HEADER ISOMERASE/VIRAL PROTEIN 25-JAN-12 4DGA TITLE TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: HIV-1 CA(O-LOOP) TITLE 2 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 MOL_ID: 2; COMPND 9 MOLECULE: CAPSID PROTEIN; COMPND 10 CHAIN: C, D; COMPND 11 FRAGMENT: CYCLOPHILIN-BINDING DOMAIN (UNP RESIDUES 133-277); COMPND 12 ENGINEERED: YES; COMPND 13 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 4DGA 1 SEQADV REVDAT 3 18-APR-12 4DGA 1 JRNL REVDAT 2 28-MAR-12 4DGA 1 JRNL REVDAT 1 08-FEB-12 4DGA 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. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 41697 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2111 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2261 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4554 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 349 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.12000 REMARK 3 B22 (A**2) : 1.30000 REMARK 3 B33 (A**2) : -1.27000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.21000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.192 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.169 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.183 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4689 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3224 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6346 ; 1.204 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7895 ; 0.838 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 594 ; 5.785 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 200 ;37.232 ;24.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 792 ;13.096 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;18.734 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 687 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5210 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 917 ; 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 : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 67 4 REMARK 3 1 B 5 B 67 4 REMARK 3 2 A 75 A 164 4 REMARK 3 2 B 75 B 164 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2029 ; 0.290 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2029 ; 1.290 ; 2.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 3 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 1 C 14 4 REMARK 3 1 D 1 D 14 4 REMARK 3 2 C 37 C 57 4 REMARK 3 2 D 37 D 57 4 REMARK 3 3 C 72 C 141 4 REMARK 3 3 D 72 D 141 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 C (A): 1241 ; 0.280 ; 0.500 REMARK 3 MEDIUM THERMAL 2 C (A**2): 1241 ; 1.160 ; 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 164 REMARK 3 ORIGIN FOR THE GROUP (A): 4.4102 25.8428 14.2441 REMARK 3 T TENSOR REMARK 3 T11: 0.0407 T22: 0.0103 REMARK 3 T33: 0.0213 T12: 0.0120 REMARK 3 T13: 0.0202 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 2.1282 L22: 3.0744 REMARK 3 L33: 2.6152 L12: 0.0565 REMARK 3 L13: -0.4656 L23: 0.8419 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: 0.0290 S13: -0.1123 REMARK 3 S21: -0.1341 S22: -0.0529 S23: -0.1697 REMARK 3 S31: 0.2238 S32: 0.0056 S33: 0.0525 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): -21.7952 -19.4935 14.7753 REMARK 3 T TENSOR REMARK 3 T11: 0.0805 T22: 0.0300 REMARK 3 T33: 0.0437 T12: -0.0286 REMARK 3 T13: -0.0156 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 3.3212 L22: 2.9902 REMARK 3 L33: 2.7677 L12: 0.8035 REMARK 3 L13: 1.0021 L23: -0.8062 REMARK 3 S TENSOR REMARK 3 S11: -0.1468 S12: 0.2277 S13: 0.3546 REMARK 3 S21: -0.1754 S22: 0.1222 S23: 0.1898 REMARK 3 S31: -0.3237 S32: 0.0557 S33: 0.0246 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 145 REMARK 3 ORIGIN FOR THE GROUP (A): -16.3841 13.0476 44.9698 REMARK 3 T TENSOR REMARK 3 T11: 0.0301 T22: 0.0366 REMARK 3 T33: 0.0625 T12: -0.0101 REMARK 3 T13: -0.0138 T23: -0.0199 REMARK 3 L TENSOR REMARK 3 L11: 3.6791 L22: 1.5494 REMARK 3 L33: 3.5795 L12: 0.4455 REMARK 3 L13: -0.8043 L23: -0.7800 REMARK 3 S TENSOR REMARK 3 S11: -0.0698 S12: 0.0243 S13: -0.1204 REMARK 3 S21: 0.0631 S22: 0.0223 S23: 0.1045 REMARK 3 S31: 0.1578 S32: -0.3318 S33: 0.0475 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 142 REMARK 3 ORIGIN FOR THE GROUP (A): -1.4831 -5.4751 45.3712 REMARK 3 T TENSOR REMARK 3 T11: 0.0227 T22: 0.0177 REMARK 3 T33: 0.0935 T12: 0.0091 REMARK 3 T13: 0.0007 T23: 0.0218 REMARK 3 L TENSOR REMARK 3 L11: 4.4857 L22: 2.7707 REMARK 3 L33: 1.8884 L12: 1.3502 REMARK 3 L13: 1.6002 L23: 1.5661 REMARK 3 S TENSOR REMARK 3 S11: -0.0670 S12: 0.1837 S13: 0.0654 REMARK 3 S21: 0.0486 S22: 0.0562 S23: -0.2034 REMARK 3 S31: -0.0977 S32: 0.0292 S33: 0.0107 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 4DGA 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_1000070291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0720 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41766 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 66.182 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05300 REMARK 200 FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.19600 REMARK 200 R SYM FOR SHELL (I) : 0.19600 REMARK 200 FOR SHELL : 3.600 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 (%): 40.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% W/V PEG5000 MME, 0.1 M BIS-TRIS, REMARK 280 PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 55.67500 REMARK 290 SMTRY3 2 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 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 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 HIS A 70 REMARK 465 ASN A 71 REMARK 465 GLU A 165 REMARK 465 MET B 1 REMARK 465 HIS B 70 REMARK 465 ASN B 71 REMARK 465 GLY B 72 REMARK 465 THR B 73 REMARK 465 GLY B 74 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 D 0 REMARK 465 GLN D 4 REMARK 465 ASN D 5 REMARK 465 LEU D 6 REMARK 465 GLN D 7 REMARK 465 GLY D 8 REMARK 465 GLN D 9 REMARK 465 MET D 10 REMARK 465 VAL D 11 REMARK 465 ARG D 143 REMARK 465 MET D 144 REMARK 465 TYR D 145 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NE2 HIS D 12 O HOH D 221 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLN C 67 O HOH A 309 1556 2.06 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 -73.07 -131.81 REMARK 500 THR A 73 -0.69 61.69 REMARK 500 LYS A 133 -64.10 -97.89 REMARK 500 PHE B 60 -71.65 -127.27 REMARK 500 LYS B 133 -60.30 -97.70 REMARK 500 ALA D 31 -127.34 55.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES 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 REMARK 900 RELATED ID: 4DGE RELATED DB: PDB REMARK 900 TRIMCYP CYCLOPHILIN DOMAIN FROM MACACA MULATTA: H70C MUTANT, HIV-1 REMARK 900 CA(O-LOOP) COMPLEX DBREF 4DGA A 1 165 UNP B0LJC8 B0LJC8_MACMU 304 468 DBREF 4DGA B 1 165 UNP B0LJC8 B0LJC8_MACMU 304 468 DBREF 4DGA C 1 145 UNP Q72497 Q72497_9HIV1 133 277 DBREF 4DGA D 1 145 UNP Q72497 Q72497_9HIV1 133 277 SEQADV 4DGA MET C 0 UNP Q72497 INITIATING METHIONINE SEQADV 4DGA THR C 83 UNP Q72497 LEU 215 ENGINEERED MUTATION SEQADV 4DGA PRO C 86 UNP Q72497 VAL 218 ENGINEERED MUTATION SEQADV 4DGA ALA C 87 UNP Q72497 HIS 219 ENGINEERED MUTATION SEQADV 4DGA MET C 88 UNP Q72497 ALA 220 ENGINEERED MUTATION SEQADV 4DGA LEU C 91 UNP Q72497 ILE 223 ENGINEERED MUTATION SEQADV 4DGA PRO C 92 UNP Q72497 ALA 224 ENGINEERED MUTATION SEQADV 4DGA ILE C 96 UNP Q72497 MET 228 ENGINEERED MUTATION SEQADV 4DGA THR C 100 UNP Q72497 ARG 232 ENGINEERED MUTATION SEQADV 4DGA MET D 0 UNP Q72497 INITIATING METHIONINE SEQADV 4DGA THR D 83 UNP Q72497 LEU 215 ENGINEERED MUTATION SEQADV 4DGA PRO D 86 UNP Q72497 VAL 218 ENGINEERED MUTATION SEQADV 4DGA ALA D 87 UNP Q72497 HIS 219 ENGINEERED MUTATION SEQADV 4DGA MET D 88 UNP Q72497 ALA 220 ENGINEERED MUTATION SEQADV 4DGA LEU D 91 UNP Q72497 ILE 223 ENGINEERED MUTATION SEQADV 4DGA PRO D 92 UNP Q72497 ALA 224 ENGINEERED MUTATION SEQADV 4DGA ILE D 96 UNP Q72497 MET 228 ENGINEERED MUTATION SEQADV 4DGA 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 HIS 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 HIS 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 *349(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 GLU C 29 1 14 HELIX 8 8 LYS C 30 PRO C 34 5 5 HELIX 9 9 GLU C 35 SER C 44 1 10 HELIX 10 10 THR C 48 THR C 58 1 11 HELIX 11 11 HIS C 62 HIS C 84 1 23 HELIX 12 12 THR C 100 ALA C 105 1 6 HELIX 13 13 THR C 110 THR C 119 1 10 HELIX 14 14 PRO C 125 TYR C 145 1 21 HELIX 15 15 SER D 16 ALA D 31 1 16 HELIX 16 16 GLU D 35 SER D 44 1 10 HELIX 17 17 THR D 48 VAL D 59 1 12 HELIX 18 18 HIS D 62 HIS D 84 1 23 HELIX 19 19 THR D 100 ALA D 105 1 6 HELIX 20 20 THR D 110 THR D 119 1 10 HELIX 21 21 PRO D 125 ILE D 141 1 17 SHEET 1 A 8 ARG A 55 ILE A 57 0 SHEET 2 A 8 MET A 61 GLY A 64 -1 O GLN A 63 N ARG A 55 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 ILE A 97 O CYS A 115 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 ILE A 10 O LEU A 17 SHEET 8 A 8 ILE A 156 LEU A 164 -1 O ASP A 160 N ASP A 9 SHEET 1 B 8 PHE B 53 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 VAL B 132 -1 O GLY B 130 N LEU B 98 SHEET 6 B 8 GLU B 15 LEU B 24 -1 N GLU B 23 O LYS B 131 SHEET 7 B 8 THR B 5 VAL B 12 -1 N ILE B 10 O LEU B 17 SHEET 8 B 8 ILE B 156 GLU B 165 -1 O ASP B 160 N ASP B 9 CISPEP 1 GLY C 89 PRO C 90 0 5.00 CISPEP 2 ASN C 121 PRO C 122 0 3.24 CISPEP 3 GLY D 89 PRO D 90 0 9.47 CISPEP 4 ASN D 121 PRO D 122 0 5.51 CRYST1 38.590 111.350 67.760 90.00 102.39 90.00 P 1 21 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 0.025913 0.000000 0.005693 0.00000 SCALE2 0.000000 0.008981 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015110 0.00000