5CCM - JenaLib

Title :   CRYSTAL STRUCTURE OF SMYD3 WITH SAM AND EPZ030456

Authors :   P. A. Boriack-Sjodin

Date :   02 Jul 15 (Deposition) - 09 Sep 15 (Release) - 30 Mar 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A

Keywords :   Protein-Inhibitor Complex, Methyltransferase, Epigenetics, Drug Discovery, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. H. Mitchell, P. A. Boriack-Sjodin, S. Smith, M. Thomenius, N. Rioux M. Munchhof, J. E. Mills, C. Klaus, J. Totman, T. V. Riera, A. Raimondi, S. L. Jacques, K. West, M. Foley, N. J. Waters, K. W. Kuntz, T. J. Wigle, M. P. Scott, R. A. Copeland, J. J. Smith, R. Chesworth
Novel Oxindole Sulfonamides And Sulfamides: Epz031686, The First Orally Bioavailable Small Molecule Smyd3 Inhibitor.
Acs Med. Chem. Lett. V. 7 134 2016
PubMed-ID: 26985287 | Reference-DOI: 10.1021/ACSMEDCHEMLETT.5B00272

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 5)

Sites (5, 5)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:49 , CYS A:52 , CYS A:71 , CYS A:75	binding site for residue ZN A 501
2	AC2	SOFTWARE	CYS A:208 , CYS A:261 , CYS A:263 , CYS A:266	binding site for residue ZN A 502
3	AC3	SOFTWARE	CYS A:62 , CYS A:65 , HIS A:83 , CYS A:87	binding site for residue ZN A 503
4	AC4	SOFTWARE	ARG A:14 , GLY A:15 , ASN A:16 , TYR A:124 , ASN A:132 , ASN A:181 , SER A:202 , LEU A:203 , LEU A:204 , ASN A:205 , HIS A:206 , TYR A:239 , TYR A:257 , PHE A:259 , 4ZX A:505 , HOH A:605 , HOH A:644 , HOH A:645 , HOH A:659 , HOH A:660 , HOH A:669 , HOH A:688	binding site for residue SAM A 504
5	AC5	SOFTWARE	CYS A:180 , ASN A:181 , SER A:182 , PHE A:183 , THR A:184 , CYS A:186 , MET A:190 , GLU A:192 , SER A:202 , ILE A:214 , ILE A:237 , CYS A:238 , TYR A:239 , LEU A:240 , ASP A:241 , TYR A:257 , GLU A:294 , LYS A:329 , ASP A:332 , CYS A:333 , VAL A:368 , SAM A:504 , HOH A:641	binding site for residue 4ZX A 505

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:423
                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....eeeee........eeeee...eeee...................ee.......ee.hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..hhhhh..hhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh....hhhhhhhhhhhheeeee.....eeeeee..hhhhhee.....eeeeee..eeeeee..........ee.......hhhhhhhhhhhhhh....hhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ccm A   3 PLKVEKFATANRGNGLRAVTPLRPGELLFRSDPLAYTVCKGSRGVVCDRCLLGKEKLMRCSQCRVAKYCSAKCQKKAWPDHKRECKCLKSCKPRYPPDSVRLLGRVVFKLMDGAPSESEKLYSFYDLESNINKLTEDKKEGLRQLVMTFQHFMREEIQDASQLPPAFDLFEAFAKVICNSFTICNAEMQEVGVGLYPSISLLNHSCDPNCSIVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQLRDQYCFECDCFRCQTQDKDADMLTGDEQVWKEVQESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDLILLLEECDANI 425
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (19, 19)

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Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		4ZX	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SAM	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Lys A:94 - Pro A:95	[ RasMol ]

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