HEADER ISOMERASE 20-NOV-11 3UQI TITLE CRYSTALLOGRAPHIC STRUCTURE OF FKBP12 FROM AEDES AEGYPTI COMPND MOL_ID: 1; COMPND 2 MOLECULE: FKBP-TYPE PEPTIDYL-PROLYL CIS-TRANS ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FKBP12, FK506-BINDING PROTEIN; COMPND 5 EC: 5.2.1.8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEDES AEGYPTI; SOURCE 3 ORGANISM_COMMON: YELLOWFEVER MOSQUITO; SOURCE 4 ORGANISM_TAXID: 7159; SOURCE 5 GENE: AAEL007883, AAEL_AAEL007883; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETSUMO KEYWDS FKBP12, ISOMERASE, FK506 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR R.SREEKANTH,K.Q.SAW,H.S.YOON REVDAT 2 01-NOV-23 3UQI 1 REMARK REVDAT 1 27-JUN-12 3UQI 0 JRNL AUTH S.RAJAN,K.Q.SAW,Q.T.NGUYEN,K.BAEK,H.S.YOON JRNL TITL HIGH-RESOLUTION CRYSTAL STRUCTURE OF FKBP12 FROM AEDES JRNL TITL 2 AEGYPTI. JRNL REF PROTEIN SCI. V. 21 1080 2012 JRNL REFN ISSN 0961-8368 JRNL PMID 22517662 JRNL DOI 10.1002/PRO.2079 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 23012 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1184 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 23.8705 - 2.6026 1.00 2933 136 0.1758 0.1750 REMARK 3 2 2.6026 - 2.0661 1.00 2788 158 0.1418 0.1983 REMARK 3 3 2.0661 - 1.8050 1.00 2749 140 0.1428 0.1365 REMARK 3 4 1.8050 - 1.6400 1.00 2735 146 0.1467 0.2157 REMARK 3 5 1.6400 - 1.5225 0.99 2725 148 0.1547 0.1952 REMARK 3 6 1.5225 - 1.4328 0.99 2675 146 0.1671 0.2575 REMARK 3 7 1.4328 - 1.3610 0.98 2663 158 0.1887 0.2623 REMARK 3 8 1.3610 - 1.3018 0.95 2560 152 0.2361 0.2846 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.49 REMARK 3 K_SOL : 0.43 REMARK 3 B_SOL : 70.58 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.520 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.78900 REMARK 3 B22 (A**2) : 2.50510 REMARK 3 B33 (A**2) : 0.28390 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.013 848 REMARK 3 ANGLE : 1.556 1151 REMARK 3 CHIRALITY : 0.112 125 REMARK 3 PLANARITY : 0.011 149 REMARK 3 DIHEDRAL : 15.409 310 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3UQI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069082. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23141 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.03000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 54.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.700 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 ENTRY 2PPN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM MOPS PH 8.0, 3.0M AMMONIUM REMARK 280 SULPHATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 290K 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 14.91300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.79450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.33850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.79450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 14.91300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 19.33850 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: A 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 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 O HOH A 122 O HOH A 123 2.08 REMARK 500 O HOH A 124 O HOH A 207 2.14 REMARK 500 O HOH A 119 O HOH A 239 2.17 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 ALA A 14 -52.98 -134.27 REMARK 500 ALA A 82 -99.42 -128.56 REMARK 500 VAL A 91 -59.92 -131.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPO A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 110 DBREF 3UQI A 1 108 UNP Q1HR83 Q1HR83_AEDAE 1 108 SEQRES 1 A 108 MET GLY VAL GLN VAL VAL THR LEU ALA ALA GLY ASP GLU SEQRES 2 A 108 ALA THR TYR PRO LYS ALA GLY GLN VAL ALA VAL VAL HIS SEQRES 3 A 108 TYR THR GLY THR LEU ALA ASP GLY LYS VAL PHE ASP SER SEQRES 4 A 108 SER ARG THR ARG GLY LYS PRO PHE ARG PHE THR VAL GLY SEQRES 5 A 108 ARG GLY GLU VAL ILE ARG GLY TRP ASP GLU GLY VAL ALA SEQRES 6 A 108 GLN MET SER VAL GLY GLN ARG ALA LYS LEU VAL CYS SER SEQRES 7 A 108 PRO ASP TYR ALA TYR GLY SER ARG GLY HIS PRO GLY VAL SEQRES 8 A 108 ILE PRO PRO ASN ALA THR LEU THR PHE ASP VAL GLU LEU SEQRES 9 A 108 LEU ARG VAL GLU HET MPO A 109 13 HET SO4 A 110 5 HETNAM MPO 3[N-MORPHOLINO]PROPANE SULFONIC ACID HETNAM SO4 SULFATE ION FORMUL 2 MPO C7 H15 N O4 S FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *131(H2 O) HELIX 1 1 SER A 40 GLY A 44 1 5 HELIX 2 2 ILE A 57 ALA A 65 1 9 HELIX 3 3 PRO A 79 ALA A 82 5 4 SHEET 1 A 5 VAL A 3 ALA A 9 0 SHEET 2 A 5 ARG A 72 CYS A 77 -1 O LYS A 74 N VAL A 6 SHEET 3 A 5 LEU A 98 GLU A 108 -1 O LEU A 98 N CYS A 77 SHEET 4 A 5 VAL A 22 THR A 30 -1 N VAL A 24 O LEU A 105 SHEET 5 A 5 VAL A 36 SER A 39 -1 O ASP A 38 N GLY A 29 SHEET 1 B 5 VAL A 3 ALA A 9 0 SHEET 2 B 5 ARG A 72 CYS A 77 -1 O LYS A 74 N VAL A 6 SHEET 3 B 5 LEU A 98 GLU A 108 -1 O LEU A 98 N CYS A 77 SHEET 4 B 5 VAL A 22 THR A 30 -1 N VAL A 24 O LEU A 105 SHEET 5 B 5 PHE A 47 THR A 50 -1 O PHE A 47 N VAL A 25 SITE 1 AC1 9 TYR A 27 ASP A 38 VAL A 56 ILE A 57 SITE 2 AC1 9 TRP A 60 TYR A 83 PRO A 94 HOH A 146 SITE 3 AC1 9 HOH A 205 SITE 1 AC2 5 ARG A 53 TYR A 83 GLY A 84 SER A 85 SITE 2 AC2 5 ARG A 86 CRYST1 29.826 38.677 79.589 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 0.033528 0.000000 0.000000 0.00000 SCALE2 0.000000 0.025855 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012565 0.00000