HEADER HYDROLASE 08-JAN-21 7BGT TITLE MASON-PFIZER MONKEY VIRUS PROTEASE MUTANT C7A/D26N/C106A IN COMPLEX TITLE 2 WITH PEPTIDOMIMETIC INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAG-PRO-POL POLYPROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: PR180; COMPND 5 EC: 3.6.1.23,3.4.23.-,2.7.7.49,2.7.7.7,3.1.26.4,2.7.7.-,3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PEPTIDOMIMETIC INHIBITOR; COMPND 10 CHAIN: G, F; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: IN THE STANDARD DEFINITION USED BY CCP4, THE CGAMMA COMPND 13 ATOM OF THE PSA RESIDUE IS LABELED AS CA. IN THE PDB VALIDATION COMPND 14 REPORT THIS LABEL IS INTERPRETED AS CALPHA CAUSING GEOMETRICAL COMPND 15 ALERTS. THESE ALERTS ARE FALSE AND SHOULD BE IGNORED. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MASON-PFIZER MONKEY VIRUS; SOURCE 3 ORGANISM_COMMON: MPMV; SOURCE 4 ORGANISM_TAXID: 11855; SOURCE 5 GENE: GAG-PRO-POL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PBPS13ATG; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS MASON-PFIZER MONKEY VIRUS, M-PMV, RETROPEPSIN, ACTIVE SITE INHIBITOR, KEYWDS 2 ACTIVE SITE MUTANT, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.WOSICKI,M.GILSKI,M.JASKOLSKI,H.ZABRANSKA,I.PICHOVA REVDAT 2 31-JAN-24 7BGT 1 REMARK REVDAT 1 15-DEC-21 7BGT 0 JRNL AUTH S.WOSICKI,M.KAZMIERCZYK,M.GILSKI,H.ZABRANSKA,I.PICHOVA, JRNL AUTH 2 M.JASKOLSKI JRNL TITL CRYSTAL STRUCTURES OF INHIBITOR COMPLEXES OF M-PMV PROTEASE JRNL TITL 2 WITH VISIBLE FLAP LOOPS. JRNL REF PROTEIN SCI. V. 30 1258 2021 JRNL REFN ESSN 1469-896X JRNL PMID 33786913 JRNL DOI 10.1002/PRO.4072 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.WOSICKI,M.GILSKI,H.ZABRANSKA,I.PICHOVA,M.JASKOLSKI REMARK 1 TITL COMPARISON OF A RETROVIRAL PROTEASE IN MONOMERIC AND DIMERIC REMARK 1 TITL 2 STATES. REMARK 1 REF ACTA CRYSTALLOGR D STRUCT V. 75 904 2019 REMARK 1 REF 2 BIOL REMARK 1 REFN ISSN 2059-7983 REMARK 1 PMID 31588922 REMARK 1 DOI 10.1107/S2059798319011355 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.GILSKI,M.KAZMIERCZYK,S.KRZYWDA,H.ZABRANSKA,S.COOPER, REMARK 1 AUTH 2 Z.POPOVIC,F.KHATIB,F.DIMAIO,J.THOMPSON,D.BAKER,I.PICHOVA, REMARK 1 AUTH 3 M.JASKOLSKI REMARK 1 TITL HIGH-RESOLUTION STRUCTURE OF A RETROVIRAL PROTEASE FOLDED AS REMARK 1 TITL 2 A MONOMER. REMARK 1 REF ACTA CRYSTALLOGR. D BIOL. V. 67 907 2011 REMARK 1 REF 2 CRYSTALLOGR. REMARK 1 REFN ESSN 1399-0047 REMARK 1 PMID 22101816 REMARK 1 DOI 10.1107/S0907444911035943 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.MILLER,M.JASKOLSKI,J.K.RAO,J.LEIS,A.WLODAWER REMARK 1 TITL CRYSTAL STRUCTURE OF A RETROVIRAL PROTEASE PROVES REMARK 1 TITL 2 RELATIONSHIP TO ASPARTIC PROTEASE FAMILY. REMARK 1 REF NATURE V. 337 576 1989 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 2536902 REMARK 1 DOI 10.1038/337576A0 REMARK 1 REFERENCE 4 REMARK 1 AUTH A.WLODAWER,M.MILLER,M.JASKOLSKI,B.K.SATHYANARAYANA, REMARK 1 AUTH 2 E.BALDWIN,I.T.WEBER,L.M.SELK,L.CLAWSON,J.SCHNEIDER,S.B.KENT REMARK 1 TITL CONSERVED FOLDING IN RETROVIRAL PROTEASES: CRYSTAL STRUCTURE REMARK 1 TITL 2 OF A SYNTHETIC HIV-1 PROTEASE. REMARK 1 REF SCIENCE V. 245 616 1989 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 2548279 REMARK 1 DOI 10.1126/SCIENCE.2548279 REMARK 1 REFERENCE 5 REMARK 1 AUTH F.KHATIB,F.DIMAIO,S.COOPER,M.KAZMIERCZYK,M.GILSKI,S.KRZYWDA, REMARK 1 AUTH 2 H.ZABRANSKA,I.PICHOVA,J.THOMPSON,Z.POPOVIC,M.JASKOLSKI, REMARK 1 AUTH 3 D.BAKER REMARK 1 TITL CRYSTAL STRUCTURE OF A MONOMERIC RETROVIRAL PROTEASE SOLVED REMARK 1 TITL 2 BY PROTEIN FOLDING GAME PLAYERS. REMARK 1 REF NAT. STRUCT. MOL. BIOL. V. 18 1175 2011 REMARK 1 REFN ESSN 1545-9985 REMARK 1 PMID 21926992 REMARK 1 DOI 10.1038/NSMB.2119 REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 37684 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.650 REMARK 3 FREE R VALUE TEST SET COUNT : 999 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.4200 - 3.6900 0.97 5194 142 0.1379 0.1513 REMARK 3 2 3.6900 - 2.9300 0.97 5244 143 0.1662 0.2115 REMARK 3 3 2.9300 - 2.5600 0.98 5337 145 0.1871 0.2443 REMARK 3 4 2.5600 - 2.3300 0.97 5239 143 0.1949 0.2245 REMARK 3 5 2.3200 - 2.1600 0.97 5253 143 0.2160 0.2653 REMARK 3 6 2.1600 - 2.0300 0.97 5240 142 0.2366 0.2794 REMARK 3 7 2.0300 - 1.9300 0.96 5178 141 0.2831 0.3177 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.670 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.22 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3702 REMARK 3 ANGLE : 1.105 5038 REMARK 3 CHIRALITY : 0.069 566 REMARK 3 PLANARITY : 0.007 621 REMARK 3 DIHEDRAL : 16.485 1393 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 1 through 18 or REMARK 3 resid 20 through 55 or resid 60 through REMARK 3 65 or resid 67 through 108)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 1 through 18 or REMARK 3 resid 20 through 52 or (resid 53 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 54 through 55 or REMARK 3 resid 60 through 65 or resid 67 through REMARK 3 108)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "C" and (resid 1 through 18 or REMARK 3 resid 20 through 65 or resid 67 through REMARK 3 108)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 4 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "D" and (resid 1 through 18 or REMARK 3 resid 20 through 52 or (resid 53 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 54 through 55 or REMARK 3 resid 60 through 65 or resid 67 through REMARK 3 108)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : ens_2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "F" and resid 1 through 7) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : chain "G" REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGEN ATOMS WERE ADDED AT RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 7BGT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1292110160. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.82657 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR, SI REMARK 200 -111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37694 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.929 REMARK 200 RESOLUTION RANGE LOW (A) : 32.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 2.220 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.63700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.490 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6S1V, CHAIN B REMARK 200 REMARK 200 REMARK: PLATE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION: 4.7 MG/ML PROTEIN REMARK 280 WITH 1.4-FOLD MOLAR EXCESS (RELATIVE TO DIMERIC PROTEIN) OF THE REMARK 280 INHIBITOR, 10 MM TRIS BUFFER PH 7.4; RESERVOIR SOLUTION: 0.1 M REMARK 280 IMIDAZOLE BUFFER, 0.6 M SODIUM ACETATE;, PH 7.7, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, F 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, G 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ASN A 109 REMARK 465 ASP A 110 REMARK 465 ILE A 111 REMARK 465 VAL A 112 REMARK 465 THR A 113 REMARK 465 ALA A 114 REMARK 465 ASN B 109 REMARK 465 ASP B 110 REMARK 465 ILE B 111 REMARK 465 VAL B 112 REMARK 465 THR B 113 REMARK 465 ALA B 114 REMARK 465 GLY C 56 REMARK 465 GLN C 57 REMARK 465 SER C 58 REMARK 465 ASN C 59 REMARK 465 ASN C 109 REMARK 465 ASP C 110 REMARK 465 ILE C 111 REMARK 465 VAL C 112 REMARK 465 THR C 113 REMARK 465 ALA C 114 REMARK 465 ASN D 109 REMARK 465 ASP D 110 REMARK 465 ILE D 111 REMARK 465 VAL D 112 REMARK 465 THR D 113 REMARK 465 ALA D 114 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 53 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 53 CG CD NE CZ NH1 NH2 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 PSA G 4 CA - C - N ANGL. DEV. = 17.5 DEGREES REMARK 500 PSA F 4 CA - C - N ANGL. DEV. = 21.2 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 ASP A 17 -120.10 43.46 REMARK 500 GLN A 57 136.91 -176.64 REMARK 500 ASP B 17 -120.90 44.69 REMARK 500 ASP C 17 -123.01 45.20 REMARK 500 ASP D 17 -121.27 43.56 REMARK 500 ASN D 60 78.42 -101.51 REMARK 500 ASN D 75 0.04 81.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 363 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A 364 DISTANCE = 8.08 ANGSTROMS REMARK 525 HOH B 383 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH B 384 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH C 372 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH D 379 DISTANCE = 6.07 ANGSTROMS REMARK 525 HOH D 380 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH D 381 DISTANCE = 7.39 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6S1U RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH DIFFERENT INHIBITOR CRYSTALLIZED IN A REMARK 900 DIFFERENT SPACE GROUP (P21) REMARK 900 RELATED ID: 6S1V RELATED DB: PDB REMARK 900 A DIFFERENT MUTANT (D26N) OF THE SAME PROTEIN WITH THE SAME REMARK 900 INHIBITOR CRYSTALLIZED IN A DIFFERENT SPACE GROUP (P21) REMARK 900 RELATED ID: 6S1W RELATED DB: PDB REMARK 900 A DIFFERENT MUTANT (D26N) OF THE SAME PROTEIN IN APO FORM REMARK 900 RELATED ID: 3SQF RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN MONOMERIC STATE REMARK 900 RELATED ID: 3HPV RELATED DB: PDB REMARK 900 HIV-1 PROTEASE IN APO FORM REMARK 900 RELATED ID: 4HVP RELATED DB: PDB REMARK 900 HIV-1 PROTEASE INHIBITOR COMPLEX REMARK 900 RELATED ID: 5KR1 RELATED DB: PDB REMARK 900 HIV-1 PROTEASE WITH SIMILAR ACTIVE SITE CONFORMATION REMARK 900 RELATED ID: 1N49 RELATED DB: PDB REMARK 900 HIV-1 PROTEASE WITH SIMILAR ACTIVE SITE CONFORMATION DBREF 7BGT A 1 114 UNP P07572 POL_MPMV 760 873 DBREF 7BGT B 1 114 UNP P07572 POL_MPMV 760 873 DBREF 7BGT C 1 114 UNP P07572 POL_MPMV 760 873 DBREF 7BGT D 1 114 UNP P07572 POL_MPMV 760 873 DBREF 7BGT G 1 7 PDB 7BGT 7BGT 1 7 DBREF 7BGT F 1 7 PDB 7BGT 7BGT 1 7 SEQADV 7BGT ALA A 7 UNP P07572 CYS 766 ENGINEERED MUTATION SEQADV 7BGT ASN A 26 UNP P07572 ASP 785 ENGINEERED MUTATION SEQADV 7BGT ALA A 106 UNP P07572 CYS 865 ENGINEERED MUTATION SEQADV 7BGT ALA B 7 UNP P07572 CYS 766 ENGINEERED MUTATION SEQADV 7BGT ASN B 26 UNP P07572 ASP 785 ENGINEERED MUTATION SEQADV 7BGT ALA B 106 UNP P07572 CYS 865 ENGINEERED MUTATION SEQADV 7BGT ALA C 7 UNP P07572 CYS 766 ENGINEERED MUTATION SEQADV 7BGT ASN C 26 UNP P07572 ASP 785 ENGINEERED MUTATION SEQADV 7BGT ALA C 106 UNP P07572 CYS 865 ENGINEERED MUTATION SEQADV 7BGT ALA D 7 UNP P07572 CYS 766 ENGINEERED MUTATION SEQADV 7BGT ASN D 26 UNP P07572 ASP 785 ENGINEERED MUTATION SEQADV 7BGT ALA D 106 UNP P07572 CYS 865 ENGINEERED MUTATION SEQRES 1 A 114 TRP VAL GLN PRO ILE THR ALA GLN LYS PRO SER LEU THR SEQRES 2 A 114 LEU TRP LEU ASP ASP LYS MET PHE THR GLY LEU ILE ASN SEQRES 3 A 114 THR GLY ALA ASP VAL THR ILE ILE LYS LEU GLU ASP TRP SEQRES 4 A 114 PRO PRO ASN TRP PRO ILE THR ASP THR LEU THR ASN LEU SEQRES 5 A 114 ARG GLY ILE GLY GLN SER ASN ASN PRO LYS GLN SER SER SEQRES 6 A 114 LYS TYR LEU THR TRP ARG ASP LYS GLU ASN ASN SER GLY SEQRES 7 A 114 LEU ILE LYS PRO PHE VAL ILE PRO ASN LEU PRO VAL ASN SEQRES 8 A 114 LEU TRP GLY ARG ASP LEU LEU SER GLN MET LYS ILE MET SEQRES 9 A 114 MET ALA SER PRO ASN ASP ILE VAL THR ALA SEQRES 1 B 114 TRP VAL GLN PRO ILE THR ALA GLN LYS PRO SER LEU THR SEQRES 2 B 114 LEU TRP LEU ASP ASP LYS MET PHE THR GLY LEU ILE ASN SEQRES 3 B 114 THR GLY ALA ASP VAL THR ILE ILE LYS LEU GLU ASP TRP SEQRES 4 B 114 PRO PRO ASN TRP PRO ILE THR ASP THR LEU THR ASN LEU SEQRES 5 B 114 ARG GLY ILE GLY GLN SER ASN ASN PRO LYS GLN SER SER SEQRES 6 B 114 LYS TYR LEU THR TRP ARG ASP LYS GLU ASN ASN SER GLY SEQRES 7 B 114 LEU ILE LYS PRO PHE VAL ILE PRO ASN LEU PRO VAL ASN SEQRES 8 B 114 LEU TRP GLY ARG ASP LEU LEU SER GLN MET LYS ILE MET SEQRES 9 B 114 MET ALA SER PRO ASN ASP ILE VAL THR ALA SEQRES 1 C 114 TRP VAL GLN PRO ILE THR ALA GLN LYS PRO SER LEU THR SEQRES 2 C 114 LEU TRP LEU ASP ASP LYS MET PHE THR GLY LEU ILE ASN SEQRES 3 C 114 THR GLY ALA ASP VAL THR ILE ILE LYS LEU GLU ASP TRP SEQRES 4 C 114 PRO PRO ASN TRP PRO ILE THR ASP THR LEU THR ASN LEU SEQRES 5 C 114 ARG GLY ILE GLY GLN SER ASN ASN PRO LYS GLN SER SER SEQRES 6 C 114 LYS TYR LEU THR TRP ARG ASP LYS GLU ASN ASN SER GLY SEQRES 7 C 114 LEU ILE LYS PRO PHE VAL ILE PRO ASN LEU PRO VAL ASN SEQRES 8 C 114 LEU TRP GLY ARG ASP LEU LEU SER GLN MET LYS ILE MET SEQRES 9 C 114 MET ALA SER PRO ASN ASP ILE VAL THR ALA SEQRES 1 D 114 TRP VAL GLN PRO ILE THR ALA GLN LYS PRO SER LEU THR SEQRES 2 D 114 LEU TRP LEU ASP ASP LYS MET PHE THR GLY LEU ILE ASN SEQRES 3 D 114 THR GLY ALA ASP VAL THR ILE ILE LYS LEU GLU ASP TRP SEQRES 4 D 114 PRO PRO ASN TRP PRO ILE THR ASP THR LEU THR ASN LEU SEQRES 5 D 114 ARG GLY ILE GLY GLN SER ASN ASN PRO LYS GLN SER SER SEQRES 6 D 114 LYS TYR LEU THR TRP ARG ASP LYS GLU ASN ASN SER GLY SEQRES 7 D 114 LEU ILE LYS PRO PHE VAL ILE PRO ASN LEU PRO VAL ASN SEQRES 8 D 114 LEU TRP GLY ARG ASP LEU LEU SER GLN MET LYS ILE MET SEQRES 9 D 114 MET ALA SER PRO ASN ASP ILE VAL THR ALA SEQRES 1 G 7 PRO TYR VAL PSA ALA MET HIS SEQRES 1 F 7 PRO TYR VAL PSA ALA MET HIS HET PSA G 4 14 HET PSA F 4 14 HET ACT A 201 4 HET 1PE B 201 16 HET ACT C 201 4 HET 1PE D 201 16 HET ACT F 101 4 HETNAM PSA 3-HYDROXY-4-AMINO-5-PHENYLPENTANOIC ACID HETNAM ACT ACETATE ION HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN 1PE PEG400 FORMUL 5 PSA 2(C11 H15 N O3) FORMUL 7 ACT 3(C2 H3 O2 1-) FORMUL 8 1PE 2(C10 H22 O6) FORMUL 12 HOH *308(H2 O) HELIX 1 AA1 GLU A 37 TRP A 39 5 3 HELIX 2 AA2 GLY A 94 MET A 101 1 8 HELIX 3 AA3 GLU B 37 TRP B 39 5 3 HELIX 4 AA4 GLY B 94 SER B 99 1 6 HELIX 5 AA5 GLU C 37 TRP C 39 5 3 HELIX 6 AA6 GLY C 94 MET C 101 1 8 HELIX 7 AA7 GLU D 37 TRP D 39 5 3 HELIX 8 AA8 GLY D 94 SER D 99 1 6 SHEET 1 AA1 4 VAL A 2 PRO A 4 0 SHEET 2 AA1 4 MET B 104 ALA B 106 -1 O MET B 105 N GLN A 3 SHEET 3 AA1 4 MET A 104 ALA A 106 -1 N MET A 104 O ALA B 106 SHEET 4 AA1 4 VAL B 2 PRO B 4 -1 O GLN B 3 N MET A 105 SHEET 1 AA2 5 SER A 77 ILE A 80 0 SHEET 2 AA2 5 LEU A 68 ARG A 71 -1 N LEU A 68 O ILE A 80 SHEET 3 AA2 5 SER A 11 LEU A 16 -1 N TRP A 15 O ARG A 71 SHEET 4 AA2 5 LYS A 19 ILE A 25 -1 O PHE A 21 N LEU A 14 SHEET 5 AA2 5 ASN A 91 TRP A 93 1 O ASN A 91 N LEU A 24 SHEET 1 AA3 4 ILE A 33 LYS A 35 0 SHEET 2 AA3 4 PHE A 83 ILE A 85 1 O PHE A 83 N ILE A 34 SHEET 3 AA3 4 LYS A 62 SER A 64 -1 N LYS A 62 O VAL A 84 SHEET 4 AA3 4 ILE A 45 ASP A 47 -1 N THR A 46 O GLN A 63 SHEET 1 AA4 2 LEU A 52 ARG A 53 0 SHEET 2 AA4 2 SER A 58 ASN A 59 -1 O ASN A 59 N LEU A 52 SHEET 1 AA5 5 SER B 77 ILE B 80 0 SHEET 2 AA5 5 LEU B 68 ARG B 71 -1 N LEU B 68 O ILE B 80 SHEET 3 AA5 5 SER B 11 LEU B 16 -1 N TRP B 15 O ARG B 71 SHEET 4 AA5 5 LYS B 19 ILE B 25 -1 O PHE B 21 N LEU B 14 SHEET 5 AA5 5 ASN B 91 TRP B 93 1 O ASN B 91 N LEU B 24 SHEET 1 AA6 4 ILE B 33 LYS B 35 0 SHEET 2 AA6 4 PHE B 83 ILE B 85 1 O PHE B 83 N ILE B 34 SHEET 3 AA6 4 LYS B 62 SER B 64 -1 N LYS B 62 O VAL B 84 SHEET 4 AA6 4 ILE B 45 THR B 46 -1 N THR B 46 O GLN B 63 SHEET 1 AA7 4 ASN B 51 ARG B 53 0 SHEET 2 AA7 4 GLN B 57 ASN B 59 -1 O SER B 58 N LEU B 52 SHEET 3 AA7 4 SER D 58 ASN D 59 1 O SER D 58 N ASN B 59 SHEET 4 AA7 4 LEU D 52 ARG D 53 -1 N LEU D 52 O ASN D 59 SHEET 1 AA8 4 VAL C 2 PRO C 4 0 SHEET 2 AA8 4 MET D 104 ALA D 106 -1 O MET D 105 N GLN C 3 SHEET 3 AA8 4 MET C 104 ALA C 106 -1 N ALA C 106 O MET D 104 SHEET 4 AA8 4 VAL D 2 PRO D 4 -1 O GLN D 3 N MET C 105 SHEET 1 AA9 5 SER C 77 ILE C 80 0 SHEET 2 AA9 5 LEU C 68 ARG C 71 -1 N LEU C 68 O ILE C 80 SHEET 3 AA9 5 SER C 11 LEU C 16 -1 N TRP C 15 O ARG C 71 SHEET 4 AA9 5 LYS C 19 ILE C 25 -1 O PHE C 21 N LEU C 14 SHEET 5 AA9 5 ASN C 91 TRP C 93 1 O ASN C 91 N LEU C 24 SHEET 1 AB1 4 ILE C 33 LYS C 35 0 SHEET 2 AB1 4 PHE C 83 ILE C 85 1 O PHE C 83 N ILE C 34 SHEET 3 AB1 4 LYS C 62 SER C 64 -1 N LYS C 62 O VAL C 84 SHEET 4 AB1 4 ILE C 45 ASP C 47 -1 N THR C 46 O GLN C 63 SHEET 1 AB2 5 SER D 77 ILE D 80 0 SHEET 2 AB2 5 LEU D 68 ARG D 71 -1 N LEU D 68 O ILE D 80 SHEET 3 AB2 5 SER D 11 LEU D 16 -1 N TRP D 15 O ARG D 71 SHEET 4 AB2 5 LYS D 19 ILE D 25 -1 O PHE D 21 N LEU D 14 SHEET 5 AB2 5 LEU D 92 TRP D 93 1 O TRP D 93 N LEU D 24 SHEET 1 AB3 4 ILE D 33 LYS D 35 0 SHEET 2 AB3 4 PHE D 83 ILE D 85 1 O PHE D 83 N ILE D 34 SHEET 3 AB3 4 LYS D 62 SER D 64 -1 N LYS D 62 O VAL D 84 SHEET 4 AB3 4 ILE D 45 ASP D 47 -1 N THR D 46 O GLN D 63 LINK C VAL G 3 N PSA G 4 1555 1555 1.32 LINK C PSA G 4 N ALA G 5 1555 1555 1.33 LINK C VAL F 3 N PSA F 4 1555 1555 1.31 LINK C PSA F 4 N ALA F 5 1555 1555 1.33 CRYST1 29.296 67.618 69.716 76.85 83.88 83.65 P 1 4 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 0.034134 -0.003802 -0.002903 0.00000 SCALE2 0.000000 0.014880 -0.003330 0.00000 SCALE3 0.000000 0.000000 0.014783 0.00000