HEADER ISOMERASE 26-JAN-16 5HT1 TITLE STRUCTURE OF APO C. GLABRATA FKBP12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FK506-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FKBP,PEPTIDYL-PROLYL CIS-TRANS ISOMERASE,PPIASE,RAPAMYCIN- COMPND 5 BINDING PROTEIN; COMPND 6 EC: 5.2.1.8; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDA GLABRATA (STRAIN ATCC 2001 / CBS 138 / SOURCE 3 JCM 3761 / NBRC 0622 / NRRL Y-65); SOURCE 4 ORGANISM_COMMON: YEAST; SOURCE 5 ORGANISM_TAXID: 284593; SOURCE 6 STRAIN: ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65; SOURCE 7 GENE: FPR1, CAGL0K09724G; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FKBP12, C. GLABRATA, PAHTOGENESIS, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.A.SCHUMACHER REVDAT 2 06-MAR-24 5HT1 1 REMARK REVDAT 1 14-SEP-16 5HT1 0 JRNL AUTH N.K.TONTHAT,P.R.JUVVADI,H.ZHANG,S.C.LEE,R.VENTERS,L.SPICER, JRNL AUTH 2 W.J.STEINBACH,J.HEITMAN,M.A.SCHUMACHER JRNL TITL STRUCTURES OF PATHOGENIC FUNGAL FKBP12S REVEAL POSSIBLE JRNL TITL 2 SELF-CATALYSIS FUNCTION. JRNL REF MBIO V. 7 00492 2016 JRNL REFN ESSN 2150-7511 JRNL PMID 27118592 JRNL DOI 10.1128/MBIO.00492-16 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 3991 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 399 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 43.5143 - 3.8224 1.00 1252 139 0.1699 0.2419 REMARK 3 2 3.8224 - 3.0342 1.00 1174 130 0.1904 0.2493 REMARK 3 3 3.0342 - 2.6507 1.00 1166 130 0.2467 0.3372 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 21.58 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.580 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.60900 REMARK 3 B22 (A**2) : 3.60900 REMARK 3 B33 (A**2) : -7.21800 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 : 0.008 881 REMARK 3 ANGLE : 1.183 1195 REMARK 3 CHIRALITY : 0.075 131 REMARK 3 PLANARITY : 0.005 158 REMARK 3 DIHEDRAL : 15.544 328 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 5HT1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000217722. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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 : OTHER 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 3991 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 43.508 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.8000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, 0.1 M TRIS 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 38.21800 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 43.50850 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 38.21800 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 43.50850 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 38.21800 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 43.50850 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 38.21800 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 43.50850 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 38.21800 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 43.50850 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 38.21800 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 43.50850 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 38.21800 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 43.50850 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 38.21800 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 38.21800 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 43.50850 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 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 LYS A 10 NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 64 CE 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 ILE A 5 -161.45 -125.48 REMARK 500 LYS A 20 -34.19 -133.27 REMARK 500 GLN A 25 129.49 -35.53 REMARK 500 ASP A 44 142.14 172.75 REMARK 500 SER A 45 113.17 -165.21 REMARK 500 ALA A 88 -120.51 -114.13 REMARK 500 LEU A 97 -64.53 -125.31 REMARK 500 PRO A 99 155.28 -48.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HUA RELATED DB: PDB DBREF 5HT1 A 1 114 UNP Q6FMA3 FKBP_CANGA 1 114 SEQADV 5HT1 ALA A 0 UNP Q6FMA3 EXPRESSION TAG SEQRES 1 A 115 ALA MET SER GLU THR ILE GLU GLY GLY VAL LYS ILE ASP SEQRES 2 A 115 ARG LEU SER PRO GLY ASP GLY LYS THR PHE PRO LYS GLN SEQRES 3 A 115 GLY ASP LEU VAL THR ILE HIS TYR THR GLY THR LEU GLU SEQRES 4 A 115 ASN GLY GLN LYS PHE ASP SER SER VAL ASP ARG GLY SER SEQRES 5 A 115 PRO PHE GLN CYS ASN ILE GLY VAL GLY GLN VAL ILE LYS SEQRES 6 A 115 GLY TRP ASP ALA GLY ILE PRO LYS LEU SER VAL GLY GLU SEQRES 7 A 115 LYS ALA ARG LEU THR ILE PRO GLY PRO TYR ALA TYR GLY SEQRES 8 A 115 PRO ARG GLY PHE PRO GLY LEU ILE PRO PRO ASN ALA THR SEQRES 9 A 115 LEU ILE PHE ASP VAL GLU LEU LEU LYS VAL ASN FORMUL 2 HOH *20(H2 O) HELIX 1 AA1 GLU A 6 GLY A 8 5 3 HELIX 2 AA2 ILE A 63 ILE A 70 1 8 HELIX 3 AA3 PRO A 71 LEU A 73 5 3 HELIX 4 AA4 PRO A 84 ALA A 88 5 5 SHEET 1 AA1 6 SER A 2 THR A 4 0 SHEET 2 AA1 6 LYS A 10 SER A 15 -1 O ILE A 11 N GLU A 3 SHEET 3 AA1 6 LYS A 78 ILE A 83 -1 O LYS A 78 N SER A 15 SHEET 4 AA1 6 LEU A 104 VAL A 113 -1 O PHE A 106 N LEU A 81 SHEET 5 AA1 6 LEU A 28 LEU A 37 -1 N THR A 30 O LEU A 111 SHEET 6 AA1 6 LYS A 42 SER A 45 -1 O ASP A 44 N GLY A 35 SHEET 1 AA2 6 SER A 2 THR A 4 0 SHEET 2 AA2 6 LYS A 10 SER A 15 -1 O ILE A 11 N GLU A 3 SHEET 3 AA2 6 LYS A 78 ILE A 83 -1 O LYS A 78 N SER A 15 SHEET 4 AA2 6 LEU A 104 VAL A 113 -1 O PHE A 106 N LEU A 81 SHEET 5 AA2 6 LEU A 28 LEU A 37 -1 N THR A 30 O LEU A 111 SHEET 6 AA2 6 PHE A 53 ASN A 56 -1 O PHE A 53 N ILE A 31 CRYST1 76.436 76.436 87.017 90.00 90.00 90.00 I 4 2 2 16 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 0.013083 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011492 0.00000