1F2C - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE ANALYSIS OF CRYZAIN BOUND TO VINYL SULFONE DERIVED INHIBITOR (IV)

Authors :   L. S. Brinen, E. Hansell, W. R. Roush, J. H. Mckerrow, R. J. Fletterick

Date :   23 May 00 (Deposition) - 26 Jul 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A

Keywords :   Cysteine Protease, Covalent Inhibitor, Vinyl Sulfonamide Derived, P1' Pocket, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. S. Brinen, E. Hansell, J. Cheng, W. R. Roush, J. H. Mckerrow, R. J. Fletterick
A Target Within The Target: Probing Cruzain'S P1' Site To Define Structural Determinants For The Chagas' Disease Protease.
Structure Fold. Des. V. 8 831 2000
PubMed-ID: 10997902 | Reference-DOI: 10.1016/S0969-2126(00)00173-8
(for further references see the PDB file header)

Molecule 1 - CRUZAIN
	Chains	:	A
	EC Number	:	3.4.22.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	DH5ALPHA
	Expression System Taxid	:	562
	Fragment	:	CATALYTIC DOMAIN
	Organism Scientific	:	TRYPANOSOMA CRUZI
	Organism Taxid	:	5693
	Synonym	:	CRUZIPAIN, CRUZAINE

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	VS4	1	Ligand/Ion	3-[[N-[4-METHYL-PIPERAZINYL]CARBONYL]-PHENYLALANINYL-AMINO]-5-PHENYL-PENTANE-1-SULFONIC ACID BENZYLOXY-AMIDE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:10 , GLN A:19 , GLY A:23 , CYS A:25 , TRP A:26 , PHE A:39 , CYS A:63 , SER A:64 , GLY A:65 , GLY A:66 , LEU A:67 , ALA A:133 , LEU A:157 , ASP A:158 , HIS A:159 , TRP A:177 , GLU A:205 , HOH A:348	BINDING SITE FOR RESIDUE VS4 A 300

Asymmetric/Biological Unit

No.	Residues
1	A:22	-	A:63
2	A:56	-	A:95
3	A:153	-	A:200

(no "Cis Peptide Bond" information available for 1F2C)

Asymmetric/Biological Unit (7, 7)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_CYSP_TRYCR_009 *	S	146	G	CYSP_TRYCR	---	---	A	S	24	G
2	UniProt	VAR_CYSP_TRYCR_010 *	S	186	G	CYSP_TRYCR	---	---	A	S	64	G
3	UniProt	VAR_CYSP_TRYCR_011 *	A	204	G	CYSP_TRYCR	---	---	A	A	79	G
4	UniProt	VAR_CYSP_TRYCR_012 *	V	286	F	CYSP_TRYCR	---	---	A	V	161	F
5	UniProt	VAR_CYSP_TRYCR_013 *	V	286	L	CYSP_TRYCR	---	---	A	V	161	L
6	UniProt	VAR_CYSP_TRYCR_014 *	T	308	A	CYSP_TRYCR	---	---	A	T	179	A
7	UniProt	VAR_CYSP_TRYCR_015 *	E	313	D	CYSP_TRYCR	---	---	A	E	184	D
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THIOL_PROTEASE_CYS	PS00139	Eukaryotic thiol (cysteine) proteases cysteine active site.	CYSP_TRYCR	141-152	1	A:19-30
2	THIOL_PROTEASE_HIS	PS00639	Eukaryotic thiol (cysteine) proteases histidine active site.	CYSP_TRYCR	282-292	1	A:157-167
3	THIOL_PROTEASE_ASN	PS00640	Eukaryotic thiol (cysteine) proteases asparagine active site.	CYSP_TRYCR	299-318	1	A:170-189

(no "Exon" information available for 1F2C)

Asymmetric/Biological 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
 aligned with CYSP_TRYCR | P25779 from UniProtKB/Swiss-Prot  Length:467

    Alignment length:215
                                   132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332     
          CYSP_TRYCR    123 APAAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGYNDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEEASSAVVG  337
               SCOP domains d1f2ca_ A: Cruzain                                                                                                                                                                                                      SCOP domains
               CATH domains 1f2cA00 A:1-212 Cysteine proteinases                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.................hhhhhhhhhhhhhhhhhh.......hhhhhhhhh...hhh..................eee.......................eeee..eeee...hhhhhhhhhhhhh.eeeee.hhhhhhh...ee.........eeeeeeeee......eeeee...........eeeee...hhhhh...eeeee.. Sec.struct. author
             SAPs(SNPs) (1) -----------------------G---------------------------------------G-----------------G---------------------------------------------------------------------------------F---------------------A----D------------------------ SAPs(SNPs) (1)
             SAPs(SNPs) (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------L--------------------------------------------------- SAPs(SNPs) (2)
                    PROSITE ------------------THIOL_PROTEA---------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE------THIOL_PROTEASE_ASN  ------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1f2c A    1 APAAVDWRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGGLMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQDEAQIAAWLAVNGPVAVAVDASSWMTYTGGVMTSCVSEQLDHGVLLVGYNDSAAVPYWIIKNSWTTQWGEEGYIRIAKGSNQCLVKEEASSAVVG  212
                                    10        20        30        40        50        60        70       78B|       87  |||   94       105       115       125       135||     147 ||    157       167||||   173       183       193|      207     
                                                                                                        78A||         89A||           103|                            136|       149|  156A        167A|||                       193|              
                                                                                                         78B|          89B|            105                             139        151               167B||                        198              
                                                                                                          78C           89C                                                                          167C|                                         
                                                                                                                                                                                                      167D

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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Cysteine proteinases (392)

Superfamily: Cysteine proteinases (392)

Family: Papain-like (200)

Protein domain: Cruzain (20)

Trypanosoma cruzi [TaxId: 5693] (20)

d1f2ca_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Complex (3881)

Topology: Cathepsin B; Chain A (207)

Homologous Superfamily: Cysteine proteinases (207)

Trypanosoma cruzi. Organism_taxid: 5693. (15)

1f2cA00

A:1-212

(no "Pfam Domain" information available for 1F2C)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CYSP_TRYCR | P25779)

molecular function
	GO:0004197	cysteine-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0008234	cysteine-type peptidase activity	Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0008233	peptidase activity	Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
biological process
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

Asymmetric/Biological Unit
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	1f2c
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	CYSP_TRYCR \| P25779
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	3.4.22.-
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		Disease Information	:	OMIM

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		Interatomic Contacts of Structural Units	:	CSU
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1aim	CONTAINS SAME PROTEIN BOUND TO FMK INHIBITOR
1ewl	SAME PROTEIN, WRR-99 INHIBITOR
1ewm	SAME PROTEIN, WRR-112 INHIBITOR
1ewo	SAME PROTEIN, WRR-204 INHIBITOR
1ewp	SAME PROTEIN, MOR-LEU-HPQ INHIBITOR
1f29	SAME PROTEIN BOUND TO VS1.
1f2a	SAME PROTEIN BOUND TO VS2.
1f2b	SAME PROTEIN BOUND TO VS3.
2aim	CONTAINS SAME PROTEIN BOUND TO FMK INHIBITOR

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (3, 3)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (7, 7)

PROSITE Motifs (3, 3)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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