4Q42 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH L-ORNITHINE

Authors :   Y. Hai, J. E. Edwards, M. C. Van Zandt, K. F. Hoffmann, D. W. Christianso

Date :   12 Apr 14 (Deposition) - 16 Jul 14 (Release) - 06 Aug 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.05

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

Keywords :   Arginase-Deacetylase Fold, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Hai, J. E. Edwards, M. C. Van Zandt, K. F. Hoffmann, D. W. Christianson
Crystal Structure Of Schistosoma Mansoni Arginase, A Potential Drug Target For The Treatment Of Schistosomiasis.
Biochemistry V. 53 4671 2014
PubMed-ID: 25007099 | Reference-DOI: 10.1021/BI5004519

Molecule 1 - ARGINASE
	Chains	:	A, B, C, D
	EC Number	:	3.5.3.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	SMP_059980
	Organism Common	:	BLOOD FLUKE
	Organism Scientific	:	SCHISTOSOMA MANSONI
	Organism Taxid	:	6183

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 18)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	MN	8	Ligand/Ion	MANGANESE (II) ION
3	ORN	4	Ligand/Ion	L-ORNITHINE

Biological Unit 1 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ORN	3	Ligand/Ion	L-ORNITHINE

Biological Unit 2 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ORN	3	Ligand/Ion	L-ORNITHINE

Biological Unit 3 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ORN	3	Ligand/Ion	L-ORNITHINE

Biological Unit 4 (1, 3)

No.	Name	Count	Type	Full Name
1	GOL	-1	Ligand/Ion	GLYCEROL
2	MN	-1	Ligand/Ion	MANGANESE (II) ION
3	ORN	3	Ligand/Ion	L-ORNITHINE

Asymmetric Unit (18, 18)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:131 , ASP A:154 , ASP A:158 , ASP A:262 , MN A:402 , HOH A:696 , HOH A:734	BINDING SITE FOR RESIDUE MN A 401
02	AC2	SOFTWARE	ASP A:154 , HIS A:156 , ASP A:262 , ASP A:264 , MN A:401 , HOH A:734	BINDING SITE FOR RESIDUE MN A 402
03	AC3	SOFTWARE	ASP A:158 , ASN A:160 , SER A:167 , HIS A:171 , ASP A:213 , HOH A:568 , HOH A:571 , HOH A:577 , HOH A:583 , HOH A:638 , HOH A:695 , HOH A:696 , HOH A:734	BINDING SITE FOR RESIDUE ORN A 403
04	AC4	SOFTWARE	ASN A:32 , ILE A:38 , GLU A:73 , HOH A:722	BINDING SITE FOR RESIDUE GOL A 404
05	AC5	SOFTWARE	ASP A:79 , PRO A:80 , GLN A:81 , LYS A:86 , TRP A:87	BINDING SITE FOR RESIDUE GOL A 405
06	AC6	SOFTWARE	HIS B:131 , ASP B:154 , ASP B:158 , ASP B:262 , MN B:402 , HOH B:696 , HOH B:720	BINDING SITE FOR RESIDUE MN B 401
07	AC7	SOFTWARE	ASP B:154 , HIS B:156 , ASP B:262 , ASP B:264 , MN B:401 , HOH B:697 , HOH B:720	BINDING SITE FOR RESIDUE MN B 402
08	AC8	SOFTWARE	ASP B:158 , ASN B:160 , SER B:167 , HIS B:171 , GLY B:172 , ASP B:213 , HOH B:554 , HOH B:558 , HOH B:571 , HOH B:636 , HOH B:672 , HOH B:696 , HOH B:697 , HOH B:720	BINDING SITE FOR RESIDUE ORN B 403
09	AC9	SOFTWARE	ASN B:32 , TYR B:41 , GLU B:73 , HOH B:728	BINDING SITE FOR RESIDUE GOL B 404
10	BC1	SOFTWARE	GLU B:76 , ASP B:79 , PRO B:80 , GLN B:81 , LYS B:86 , TRP B:87	BINDING SITE FOR RESIDUE GOL B 405
11	BC2	SOFTWARE	HIS C:131 , ASP C:154 , ASP C:158 , ASP C:262 , MN C:402 , HOH C:598 , HOH C:634	BINDING SITE FOR RESIDUE MN C 401
12	BC3	SOFTWARE	ASP C:154 , HIS C:156 , ASP C:262 , ASP C:264 , MN C:401 , HOH C:598	BINDING SITE FOR RESIDUE MN C 402
13	BC4	SOFTWARE	HIS C:156 , ASP C:158 , ASN C:160 , SER C:167 , HIS C:171 , GLY C:172 , ASP C:213 , HOH C:554 , HOH C:555 , HOH C:598 , HOH C:634 , HOH C:644 , HOH C:647	BINDING SITE FOR RESIDUE ORN C 403
14	BC5	SOFTWARE	ASN C:32 , ILE C:38 , TYR C:41 , GLU C:73 , HOH C:595	BINDING SITE FOR RESIDUE GOL C 404
15	BC6	SOFTWARE	GLU C:76 , ASP C:79 , PRO C:80 , GLN C:81 , LYS C:86 , TRP C:87	BINDING SITE FOR RESIDUE GOL C 405
16	BC7	SOFTWARE	HIS D:131 , ASP D:154 , ASP D:158 , ASP D:262 , MN D:402 , HOH D:531	BINDING SITE FOR RESIDUE MN D 401
17	BC8	SOFTWARE	ASP D:154 , HIS D:156 , ASP D:262 , ASP D:264 , MN D:401 , HOH D:531	BINDING SITE FOR RESIDUE MN D 402
18	BC9	SOFTWARE	ASP D:158 , ASN D:160 , SER D:167 , HIS D:171 , ASP D:213 , GLU D:216 , HOH D:511 , HOH D:531 , HOH D:554 , HOH D:555	BINDING SITE FOR RESIDUE ORN D 403

(no "SS Bond" information available for 4Q42)

Asymmetric Unit

No.	Residues
1	Gly A:128	-	Gly A:129
2	Gly B:128	-	Gly B:129
3	Gly C:128	-	Gly C:129
4	Gly D:128	-	Gly D:129

(no "SAP(SNP)/Variant" information available for 4Q42)

(no "PROSITE Motif" information available for 4Q42)

(no "Exon" information available for 4Q42)

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:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhh.hhhhhhhhh..eeeeeee..................hhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhh.............hhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4q42 A  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSNKSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHMQT 362
                                    27        37        47        57        67        77        87        97       107  ||   126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356      
                                                                                                                      110|                                                                                                                                                                                                                                                  
                                                                                                                       120

Chain B from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhh.hhhhhhhhh..eeeeeee......hhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhh.............hhhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q42 B  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSNKSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHMQ 361
                                    27        37        47        57        67        77        87        97       107  ||   126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356     
                                                                                                                      110|                                                                                                                                                                                                                                                 
                                                                                                                       120

Chain C from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhh.hhhhhhhhh..eeeeeee..................hhhhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhh.............hhhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q42 C  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSNKSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHMQ 361
                                    27        37        47        57        67        77        87        97       107  ||   126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356     
                                                                                                                      110|                                                                                                                                                                                                                                                 
                                                                                                                       120

Chain D from PDB  Type:PROTEIN  Length:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhhhhhhhhhhhh..eeeeeee..................hhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhh.....hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhhh....................hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q42 D  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHM 360
                                    27        37        47        57        67        77        87        97       107||     129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359 
                                                                                                                    108|                                                                                                                                                                                                                                               
                                                                                                                     121

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 4Q42)

(no "CATH Domain" information available for 4Q42)

(no "Pfam Domain" information available for 4Q42)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		GOL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
		Gly A:128 - Gly A:129	[ RasMol ]
		Gly B:128 - Gly B:129	[ RasMol ]
		Gly C:128 - Gly C:129	[ RasMol ]
		Gly D:128 - Gly D:129	[ RasMol ]

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		Biological Unit 4	[ Jena3D ]

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	4q42
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	3.5.3.1
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	Q6WVP6_SCHMA \| Q6WVP6	:	4q3p 4q3q 4q3r 4q3s 4q3t 4q3u 4q3v 4q40 4q41

4q3p	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE
4q3q	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR ABH
4q3r	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR ABHDP
4q3s	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR ABHPE
4q3t	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR NOHA
4q3u	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR NOR-NOHA
4q3v	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH INHIBITOR BEC
4q40	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH L-VALINE
4q41	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH L-LYSINE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 18)

Sites (18, 18)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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