4QDK - JenaLib

Title :   CRYSTAL STRUCTURE OF MAGNESIUM PROTOPORPHYRIN IX METHYLTRANSFERASE (CHLM) FROM SYNECHOCYSTIS PCC 6803 WITH BOUND SAH

Authors :   X. Chen, X. Wang, L. Liu

Date :   14 May 14 (Deposition) - 06 Aug 14 (Release) - 19 Aug 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

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

Keywords :   Methyltransferase, Transferase, Magnesium Protoporphyrin Ix, S- Adenosyl Homocysteine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Chen, X. Wang, J. Feng, Y. Chen, Y. Fang, S. Zhao, A. Zhao, M. Zhang, L. Liu
Structural Insights Into The Catalytic Mechanism Of Synechocystis Magnesium Protoporphyrin Ix O-Methyltransferase (Chlm).
J. Biol. Chem. V. 289 25690 2014
PubMed-ID: 25077963 | Reference-DOI: 10.1074/JBC.M114.584920

Compounds

Molecule 1 - MAGNESIUM-PROTOPORPHYRIN O-METHYLTRANSFERASE
	Chains	:	A, B
	EC Number	:	2.1.1.11
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	CHLM, SLR0525
	Organism Scientific	:	SYNECHOCYSTIS SP.
	Organism Taxid	:	1111708
	Strain	:	PCC 6803
	Synonym	:	MAGNESIUM-PROTOPORPHYRIN IX METHYLTRANSFERASE

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 4)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	SAH	2	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	SAH	2	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	SAH	1	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:12 , PHE A:16 , TYR A:28 , HIS A:44 , GLY A:70 , CYS A:71 , GLY A:72 , SER A:75 , ASP A:91 , ILE A:92 , SER A:93 , MET A:96 , GLN A:119 , ASP A:120 , LEU A:121 , LEU A:134 , ASP A:135 , VAL A:136 , TYR A:140 , HOH A:402 , HOH A:406 , HOH A:412	BINDING SITE FOR RESIDUE SAH A 301
2	AC2	SOFTWARE	ASP A:135 , ILE A:138 , ALA A:165 , TYR A:220 , TYR A:221 , HOH A:482 , HOH A:487 , HOH A:520 , HOH A:526	BINDING SITE FOR RESIDUE GOL A 302
3	AC3	SOFTWARE	LYS B:9 , VAL B:12 , PHE B:16 , TYR B:28 , HIS B:44 , GLY B:70 , CYS B:71 , GLY B:72 , SER B:75 , ASP B:91 , ILE B:92 , MET B:96 , GLN B:119 , ASP B:120 , LEU B:121 , LEU B:134 , ASP B:135 , VAL B:136 , TYR B:140 , HOH B:402 , HOH B:403 , HOH B:404	BINDING SITE FOR RESIDUE SAH B 301
4	AC4	SOFTWARE	ASP B:135 , ILE B:138 , ALA B:165 , TYR B:220 , TYR B:221 , HOH B:481 , HOH B:499 , HOH B:526	BINDING SITE FOR RESIDUE GOL B 302

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:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhh.....eeee.hhhhh...eeeeee..hhhhhhhhhhhhhhhhhhh.eeeeeeeee...hhhhhhhhhhhh.........hhhhhhhhhhhh.eeeeeeeeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qdk A   7 DDKTIVRDYFNSTGFDRWRRIYGDGQVNFVQKDIRVGHQQTVDSVVAWLVADGNLPGLLVCDAGCGVGSLSIPLAQAGALVYGSDISEKMVGEAQQKAQEVLAYGNQPTFMTQDLAQLGGKYDTVICLDVLIHYPTEEASAMISHLASLADRRLILSFAPKTLGLTVLKKIGGLFPGRAYQHKEADIRKILGDNGFSIARTGMTSTRFYYSRILEAVRS 230
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176      |191       201       211       221         
                                                                                                                                                                                                          183|                                         
                                                                                                                                                                                                           189

Chain B from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhh.....eeee.hhhhh...eeeeee..hhhhhhhhhhhhhhhhhhh.eeeeeeeee...hhhhhhhhhhhh..........hhhhhhhhhhhh.eeeeeeeeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qdk B   8 DKTIVRDYFNSTGFDRWRRIYGDGQVNFVQKDIRVGHQQTVDSVVAWLVADGNLPGLLVCDAGCGVGSLSIPLAQAGALVYGSDISEKMVGEAQQKAQEVLAYGNQPTFMTQDLAQLGGKYDTVICLDVLIHYPTEEASAMISHLASLADRRLILSFAPKTLGLTVLKKIGGLFPGTRAYQHKEADIRKILGDNGFSIARTGMTSTRFYYSRILEAVRS 230
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177     ||191       201       211       221         
                                                                                                                                                                                                         183|                                          
                                                                                                                                                                                                          188

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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 (9, 9)

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