4Q41 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

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-LYSINE

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 :   2.20

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, 16)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	LYS	2	Mod. Amino Acid	LYSINE
3	MN	8	Ligand/Ion	MANGANESE (II) ION

Biological Unit 1 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	LYS	3	Mod. Amino Acid	LYSINE
3	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 2 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	LYS	3	Mod. Amino Acid	LYSINE
3	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 3 (1, 6)

No.	Name	Count	Type	Full Name
1	GOL	6	Ligand/Ion	GLYCEROL
2	LYS	-1	Mod. Amino Acid	LYSINE
3	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	GOL	-1	Ligand/Ion	GLYCEROL
2	LYS	-1	Mod. Amino Acid	LYSINE
3	MN	-1	Ligand/Ion	MANGANESE (II) ION

Asymmetric Unit (16, 16)

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:654 , HOH A:655	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 , LYS A:403 , HOH A:654	BINDING SITE FOR RESIDUE MN A 402
03	AC3	SOFTWARE	ASP A:158 , ASN A:160 , SER A:167 , HIS A:171 , GLY A:172 , ASP A:213 , ASP A:264 , THR A:276 , MN A:402 , HOH A:502 , HOH A:545 , HOH A:607 , HOH A:609 , HOH A:653 , HOH A:654 , HOH A:655	BINDING SITE FOR RESIDUE LYS A 403
04	AC4	SOFTWARE	ASN A:32 , TYR A:41 , GLU A:73 , HOH A:651	BINDING SITE FOR RESIDUE GOL A 404
05	AC5	SOFTWARE	GLU A:76 , 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:637 , HOH B:638	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 , LYS B:403 , HOH B:637	BINDING SITE FOR RESIDUE MN B 402
08	AC8	SOFTWARE	HIS B:156 , ASN B:160 , SER B:167 , HIS B:171 , ASP B:213 , ASP B:264 , THR B:276 , MN B:402 , HOH B:533 , HOH B:534 , HOH B:535 , HOH B:609 , HOH B:637 , HOH B:638	BINDING SITE FOR RESIDUE LYS B 403
09	AC9	SOFTWARE	ASN B:32 , ILE B:38 , GLU B:73 , HOH B:632	BINDING SITE FOR RESIDUE GOL B 404
10	BC1	SOFTWARE	ASP B:79 , PRO B:80 , GLN B:81 , 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:545	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:545	BINDING SITE FOR RESIDUE MN C 402
13	BC4	SOFTWARE	ASN C:32 , ILE C:38 , GLU C:73 , HOH C:581	BINDING SITE FOR RESIDUE GOL C 403
14	BC5	SOFTWARE	ASP C:79 , PRO C:80 , GLN C:81 , LYS C:86 , TRP C:87	BINDING SITE FOR RESIDUE GOL C 404
15	BC6	SOFTWARE	HIS D:131 , ASP D:154 , ASP D:158 , ASP D:262 , MN D:401	BINDING SITE FOR RESIDUE MN D 400
16	BC7	SOFTWARE	ASP D:154 , HIS D:156 , ASP D:262 , ASP D:264 , MN D:400 , HOH D:522	BINDING SITE FOR RESIDUE MN D 401

(no "SS Bond" information available for 4Q41)

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 4Q41)

(no "PROSITE Motif" information available for 4Q41)

(no "Exon" information available for 4Q41)

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:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhh.hhhhhhhhh..eeeeeee......hhhhh.......hhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhhh.............hhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q41 A  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQKSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHMQ 361
                                    27        37        47        57        67        77        87        97       107||     128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358   
                                                                                                                    108|                                                                                                                                                                                                                                                 
                                                                                                                     120

Chain B 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..................hhhhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhh..............hhhhh..hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4q41 B  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 C from PDB  Type:PROTEIN  Length:333
                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.........hhhhhhhhhhh.hhhhhhhhh..eeeeeee..................hhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh...eeeee.......hhhhh...hhhhh.....hhhhhhhh..hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh......eeeeee.hhh................hhhhhhhhhhhhhh...eeeeeee.......hhhhhhhhhhhhhhhhhhhh.............hhhhhh..hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q41 C  18 KLLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAHMQT 362
                                    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

Chain D from PDB  Type:PROTEIN  Length:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.........hhhhhhhhhhhhhhhhhhhh...eeeeeee..................hhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhh..eeeeee...............hhhhh.....hhhhh.....hhhhh......hhh.eeeeee...hhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhh.....eeeeeee.hhh................hhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhhhhhhhhhh............hhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q41 D  19 LLYTSANFLGIPTNRGQPKIGTYQGPELIRKSNFFQLVAEDGIQLTDCGDIIPVELNEAEDPQRFGMKWSRSFSLTTLRIAERVEELMKQSTPLVIVGGDHSMATGTILGHAEAKPDLCVLWIDAHGDINTPLNSASGNMHGMPLSFLVKELQDQIPWLDDFEGIKPCLNASNIAYIGLRDLDAHETHDIRKHGIAYFTMLDVDRMGIEAVIKEALLAVNPRLEKAIHLSFDIDALDPLVAPSTGTAVPGGLTLREGLRICEEVSATGKLSVVELAELNPLLGSQEDVLKTQSSAVHILRACLGHCRSGHLPFKVRNLTDQGIMSRAAH 359
                                    28        38        48        58        68        78        88        98       108|      130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350         
                                                                                                                   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 4Q41)

(no "CATH Domain" information available for 4Q41)

(no "Pfam Domain" information available for 4Q41)

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	Ligands, Modified Residues, Ions
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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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	4q41
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	3.5.3.1
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	Q6WVP6_SCHMA \| Q6WVP6	:	4q3p 4q3q 4q3r 4q3s 4q3t 4q3u 4q3v 4q40 4q42

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
4q42	CRYSTAL STRUCTURE OF SCHISTOSOMA MANSONI ARGINASE IN COMPLEX WITH L-ORNITHINE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 16)

Sites (16, 16)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

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Exons (0, 0)

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Gene Ontology (6, 6)

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