HEADER PEPTIDE 25-MAY-98 1BFZ TITLE BOUND CONFORMATION OF N-TERMINAL CLEAVAGE PRODUCT PEPTIDE MIMIC (P1-P9 TITLE 2 OF RELEASE SITE) WHILE BOUND TO HCMV PROTEASE AS DETERMINED BY TITLE 3 TRANSFERRED NOESY EXPERIMENTS (P1-P5 SHOWN ONLY), NMR, 32 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HCMV PROTEASE R-SITE N-TERMINAL CLEAVAGE PRODUCT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TERESYVKA N-TERMINAL RESIDUES OF R-SITE PEPTIDE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS SUBSTRIATE CLEAVAGE, BOUND CONFORMATION, EXTENDED CONFORMATION, KEYWDS 2 SUBSTRATE-BASED COMPETITIVE INHIBITOR DESIGN EXPDTA SOLUTION NMR NUMMDL 32 AUTHOR S.R.LAPLANTE,N.AUBRY,P.R.BONNEAU,D.R.CAMERON,L.LAGACE,M.-J.MASSARIOL, AUTHOR 2 H.MONTPETIT,C.PLOUFE,S.H.KAWAI,B.D.FULTON,Z.CHEN,F.NI REVDAT 6 06-NOV-24 1BFZ 1 REMARK REVDAT 5 05-JUN-24 1BFZ 1 REMARK LINK REVDAT 4 13-JUL-11 1BFZ 1 VERSN REVDAT 3 24-FEB-09 1BFZ 1 VERSN REVDAT 2 01-APR-03 1BFZ 1 JRNL REVDAT 1 25-MAY-99 1BFZ 0 JRNL AUTH S.R.LAPLANTE,N.AUBRY,P.R.BONNEAU,D.R.CAMERON,L.LAGACE, JRNL AUTH 2 M.J.MASSARIOL,H.MONTPETIT,C.PLOUFFE,S.H.KAWAI,B.D.FULTON, JRNL AUTH 3 Z.CHEN,F.NI JRNL TITL HUMAN CYTOMEGALOVIRUS PROTEASE COMPLEXES ITS SUBSTRATE JRNL TITL 2 RECOGNITION SEQUENCES IN AN EXTENDED PEPTIDE CONFORMATION. JRNL REF BIOCHEMISTRY V. 37 9793 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9657693 JRNL DOI 10.1021/BI980555V REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 95.5 REMARK 3 AUTHORS : MSI REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. CFF95 FORCEFIELD USED. REMARK 4 REMARK 4 1BFZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171709. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 285 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 0.5M NA2SO4, 50MM NACL, 1MM REMARK 210 EDTA, 5MM DTT-D10 IN 10% D2O REMARK 210 SPIKED WITH TSP-2,2,3,3-D4 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : TRNOESY; TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 400 MHZ; 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX400; AMX500; DRX500; DMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DISCOVER 95.5 REMARK 210 METHOD USED : RESTRAINED SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 32 REMARK 210 CONFORMERS, SELECTION CRITERIA : POTENTIAL ENERGY, MINIMAL REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 4 REMARK 210 REMARK 210 REMARK: TRANSFERRED NUCLEAR OVERHAUSER EFFECT SPECTROSCOPY 50, REMARK 210 150, 250 MS MIXING TIMES USED TO GENERATE RESTRAINTS REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 1 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 2 ALA A 1 C ALA A 1 OXT 0.127 REMARK 500 3 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 4 ALA A 1 C ALA A 1 OXT 0.127 REMARK 500 5 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 6 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 7 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 8 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 9 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 10 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 11 ALA A 1 C ALA A 1 OXT 0.127 REMARK 500 12 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 13 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 14 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 15 ALA A 1 C ALA A 1 OXT 0.130 REMARK 500 16 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 17 ALA A 1 C ALA A 1 OXT 0.132 REMARK 500 18 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 19 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 20 ALA A 1 C ALA A 1 OXT 0.132 REMARK 500 21 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 22 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 23 ALA A 1 C ALA A 1 OXT 0.135 REMARK 500 24 ALA A 1 C ALA A 1 OXT 0.129 REMARK 500 25 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 26 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 27 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 28 ALA A 1 C ALA A 1 OXT 0.125 REMARK 500 29 ALA A 1 C ALA A 1 OXT 0.131 REMARK 500 30 ALA A 1 C ALA A 1 OXT 0.130 REMARK 500 31 ALA A 1 C ALA A 1 OXT 0.126 REMARK 500 32 ALA A 1 C ALA A 1 OXT 0.133 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 SER A 5 N - CA - CB ANGL. DEV. = 9.8 DEGREES REMARK 500 3 SER A 5 N - CA - CB ANGL. DEV. = 9.9 DEGREES REMARK 500 4 SER A 5 N - CA - CB ANGL. DEV. = 10.3 DEGREES REMARK 500 5 SER A 5 N - CA - CB ANGL. DEV. = 9.8 DEGREES REMARK 500 6 SER A 5 N - CA - CB ANGL. DEV. = 9.5 DEGREES REMARK 500 8 SER A 5 N - CA - CB ANGL. DEV. = 9.5 DEGREES REMARK 500 9 SER A 5 N - CA - CB ANGL. DEV. = 9.8 DEGREES REMARK 500 10 SER A 5 N - CA - CB ANGL. DEV. = 11.4 DEGREES REMARK 500 11 SER A 5 N - CA - CB ANGL. DEV. = 9.7 DEGREES REMARK 500 12 SER A 5 N - CA - CB ANGL. DEV. = 11.1 DEGREES REMARK 500 13 SER A 5 N - CA - CB ANGL. DEV. = 11.5 DEGREES REMARK 500 14 SER A 5 N - CA - CB ANGL. DEV. = 11.3 DEGREES REMARK 500 16 SER A 5 N - CA - CB ANGL. DEV. = 9.2 DEGREES REMARK 500 18 SER A 5 N - CA - CB ANGL. DEV. = 9.7 DEGREES REMARK 500 20 SER A 5 N - CA - CB ANGL. DEV. = 11.3 DEGREES REMARK 500 21 SER A 5 N - CA - CB ANGL. DEV. = 11.5 DEGREES REMARK 500 22 SER A 5 N - CA - CB ANGL. DEV. = 11.1 DEGREES REMARK 500 23 SER A 5 N - CA - CB ANGL. DEV. = 9.7 DEGREES REMARK 500 24 SER A 5 N - CA - CB ANGL. DEV. = 11.3 DEGREES REMARK 500 25 SER A 5 N - CA - CB ANGL. DEV. = 9.7 DEGREES REMARK 500 26 SER A 5 N - CA - CB ANGL. DEV. = 9.5 DEGREES REMARK 500 28 SER A 5 N - CA - CB ANGL. DEV. = 11.4 DEGREES REMARK 500 29 SER A 5 N - CA - CB ANGL. DEV. = 11.3 DEGREES REMARK 500 30 SER A 5 N - CA - CB ANGL. DEV. = 9.7 DEGREES REMARK 500 31 SER A 5 N - CA - CB ANGL. DEV. = 11.4 DEGREES REMARK 500 32 SER A 5 N - CA - CB ANGL. DEV. = 10.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 6 LYS A 2 49.40 -88.61 REMARK 500 10 LYS A 2 54.96 -92.17 REMARK 500 15 TYR A 4 177.66 75.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACE A 6 DBREF 1BFZ A 6 1 PDB 1BFZ 1BFZ 6 1 SEQRES 1 A 6 ACE SER TYR VAL LYS ALA HET ACE A 6 6 HETNAM ACE ACETYL GROUP FORMUL 1 ACE C2 H4 O LINK N SER A 5 C ACE A 6 1555 1555 1.38 SITE 1 AC1 2 TYR A 4 SER A 5 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1 HETATM 1 C ACE A 6 -7.754 -3.627 -2.918 1.00 0.00 C HETATM 2 O ACE A 6 -7.814 -4.377 -1.951 1.00 0.00 O HETATM 3 CH3 ACE A 6 -6.786 -3.897 -4.057 1.00 0.00 C HETATM 4 H1 ACE A 6 -6.232 -4.819 -3.849 1.00 0.00 H HETATM 5 H2 ACE A 6 -7.326 -4.017 -5.008 1.00 0.00 H HETATM 6 H3 ACE A 6 -6.068 -3.068 -4.155 1.00 0.00 H