1ZGJ - JenaLib

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Title :   CRYSTAL STRUCTURE OF ISOFLAVANONE 4'-O-METHYLTRANSFERASE COMPLEXED WITH (+)-PISATIN

Authors :   C. -J. Liu, B. E. Deavours, S. Richard, J. -L. Ferrer, R. A. Dixon, J. P. No

Date :   21 Apr 05 (Deposition) - 01 Aug 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Rossma Fold, Isoflavanone 4'-O-Methyltransferase, Plant Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. J. Liu, B. E. Deavours, S. B. Richard, J. L. Ferrer, J. W. Blount, D. Huhman, R. A. Dixon, J. P. Noel
Structural Basis For Dual Functionality Of Isoflavonoid O-Methyltransferases In The Evolution Of Plant Defense Responses.
Plant Cell V. 18 3656 2006
PubMed-ID: 17172354 | Reference-DOI: 10.1105/TPC.106.041376

Molecule 1 - ISOFLAVANONE 4'-O-METHYLTRANSFERASE'
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET28A+
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Organism Common	:	BARREL MEDIC
	Organism Scientific	:	MEDICAGO TRUNCATULA
	Organism Taxid	:	3880

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	P1S	1	Ligand/Ion	(6AR,12AR)-3-(HYDROXYMETHYL)-6H-[1,3]DIOXOLO[5,6][1]BENZOFURO[3,2-C]CHROMEN-6A(12AH)-OL
2	SAH	1	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	P1S	2	Ligand/Ion	(6AR,12AR)-3-(HYDROXYMETHYL)-6H-[1,3]DIOXOLO[5,6][1]BENZOFURO[3,2-C]CHROMEN-6A(12AH)-OL
2	SAH	2	Ligand/Ion	S-ADENOSYL-L-HOMOCYSTEINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:25 , GLY A:125 , ALA A:126 , SER A:130 , SER A:131 , PHE A:159 , MET A:174 , PHE A:175 , MET A:179 , TYR A:318 , MET A:322 , MET A:325	BINDING SITE FOR RESIDUE P1S A 0
2	AC2	SOFTWARE	GLY A:207 , VAL A:213 , ASP A:230 , GLN A:231 , ASP A:250 , MET A:251 , PHE A:252 , LYS A:264 , TRP A:265	BINDING SITE FOR RESIDUE SAH A 3994

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

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

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SAM_OMT_II	PS51683	SAM-dependent O-methyltransferase class II-type profile.	I4OMT_MEDTR	21-364	1	A:21-364

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SAM_OMT_II	PS51683	SAM-dependent O-methyltransferase class II-type profile.	I4OMT_MEDTR	21-364	2	A:21-364

(no "Exon" information available for 1ZGJ)

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
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Chain A from PDB  Type:PROTEIN  Length:354
 aligned with I4OMT_MEDTR | Q29U70 from UniProtKB/Swiss-Prot  Length:364

    Alignment length:354
                                    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       290       300       310       320       330       340       350       360    
          I4OMT_MEDTR    11 SELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKVNILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFKLVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFVGGDMFKSIPSADAVLLKWVLHDWNDEQSLKILKNSKEAISHKGKDGKVIIIDISIDETSDDRGLTELQLDYDLVMLTMFLGKERTKQEWEKLIYDAGFSSYKITPISGFKSLIEVYP 364
               SCOP domains d1zgja1 A:11-116 automated matches                                                                        d1zgja2 A:117-364 automated matches                                                                                                                                                                                                                      SCOP domains
               CATH domains 1zgjA01 A:11-111 'winged helix' repressor DNA binding domain                                         1zgjA02 A:112-364 Vaccinia Virus protein VP39                                                                                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhh..hhhhhhhhhhhhhhhhhh..eeeeee.........eeeeeehhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhh...eeeeeehhhhhh.......eeeee...........eeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee.ee.....hhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhh..eeeeeee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------SAM_OMT_II  PDB: A:21-364 UniProt: 21-364                                                                                                                                                                                                                                                                                                                PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1zgj A  11 SELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKVNILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFKLVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFVGGDMFKSIPSADAVLLKWVLHDWNDEQSLKILKNSKEAISHKGKDGKVIIIDISIDETSDDRGLTELQLDYDLVMLTMFLGKERTKQEWEKLIYDAGFSSYKITPISGFKSLIEVYP 364
                                    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       290       300       310       320       330       340       350       360

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(

)

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)

Barrel medic (Medicago truncatula) (5)

1zgjA02

A:112-364

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Arc Repressor Mutant, subunit A (1030)

Homologous Superfamily: 'winged helix' repressor DNA binding domain (507)

Barrel medic (Medicago truncatula) (5)

1zgjA01

A:11-111

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

Asymmetric Unit(hide GO term definitions)

Chain A (I4OMT_MEDTR | Q29U70)

molecular function
	GO:0008171	O-methyltransferase activity	Catalysis of the transfer of a methyl group to the oxygen atom of an acceptor molecule.
	GO:0030746	isoflavone 4'-O-methyltransferase activity	Catalysis of the reaction: S-adenosyl-L-methionine + isoflavone = S-adenosyl-L-homocysteine + 4'-O-methylisoflavone.
	GO:0008168	methyltransferase activity	Catalysis of the transfer of a methyl group to an acceptor molecule.
	GO:0046983	protein dimerization activity	The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
	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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Biological Unit
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	1zgj
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UniProtKB/Swiss-Prot
	I4OMT_MEDTR \| Q29U70	:	1zg3 1zga 1zhf

1zg3	CRYSTAL STRUCTURE OF ISOFLAVANONE 4'-O-METHYLTRANSFERASE COMPLEXED WITH 2,7,4'-TRIHYDROXYISOFLAVANONE
1zga	CRYSTAL STRUCTURE OF ISOFLAVANONE 4'-O-METHYLTRANSFERASE COMPLEXED WITH (+)-6A-HYDROXYMAACKIAIN
1zhf	CRYSTAL STRUCTURE OF SLELENOMETHIONINE SUBSTITUTED ISOFLAVANONE 4'-O-METHYLTRANSFERASE

Description

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Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

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