIN  Length:207
 aligned with Q9X119_THEMA | Q9X119 from UniProtKB/TrEMBL  Length:207

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
         Q9X119_THEMA     1 MWHIFERFVNEYERWFLVHRFAYLSELQAVKCLLPEGRGVEIGVGTGRFAVPLKIKIGVEPSERMAEIARKRGVFVLKGTAENLPLKDESFDFALMVTTICFVDDPERALKEAYRILKKGGYLIVGIVDRESFLGREYEKNKEKSVFYKNARFFSTEELMDLMRKAGFEEFKVVQTLFKHPSELSEIEPVKEGYGEGAFVVIRGTKK 207
               SCOP domains d1vlmb_ B: Possible histamine N-methyltransferase TM1293                                                                                                                                                        SCOP domains
               CATH domains -1vlmB00 B:2-207 Vaccinia Virus protein VP39                                                                                                                                                                    CATH domains
           Pfam domains (1) ---------------------------------------Methyltransf_11-1vlmB01 B:40-125                                                      ---------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------Methyltransf_11-1vlmB02 B:40-125                                                      ---------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee......hhhhhh..eee..hhhhhhhhhhh..eee.............eeeeeee.hhhhh.hhhhhhhhhhhheeeeeeeeeeee...hhhhhhhhhhhhhh.........hhhhhhhhhhhhh.eeeeeeee...hhhhh......ee......eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vlm B   1 mWHIFERFVNEYERWFLVHRFAYLSELQAVKCLLPEGRGVEIGVGTGRFAVPLKIKIGVEPSERmAEIARKRGVFVLKGTAENLPLKDESFDFALmVTTICFVDDPERALKEAYRILKKGGYLIVGIVDRESFLGREYEKNKEKSVFYKNARFFSTEELmDLmRKAGFEEFKVVQTLFKHPSELSEIEPVKEGYGEGAFVVIRGTKK 207
                            |       10        20        30        40        50        60    |   70        80        90     | 100       110       120       130       140       150       160  |    170       180       190       200       
                            1-MSE                                                          65-MSE                         96-MSE                                                         160-MSE                                           
                                                                                                                                                                                            163-MSE

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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 '\|'

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: Vaccinia Virus protein VP39 (378)

Thermotoga maritima msb8. Organism_taxid: 243274. Strain: msb8. (2)

1a	1vlmA00	A:0-207
1b	1vlmB00	B:2-207

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: NADP_Rossmann (1239)

Family: Methyltransf_11 (8)

Thermotoga maritima (1)

1a	Methyltransf_11-1vlmB01	B:40-125
1b	Methyltransf_11-1vlmB02	B:40-125

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q9X119_THEMA | Q9X119)

molecular function
	GO:0008757	S-adenosylmethionine-dependent methyltransferase activity	Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a substrate.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0032259	methylation	The process in which a methyl group is covalently attached to a molecule.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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Description

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Ligands, Modified Residues, Ions (2, 11)

Sites (1, 1)

SS Bonds (0, 0)

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