1OEX - JenaLib

Title :   ATOMIC RESOLUTION STRUCTURE OF ENDOTHIAPEPSIN IN COMPLEX WITH A HYDROXYETHYLENE TRANSITION STATE ANALOGUE INHIBITOR H261

Authors :   L. Coates, P. T. Erskine, S. Mall, R. S. Gill, S. P. Wood, D. A. A. Myles, J.

Date :   31 Mar 03 (Deposition) - 02 Apr 03 (Release) - 08 Feb 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.10

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

Keywords :   Aspartic Proteinase Mechanism, Atomic Resolution, Succinimide, Anisotropic Refinement, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. T. Erskine, L. Coates, S. Mall, R. S. Gill, S. P. Wood, D. A. A. Myles, J. B. Cooper
Atomic Resolution Analysis Of The Catalytic Site Of An Aspartic Proteinase And An Unexpected Mode Of Binding By Short Peptides
Protein Sci. V. 12 1741 2003
PubMed-ID: 12876323 | Reference-DOI: 10.1110/PS.0305203

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 8)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:254 , ASP A:278 , GLY A:280 , PRO A:281 , CYS A:289	BINDING SITE FOR RESIDUE GOL A 410
2	AC2	SOFTWARE	TYR A:178 , SER A:181 , ILE A:182 , HOH A:2329 , HOH A:2473 , HOH A:2474 , HOH A:2475	BINDING SITE FOR RESIDUE SO4 A 500
3	AC3	SOFTWARE	SER A:112 , SER A:113 , THR A:321 , HOH A:2180 , HOH A:2221 , HOH A:2476 , HOH A:2477 , HOH A:2478 , HOH A:2479 , HOH A:2480	BINDING SITE FOR RESIDUE SO4 A 501
4	AC4	SOFTWARE	SER A:136 , PRO A:137 , HOH A:2481 , HOH A:2483 , HOH A:2484	BINDING SITE FOR RESIDUE SO4 A 502
5	AC5	SOFTWARE	ALA A:268 , ARG A:269 , SER A:283 , HOH A:2331 , HOH A:2416 , HOH A:2437 , HOH A:2467 , HOH A:2485	BINDING SITE FOR RESIDUE SO4 A 503
6	AC6	SOFTWARE	LEU A:13 , ASP A:15 , ASP A:33 , ASP A:35 , GLY A:37 , SER A:77 , TYR A:78 , GLY A:79 , ASP A:80 , SER A:82 , ASP A:118 , ILE A:121 , LEU A:132 , PHE A:193 , ASP A:218 , GLY A:220 , THR A:221 , THR A:222 , PHE A:279 , GLY A:280 , PRO A:281 , ILE A:282 , HOH A:2170 , HOH B:2002 , HOH B:2003 , HOH B:2004 , HOH B:2005 , HOH B:2006 , HOH B:2008 , HOH B:2009 , HOH B:2010 , HOH B:2011 , HOH B:2012 , HOH B:2013 , HOH B:2014	BINDING SITE FOR CHAIN B OF INHIBITOR H261

SS Bonds (1, 1)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 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:329
 aligned with CARP_CRYPA | P11838 from UniProtKB/Swiss-Prot  Length:419

    Alignment length:330
                                    99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419
           CARP_CRYPA    90 STGSATTTPIDSLDDAYITPVQIGTPAQTLNLDFDTGSSDLWVFSSETTASEVDGQTIYTPSKSTTAKLLSGATWSISYGDGSSSSGDVYTDTVSVGGLTVTGQAVESAKKVSSSFTEDSTIDGLLGLAFSTLNTVSPTQQKTFFDNAKASLDSPVFTADLGYHAPGTYNFGFIDTTAYTGSITYTAVSTKQGFWEWTSTGYAVGSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTFGVGSARIVIPGDYIDFGPISTGSSSCFGGIQSSAGIGINIFGDVALKAAFVVFNGATTPTLGFASK 419
               SCOP domains d1oexa_ A: Endothiapepsin                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----1oexA01 A:5-173 Acid Proteases                                                                                                                                            1oexA02 A:174-328 Acid Proteases                                                                                                                           - CATH domains
               Pfam domains ---------------Asp-1oexA01 A:16-329                   -                                                                                                                                                                                                                                                                                    Pfam domains
         Sec.struct. author ................eeeeeee....eeeeeeee.....eee.....hhhhh.-....hhhhh...eeeeeeeeeee.....eeeeeeeeeeeee..eeeeeeeeeeeeeehhhhhhh....eeee..hhhhh........hhhhhhh..............................................eeeeeeeee.....eeeeeeeee......eeehhhhhhhhhh.....eee....eeeee.......eeeee..eeeeehhhhheeee......eeee.eee......eeehhhhhh................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----------------PEPTIDASE_A1  PDB: A:17-327 UniProt: 106-417                                                                                                                                                                                                                                                                            -- PROSITE (1)
                PROSITE (2) -------------------------------ASP_PROTEASE----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ASP_PROTEASE------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1oex A   1 STGSATTTPIDSLDDAYITPVQIGTPAQTLNLDFDTGSSDLWVFSSETTASEVd-QTIYTPSKSTTAKLLSGATWSISYGDGSSSSGDVYTDTVSVGGLTVTGQAVESAKKVSSSFTEDSTIDGLLGLAFSTLNTVSPTQQKTFFDNAKASLDSPVFTADLGYHAPGTYNFGFIDTTAYTGSITYTAVSTKQGFWEWTSTGYAVGSGTFKSTSIDGIADTGTTLLYLPATVVSAYWAQVSGAKSSSSVGGYVFPCSATLPSFTFGVGSARIVIPGDYIDFGPISTGSSSCFGGIQSSAGIGINIFGDVALKAAFVVFNGATTPTLGFASK 329
                                    10        20        30        40        50   | |  59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329
                                                                                54-SUI                                                                                                                                                                                                                                                                                
                                                                                  55

Chain B from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 1oex B 400 xHPFAxIH 407
                            |    |  
                          400-BOC|  
                               405-LOV

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		→ 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 (1, 2)

Pfam Domains (1, 1)

Gene Ontology (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CARP_CRYPA | P11838)

molecular function
	GO:0004190	aspartic-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues 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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	1oex
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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

1e5o	ENDOTHIAPEPSIN COMPLEX WITH INHIBITOR DB2
1e80	ENDOTHIAPEPSIN COMPLEX WITH RENIN INHIBITOR MERCK-KGAA- EMD56133
1e81	ENDOTHIAPEPSIN COMPLEX WITH RENIN INHIBITOR MERCK-KGAA- EMD61395
1e82	ENDOTHIAPEPSIN COMPLEX WITH RENIN INHIBITOR MERCK-KGAA- EMD59601
1eed	ENDOTHIAPEPSIN COMPLEX WITH THE CYCLOHEXYL RENIN INHIBITOR PD125754
1ent	ENDOTHIAPEPSIN COMPLEX WITH THE INHIBITOR PD130328
1epl
1epm
1epn
1epo
1epp
1epq
1epr
1er8
1gkt	NEUTRON LAUE DIFFRACTION STRUCTURE OF ENDOTHIAPEPSIN COMPLEXED WITH TRANSITION STATE ANALOGUE INHIBITOR H261
1gvt	ENDOTHIAPEPSIN COMPLEX WITH CP-80,794
1gvu	ENDOTHIAPEPSIN COMPLEX WITH H189
1gvv	FIVE ATOMIC RESOLUTION STRUCTURES OF ENDOTHIAPEPSIN INHIBITOR COMPLEXES; IMPLICATIONS FOR THE ASPARTIC PROTEINASE MECHANISM
1gvw	ENDOTHIAPEPSIN COMPLEX WITH PD-130,328
1gvx	ENDOTHIAPEPSIN COMPLEXED WITH H256
1od1	ENDOTHIAPEPSIN PD135,040 COMPLEX
1oew	ATOMIC RESOLUTION STRUCTURE OF NATIVE ENDOTHIAPEPSIN
2er0
2er6
2er7
2er9
3er3
3er5
4ape
4er1
4er2
4er4
5er1
5er2

Description