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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF CRUZAIN BOUND TO THE NO-COVALENT ANALOG OF WRR-483 (WRR-669)
 
Authors :  A. Tochowicz, J. H. Mckerrow
Date :  26 Jan 15  (Deposition) - 11 Mar 15  (Release) - 10 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.51
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Cruzain, Cysteine Protease, Covalent Reversible Inhibitor, Chagas Disease, Trypanosoma Cruzi, Vinyl Sulfone Analog, Hydrolase- Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. D. Jones, A. Tochowicz, Y. Tang, M. D. Cameron, L. I. Mccall, K. Hirata, J. L. Siqueira-Neto, S. L. Reed, J. H. Mckerrow, W. R. Roush
Synthesis And Evaluation Of Oxyguanidine Analogues Of The Cysteine Protease Inhibitor Wrr-483 Against Cruzain.
Acs Med. Chem. Lett. V. 7 77 2016
PubMed-ID: 26819670  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.5B00336

(-) Compounds

Molecule 1 - CRUZIPAIN
    Chains: A, B, C
    EC Number: 3.4.22.51
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 122-337
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 5693
    Synonym: CRUZAINE,MAJOR CYSTEINE PROTEINASE

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
12VC3Ligand/IonN-[(2S)-5-(CARBAMIMIDAMIDOOXY)-1-OXO-1-{[(1E,3S)-5-PHENYL-1-(PYRIMIDIN-2-YLSULFONYL)PENT-1-EN-3-YL]AMINO}PENTAN-2-YL]-4-METHYLPIPERAZINE-1-CARBOXAMIDE
2EDO4Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
12VC1Ligand/IonN-[(2S)-5-(CARBAMIMIDAMIDOOXY)-1-OXO-1-{[(1E,3S)-5-PHENYL-1-(PYRIMIDIN-2-YLSULFONYL)PENT-1-EN-3-YL]AMINO}PENTAN-2-YL]-4-METHYLPIPERAZINE-1-CARBOXAMIDE
2EDO-1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
12VC1Ligand/IonN-[(2S)-5-(CARBAMIMIDAMIDOOXY)-1-OXO-1-{[(1E,3S)-5-PHENYL-1-(PYRIMIDIN-2-YLSULFONYL)PENT-1-EN-3-YL]AMINO}PENTAN-2-YL]-4-METHYLPIPERAZINE-1-CARBOXAMIDE
2EDO-1Ligand/Ion1,2-ETHANEDIOL
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
12VC1Ligand/IonN-[(2S)-5-(CARBAMIMIDAMIDOOXY)-1-OXO-1-{[(1E,3S)-5-PHENYL-1-(PYRIMIDIN-2-YLSULFONYL)PENT-1-EN-3-YL]AMINO}PENTAN-2-YL]-4-METHYLPIPERAZINE-1-CARBOXAMIDE
2EDO4Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:4 , GLN A:19 , GLY A:23 , CYS A:25 , TRP A:26 , CYS A:63 , SER A:64 , GLY A:65 , GLY A:66 , LEU A:67 , ALA A:138 , GLN A:159 , LEU A:160 , ASP A:161 , HIS A:162 , SER A:172 , TRP A:184 , GLU A:208 , HOH A:404 , HOH A:425binding site for residue 2VC A 301
2AC2SOFTWAREGLN B:19 , CYS B:22 , GLY B:23 , CYS B:25 , TRP B:26 , CYS B:63 , GLY B:66 , LEU B:67 , ALA B:138 , LEU B:160 , ASP B:161 , HIS B:162 , ASN B:170 , SER B:172 , TRP B:184 , GLU B:208binding site for residue 2VC B 301
3AC3SOFTWAREALA C:4 , GLN C:19 , CYS C:22 , GLY C:23 , CYS C:25 , TRP C:26 , CYS C:63 , SER C:64 , GLY C:66 , LEU C:67 , LEU C:160 , ASP C:161 , HIS C:162 , ASN C:170 , SER C:172 , TRP C:184 , GLU C:208binding site for residue 2VC C 301
4AC4SOFTWAREALA C:41 , HIS C:43binding site for residue EDO C 302
5AC5SOFTWAREPRO C:99binding site for residue EDO C 303
6AC6SOFTWARELEU C:45 , THR C:46 , ASN C:47 , EDO C:305binding site for residue EDO C 304
7AC7SOFTWAREEDO C:304binding site for residue EDO C 305

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:22 -A:63
2A:56 -A:101
3A:155 -A:203
4B:22 -B:63
5B:56 -B:101
6B:155 -B:203
7C:22 -C:63
8C:56 -C:101

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4XUI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XUI)

(-) 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
(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:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.................hhhhhhhhhhhhhhhhh........hhhhhhhhh...hhhhh..hhhhhhhhhhh...eee.......................eeee....ee...hhhhhhhhhhhhh.eeeee.hhhhhhh...ee.........eeeeeeeee......eeeee...........eeeee...hhhhh...eee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xui A   1 APAAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGYNDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEEASSAVVG 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     


Chain B from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee....................hhhhhhhhhhhhhhh........hhhhhhhh...hhhhh.hhhhhhhhhhhhhh.eee.......................eeee..eeee...hhhhhhhhhhhhh.eeeee...........ee.........eeeeeeeee......eeeee...........eeeee...hhhhh...eeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xui B   1 APAAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGYNDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEEASSAVVG 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     


Chain C from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.................hhhhhhhhhhhhhhhhhh.......hhhhhhhhh...hhhhh.hhhhhhhhhhhhh..eee.......................eeeeeeeeee...hhhhhhhhhhhhh.eeeee.hhhhh.....ee.........eeeeeeeee......eeeee...........eeeee...hhhhh...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xui C   1 APAAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGYNDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEEASSAVVG 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   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)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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        CYSP_TRYCR | P25779: 1aim 1ewl 1ewm 1ewo 1ewp 1f29 1f2a 1f2b 1f2c 1me3 1me4 1u9q 2aim 2oz2 3hd3 3i06 3iut 3kku 3lxs 4klb 4pi3 4qh6 4w5b 4w5c

(-) Related Entries Specified in the PDB File

4pi3