3E1Z - JenaLib

Title :   CRYSTAL STRUCTURE OF THE PARASITE PROTESASE INHIBITOR CHAGASIN IN COMPLEX WITH PAPAIN

Authors :   I. Redzynia, G. Bujacz, A. Bujacz, A. Ljunggren, M. Abrahamson, M. Jaskolski

Date :   05 Aug 08 (Deposition) - 27 Jan 09 (Release) - 27 Jan 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.86

Chains :   Asym./Biol. Unit : A,B

Keywords :   Chagasin-Papain Complex, Papain, Chagas Disease, Cysteine Proteinases, Protein Inhibitors, Cytoplasmic Vesicle, Protease Inhibitor, Thiol Protease Inhibitor, Allergen, Hydrolase, Protease, Thiol Protease, Zymogen, Hydrolase Inhibitor/Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. Redzynia, A. Ljunggren, A. Bujacz, M. Abrahamson, M. Jaskolski, G. Bujacz
Crystal Structure Of The Parasite Inhibitor Chagasin In Complex With Papain Allows Identification Of Structural Requirements For Broad Reactivity And Specificity Determinants For Target Proteases.
Febs J. V. 276 793 2009
PubMed-ID: 19143838 | Reference-DOI: 10.1111/J.1742-4658.2008.06824.X
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 12)

Sites (12, 12)

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:23 , HIS A:72 , HIS A:74 , FMT A:113	BINDING SITE FOR RESIDUE ZN A 111
02	AC2	SOFTWARE	GLY B:101	BINDING SITE FOR RESIDUE FMT A 112
03	AC3	SOFTWARE	GLU A:23 , PHE A:58 , HIS A:72 , HIS A:74 , ZN A:111 , HOH A:141 , TYR B:61	BINDING SITE FOR RESIDUE FMT A 113
04	AC4	SOFTWARE	PHE A:34 , SER A:97 , HIS A:98 , ASP A:99 , HOH A:148 , ASN B:18	BINDING SITE FOR RESIDUE FMT A 114
05	AC5	SOFTWARE	ASN A:29 , THR A:31 , THR A:32 , GLY A:66 , GLN B:19 , GLY B:23 , SER B:24 , CYS B:25 , ASP B:158 , HIS B:159	BINDING SITE FOR RESIDUE ACY B 213
06	AC6	SOFTWARE	SER B:124 , ASN B:127 , GLN B:128 , TYR B:208 , HOH B:380	BINDING SITE FOR RESIDUE FMT B 214
07	AC7	SOFTWARE	TYR B:78 , HIS B:81 , HOH B:382	BINDING SITE FOR RESIDUE FMT B 215
08	AC8	SOFTWARE	ARG B:98 , HOH B:382	BINDING SITE FOR RESIDUE FMT B 216
09	AC9	SOFTWARE	HOH B:400	BINDING SITE FOR RESIDUE FMT B 217
10	BC1	SOFTWARE	GLU A:20 , GLN B:92 , HOH B:390	BINDING SITE FOR RESIDUE FMT B 218
11	BC2	SOFTWARE	LYS B:190	BINDING SITE FOR RESIDUE FMT B 219
12	BC3	SOFTWARE	GLN B:9 , ILE B:40 , HOH B:298 , HOH B:400 , HOH B:441	BINDING SITE FOR RESIDUE FMT B 220

SS Bonds (3, 3)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 3)

Exons (0, 0)

Sequences/Alignments

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
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Chain A from PDB  Type:PROTEIN  Length:109
 aligned with CHAG_TRYCR | Q966X9 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:109
                                    11        21        31        41        51        61        71        81        91       101         
           CHAG_TRYCR     2 SHKVTKAHNGATLTVAVGELVEIQLPSNPTTGFAWYFEGGTKESPNESMFTVENKYFPPDSKLLGAGGTEHFHVTVKAAGTHAVNLTYMRPWTGPSHDSERFTVYLKAN 110
               SCOP domains d3e1za_ A: Chagasin                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh..eeee....eeeeeeeehhhhh.eee.............eeeeeeee..........eeeeeeeee...eeeeeeeeee..........eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 3e1z A   2 SHKVTKAHNGATLTVAVGELVEIQLPSNPTTGFAWYFEGGTKESPNESMFTVENKYFPPDSKLLGAGGTEHFHVTVKAAGTHAVNLTYMRPWTGPSHDSERFTVYLKAN 110
                                    11        21        31        41        51        61        71        81        91       101

Chain B from PDB  Type:PROTEIN  Length:212
 aligned with PAPA1_CARPA | P00784 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:212
                                   143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343  
          PAPA1_CARPA   134 IPEYVDWRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTGNLNEYSEQELLDCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVDHAVAAVGYGPNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPVKN 345
               SCOP domains d3e1zb_ B: Papain                                                                                                                                                                                                    SCOP domains
               CATH domains 3e1zB00 B:1-212 Cysteine proteinases                                                                                                                                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.hhhh............hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh...hhhhh.hhhhhhhhhhhhh................hhhhh........eeee....hhhhhhhhhhhh.eeeee...hhhhhh....ee.........eeeeeeeee..eeeee...........eeeee.......hhhhh....eeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------THIOL_PROTEA------------------------------------------------------------------------------------------------------------------------------THIOL_PROTE--THIOL_PROTEASE_ASN  ----------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e1z B   1 IPEYVDWRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTGNLNEYSEQELLDCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKVDHAVAAVGYGPNYILIKNSWGTGWGENGYIRIKRGTGNSYGVCGLYTSSFYPVKN 212
                                    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 (2, 2)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CHAG_TRYCR | Q966X9)

molecular function
	GO:0004869	cysteine-type endopeptidase inhibitor activity	Stops, prevents or reduces the activity of a cysteine-type endopeptidase, any enzyme that hydrolyzes peptide bonds in polypeptides by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0030414	peptidase inhibitor activity	Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
biological process
	GO:0010951	negative regulation of endopeptidase activity	Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
	GO:0010466	negative regulation of peptidase activity	Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
cellular component
	GO:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0020016	ciliary pocket	Invagination of the plasma membrane from which a cilium (also called flagellum) protrudes.
	GO:0031410	cytoplasmic vesicle	A vesicle found in the cytoplasm of a cell.

Chain B (PAPA1_CARPA | P00784)

molecular function
	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.
	GO:0097655	serpin family protein binding	Interacting selectively and non-covalently with any member of the serpin protein family (serine protease inhibitors or classified inhibitor family I4). Serpins are a broadly distributed family of protease inhibitors that use a conformational change to inhibit target enzymes. They are central in controlling many important proteolytic cascades. The majority of serpins inhibit serine proteases, but serpins that inhibit caspases and papain-like cysteine proteases have also been identified. Rarely, serpins perform a non-inhibitory function; for example, several human serpins function as hormone transporters and certain serpins function as molecular chaperones or tumor suppressors.
biological process
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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