HEADER ISOMERASE/VIRAL PROTEIN 25-JAN-12 4DGE TITLE TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: H70C MUTANT, HIV-1 TITLE 2 CA(O-LOOP) COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRIMCYP; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CYCLOPHILIN DOMAIN (UNP RESIDUES 304-468); COMPND 5 SYNONYM: PEPTIDYL-PROLYL CIS-TRANS ISOMERASE; COMPND 6 EC: 5.2.1.8; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: CAPSID PROTEIN; COMPND 11 CHAIN: C, D; COMPND 12 FRAGMENT: CYCLOPHILIN-BINDING DOMAIN (UNP RESIDUES 133-277); COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MACACA MULATTA; SOURCE 3 ORGANISM_COMMON: RHESUS MACAQUE; SOURCE 4 ORGANISM_TAXID: 9544; SOURCE 5 GENE: TRIMCYP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: POPT; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS 1; SOURCE 13 ORGANISM_COMMON: HIV-1; SOURCE 14 ORGANISM_TAXID: 11676; SOURCE 15 STRAIN: M-GROUP (NL4-3); SOURCE 16 GENE: GAG; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 20 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: POPT KEYWDS ANTI-VIRAL PROTEIN, ISOMERASE-VIRAL PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.E.C.CAINES,K.BICHEL,A.J.PRICE,W.A.MCEWAN,L.C.JAMES REVDAT 4 13-SEP-23 4DGE 1 SEQADV REVDAT 3 18-APR-12 4DGE 1 JRNL REVDAT 2 28-MAR-12 4DGE 1 JRNL REVDAT 1 08-FEB-12 4DGE 0 JRNL AUTH M.E.CAINES,K.BICHEL,A.J.PRICE,W.A.MCEWAN,G.J.TOWERS, JRNL AUTH 2 B.J.WILLETT,S.M.FREUND,L.C.JAMES JRNL TITL DIVERSE HIV VIRUSES ARE TARGETED BY A CONFORMATIONALLY JRNL TITL 2 DYNAMIC ANTIVIRAL. JRNL REF NAT.STRUCT.MOL.BIOL. V. 19 411 2012 JRNL REFN ISSN 1545-9993 JRNL PMID 22407016 JRNL DOI 10.1038/NSMB.2253 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 27009 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1350 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1703 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4680 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.92 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.51000 REMARK 3 B12 (A**2) : 0.07000 REMARK 3 B13 (A**2) : 0.13000 REMARK 3 B23 (A**2) : -0.50000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.379 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.254 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.163 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.914 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.890 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4794 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3292 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6486 ; 1.374 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8050 ; 0.873 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 604 ; 6.072 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 207 ;35.846 ;24.831 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 806 ;14.474 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;22.865 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 699 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5348 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 926 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 165 4 REMARK 3 1 B 2 B 165 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2148 ; 0.450 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2148 ; 0.620 ; 2.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 1 C 3 4 REMARK 3 1 D 1 D 3 4 REMARK 3 2 C 11 C 143 4 REMARK 3 2 D 11 D 143 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 C (A): 1775 ; 0.990 ; 0.500 REMARK 3 MEDIUM THERMAL 2 C (A**2): 1775 ; 1.820 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 165 REMARK 3 ORIGIN FOR THE GROUP (A): -8.9701 -15.0035 28.2197 REMARK 3 T TENSOR REMARK 3 T11: 0.0283 T22: 0.0133 REMARK 3 T33: 0.0057 T12: 0.0013 REMARK 3 T13: 0.0014 T23: 0.0041 REMARK 3 L TENSOR REMARK 3 L11: 2.4478 L22: 1.9019 REMARK 3 L33: 1.6884 L12: -0.1925 REMARK 3 L13: 0.2469 L23: -0.5869 REMARK 3 S TENSOR REMARK 3 S11: -0.0237 S12: -0.1040 S13: -0.0345 REMARK 3 S21: 0.0355 S22: 0.0257 S23: -0.0244 REMARK 3 S31: -0.0024 S32: 0.0137 S33: -0.0021 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 165 REMARK 3 ORIGIN FOR THE GROUP (A): -34.0468 -17.9934 77.9030 REMARK 3 T TENSOR REMARK 3 T11: 0.0105 T22: 0.0063 REMARK 3 T33: 0.0035 T12: 0.0047 REMARK 3 T13: -0.0004 T23: 0.0025 REMARK 3 L TENSOR REMARK 3 L11: 2.1556 L22: 2.5615 REMARK 3 L33: 1.5739 L12: 0.6187 REMARK 3 L13: 0.1424 L23: 0.5533 REMARK 3 S TENSOR REMARK 3 S11: -0.0240 S12: 0.0143 S13: 0.0193 REMARK 3 S21: -0.0038 S22: -0.0129 S23: 0.0069 REMARK 3 S31: -0.0115 S32: -0.0264 S33: 0.0369 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 143 REMARK 3 ORIGIN FOR THE GROUP (A): -30.0698 11.2193 45.3764 REMARK 3 T TENSOR REMARK 3 T11: 0.0993 T22: 0.1174 REMARK 3 T33: 0.0275 T12: -0.0210 REMARK 3 T13: 0.0205 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 2.6367 L22: 3.9479 REMARK 3 L33: 2.2372 L12: -1.1644 REMARK 3 L13: -0.6605 L23: 1.8683 REMARK 3 S TENSOR REMARK 3 S11: -0.0223 S12: 0.0378 S13: -0.0481 REMARK 3 S21: 0.1251 S22: -0.1165 S23: 0.2879 REMARK 3 S31: 0.0156 S32: -0.1773 S33: 0.1388 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 145 REMARK 3 ORIGIN FOR THE GROUP (A): -14.8269 6.5927 62.5227 REMARK 3 T TENSOR REMARK 3 T11: 0.0623 T22: 0.1051 REMARK 3 T33: 0.0304 T12: -0.0003 REMARK 3 T13: -0.0027 T23: -0.0049 REMARK 3 L TENSOR REMARK 3 L11: 0.9221 L22: 4.6692 REMARK 3 L33: 1.0899 L12: 0.3822 REMARK 3 L13: -0.2097 L23: -0.7576 REMARK 3 S TENSOR REMARK 3 S11: 0.0044 S12: -0.0096 S13: -0.0760 REMARK 3 S21: -0.1556 S22: 0.0421 S23: -0.2217 REMARK 3 S31: 0.0471 S32: 0.1133 S33: -0.0466 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4DGE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000070295. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS HTC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27012 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 63.870 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 200 DATA REDUNDANCY : 1.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05500 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) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.60 REMARK 200 R MERGE FOR SHELL (I) : 0.14400 REMARK 200 R SYM FOR SHELL (I) : 0.14400 REMARK 200 FOR SHELL : 4.900 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: PDB ENTRIES 2WLW AND 1AK4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23.5% W/V PEG8000, 0.1 M HEPES, PH REMARK 280 7.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14470 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 MET A 1 REMARK 465 MET B 1 REMARK 465 MET C 0 REMARK 465 GLN C 4 REMARK 465 ASN C 5 REMARK 465 LEU C 6 REMARK 465 GLN C 7 REMARK 465 GLY C 8 REMARK 465 GLN C 9 REMARK 465 MET C 10 REMARK 465 MET C 144 REMARK 465 TYR C 145 REMARK 465 MET D 0 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 ARG C 97 NE - CZ - NH2 ANGL. DEV. = -3.1 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 PHE A 60 -76.02 -123.67 REMARK 500 LYS A 133 -69.03 -98.39 REMARK 500 ASP B 13 48.04 35.56 REMARK 500 PHE B 60 -79.21 -140.84 REMARK 500 ALA C 31 -126.87 42.14 REMARK 500 ALA D 31 -129.40 52.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DGA RELATED DB: PDB REMARK 900 TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: HIV-1 CA(O-LOOP) REMARK 900 COMPLEX REMARK 900 RELATED ID: 4DGB RELATED DB: PDB REMARK 900 TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: HIV-2 CA REMARK 900 CYCLOPHILIN-BINDING LOOP COMPLEX REMARK 900 RELATED ID: 4DGC RELATED DB: PDB REMARK 900 TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: CYCLOSPORIN A REMARK 900 COMPLEX REMARK 900 RELATED ID: 4DGD RELATED DB: PDB REMARK 900 TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: H70C MUTANT DBREF 4DGE A 1 165 UNP B0LJC8 B0LJC8_MACMU 304 468 DBREF 4DGE B 1 165 UNP B0LJC8 B0LJC8_MACMU 304 468 DBREF 4DGE C 1 145 UNP Q72497 Q72497_9HIV1 133 277 DBREF 4DGE D 1 145 UNP Q72497 Q72497_9HIV1 133 277 SEQADV 4DGE CYS A 70 UNP B0LJC8 HIS 373 ENGINEERED MUTATION SEQADV 4DGE CYS B 70 UNP B0LJC8 HIS 373 ENGINEERED MUTATION SEQADV 4DGE MET C 0 UNP Q72497 INITIATING METHIONINE SEQADV 4DGE THR C 83 UNP Q72497 LEU 215 ENGINEERED MUTATION SEQADV 4DGE PRO C 86 UNP Q72497 VAL 218 ENGINEERED MUTATION SEQADV 4DGE ALA C 87 UNP Q72497 HIS 219 ENGINEERED MUTATION SEQADV 4DGE MET C 88 UNP Q72497 ALA 220 ENGINEERED MUTATION SEQADV 4DGE LEU C 91 UNP Q72497 ILE 223 ENGINEERED MUTATION SEQADV 4DGE PRO C 92 UNP Q72497 ALA 224 ENGINEERED MUTATION SEQADV 4DGE ILE C 96 UNP Q72497 MET 228 ENGINEERED MUTATION SEQADV 4DGE THR C 100 UNP Q72497 ARG 232 ENGINEERED MUTATION SEQADV 4DGE MET D 0 UNP Q72497 INITIATING METHIONINE SEQADV 4DGE THR D 83 UNP Q72497 LEU 215 ENGINEERED MUTATION SEQADV 4DGE PRO D 86 UNP Q72497 VAL 218 ENGINEERED MUTATION SEQADV 4DGE ALA D 87 UNP Q72497 HIS 219 ENGINEERED MUTATION SEQADV 4DGE MET D 88 UNP Q72497 ALA 220 ENGINEERED MUTATION SEQADV 4DGE LEU D 91 UNP Q72497 ILE 223 ENGINEERED MUTATION SEQADV 4DGE PRO D 92 UNP Q72497 ALA 224 ENGINEERED MUTATION SEQADV 4DGE ILE D 96 UNP Q72497 MET 228 ENGINEERED MUTATION SEQADV 4DGE THR D 100 UNP Q72497 ARG 232 ENGINEERED MUTATION SEQRES 1 A 165 MET VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL ASP SEQRES 2 A 165 GLY GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE ALA SEQRES 3 A 165 ASP LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA LEU SEQRES 4 A 165 SER THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER CYS SEQRES 5 A 165 PHE HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY GLY SEQRES 6 A 165 ASN PHE THR HIS CYS ASN GLY THR GLY GLY LYS SER ILE SEQRES 7 A 165 TYR GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU LYS SEQRES 8 A 165 HIS THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA GLY SEQRES 9 A 165 PRO ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR ALA SEQRES 10 A 165 LYS THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE GLY SEQRES 11 A 165 LYS VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET GLU SEQRES 12 A 165 ARG PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS ILE SEQRES 13 A 165 THR ILE ALA ASP CYS GLY GLN LEU GLU SEQRES 1 B 165 MET VAL ASN PRO THR VAL PHE PHE ASP ILE ALA VAL ASP SEQRES 2 B 165 GLY GLU PRO LEU GLY ARG VAL SER PHE GLU LEU PHE ALA SEQRES 3 B 165 ASP LYS VAL PRO LYS THR ALA GLU ASN PHE ARG ALA LEU SEQRES 4 B 165 SER THR GLY GLU LYS GLY PHE GLY TYR LYS GLY SER CYS SEQRES 5 B 165 PHE HIS ARG ILE ILE PRO GLY PHE MET CYS GLN GLY GLY SEQRES 6 B 165 ASN PHE THR HIS CYS ASN GLY THR GLY GLY LYS SER ILE SEQRES 7 B 165 TYR GLY GLU LYS PHE GLU ASP GLU ASN PHE ILE LEU LYS SEQRES 8 B 165 HIS THR GLY PRO GLY ILE LEU SER MET ALA ASN ALA GLY SEQRES 9 B 165 PRO ASN THR ASN GLY SER GLN PHE PHE ILE CYS THR ALA SEQRES 10 B 165 LYS THR GLU TRP LEU ASP GLY LYS HIS VAL VAL PHE GLY SEQRES 11 B 165 LYS VAL LYS GLU GLY MET ASN ILE VAL GLU ALA MET GLU SEQRES 12 B 165 ARG PHE GLY SER ARG ASN GLY LYS THR SER LYS LYS ILE SEQRES 13 B 165 THR ILE ALA ASP CYS GLY GLN LEU GLU SEQRES 1 C 146 MET PRO ILE VAL GLN ASN LEU GLN GLY GLN MET VAL HIS SEQRES 2 C 146 GLN ALA ILE SER PRO ARG THR LEU ASN ALA TRP VAL LYS SEQRES 3 C 146 VAL VAL GLU GLU LYS ALA PHE SER PRO GLU VAL ILE PRO SEQRES 4 C 146 MET PHE SER ALA LEU SER GLU GLY ALA THR PRO GLN ASP SEQRES 5 C 146 LEU ASN THR MET LEU ASN THR VAL GLY GLY HIS GLN ALA SEQRES 6 C 146 ALA MET GLN MET LEU LYS GLU THR ILE ASN GLU GLU ALA SEQRES 7 C 146 ALA GLU TRP ASP ARG THR HIS PRO PRO ALA MET GLY PRO SEQRES 8 C 146 LEU PRO PRO GLY GLN ILE ARG GLU PRO THR GLY SER ASP SEQRES 9 C 146 ILE ALA GLY THR THR SER THR LEU GLN GLU GLN ILE GLY SEQRES 10 C 146 TRP MET THR HIS ASN PRO PRO ILE PRO VAL GLY GLU ILE SEQRES 11 C 146 TYR LYS ARG TRP ILE ILE LEU GLY LEU ASN LYS ILE VAL SEQRES 12 C 146 ARG MET TYR SEQRES 1 D 146 MET PRO ILE VAL GLN ASN LEU GLN GLY GLN MET VAL HIS SEQRES 2 D 146 GLN ALA ILE SER PRO ARG THR LEU ASN ALA TRP VAL LYS SEQRES 3 D 146 VAL VAL GLU GLU LYS ALA PHE SER PRO GLU VAL ILE PRO SEQRES 4 D 146 MET PHE SER ALA LEU SER GLU GLY ALA THR PRO GLN ASP SEQRES 5 D 146 LEU ASN THR MET LEU ASN THR VAL GLY GLY HIS GLN ALA SEQRES 6 D 146 ALA MET GLN MET LEU LYS GLU THR ILE ASN GLU GLU ALA SEQRES 7 D 146 ALA GLU TRP ASP ARG THR HIS PRO PRO ALA MET GLY PRO SEQRES 8 D 146 LEU PRO PRO GLY GLN ILE ARG GLU PRO THR GLY SER ASP SEQRES 9 D 146 ILE ALA GLY THR THR SER THR LEU GLN GLU GLN ILE GLY SEQRES 10 D 146 TRP MET THR HIS ASN PRO PRO ILE PRO VAL GLY GLU ILE SEQRES 11 D 146 TYR LYS ARG TRP ILE ILE LEU GLY LEU ASN LYS ILE VAL SEQRES 12 D 146 ARG MET TYR FORMUL 5 HOH *200(H2 O) HELIX 1 1 VAL A 29 GLY A 42 1 14 HELIX 2 2 THR A 119 ASP A 123 5 5 HELIX 3 3 GLY A 135 ARG A 144 1 10 HELIX 4 4 VAL B 29 GLY B 42 1 14 HELIX 5 5 THR B 119 ASP B 123 5 5 HELIX 6 6 GLY B 135 ARG B 144 1 10 HELIX 7 7 SER C 16 ALA C 31 1 16 HELIX 8 8 GLU C 35 SER C 44 1 10 HELIX 9 9 THR C 48 THR C 58 1 11 HELIX 10 10 HIS C 62 HIS C 84 1 23 HELIX 11 11 THR C 100 ALA C 105 1 6 HELIX 12 12 THR C 110 THR C 119 1 10 HELIX 13 13 PRO C 125 ARG C 143 1 19 HELIX 14 14 SER D 16 ALA D 31 1 16 HELIX 15 15 GLU D 35 SER D 44 1 10 HELIX 16 16 THR D 48 THR D 58 1 11 HELIX 17 17 HIS D 62 HIS D 84 1 23 HELIX 18 18 THR D 100 ALA D 105 1 6 HELIX 19 19 THR D 110 THR D 119 1 10 HELIX 20 20 PRO D 125 VAL D 142 1 18 HELIX 21 21 ARG D 143 TYR D 145 5 3 SHEET 1 A 8 PHE A 53 ILE A 57 0 SHEET 2 A 8 MET A 61 GLY A 64 -1 O MET A 61 N ILE A 57 SHEET 3 A 8 PHE A 112 CYS A 115 -1 O ILE A 114 N CYS A 62 SHEET 4 A 8 ILE A 97 MET A 100 -1 N SER A 99 O PHE A 113 SHEET 5 A 8 VAL A 128 VAL A 132 -1 O GLY A 130 N LEU A 98 SHEET 6 A 8 GLU A 15 LEU A 24 -1 N GLU A 23 O LYS A 131 SHEET 7 A 8 THR A 5 VAL A 12 -1 N PHE A 8 O VAL A 20 SHEET 8 A 8 ILE A 156 GLU A 165 -1 O GLU A 165 N THR A 5 SHEET 1 B 8 ARG B 55 ILE B 57 0 SHEET 2 B 8 MET B 61 GLY B 64 -1 O GLN B 63 N ARG B 55 SHEET 3 B 8 PHE B 112 CYS B 115 -1 O ILE B 114 N CYS B 62 SHEET 4 B 8 ILE B 97 MET B 100 -1 N ILE B 97 O CYS B 115 SHEET 5 B 8 VAL B 128 GLU B 134 -1 O GLY B 130 N LEU B 98 SHEET 6 B 8 GLU B 15 LEU B 24 -1 N SER B 21 O LYS B 133 SHEET 7 B 8 THR B 5 VAL B 12 -1 N ILE B 10 O GLY B 18 SHEET 8 B 8 ILE B 156 GLU B 165 -1 O ASP B 160 N ASP B 9 SHEET 1 C 2 ILE D 2 GLN D 4 0 SHEET 2 C 2 MET D 10 HIS D 12 -1 O VAL D 11 N VAL D 3 SSBOND 1 CYS A 52 CYS A 70 1555 1555 2.05 SSBOND 2 CYS B 52 CYS B 70 1555 1555 2.09 CISPEP 1 GLY C 89 PRO C 90 0 13.36 CISPEP 2 ASN C 121 PRO C 122 0 -1.61 CISPEP 3 GLY D 89 PRO D 90 0 18.72 CISPEP 4 ASN D 121 PRO D 122 0 0.21 CRYST1 39.070 59.710 70.470 65.08 83.87 79.65 P 1 2 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 0.025595 -0.004674 -0.000907 0.00000 SCALE2 0.000000 0.017025 -0.007679 0.00000 SCALE3 0.000000 0.000000 0.015657 0.00000