3KKU - JenaLib

Title :   CRUZAIN IN COMPLEX WITH A NON-COVALENT LIGAND

Authors :   R. S. Ferreira, O. Eidam, B. K. Shoichet

Date :   06 Nov 09 (Deposition) - 07 Jul 10 (Release) - 18 Aug 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.28

Chains :   Asym./Biol. Unit : A

Keywords :   Autocatalytic Cleavage, Glycoprotein, Protease, Thiol Protease, Zymogen, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. S. Ferreira, A. Simeonov, A. Jadhav, O. Eidam, B. T. Mott, M. J. Keiser, J. H. Mckerrow, D. J. Maloney, J. J. Irwin, B. K. Shoichet
Complementarity Between A Docking And A High-Throughput Screen In Discovering New Cruzain Inhibitors.
J. Med. Chem. V. 53 4891 2010
PubMed-ID: 20540517 | Reference-DOI: 10.1021/JM100488W

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	GLY A:23 , CYS A:25 , TRP A:26 , GLY A:65 , GLY A:66 , LEU A:67 , MET A:68 , ALA A:138 , GLN A:159 , LEU A:160 , ASP A:161 , HIS A:162 , GLY A:163 , Z22 A:217 , HOH A:531	BINDING SITE FOR RESIDUE B95 A 216
02	AC2	SOFTWARE	ARG A:8 , VAL A:13 , THR A:14 , TYR A:193 , HOH A:232 , HOH A:297 , HOH A:505	BINDING SITE FOR RESIDUE EDO A 401
03	AC3	SOFTWARE	THR A:186 , GLN A:187 , TRP A:188 , GLY A:189 , GLU A:191 , HOH A:319	BINDING SITE FOR RESIDUE EDO A 402
04	AC4	SOFTWARE	ASP A:121 , GLU A:122 , ASN A:201 , LYS A:206 , HOH A:229 , EDO A:407 , HOH A:519	BINDING SITE FOR RESIDUE EDO A 403
05	AC5	SOFTWARE	LYS A:17 , ASP A:18 , GLU A:86 , TYR A:91 , HOH A:225	BINDING SITE FOR RESIDUE EDO A 404
06	AC6	SOFTWARE	ASN A:79 , ASN A:80 , ALA A:82 , TYR A:84 , HOH A:422	BINDING SITE FOR RESIDUE EDO A 405
07	AC7	SOFTWARE	THR A:59 , ASN A:70 , TRP A:74 , GLN A:77 , HOH A:353	BINDING SITE FOR RESIDUE EDO A 406
08	AC8	SOFTWARE	GLU A:122 , LYS A:198 , GLY A:199 , HOH A:229 , HOH A:340 , EDO A:403 , HOH A:489 , HOH A:518	BINDING SITE FOR RESIDUE EDO A 407
09	AC9	SOFTWARE	TRP A:128 , ASN A:132 , HOH A:428	BINDING SITE FOR RESIDUE EDO A 408
10	BC1	SOFTWARE	HIS A:43 , PRO A:44 , THR A:85 , THR A:107 , HOH A:421 , HOH A:447	BINDING SITE FOR RESIDUE EDO A 409
11	BC2	SOFTWARE	THR A:14 , ALA A:15 , LYS A:17 , LEU A:45 , ASN A:47 , HOH A:429	BINDING SITE FOR RESIDUE EDO A 410
12	BC3	SOFTWARE	GLN A:19 , CYS A:25 , HIS A:162 , B95 A:216 , HOH A:273 , HOH A:341 , HOH A:342	BINDING SITE FOR RESIDUE Z22 A 217

SS Bonds (3, 3)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (7, 7)

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	82	G
4	UniProt	VAR_CYSP_TRYCR_012 *	V	286	F	CYSP_TRYCR	---	---	A	V	164	F
5	UniProt	VAR_CYSP_TRYCR_013 *	V	286	L	CYSP_TRYCR	---	---	A	V	164	L
6	UniProt	VAR_CYSP_TRYCR_014 *	T	308	A	CYSP_TRYCR	---	---	A	T	186	A
7	UniProt	VAR_CYSP_TRYCR_015 *	E	313	D	CYSP_TRYCR	---	---	A	E	191	D
	* ID not provided by source

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

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
	(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 d3kkua_ A: Cruzain                                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Peptidase_C1-3kkuA01 A:1-213                                                                                                                                                                                         -- Pfam domains
         Sec.struct. author ...eee.hhhh............hhhhhhhhhhhhhhhhhh.......hhhhhhhhh...hhhhh.hhhhhhhhhhhhh..eee.......................eeeeeeeeee...hhhhhhhhhhhhh.eeeee...........ee.........eeeeeeeee......eeeee...........eeeee...hhhhh...eeeeee. 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
                 3kku 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

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 (1, 1)

CATH Domains (0, 0)

Pfam Domains (1, 1)

Gene Ontology (5, 5)

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.

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	Cis Peptide Bonds
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	3kku
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	3.4.22.51
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