HEADER ISOMERASE 31-AUG-01 1JVW TITLE TRYPANOSOMA CRUZI MACROPHAGE INFECTIVITY POTENTIATOR (TCMIP) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROPHAGE INFECTIVITY POTENTIATOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TCMIP, PEPTIDYL-PROLYL CIS-TRANS ISOMERASE, PPIASE, COMPND 5 ROTAMASE; COMPND 6 EC: 5.2.1.8; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA CRUZI; SOURCE 3 ORGANISM_TAXID: 5693; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MACROPHAGE INFECTIVITY POTENTIATOR, TRYPANOSOMA CRUZI, CHAGAS KEYWDS 2 DISEASE, X-RAY CRYSTAL STRUCTURE, ROTAMASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.J.B.PEREIRA,M.C.VEGA,E.GONZALEZ-REY,R.FERNANDEZ-CARAZO,S.MACEDO- AUTHOR 2 RIBEIRO,F.X.GOMIS-RUETH,A.GONZALEZ,M.COLL REVDAT 4 07-FEB-24 1JVW 1 REMARK REVDAT 3 24-FEB-09 1JVW 1 VERSN REVDAT 2 01-APR-03 1JVW 1 JRNL REVDAT 1 05-JUN-02 1JVW 0 JRNL AUTH P.J.PEREIRA,M.C.VEGA,E.GONZALEZ-REY,R.FERNANDEZ-CARAZO, JRNL AUTH 2 S.MACEDO-RIBEIRO,F.X.GOMIS-RUTH,A.GONZALEZ,M.COLL JRNL TITL TRYPANOSOMA CRUZI MACROPHAGE INFECTIVITY POTENTIATOR HAS A JRNL TITL 2 ROTAMASE CORE AND A HIGHLY EXPOSED ALPHA-HELIX. JRNL REF EMBO REP. V. 3 88 2002 JRNL REFN ISSN 1469-221X JRNL PMID 11751578 JRNL DOI 10.1093/EMBO-REPORTS/KVF009 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.179 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.179 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 863 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 16999 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1269 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 271 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 ANGLE DISTANCES (A) : 1.572 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1JVW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-01. REMARK 100 THE DEPOSITION ID IS D_1000014244. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-97 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.885 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17009 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 19.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.8 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PMSF, TRIS/HCL, PH 7.5, SMALL TUBES, REMARK 280 TEMPERATURE 277K 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 17.29350 REMARK 290 SMTRY3 2 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 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 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 SER A 30 REMARK 465 GLY A 31 REMARK 465 ASP A 32 REMARK 465 ARG A 193 REMARK 465 GLU A 194 REMARK 465 ASP A 195 REMARK 465 MET A 196 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 79 CD CE NZ REMARK 480 LYS A 87 CE NZ REMARK 480 LYS A 110 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 ALA A 145 -114.57 -122.09 REMARK 500 REMARK 500 REMARK: NULL DBREF 1JVW A 30 196 UNP Q09734 MIP_TRYCR 30 196 SEQRES 1 A 167 SER GLY ASP ALA ALA SER HIS GLU GLU ARG MET ASN ASN SEQRES 2 A 167 TYR ARG LYS ARG VAL GLY ARG LEU PHE MET GLU GLN LYS SEQRES 3 A 167 ALA ALA GLN PRO ASP ALA VAL LYS LEU PRO SER GLY LEU SEQRES 4 A 167 VAL PHE GLN ARG ILE ALA ARG GLY SER GLY LYS ARG ALA SEQRES 5 A 167 PRO ALA ILE ASP ASP LYS CYS GLU VAL HIS TYR THR GLY SEQRES 6 A 167 ARG LEU ARG ASP GLY THR VAL PHE ASP SER SER ARG GLU SEQRES 7 A 167 ARG GLY LYS PRO THR THR PHE ARG PRO ASN GLU VAL ILE SEQRES 8 A 167 LYS GLY TRP THR GLU ALA LEU GLN LEU MET ARG GLU GLY SEQRES 9 A 167 ASP ARG TRP ARG LEU PHE ILE PRO TYR ASP LEU ALA TYR SEQRES 10 A 167 GLY VAL THR GLY GLY GLY GLY MET ILE PRO PRO TYR SER SEQRES 11 A 167 PRO LEU GLU PHE ASP VAL GLU LEU ILE SER ILE LYS ASP SEQRES 12 A 167 GLY GLY LYS GLY ARG THR ALA GLU GLU VAL ASP GLU ILE SEQRES 13 A 167 LEU ARG LYS ALA GLU GLU ASP ARG GLU ASP MET FORMUL 2 HOH *271(H2 O) HELIX 1 1 SER A 35 GLN A 58 1 24 HELIX 2 2 SER A 105 GLY A 109 1 5 HELIX 3 3 ARG A 115 VAL A 119 5 5 HELIX 4 4 ILE A 120 GLN A 128 1 9 HELIX 5 5 PRO A 141 ALA A 145 5 5 HELIX 6 6 ASP A 172 GLY A 174 5 3 HELIX 7 7 THR A 178 ASP A 192 1 15 SHEET 1 A 6 ALA A 61 LYS A 63 0 SHEET 2 A 6 VAL A 69 ALA A 74 -1 O PHE A 70 N VAL A 62 SHEET 3 A 6 ARG A 135 ILE A 140 -1 O PHE A 139 N VAL A 69 SHEET 4 A 6 LEU A 161 ILE A 170 -1 O VAL A 165 N TRP A 136 SHEET 5 A 6 CYS A 88 ARG A 95 -1 N ARG A 95 O GLU A 162 SHEET 6 A 6 VAL A 101 SER A 104 -1 O ASP A 103 N GLY A 94 SHEET 1 B 6 ALA A 61 LYS A 63 0 SHEET 2 B 6 VAL A 69 ALA A 74 -1 O PHE A 70 N VAL A 62 SHEET 3 B 6 ARG A 135 ILE A 140 -1 O PHE A 139 N VAL A 69 SHEET 4 B 6 LEU A 161 ILE A 170 -1 O VAL A 165 N TRP A 136 SHEET 5 B 6 CYS A 88 ARG A 95 -1 N ARG A 95 O GLU A 162 SHEET 6 B 6 THR A 112 PHE A 114 -1 O PHE A 114 N CYS A 88 CRYST1 46.034 34.587 50.412 90.00 91.57 90.00 P 1 21 1 2 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 0.021723 0.000000 0.000595 0.00000 SCALE2 0.000000 0.028913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019844 0.00000