HEADER ISOMERASE 09-MAR-20 6M4U TITLE CRYSTAL STRUCTURE OF FKBP-FRB T2098L MUTANT IN COMPLEX WITH RAPAMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYL-PROLYL CIS-TRANS ISOMERASE FKBP1A; COMPND 3 CHAIN: A, E; COMPND 4 SYNONYM: PPIASE FKBP1A,12 KDA FK506-BINDING PROTEIN,FKBP-12, COMPND 5 CALSTABIN-1,FK506-BINDING PROTEIN 1A,FKBP-1A,IMMUNOPHILIN FKBP12, COMPND 6 ROTAMASE; COMPND 7 EC: 5.2.1.8; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: SERINE/THREONINE-PROTEIN KINASE MTOR; COMPND 11 CHAIN: B, F; COMPND 12 SYNONYM: MAMMALIAN TARGET OF RAPAMYCIN,MTOR,MECHANISTIC TARGET OF COMPND 13 RAPAMYCIN; COMPND 14 EC: 2.7.11.1; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: FKBP1A, FKBP1, FKBP12; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: MTOR; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RAPAMYCIN, COMPLEX, KINASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.KIKUCHI,D.WU,T.INOUE,T.UMEHARA REVDAT 4 29-NOV-23 6M4U 1 REMARK REVDAT 3 16-SEP-20 6M4U 1 JRNL REVDAT 2 02-SEP-20 6M4U 1 COMPND SOURCE REMARK DBREF REVDAT 2 2 1 SEQADV LINK SITE ATOM REVDAT 1 26-AUG-20 6M4U 0 JRNL AUTH H.D.WU,M.KIKUCHI,O.DAGLIYAN,A.K.ARAGAKI,H.NAKAMURA, JRNL AUTH 2 N.V.DOKHOLYAN,T.UMEHARA,T.INOUE JRNL TITL RATIONAL DESIGN AND IMPLEMENTATION OF A CHEMICALLY INDUCIBLE JRNL TITL 2 HETEROTRIMERIZATION SYSTEM. JRNL REF NAT.METHODS V. 17 928 2020 JRNL REFN ESSN 1548-7105 JRNL PMID 32747768 JRNL DOI 10.1038/S41592-020-0913-X REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 23631 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1299 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) : 1800 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3259 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 157 REMARK 3 SOLVENT ATOMS : 308 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.67000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.293 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.232 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.179 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.305 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.893 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3482 ; 0.002 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3203 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4700 ; 1.157 ; 1.667 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7428 ; 1.075 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 402 ; 5.787 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 203 ;26.357 ;20.640 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 582 ;14.824 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;14.766 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 428 ; 0.042 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3868 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 763 ; 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): 1620 ; 0.911 ; 2.789 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1619 ; 0.910 ; 2.788 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2018 ; 1.609 ; 4.179 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2019 ; 1.608 ; 4.180 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1862 ; 0.900 ; 2.844 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1863 ; 0.900 ; 2.846 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2683 ; 1.560 ; 4.203 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3945 ; 3.915 ;32.091 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3888 ; 3.647 ;31.814 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 : 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 : NULL 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 REMARK 3 SF FILE CONTAINS FRIEDEL PAIRS UNDER I/F_MINUS AND I/F_PLUS REMARK 3 COLUMNS. REMARK 4 REMARK 4 6M4U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1300016081. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24948 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 47.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7000 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) : 2.27 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1FAP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM CACODYLIC ACID BUFFER (PH 6.5), REMARK 280 350 MM ZINC ACETATE AND 8% (W/V) ISOPROPANOL, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K 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 33.70950 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, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, 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 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 GLY B 2019 REMARK 465 SER B 2020 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 MET A 1 CG SD CE REMARK 470 LYS A 45 CG CD CE NZ REMARK 470 GLU B2052 CG CD OE1 OE2 REMARK 470 LYS B2095 CG CD CE NZ REMARK 470 ARG E 19 CG CD NE CZ NH1 NH2 REMARK 470 LYS E 35 CG CD CE NZ REMARK 470 LYS E 45 CG CD CE NZ 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 ARG A 14 -38.06 -140.36 REMARK 500 ALA A 82 -115.80 -126.20 REMARK 500 ILE A 91 -69.39 -123.77 REMARK 500 GLN B2063 -60.49 -103.45 REMARK 500 SER E 0 112.56 80.84 REMARK 500 ALA E 82 -119.09 -119.68 REMARK 500 ILE E 91 -65.69 -132.73 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 384 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A 385 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH A 386 DISTANCE = 8.31 ANGSTROMS REMARK 525 HOH E 385 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH F2372 DISTANCE = 6.51 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 55 OE2 REMARK 620 2 LYS F2113 OXT 106.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN F2202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 95 NE2 REMARK 620 2 GLU B2029 OE1 65.9 REMARK 620 3 GLY F2019 N 66.1 2.8 REMARK 620 4 GLY F2019 O 66.3 4.4 1.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 203 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 108 OXT REMARK 620 2 GLU E 108 OE2 115.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 204 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 108 OE2 REMARK 620 2 GLU E 108 OXT 107.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN F2201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B2025 OE1 REMARK 620 2 HIS F2028 NE2 113.2 REMARK 620 3 GLU F2032 OE2 115.4 105.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B2028 NE2 REMARK 620 2 GLU B2032 OE1 100.8 REMARK 620 3 GLU F2025 OE1 122.5 113.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B2202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B2077 OD2 REMARK 620 2 HIS B2106 NE2 85.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN F2205 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP F2077 OD2 REMARK 620 2 HIS F2106 NE2 87.1 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RAP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 2205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 2206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 2207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN F 2201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN F 2202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue RAP E 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN E 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL E 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL E 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL F 2203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN F 2204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN F 2205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN F 2206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL F 2207 DBREF 6M4U A 1 108 UNP P62942 FKB1A_HUMAN 1 108 DBREF 6M4U B 2021 2113 UNP P42345 MTOR_HUMAN 2021 2113 DBREF 6M4U E 1 108 UNP P62942 FKB1A_HUMAN 1 108 DBREF 6M4U F 2021 2113 UNP P42345 MTOR_HUMAN 2021 2113 SEQADV 6M4U GLY A -1 UNP P62942 EXPRESSION TAG SEQADV 6M4U SER A 0 UNP P62942 EXPRESSION TAG SEQADV 6M4U GLY B 2019 UNP P42345 EXPRESSION TAG SEQADV 6M4U SER B 2020 UNP P42345 EXPRESSION TAG SEQADV 6M4U LEU B 2098 UNP P42345 THR 2098 ENGINEERED MUTATION SEQADV 6M4U GLY E -1 UNP P62942 EXPRESSION TAG SEQADV 6M4U SER E 0 UNP P62942 EXPRESSION TAG SEQADV 6M4U GLY F 2019 UNP P42345 EXPRESSION TAG SEQADV 6M4U SER F 2020 UNP P42345 EXPRESSION TAG SEQADV 6M4U LEU F 2098 UNP P42345 THR 2098 ENGINEERED MUTATION SEQRES 1 A 110 GLY SER MET GLY VAL GLN VAL GLU THR ILE SER PRO GLY SEQRES 2 A 110 ASP GLY ARG THR PHE PRO LYS ARG GLY GLN THR CYS VAL SEQRES 3 A 110 VAL HIS TYR THR GLY MET LEU GLU ASP GLY LYS LYS PHE SEQRES 4 A 110 ASP SER SER ARG ASP ARG ASN LYS PRO PHE LYS PHE MET SEQRES 5 A 110 LEU GLY LYS GLN GLU VAL ILE ARG GLY TRP GLU GLU GLY SEQRES 6 A 110 VAL ALA GLN MET SER VAL GLY GLN ARG ALA LYS LEU THR SEQRES 7 A 110 ILE SER PRO ASP TYR ALA TYR GLY ALA THR GLY HIS PRO SEQRES 8 A 110 GLY ILE ILE PRO PRO HIS ALA THR LEU VAL PHE ASP VAL SEQRES 9 A 110 GLU LEU LEU LYS LEU GLU SEQRES 1 B 95 GLY SER ILE LEU TRP HIS GLU MET TRP HIS GLU GLY LEU SEQRES 2 B 95 GLU GLU ALA SER ARG LEU TYR PHE GLY GLU ARG ASN VAL SEQRES 3 B 95 LYS GLY MET PHE GLU VAL LEU GLU PRO LEU HIS ALA MET SEQRES 4 B 95 MET GLU ARG GLY PRO GLN THR LEU LYS GLU THR SER PHE SEQRES 5 B 95 ASN GLN ALA TYR GLY ARG ASP LEU MET GLU ALA GLN GLU SEQRES 6 B 95 TRP CYS ARG LYS TYR MET LYS SER GLY ASN VAL LYS ASP SEQRES 7 B 95 LEU LEU GLN ALA TRP ASP LEU TYR TYR HIS VAL PHE ARG SEQRES 8 B 95 ARG ILE SER LYS SEQRES 1 E 110 GLY SER MET GLY VAL GLN VAL GLU THR ILE SER PRO GLY SEQRES 2 E 110 ASP GLY ARG THR PHE PRO LYS ARG GLY GLN THR CYS VAL SEQRES 3 E 110 VAL HIS TYR THR GLY MET LEU GLU ASP GLY LYS LYS PHE SEQRES 4 E 110 ASP SER SER ARG ASP ARG ASN LYS PRO PHE LYS PHE MET SEQRES 5 E 110 LEU GLY LYS GLN GLU VAL ILE ARG GLY TRP GLU GLU GLY SEQRES 6 E 110 VAL ALA GLN MET SER VAL GLY GLN ARG ALA LYS LEU THR SEQRES 7 E 110 ILE SER PRO ASP TYR ALA TYR GLY ALA THR GLY HIS PRO SEQRES 8 E 110 GLY ILE ILE PRO PRO HIS ALA THR LEU VAL PHE ASP VAL SEQRES 9 E 110 GLU LEU LEU LYS LEU GLU SEQRES 1 F 95 GLY SER ILE LEU TRP HIS GLU MET TRP HIS GLU GLY LEU SEQRES 2 F 95 GLU GLU ALA SER ARG LEU TYR PHE GLY GLU ARG ASN VAL SEQRES 3 F 95 LYS GLY MET PHE GLU VAL LEU GLU PRO LEU HIS ALA MET SEQRES 4 F 95 MET GLU ARG GLY PRO GLN THR LEU LYS GLU THR SER PHE SEQRES 5 F 95 ASN GLN ALA TYR GLY ARG ASP LEU MET GLU ALA GLN GLU SEQRES 6 F 95 TRP CYS ARG LYS TYR MET LYS SER GLY ASN VAL LYS ASP SEQRES 7 F 95 LEU LEU GLN ALA TRP ASP LEU TYR TYR HIS VAL PHE ARG SEQRES 8 F 95 ARG ILE SER LYS HET RAP A 201 65 HET ZN A 202 1 HET ZN A 203 1 HET ZN A 204 1 HET CL A 205 1 HET CL A 206 1 HET ZN B2201 1 HET ZN B2202 1 HET ZN B2203 1 HET ZN B2204 1 HET ZN B2205 1 HET CL B2206 1 HET CL B2207 1 HET RAP E 201 65 HET ZN E 202 1 HET CL E 203 1 HET CL E 204 1 HET ZN F2201 1 HET ZN F2202 1 HET GOL F2203 6 HET ZN F2204 1 HET ZN F2205 1 HET ZN F2206 1 HET CL F2207 1 HETNAM RAP RAPAMYCIN IMMUNOSUPPRESSANT DRUG HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 RAP 2(C51 H79 N O13) FORMUL 6 ZN 14(ZN 2+) FORMUL 9 CL 7(CL 1-) FORMUL 24 GOL C3 H8 O3 FORMUL 29 HOH *308(H2 O) HELIX 1 AA1 ARG A 41 ARG A 43 5 3 HELIX 2 AA2 ILE A 57 ALA A 65 1 9 HELIX 3 AA3 PRO A 79 ALA A 82 5 4 HELIX 4 AA4 LEU B 2022 ARG B 2042 1 21 HELIX 5 AA5 ASN B 2043 GLY B 2061 1 19 HELIX 6 AA6 THR B 2064 GLY B 2092 1 29 HELIX 7 AA7 ASN B 2093 SER B 2112 1 20 HELIX 8 AA8 SER E 40 ASN E 44 1 5 HELIX 9 AA9 ILE E 57 ALA E 65 1 9 HELIX 10 AB1 PRO E 79 ALA E 82 5 4 HELIX 11 AB2 LEU F 2022 ARG F 2042 1 21 HELIX 12 AB3 ASN F 2043 GLY F 2061 1 19 HELIX 13 AB4 THR F 2064 GLY F 2092 1 29 HELIX 14 AB5 ASN F 2093 SER F 2112 1 20 SHEET 1 AA1 5 VAL A 3 SER A 9 0 SHEET 2 AA1 5 ARG A 72 ILE A 77 -1 O ARG A 72 N ILE A 8 SHEET 3 AA1 5 LEU A 98 GLU A 108 -1 O VAL A 102 N ALA A 73 SHEET 4 AA1 5 THR A 22 LEU A 31 -1 N THR A 22 O GLU A 108 SHEET 5 AA1 5 LYS A 36 SER A 39 -1 O ASP A 38 N GLY A 29 SHEET 1 AA2 5 VAL A 3 SER A 9 0 SHEET 2 AA2 5 ARG A 72 ILE A 77 -1 O ARG A 72 N ILE A 8 SHEET 3 AA2 5 LEU A 98 GLU A 108 -1 O VAL A 102 N ALA A 73 SHEET 4 AA2 5 THR A 22 LEU A 31 -1 N THR A 22 O GLU A 108 SHEET 5 AA2 5 PHE A 47 MET A 50 -1 O PHE A 47 N VAL A 25 SHEET 1 AA3 5 VAL E 3 SER E 9 0 SHEET 2 AA3 5 ARG E 72 ILE E 77 -1 O ARG E 72 N ILE E 8 SHEET 3 AA3 5 LEU E 98 GLU E 108 -1 O PHE E 100 N LEU E 75 SHEET 4 AA3 5 THR E 22 LEU E 31 -1 N THR E 22 O GLU E 108 SHEET 5 AA3 5 LYS E 36 SER E 39 -1 O ASP E 38 N GLY E 29 SHEET 1 AA4 5 VAL E 3 SER E 9 0 SHEET 2 AA4 5 ARG E 72 ILE E 77 -1 O ARG E 72 N ILE E 8 SHEET 3 AA4 5 LEU E 98 GLU E 108 -1 O PHE E 100 N LEU E 75 SHEET 4 AA4 5 THR E 22 LEU E 31 -1 N THR E 22 O GLU E 108 SHEET 5 AA4 5 PHE E 47 MET E 50 -1 O PHE E 49 N CYS E 23 LINK OE2 GLU A 55 ZN ZN A 202 1555 1555 1.97 LINK NE2 HIS A 95 ZN ZN F2202 1555 2556 1.93 LINK OXT GLU A 108 ZN ZN A 203 1555 1555 2.23 LINK OE2 GLU A 108 ZN ZN A 204 1555 1555 2.12 LINK ZN ZN A 202 OXT LYS F2113 1555 1555 2.15 LINK ZN ZN A 203 OE2 GLU E 108 1555 1555 2.15 LINK ZN ZN A 204 OXT GLU E 108 1555 1555 2.25 LINK ND1 HIS B2024 ZN ZN B2203 1555 1555 2.13 LINK OE1 GLU B2025 ZN ZN F2201 1555 1555 1.88 LINK NE2 HIS B2028 ZN ZN B2201 1555 1555 2.06 LINK OE1 GLU B2029 ZN ZN F2202 1555 1555 1.94 LINK OE1 GLU B2032 ZN ZN B2201 1555 1555 1.92 LINK OD2 ASP B2077 ZN ZN B2202 1555 1555 2.28 LINK OE1 GLU B2083 ZN ZN B2204 1555 1555 2.48 LINK NE2 HIS B2106 ZN ZN B2202 1555 1555 2.05 LINK ND1 HIS B2106 ZN ZN B2205 1555 1555 2.38 LINK ZN ZN B2201 OE1 GLU F2025 1555 1555 2.00 LINK N GLY F2019 ZN ZN F2202 1555 1555 2.25 LINK O GLY F2019 ZN ZN F2202 1555 1555 2.20 LINK ND1 HIS F2024 ZN ZN F2204 1555 1555 2.01 LINK NE2 HIS F2028 ZN ZN F2201 1555 1555 2.05 LINK OE2 GLU F2032 ZN ZN F2201 1555 1555 1.92 LINK OD2 ASP F2077 ZN ZN F2205 1555 1555 2.28 LINK NE2 HIS F2106 ZN ZN F2205 1555 1555 2.24 SITE 1 AC1 19 TYR A 27 PHE A 37 ASP A 38 PHE A 47 SITE 2 AC1 19 GLN A 54 GLU A 55 VAL A 56 ILE A 57 SITE 3 AC1 19 TRP A 60 TYR A 83 PHE A 100 HOH A 309 SITE 4 AC1 19 HOH A 323 LEU B2031 SER B2035 LEU B2098 SITE 5 AC1 19 TYR B2105 PHE B2108 LYS F2113 SITE 1 AC2 4 GLU A 55 ARG B2109 LYS F2113 HOH F2346 SITE 1 AC3 5 GLU A 108 CL A 205 LYS E 48 GLU E 108 SITE 2 AC3 5 CL E 203 SITE 1 AC4 5 LYS A 48 GLU A 108 CL A 206 GLU E 108 SITE 2 AC4 5 CL E 204 SITE 1 AC5 2 GLU A 108 ZN A 203 SITE 1 AC6 3 LYS A 48 LYS A 106 ZN A 204 SITE 1 AC7 4 HIS B2028 GLU B2032 CL B2207 GLU F2025 SITE 1 AC8 4 ASP B2077 HIS B2106 ARG B2110 HOH B2301 SITE 1 AC9 5 HIS B2024 LYS B2113 HOH B2340 HOH B2347 SITE 2 AC9 5 HOH B2350 SITE 1 AD1 2 GLU B2083 HOH B2328 SITE 1 AD2 2 HIS B2106 HOH B2335 SITE 1 AD3 7 GLU B2025 HIS B2028 SER B2112 LYS B2113 SITE 2 AD3 7 ZN F2201 HIS F2028 GLU F2032 SITE 1 AD4 7 HIS B2028 GLU B2032 ZN B2201 HIS F2024 SITE 2 AD4 7 GLU F2025 SER F2112 LYS F2113 SITE 1 AD5 4 GLU B2025 CL B2206 HIS F2028 GLU F2032 SITE 1 AD6 3 GLU B2029 HOH B2339 GLY F2019 SITE 1 AD7 25 LYS B2113 TYR E 27 PHE E 37 ASP E 38 SITE 2 AD7 25 PHE E 47 GLN E 54 GLU E 55 VAL E 56 SITE 3 AD7 25 ILE E 57 TRP E 60 TYR E 83 ILE E 92 SITE 4 AD7 25 HOH E 316 HOH E 327 HOH E 331 HOH E 338 SITE 5 AD7 25 HOH E 350 LEU F2031 GLU F2032 SER F2035 SITE 6 AD7 25 PHE F2039 LEU F2098 ASP F2102 TYR F2105 SITE 7 AD7 25 PHE F2108 SITE 1 AD8 2 HIS E 95 HOH E 357 SITE 1 AD9 2 ZN A 203 LYS E 48 SITE 1 AE1 2 ZN A 204 LEU E 107 SITE 1 AE2 3 GLU F2080 GLU F2083 HOH F2310 SITE 1 AE3 4 HIS F2024 CL F2207 HOH F2344 HOH F2352 SITE 1 AE4 6 ARG F2076 ASP F2077 HIS F2106 ARG F2110 SITE 2 AE4 6 HOH F2324 HOH F2327 SITE 1 AE5 3 GLU F2052 GLN F2082 HOH F2363 SITE 1 AE6 3 TRP F2023 HIS F2024 ZN F2204 CRYST1 57.034 67.419 69.793 90.00 107.20 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 0.017533 0.000000 0.005429 0.00000 SCALE2 0.000000 0.014833 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014999 0.00000