HEADER ISOMERASE 11-JAN-10 2X25 TITLE FREE ACETYL-CYPA ORTHORHOMBIC FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYL-PROLYL CIS-TRANS ISOMERASE A; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: PPIASE A, ROTAMASE A, CYCLOPHILIN A, CYCLOSPORIN COMPND 5 A-BINDING PROTEIN, CYPA; COMPND 6 EC: 5.2.1.8 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606 KEYWDS HIV-1, ISOMERASE, HOST-VIRUS INTERACTION EXPDTA X-RAY DIFFRACTION AUTHOR M.LAMMERS,H.NEUMANN,J.W.CHIN,L.C.JAMES REVDAT 2 15-JUN-11 2X25 1 JRNL REMARK DBREF SEQADV REVDAT 1 23-MAR-10 2X25 0 JRNL AUTH M.LAMMERS,H.NEUMANN,J.W.CHIN,L.C.JAMES JRNL TITL ACETYLATION REGULATES CYCLOPHILIN A CATALYSIS, JRNL TITL 2 IMMUNOSUPPRESSION AND HIV ISOMERIZATION. JRNL REF NAT.CHEM.BIOL. V. 6 331 2010 JRNL REFN ISSN 1552-4450 JRNL PMID 20364129 JRNL DOI 10.1038/NCHEMBIO.342 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 98.30 REMARK 3 NUMBER OF REFLECTIONS : 58489 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) : 0.12756 REMARK 3 R VALUE (WORKING SET) : 0.12607 REMARK 3 FREE R VALUE : 0.15568 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 3128 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) : 1.200 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.231 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4242 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.156 REMARK 3 BIN FREE R VALUE SET COUNT : 236 REMARK 3 BIN FREE R VALUE : 0.184 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1289 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 443 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.3 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.43 REMARK 3 B22 (A**2) : 0.63 REMARK 3 B33 (A**2) : -0.20 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.031 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.856 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1332 ; 0.033 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 932 ; 0.009 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1783 ; 2.408 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2243 ; 1.227 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 165 ; 6.110 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 62 ;32.007 ;23.710 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 221 ;12.424 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;16.831 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 182 ; 0.159 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1497 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 291 ; 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): 820 ; 2.397 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 352 ; 1.017 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1305 ; 3.247 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 512 ; 4.432 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 478 ; 5.753 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2264 ; 2.366 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 443 ;11.205 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2233 ; 4.679 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. REMARK 4 REMARK 4 2X25 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JAN-10. REMARK 100 THE PDBE ID CODE IS EBI-42416. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL 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 : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.20 REMARK 200 RESOLUTION RANGE LOW (A) : 44.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3 REMARK 200 R MERGE (I) : 0.09 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.30 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 21.11100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.61800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.20200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.61800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.11100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 26.20200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 GLU B 165 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 CD LYS B 120 O HOH B 2348 1.59 REMARK 500 OE2 GLU B 134 O HOH B 2375 2.12 REMARK 500 O HOH B 2002 O HOH B 2020 1.24 REMARK 500 O HOH B 2014 O HOH B 2040 1.43 REMARK 500 O HOH B 2014 O HOH B 2055 2.14 REMARK 500 O HOH B 2015 O HOH B 2124 1.73 REMARK 500 O HOH B 2016 O HOH B 2167 1.20 REMARK 500 O HOH B 2023 O HOH B 2085 1.64 REMARK 500 O HOH B 2024 O HOH B 2084 1.46 REMARK 500 O HOH B 2043 O HOH B 2044 1.75 REMARK 500 O HOH B 2044 O HOH B 2056 1.78 REMARK 500 O HOH B 2055 O HOH B 2443 0.90 REMARK 500 O HOH B 2056 O HOH B 2146 2.00 REMARK 500 O HOH B 2065 O HOH B 2279 2.14 REMARK 500 O HOH B 2066 O HOH B 2161 2.18 REMARK 500 O HOH B 2069 O HOH B 2202 0.71 REMARK 500 O HOH B 2072 O HOH B 2073 0.56 REMARK 500 O HOH B 2076 O HOH B 2211 1.66 REMARK 500 O HOH B 2077 O HOH B 2416 1.45 REMARK 500 O HOH B 2083 O HOH B 2425 2.03 REMARK 500 O HOH B 2084 O HOH B 2085 2.00 REMARK 500 O HOH B 2092 O HOH B 2239 1.88 REMARK 500 O HOH B 2093 O HOH B 2240 2.18 REMARK 500 O HOH B 2096 O HOH B 2097 1.70 REMARK 500 O HOH B 2113 O HOH B 2319 2.04 REMARK 500 O HOH B 2120 O HOH B 2277 1.85 REMARK 500 O HOH B 2122 O HOH B 2123 1.08 REMARK 500 O HOH B 2130 O HOH B 2131 2.13 REMARK 500 O HOH B 2140 O HOH B 2141 0.85 REMARK 500 O HOH B 2140 O HOH B 2308 1.96 REMARK 500 O HOH B 2146 O HOH B 2148 1.07 REMARK 500 O HOH B 2149 O HOH B 2152 1.74 REMARK 500 O HOH B 2152 O HOH B 2284 2.12 REMARK 500 O HOH B 2153 O HOH B 2156 0.79 REMARK 500 O HOH B 2154 O HOH B 2155 0.47 REMARK 500 O HOH B 2159 O HOH B 2166 2.19 REMARK 500 O HOH B 2160 O HOH B 2162 0.68 REMARK 500 O HOH B 2161 O HOH B 2163 0.93 REMARK 500 O HOH B 2168 O HOH B 2345 2.08 REMARK 500 O HOH B 2171 O HOH B 2172 0.60 REMARK 500 O HOH B 2173 O HOH B 2350 2.07 REMARK 500 O HOH B 2173 O HOH B 2176 2.07 REMARK 500 O HOH B 2177 O HOH B 2186 0.71 REMARK 500 O HOH B 2179 O HOH B 2180 1.64 REMARK 500 O HOH B 2184 O HOH B 2434 1.46 REMARK 500 O HOH B 2188 O HOH B 2191 1.28 REMARK 500 O HOH B 2201 O HOH B 2212 1.07 REMARK 500 O HOH B 2208 O HOH B 2209 1.64 REMARK 500 O HOH B 2211 O HOH B 2213 1.91 REMARK 500 O HOH B 2216 O HOH B 2218 1.86 REMARK 500 REMARK 500 THIS ENTRY HAS 103 CLOSE CONTACTS 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 O HOH B 2007 O HOH B 2097 1655 1.29 REMARK 500 O HOH B 2009 O HOH B 2081 1655 1.49 REMARK 500 O HOH B 2012 O HOH B 2389 1655 0.54 REMARK 500 O HOH B 2020 O HOH B 2420 1655 1.65 REMARK 500 O HOH B 2025 O HOH B 2114 3554 1.66 REMARK 500 O HOH B 2029 O HOH B 2392 1655 2.16 REMARK 500 O HOH B 2029 O HOH B 2206 1655 2.10 REMARK 500 O HOH B 2051 O HOH B 2326 4545 2.15 REMARK 500 O HOH B 2095 O HOH B 2114 3554 2.10 REMARK 500 O HOH B 2125 O HOH B 2243 4545 1.80 REMARK 500 O HOH B 2129 O HOH B 2158 4545 1.38 REMARK 500 O HOH B 2131 O HOH B 2240 4545 1.39 REMARK 500 O HOH B 2138 O HOH B 2242 4545 1.31 REMARK 500 O HOH B 2151 O HOH B 2361 4545 1.95 REMARK 500 O HOH B 2158 O HOH B 2297 4445 2.17 REMARK 500 O HOH B 2203 O HOH B 2380 3544 0.74 REMARK 500 O HOH B 2213 O HOH B 2384 3544 1.69 REMARK 500 O HOH B 2217 O HOH B 2375 3544 1.78 REMARK 500 O HOH B 2243 O HOH B 2288 4445 1.89 REMARK 500 O HOH B 2284 O HOH B 2351 4545 2.20 REMARK 500 O HOH B 2360 O HOH B 2401 4545 2.06 REMARK 500 REMARK 500 REMARK: NULL 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 HIS B 1 CB HIS B 1 CG -0.117 REMARK 500 LYS B 82 CB LYS B 82 CG -0.592 REMARK 500 GLU B 134 CB GLU B 134 CG -0.134 REMARK 500 MET B 142 CG MET B 142 SD 0.256 REMARK 500 GLU B 143 CB GLU B 143 CG -0.120 REMARK 500 LYS B 154 CD LYS B 154 CE 0.343 REMARK 500 LYS B 154 CE LYS B 154 NZ -0.199 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 ASP B 27 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ARG B 55 NE - CZ - NH1 ANGL. DEV. = -4.9 DEGREES REMARK 500 ARG B 55 NE - CZ - NH2 ANGL. DEV. = 4.9 DEGREES REMARK 500 HIS B 126 CB - CG - ND1 ANGL. DEV. = 10.1 DEGREES REMARK 500 LYS B 131 CD - CE - NZ ANGL. DEV. = -16.7 DEGREES REMARK 500 LYS B 154 CD - CE - NZ ANGL. DEV. = -45.0 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 B 60 -72.35 -127.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 HIS B 1 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VBS RELATED DB: PDB REMARK 900 STRUCTURE OF CYCLOPHILIN COMPLEXED WITH (D) REMARK 900 ALA CONTAINING TETRAPEPTIDE REMARK 900 RELATED ID: 1OCA RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A, UNLIGATED, NMR, 20 STRUCTURES REMARK 900 RELATED ID: 1MF8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CALCINEURIN REMARK 900 COMPLEXED WITHCYCLOSPORIN A AND HUMAN CYCLOPHILIN REMARK 900 RELATED ID: 2CYH RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE ALA-PRO REMARK 900 RELATED ID: 1CWB RELATED DB: PDB REMARK 900 RELATED ID: 1VBT RELATED DB: PDB REMARK 900 STRUCTURE OF CYCLOPHILIN COMPLEXED WITH SULFUR REMARK 900 -SUBSTITUTED TETRAPEPTIDE AAPF REMARK 900 RELATED ID: 1M9E RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) M- REMARK 900 TYPE H87A COMPLEX. REMARK 900 RELATED ID: 1CWL RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 4 4- REMARK 900 HYDROXY-MELEU CYCLOSPORIN REMARK 900 RELATED ID: 1CWC RELATED DB: PDB REMARK 900 RELATED ID: 1CWI RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL 3 REMARK 900 -(N-METHYL)-D-ALANINE CYCLOSPORIN REMARK 900 RELATED ID: 1CWO RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH THR2, REMARK 900 LEU5, D-HIV8, LEU10 CYCLOSPORIN REMARK 900 RELATED ID: 1RMH RELATED DB: PDB REMARK 900 RECOMBINANT CYCLOPHILIN A FROM HUMAN T CELL REMARK 900 RELATED ID: 1CWJ RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL 3 REMARK 900 -S-METHYL-SARCOSINE CYCLOSPORIN REMARK 900 RELATED ID: 2RMB RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH DIMETHYL- REMARK 900 CYCLOSPORIN A REMARK 900 RELATED ID: 1M9C RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) M- REMARK 900 TYPE COMPLEX. REMARK 900 RELATED ID: 1CWA RELATED DB: PDB REMARK 900 RELATED ID: 1CWF RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL REMARK 900 CYCLOSPORIN REMARK 900 RELATED ID: 1M9Y RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) M- REMARK 900 TYPE H87A,G89A COMPLEX. REMARK 900 RELATED ID: 3CYH RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE SER-PRO REMARK 900 RELATED ID: 1M9F RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) M- REMARK 900 TYPE H87A,A88M COMPLEX. REMARK 900 RELATED ID: 4CYH RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE HIS-PRO REMARK 900 RELATED ID: 1CWH RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 3-D-SER REMARK 900 CYCLOSPORIN REMARK 900 RELATED ID: 1BCK RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 2-THR REMARK 900 CYCLOSPORIN REMARK 900 RELATED ID: 1W8V RELATED DB: PDB REMARK 900 ENZYMATIC AND STRUCTURAL CHARACTERIZATION OF REMARK 900 NON PEPTIDE LIGAND CYCLOPHILIN COMPLEXES REMARK 900 RELATED ID: 1AWR RELATED DB: PDB REMARK 900 CYPA COMPLEXED WITH HAGPIA REMARK 900 RELATED ID: 1NMK RELATED DB: PDB REMARK 900 THE SANGLIFEHRIN-CYCLOPHILIN INTERACTION: REMARK 900 DEGRADATION WORK,SYNTHETIC MACROCYCLIC ANALOGUES REMARK 900 , X-RAY CRYSTAL STRUCTUREAND BINDING DATA REMARK 900 RELATED ID: 1MIK RELATED DB: PDB REMARK 900 RELATED ID: 1AWV RELATED DB: PDB REMARK 900 CYPA COMPLEXED WITH HVGPIA REMARK 900 RELATED ID: 1M9D RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) O- REMARK 900 TYPE CHIMERA COMPLEX. REMARK 900 RELATED ID: 1AWT RELATED DB: PDB REMARK 900 SECYPA COMPLEXED WITH HAGPIA REMARK 900 RELATED ID: 2CPL RELATED DB: PDB REMARK 900 CYCLOPHILIN A REMARK 900 RELATED ID: 1FGL RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH A FRAGMENT OF REMARK 900 HIV-1 GAGPROTEIN REMARK 900 RELATED ID: 1M9X RELATED DB: PDB REMARK 900 X-RAY CRYSTAL STRUCTURE OF CYCLOPHILIN A/ REMARK 900 HIV-1 CA N-TERMINAL DOMAIN (1-146) M- REMARK 900 TYPE H87A,A88M,G89A COMPLEX. REMARK 900 RELATED ID: 1M63 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CALCINEURIN-CYCLOPHILIN- REMARK 900 CYCLOSPORINSHOWS COMMON BUT DISTINCT RECOGNITION REMARK 900 OF IMMUNOPHILIN-DRUGCOMPLEXES REMARK 900 RELATED ID: 1CWK RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 1-(6,7 REMARK 900 -DIHYDRO)MEBMT 2-VAL 3-D-(2-S-METHYL) REMARK 900 SARCOSINE CYCLOSPORIN REMARK 900 RELATED ID: 5CYH RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE GLY-PRO REMARK 900 RELATED ID: 1AK4 RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A BOUND TO THE AMINO- REMARK 900 TERMINAL DOMAIN OF HIV-1 CAPSID REMARK 900 RELATED ID: 3CYS RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH CYCLOSPORIN A REMARK 900 (NMR, 22 STRUCTURES) REMARK 900 RELATED ID: 2ALF RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CYPA MUTANT K131A REMARK 900 RELATED ID: 1AWS RELATED DB: PDB REMARK 900 SECYPA COMPLEXED WITH HAGPIA (PSEUDO-SYMMETRIC REMARK 900 MONOMER) REMARK 900 RELATED ID: 1W8L RELATED DB: PDB REMARK 900 ENZYMATIC AND STRUCTURAL CHARACTERIZATION OF REMARK 900 NON PEPTIDE LIGAND CYCLOPHILIN COMPLEXES REMARK 900 RELATED ID: 1AWU RELATED DB: PDB REMARK 900 CYPA COMPLEXED WITH HVGPIA (PSEUDO-SYMMETRIC REMARK 900 MONOMER) REMARK 900 RELATED ID: 1W8M RELATED DB: PDB REMARK 900 ENZYMATIC AND STRUCTURAL CHARACTERISATION OF REMARK 900 NON PEPTIDE LIGAND CYCLOPHILIN COMPLEXES REMARK 900 RELATED ID: 2RMA RELATED DB: PDB REMARK 900 CYCLOPHILIN A COMPLEXED WITH CYCLOSPORIN A REMARK 900 RELATED ID: 1CWM RELATED DB: PDB REMARK 900 HUMAN CYCLOPHILIN A COMPLEXED WITH 4 MEILE REMARK 900 CYCLOSPORIN REMARK 900 RELATED ID: 1AWQ RELATED DB: PDB REMARK 900 CYPA COMPLEXED WITH HAGPIA (PSEUDO-SYMMETRIC REMARK 900 MONOMER) REMARK 900 RELATED ID: 2X2D RELATED DB: PDB REMARK 900 ACETYL-CYPA:HIV-1 N-TERM CAPSID DOMAIN COMPLEX REMARK 900 RELATED ID: 2X2A RELATED DB: PDB REMARK 900 FREE ACETYL-CYPA TRIGONAL FORM REMARK 900 RELATED ID: 2X2C RELATED DB: PDB REMARK 900 ACETYL-CYPA:CYCLOSPORINE COMPLEX DBREF 2X25 B 2 165 UNP P62937 PPIA_HUMAN 2 165 SEQADV 2X25 HIS B -3 UNP P62937 EXPRESSION TAG SEQADV 2X25 HIS B -2 UNP P62937 EXPRESSION TAG SEQADV 2X25 HIS B -1 UNP P62937 EXPRESSION TAG SEQADV 2X25 HIS B 0 UNP P62937 EXPRESSION TAG SEQADV 2X25 HIS B 1 UNP P62937 EXPRESSION TAG SEQADV 2X25 LYS B 120 UNP P62937 GLU 120 CONFLICT SEQRES 1 B 169 HIS HIS HIS HIS HIS VAL ASN PRO THR VAL PHE PHE ASP SEQRES 2 B 169 ILE ALA VAL ASP GLY GLU PRO LEU GLY ARG VAL SER PHE SEQRES 3 B 169 GLU LEU PHE ALA ASP LYS VAL PRO LYS THR ALA GLU ASN SEQRES 4 B 169 PHE ARG ALA LEU SER THR GLY GLU LYS GLY PHE GLY TYR SEQRES 5 B 169 LYS GLY SER CYS PHE HIS ARG ILE ILE PRO GLY PHE MET SEQRES 6 B 169 CYS GLN GLY GLY ASP PHE THR ARG HIS ASN GLY THR GLY SEQRES 7 B 169 GLY LYS SER ILE TYR GLY GLU LYS PHE GLU ASP GLU ASN SEQRES 8 B 169 PHE ILE LEU LYS HIS THR GLY PRO GLY ILE LEU SER MET SEQRES 9 B 169 ALA ASN ALA GLY PRO ASN THR ASN GLY SER GLN PHE PHE SEQRES 10 B 169 ILE CYS THR ALA LYS THR LYS TRP LEU ASP GLY ALY HIS SEQRES 11 B 169 VAL VAL PHE GLY LYS VAL LYS GLU GLY MET ASN ILE VAL SEQRES 12 B 169 GLU ALA MET GLU ARG PHE GLY SER ARG ASN GLY LYS THR SEQRES 13 B 169 SER LYS LYS ILE THR ILE ALA ASP CYS GLY GLN LEU GLU MODRES 2X25 ALY B 125 LYS N(6)-ACETYLLYSINE HET ALY B 125 12 HETNAM ALY N(6)-ACETYLLYSINE FORMUL 2 ALY C8 H16 N2 O3 FORMUL 3 HOH *443(H2 O) HELIX 1 1 VAL B 29 GLY B 42 1 14 HELIX 2 2 THR B 119 ASP B 123 5 5 HELIX 3 3 GLY B 135 ARG B 144 1 10 SHEET 1 BA 8 PHE B 53 ILE B 57 0 SHEET 2 BA 8 MET B 61 GLY B 64 -1 O MET B 61 N ILE B 57 SHEET 3 BA 8 PHE B 112 CYS B 115 -1 O PHE B 112 N GLY B 64 SHEET 4 BA 8 ILE B 97 MET B 100 -1 O ILE B 97 N CYS B 115 SHEET 5 BA 8 VAL B 128 GLU B 134 -1 N PHE B 129 O LEU B 98 SHEET 6 BA 8 GLU B 15 LEU B 24 -1 O SER B 21 N LYS B 133 SHEET 7 BA 8 THR B 5 VAL B 12 -1 O VAL B 6 N PHE B 22 SHEET 8 BA 8 ILE B 156 LEU B 164 -1 O THR B 157 N ALA B 11 LINK C GLY B 124 N ALY B 125 1555 1555 1.33 LINK C ALY B 125 N HIS B 126 1555 1555 1.32 CRYST1 42.222 52.404 89.236 90.00 90.00 90.00 P 21 21 21 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 0.023684 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011206 0.00000