4FW5 - JenaLib

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Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE LPXC IN COMPLEX WITH 4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE INHIBITOR

Authors :   Y. N. Kang, J. A. Stuckey

Date :   29 Jun 12 (Deposition) - 15 May 13 (Release) - 15 May 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.99

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 :   Hydrolase, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. N. Kang, J. A. Stuckey
Crystal Structure Of The Lpxc
To Be Published
PubMed: search

Molecule 1 - UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE DEACETYLASE
	Chains	:	A, B, C, D
	EC Number	:	3.5.1.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMOCR
	Expression System Strain	:	BL21 AI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	ENVA, LPXC, PA4406
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	208964
	Strain	:	ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228
	Synonym	:	PROTEIN ENVA, UDP-3-O-ACYL-GLCNAC DEACETYLASE

		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)

Asymmetric Unit (4, 17)

No.	Name	Count	Type	Full Name
1	ACT	5	Ligand/Ion	ACETATE ION
2	GOL	4	Ligand/Ion	GLYCEROL
3	L58	4	Ligand/Ion	4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE
4	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	L58	1	Ligand/Ion	4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE
4	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (3, 5)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	L58	1	Ligand/Ion	4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE
4	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (3, 3)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	L58	1	Ligand/Ion	4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE
4	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	L58	1	Ligand/Ion	4'-BROMO-N-[(2S,3R)-3-HYDROXY-1-(HYDROXYAMINO)-1-OXOBUTAN-2-YL]BIPHENYL-4-CARBOXAMIDE
4	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:78 , HIS A:237 , ASP A:241 , L58 A:302	BINDING SITE FOR RESIDUE ZN A 301
02	AC2	SOFTWARE	MET A:62 , GLU A:77 , HIS A:78 , THR A:190 , PHE A:191 , ILE A:197 , ARG A:201 , GLY A:209 , SER A:210 , ALA A:214 , HIS A:237 , LYS A:238 , ASP A:241 , HIS A:264 , ZN A:301 , HOH A:452	BINDING SITE FOR RESIDUE L58 A 302
03	AC3	SOFTWARE	ARG A:143 , ARG A:258 , GLY A:259 , PHE A:260 , HOH A:536	BINDING SITE FOR RESIDUE ACT A 303
04	AC4	SOFTWARE	PHE A:152 , ILE A:243 , LEU A:246 , TYR A:247 , SER A:252 , LEU A:253 , HOH A:479 , HOH A:500 , HOH A:520	BINDING SITE FOR RESIDUE GOL A 304
05	AC5	SOFTWARE	HIS B:78 , HIS B:237 , ASP B:241 , L58 B:302	BINDING SITE FOR RESIDUE ZN B 301
06	AC6	SOFTWARE	MET B:62 , GLU B:77 , HIS B:78 , THR B:190 , PHE B:191 , ILE B:197 , GLY B:209 , ALA B:214 , VAL B:216 , HIS B:237 , LYS B:238 , ASP B:241 , HIS B:264 , ZN B:301	BINDING SITE FOR RESIDUE L58 B 302
07	AC7	SOFTWARE	ARG B:143 , ARG B:258 , PHE B:260 , HOH B:539	BINDING SITE FOR RESIDUE ACT B 303
08	AC8	SOFTWARE	SER B:40 , GLU B:49 , TYR B:92 , GLU B:94	BINDING SITE FOR RESIDUE ACT B 304
09	AC9	SOFTWARE	GLY B:85 , PHE B:176 , SER B:295 , HOH B:458	BINDING SITE FOR RESIDUE ACT B 305
10	BC1	SOFTWARE	PHE B:152 , ILE B:243 , LEU B:246 , TYR B:247 , SER B:252 , LEU B:253 , HOH B:424	BINDING SITE FOR RESIDUE GOL B 306
11	BC2	SOFTWARE	HIS C:78 , HIS C:237 , ASP C:241 , L58 C:302	BINDING SITE FOR RESIDUE ZN C 301
12	BC3	SOFTWARE	MET C:62 , GLU C:77 , HIS C:78 , THR C:190 , PHE C:191 , GLY C:192 , GLY C:209 , SER C:210 , ALA C:214 , VAL C:216 , HIS C:237 , LYS C:238 , ASP C:241 , HIS C:264 , ZN C:301	BINDING SITE FOR RESIDUE L58 C 302
13	BC4	SOFTWARE	PRO C:46 , VAL C:47 , HOH C:454	BINDING SITE FOR RESIDUE ACT C 303
14	BC5	SOFTWARE	PHE C:152 , ILE C:243 , LEU C:246 , TYR C:247 , SER C:252 , LEU C:253 , HOH C:426 , HOH C:453 , HOH C:467	BINDING SITE FOR RESIDUE GOL C 304
15	BC6	SOFTWARE	HIS D:78 , HIS D:237 , ASP D:241 , L58 D:302	BINDING SITE FOR RESIDUE ZN D 301
16	BC7	SOFTWARE	MET D:62 , GLU D:77 , HIS D:78 , THR D:190 , PHE D:191 , MET D:194 , GLY D:209 , SER D:210 , VAL D:216 , HIS D:237 , LYS D:238 , ASP D:241 , HIS D:264 , ZN D:301	BINDING SITE FOR RESIDUE L58 D 302
17	BC8	SOFTWARE	PHE D:152 , ILE D:243 , LEU D:246 , TYR D:247 , SER D:252 , LEU D:253 , HOH D:488 , HOH D:496 , HOH D:511	BINDING SITE FOR RESIDUE GOL D 303

(no "SS Bond" information available for 4FW5)

Asymmetric Unit

No.	Residues
1	Asp A:45	-	Pro A:46
2	Asp B:45	-	Pro B:46
3	Asp C:45	-	Pro C:46
4	Asp D:45	-	Pro D:46

(no "SAP(SNP)/Variant" information available for 4FW5)

(no "PROSITE Motif" information available for 4FW5)

(no "Exon" information available for 4FW5)

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:301
                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...eeeeee......eeeeeee.......eeeee......eeee.hhhhh.......eeee..eeee.hhhhhhhhhhh....eeeee...........hhhhhhhhhhhheeeeeee..eeee...eeeee..eeeeee....eeeeee........hhhh.eeeee....hhhhhh.....eeehhhhhhhhhh...........eee..............hhhhhhhhhhhhhhhhhhh.eeeeeeeee..hhhhhhhhhhhhhhh...eeee...hhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fw5 A  -1 NAMIKQRTLKNIIRATGVGLHSGEKVYLTLKPAPVDTGIVFSRTDLDPVVEIPARAENVGETTMSTTLVKGDVKVDTVEHLLSAMAGLGIDNAYVELSASEVPIMDGSAGPFVFLIQSAGLQEQEAAKKFIRIKREVSVEEGDKRAVFVPFDGFKVSFEIDFDHPVFRGRTQQASVDFSSTSFVKEVSRARTFGFMRDIEYLRSQNLALGGSVENAIVVDENRVLNEDGLRYEDEFVKHKILDAIGDLYLLGNSLIGEFRGFKSGHALNNQLLRTLIADKDAWEVVTFEDARTAPISYMRP 299
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298

Chain B from PDB  Type:PROTEIN  Length:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee...eeeeee......eeeeeee.......eeeee......eeee.hhhhh.......eeee..eeee.hhhhhhhhhhh....eeeee...........hhhhhhhhhhhheeeeeee..eeee...eeeee..eeeeee....eeeeee........hhhh.eeeee....hhhhhh.....eeehhhhhhhhhh...........eee..............hhhhhhhhhhhhhhhhhhh.eeeeeeeee..hhhhhhhhhhhhhhh...eeee...hhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4fw5 B   0 AMIKQRTLKNIIRATGVGLHSGEKVYLTLKPAPVDTGIVFSRTDLDPVVEIPARAENVGETTMSTTLVKGDVKVDTVEHLLSAMAGLGIDNAYVELSASEVPIMDGSAGPFVFLIQSAGLQEQEAAKKFIRIKREVSVEEGDKRAVFVPFDGFKVSFEIDFDHPVFRGRTQQASVDFSSTSFVKEVSRARTFGFMRDIEYLRSQNLALGGSVENAIVVDENRVLNEDGLRYEDEFVKHKILDAIGDLYLLGNSLIGEFRGFKSGHALNNQLLRTLIADKDAWEVVTFEDARTAPISYMRP 299
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299

Chain C from PDB  Type:PROTEIN  Length:302
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...eeeeee......eeeeeeee......eeeee......eeee.hhh.eee.....eeee..eee..hhhhhhhhhhh....eeeee...........hhhhhhhhhhhheeeeeee..eeee...eeeee..eeeeee....eeeeee....hhhhhh...eeeee....hhhhhh.....eee..hhhhhhhh...........eee..............hhhhhhhhhhhhhhhhhhh.eeeeeeeee..hhhhhhhhhhhhhhh...eeee...hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fw5 C  -2 SNAMIKQRTLKNIIRATGVGLHSGEKVYLTLKPAPVDTGIVFSRTDLDPVVEIPARAENVGETTMSTTLVKGDVKVDTVEHLLSAMAGLGIDNAYVELSASEVPIMDGSAGPFVFLIQSAGLQEQEAAKKFIRIKREVSVEEGDKRAVFVPFDGFKVSFEIDFDHPVFRGRTQQASVDFSSTSFVKEVSRARTFGFMRDIEYLRSQNLALGGSVENAIVVDENRVLNEDGLRYEDEFVKHKILDAIGDLYLLGNSLIGEFRGFKSGHALNNQLLRTLIADKDAWEVVTFEDARTAPISYMRP 299
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297

Chain D from PDB  Type:PROTEIN  Length:302
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee...eeeeee......eeeeeeee......eeeee......eeee.hhh.eee.....eeee..eee..hhhhhhhhhhh....eeeee...........hhhhhhhhhhhheeeeeee..eeee...eeeee..eeeeee....eeeeee....hhhhhh...eeeee....hhhhhh.....eee..hhhhhhhh...........eee..............hhhhhhhhhhhhhhhhhhh.eeeeeeeee..hhhhhhhhhhhhhhh...eeee...hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fw5 D  -2 SNAMIKQRTLKNIIRATGVGLHSGEKVYLTLKPAPVDTGIVFSRTDLDPVVEIPARAENVGETTMSTTLVKGDVKVDTVEHLLSAMAGLGIDNAYVELSASEVPIMDGSAGPFVFLIQSAGLQEQEAAKKFIRIKREVSVEEGDKRAVFVPFDGFKVSFEIDFDHPVFRGRTQQASVDFSSTSFVKEVSRARTFGFMRDIEYLRSQNLALGGSVENAIVVDENRVLNEDGLRYEDEFVKHKILDAIGDLYLLGNSLIGEFRGFKSGHALNNQLLRTLIADKDAWEVVTFEDARTAPISYMRP 299
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297

Legend:		→ Mismatch	(orange background)
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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 '\|'

(no "SCOP Domain" information available for 4FW5)

(no "CATH Domain" information available for 4FW5)

(no "Pfam Domain" information available for 4FW5)

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Asymmetric Unit
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	Cis Peptide Bonds
		Asp A:45 - Pro A:46	[ RasMol ]
		Asp B:45 - Pro B:46	[ RasMol ]
		Asp C:45 - Pro C:46	[ RasMol ]
		Asp D:45 - Pro D:46	[ RasMol ]

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		Biological Unit 4	[ Jena3D ]

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	4fw5
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Description

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Chains, Units

Ligands, Modified Residues, Ions (4, 17)

Sites (17, 17)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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