5L8A - JenaLib

Title :   TARGETING THE PEX14-PEX5 INTERACTION BY SMALL MOLECULES PROVIDES NOVEL THERAPEUTIC ROUTES TO TREAT TRYPANOSOMIASES.

Authors :   M. Dawidowski, L. Emmanouilidis, M. Sattler, G. M. Popowicz

Date :   07 Jun 16 (Deposition) - 08 Mar 17 (Release) - 12 Apr 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.57

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Trypanosomiasis, Glycosome, Protein-Protein Interaction Inhibitor, Structure-Based Drug Discovery, Inhibitor, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Dawidowski, L. Emmanouilidis, V. C. Kalel, K. Tripsianes, K. Schorpp, K. Hadian, M. Kaiser, P. Maser, M. Kolonko, S. Tanghe, A. Rodriguez, W. Schliebs, R. Erdmann, M. Sattler, G. M. Popowicz
Inhibitors Of Pex14 Disrupt Protein Import Into Glycosomes And Kill Trypanosoma Parasites.
Science V. 355 1416 2017
PubMed-ID: 28360328 | Reference-DOI: 10.1126/SCIENCE.AAL1807

Compounds

Molecule 1 - PEROXIN 14
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	PEX14
	Organism Scientific	:	TRYPANOSOMA BRUCEI BRUCEI
	Organism Taxid	:	5702

Structural Features

Chains, Units

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (4, 7)

Asymmetric Unit (4, 7)

No.	Name	Count	Type	Full Name
1	6RB	4	Ligand/Ion	1-(2-HYDROXYETHYL)-5-[(4-METHOXYNAPHTHALEN-1-YL)METHYL]-~{N}-(PHENYLMETHYL)-6,7-DIHYDRO-4~{H}-PYRAZOLO[4,3-C]PYRIDINE-3-CARBOXAMIDE
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	1	Mod. Amino Acid	GLYCINE
4	NA	1	Ligand/Ion	SODIUM ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	6RB	1	Ligand/Ion	1-(2-HYDROXYETHYL)-5-[(4-METHOXYNAPHTHALEN-1-YL)METHYL]-~{N}-(PHENYLMETHYL)-6,7-DIHYDRO-4~{H}-PYRAZOLO[4,3-C]PYRIDINE-3-CARBOXAMIDE
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	1	Mod. Amino Acid	GLYCINE
4	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	6RB	1	Ligand/Ion	1-(2-HYDROXYETHYL)-5-[(4-METHOXYNAPHTHALEN-1-YL)METHYL]-~{N}-(PHENYLMETHYL)-6,7-DIHYDRO-4~{H}-PYRAZOLO[4,3-C]PYRIDINE-3-CARBOXAMIDE
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	-1	Mod. Amino Acid	GLYCINE
4	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	6RB	1	Ligand/Ion	1-(2-HYDROXYETHYL)-5-[(4-METHOXYNAPHTHALEN-1-YL)METHYL]-~{N}-(PHENYLMETHYL)-6,7-DIHYDRO-4~{H}-PYRAZOLO[4,3-C]PYRIDINE-3-CARBOXAMIDE
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	-1	Mod. Amino Acid	GLYCINE
4	NA	-1	Ligand/Ion	SODIUM ION

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	6RB	1	Ligand/Ion	1-(2-HYDROXYETHYL)-5-[(4-METHOXYNAPHTHALEN-1-YL)METHYL]-~{N}-(PHENYLMETHYL)-6,7-DIHYDRO-4~{H}-PYRAZOLO[4,3-C]PYRIDINE-3-CARBOXAMIDE
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	-1	Mod. Amino Acid	GLYCINE
4	NA	-1	Ligand/Ion	SODIUM ION

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:13 , GLU A:16 , PHE A:17 , ARG A:22 , THR A:26 , PHE A:34 , LEU A:35 , HOH A:231 , HIS B:33 , 6RB B:101	binding site for residue 6RB A 101
2	AC2	SOFTWARE	PRO A:27 , THR A:28 , SER A:29 , HOH A:201 , HOH A:206 , HOH A:233 , THR C:28 , LYS C:56	binding site for residue GLY A 102
3	AC3	SOFTWARE	HIS A:33 , PHE A:34 , 6RB A:101 , ASN B:13 , PHE B:17 , ARG B:22 , THR B:26 , PHE B:34 , LYS B:38 , HOH B:215	binding site for residue 6RB B 101
4	AC4	SOFTWARE	ASN C:13 , GLU C:16 , PHE C:17 , ARG C:22 , THR C:26 , SER C:30 , PHE C:34 , LEU C:35 , LYS C:38 , HOH C:224 , HIS D:33 , 6RB D:101	binding site for residue 6RB C 101
5	AC5	SOFTWARE	SER C:29 , SER C:30 , HOH C:233 , HOH C:241 , HOH D:202	binding site for residue NA C 102
6	AC6	SOFTWARE	SER C:30 , HIS C:33 , 6RB C:101 , ASN D:13 , GLU D:16 , PHE D:17 , ASP D:20 , ARG D:22 , THR D:26 , SER D:30 , PHE D:34 , LEU D:35 , LYS D:38 , HOH D:230	binding site for residue 6RB D 101
7	AC7	SOFTWARE	LYS D:36 , LEU D:40 , SER D:41 , ALA D:42 , HOH D:208	binding site for residue EDO D 102

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
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Chain A from PDB  Type:PROTEIN  Length:62
                                                                                             
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  5l8a A  5 SEREKRVSNAVEFLLDSRVRRTPTSSKVHFLKSKGLSAEEICEAFTKVGQPKTLNEIKRILS 66
                                    14        24        34        44        54        64

Chain B from PDB  Type:PROTEIN  Length:62
                                                                                             
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  5l8a B  5 SEREKRVSNAVEFLLDSRVRRTPTSSKVHFLKSKGLSAEEICEAFTKVGQPKTLNEIKRILS 66
                                    14        24        34        44        54        64

Chain C from PDB  Type:PROTEIN  Length:62
                                                                                             
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  5l8a C  5 SEREKRVSNAVEFLLDSRVRRTPTSSKVHFLKSKGLSAEEICEAFTKVGQPKTLNEIKRILS 66
                                    14        24        34        44        54        64

Chain D from PDB  Type:PROTEIN  Length:62
                                                                                             
               SCOP domains -------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhh....hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------- Transcript
                  5l8a D  5 SEREKRVSNAVEFLLDSRVRRTPTSSKVHFLKSKGLSAEEICEAFTKVGQPKTLNEIKRILS 66
                                    14        24        34        44        54        64

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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 (5, 5)

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