2P3C - JenaLib

Title :   CRYSTAL STRUCTURE OF THE SUBTYPE F WILD TYPE HIV PROTEASE COMPLEXED WITH TL-3 INHIBITOR

Authors :   M. Sanches, S. Krauchenco, N. H. Martins, A. Gustchina, A. Wlodawer, I. Polikarpov

Date :   08 Mar 07 (Deposition) - 24 Apr 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Wild Type Subtype F Hiv Protease, Tl-3 Inhibitor, Non-B Hiv Protease, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Sanches, S. Krauchenco, N. H. Martins, A. Gustchina, A. Wlodawer, I. Polikarpov
Structural Characterization Of B And Non-B Subtypes Of Hiv-Protease: Insights Into The Natural Susceptibility To Drug Resistance Development.
J. Mol. Biol. V. 369 1029 2007
PubMed-ID: 17467738 | Reference-DOI: 10.1016/J.JMB.2007.03.049
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:8 , ASP A:25 , GLY A:27 , ALA A:28 , ASP A:29 , ASP A:30 , VAL A:32 , LYS A:45 , MET A:46 , ILE A:47 , GLY A:48 , GLY A:49 , ILE A:50 , PHE A:53 , PRO A:81 , VAL A:82 , ILE A:84 , HOH A:303 , HOH A:334 , HOH A:344 , ARG B:8 , ASP B:25 , GLY B:27 , ALA B:28 , ASP B:29 , ASP B:30 , VAL B:32 , LYS B:45 , MET B:46 , ILE B:47 , GLY B:48 , GLY B:49 , ILE B:50 , PHE B:53 , PRO B:81 , VAL B:82 , ILE B:84	BINDING SITE FOR RESIDUE 3TL A 201
2	AC2	SOFTWARE	LYS B:14 , GLY B:16 , GLY B:17 , HOH B:327	BINDING SITE FOR RESIDUE ACY B 301
3	AC3	SOFTWARE	THR A:12 , LYS A:14 , GLU A:65 , CME A:67 , GLY A:68 , THR B:12 , CME B:67 , ACY B:303	BINDING SITE FOR RESIDUE ACY A 302
4	AC4	SOFTWARE	THR A:12 , CME A:67 , ACY A:302 , THR B:12 , LYS B:14 , GLU B:65 , CME B:67 , GLY B:68	BINDING SITE FOR RESIDUE ACY B 303

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

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:99
 aligned with Q6Q004_9HIV1 | Q6Q004 from UniProtKB/TrEMBL  Length:99

    Alignment length:99
                                    10        20        30        40        50        60        70        80        90         
          Q6Q004_9HIV1    1 PQITLWQRPLVTIKVGGQLKEALLDTGADDTVLEDINLPGKWKPKMIGGIGGFIKVKQYENVSLEICGHKAIGTVLVGPTPVNIIGRNMLTQIGCTLNF 99
               SCOP domains d2p3ca_ A: Human immunodeficiency virus type 1 protease                                             SCOP domains
               CATH domains 2p3cA00 A:1-99 Acid Proteases                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee......eeeeee..eeeeeee.......ee.........eeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhhhh..eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  2p3c A  1 PQITLWKRPLVTIKVGGQLKEALLDTGADDTVLEDIALPGKWKPKMIGGIGGFIKVKQYENVSLEIcGHKAIGTVLVGPTPVNIIGRNMLTQIGCTLNF 99
                                    10        20        30        40        50        60      | 70        80        90         
                                                                                             67-CME

Chain B from PDB  Type:PROTEIN  Length:99
 aligned with Q6Q004_9HIV1 | Q6Q004 from UniProtKB/TrEMBL  Length:99

    Alignment length:99
                                    10        20        30        40        50        60        70        80        90         
          Q6Q004_9HIV1    1 PQITLWQRPLVTIKVGGQLKEALLDTGADDTVLEDINLPGKWKPKMIGGIGGFIKVKQYENVSLEICGHKAIGTVLVGPTPVNIIGRNMLTQIGCTLNF 99
               SCOP domains d2p3cb_ B: Human immunodeficiency virus type 1 protease                                             SCOP domains
               CATH domains 2p3cB00 B:1-99 Acid Proteases                                                                       CATH domains
           Pfam domains (1) ---RVP-2p3cB01 B:4-98                                                                             - Pfam domains (1)
           Pfam domains (2) ---RVP-2p3cB02 B:4-98                                                                             - Pfam domains (2)
         Sec.struct. author .ee......eeeeee..eeeeeee.......ee.........eeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eehhhhhhhh..eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  2p3c B  1 PQITLWKRPLVTIKVGGQLKEALLDTGADDTVLEDIALPGKWKPKMIGGIGGFIKVKQYENVSLEIcGHKAIGTVLVGPTPVNIIGRNMLTQIGCTLNF 99
                                    10        20        30        40        50        60      | 70        80        90         
                                                                                             67-CME

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	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, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q6Q004_9HIV1 | Q6Q004)

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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