HEADER HYDROLASE 23-SEP-99 1D2K TITLE C. IMMITIS CHITINASE 1 AT 2.2 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHITINASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 36-427; COMPND 5 EC: 3.2.1.14; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: COCCIDIOIDES IMMITIS; SOURCE 3 ORGANISM_TAXID: 5501; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA-ALPHA BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.HOLLIS,A.F.MONZINGO,K.BORTONE,S.R.ERNST,R.COX,J.D.ROBERTUS REVDAT 4 07-FEB-24 1D2K 1 REMARK REVDAT 3 31-JAN-18 1D2K 1 REMARK REVDAT 2 24-FEB-09 1D2K 1 VERSN REVDAT 1 27-SEP-00 1D2K 0 JRNL AUTH T.HOLLIS,A.F.MONZINGO,K.BORTONE,S.ERNST,R.COX,J.D.ROBERTUS JRNL TITL THE X-RAY STRUCTURE OF A CHITINASE FROM THE PATHOGENIC JRNL TITL 2 FUNGUS COCCIDIOIDES IMMITIS. JRNL REF PROTEIN SCI. V. 9 544 2000 JRNL REFN ISSN 0961-8368 JRNL PMID 10752616 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.HOLLIS,A.F.MONZINGO,K.BORTONE,E.SCHELP,R.COX,J.D.ROBERTUS REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF A REMARK 1 TITL 2 CHITINASE FROM THE FUNGAL PATHOGEN COCCIDIOIDES IMMITIS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 54 1412 1998 REMARK 1 REFN ISSN 0907-4449 REMARK 1 DOI 10.1107/S0907444998008531 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 5.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 17695 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM, 10% REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1729 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3083 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 241 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.447 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D2K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1000009735. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAY-97 REMARK 200 TEMPERATURE (KELVIN) : 298.0 REMARK 200 PH : 4.6 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 : RIGAKU RU200 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 IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20899 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.3000 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) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.21300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, SODIUM ACETATE, PH 4.6, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 25K, TEMPERATURE REMARK 280 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 47.70000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.62400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.62400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 71.55000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.62400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.62400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 23.85000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.62400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.62400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 71.55000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.62400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.62400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 23.85000 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 47.70000 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 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 TYR A 50 -118.65 -82.93 REMARK 500 TYR A 106 -139.10 -129.79 REMARK 500 SER A 253 27.15 -153.73 REMARK 500 TRP A 315 -39.18 -142.00 REMARK 500 ALA A 339 72.23 53.48 REMARK 500 REMARK 500 REMARK: NULL DBREF 1D2K A 36 427 UNP P54196 CHI1_COCIM 36 427 SEQRES 1 A 392 GLY GLY PHE ARG SER VAL VAL TYR PHE VAL ASN TRP ALA SEQRES 2 A 392 ILE TYR GLY ARG GLY HIS ASN PRO GLN ASP LEU LYS ALA SEQRES 3 A 392 ASP GLN PHE THR HIS ILE LEU TYR ALA PHE ALA ASN ILE SEQRES 4 A 392 ARG PRO SER GLY GLU VAL TYR LEU SER ASP THR TRP ALA SEQRES 5 A 392 ASP THR ASP LYS HIS TYR PRO GLY ASP LYS TRP ASP GLU SEQRES 6 A 392 PRO GLY ASN ASN VAL TYR GLY CYS ILE LYS GLN MET TYR SEQRES 7 A 392 LEU LEU LYS LYS ASN ASN ARG ASN LEU LYS THR LEU LEU SEQRES 8 A 392 SER ILE GLY GLY TRP THR TYR SER PRO ASN PHE LYS THR SEQRES 9 A 392 PRO ALA SER THR GLU GLU GLY ARG LYS LYS PHE ALA ASP SEQRES 10 A 392 THR SER LEU LYS LEU MET LYS ASP LEU GLY PHE ASP GLY SEQRES 11 A 392 ILE ASP ILE ASP TRP GLU TYR PRO GLU ASP GLU LYS GLN SEQRES 12 A 392 ALA ASN ASP PHE VAL LEU LEU LEU LYS ALA CYS ARG GLU SEQRES 13 A 392 ALA LEU ASP ALA TYR SER ALA LYS HIS PRO ASN GLY LYS SEQRES 14 A 392 LYS PHE LEU LEU THR ILE ALA SER PRO ALA GLY PRO GLN SEQRES 15 A 392 ASN TYR ASN LYS LEU LYS LEU ALA GLU MET ASP LYS TYR SEQRES 16 A 392 LEU ASP PHE TRP ASN LEU MET ALA TYR ASP PHE SER GLY SEQRES 17 A 392 SER TRP ASP LYS VAL SER GLY HIS MET SER ASN VAL PHE SEQRES 18 A 392 PRO SER THR THR LYS PRO GLU SER THR PRO PHE SER SER SEQRES 19 A 392 ASP LYS ALA VAL LYS ASP TYR ILE LYS ALA GLY VAL PRO SEQRES 20 A 392 ALA ASN LYS ILE VAL LEU GLY MET PRO LEU TYR GLY ARG SEQRES 21 A 392 ALA PHE ALA SER THR ASP GLY ILE GLY THR SER PHE ASN SEQRES 22 A 392 GLY VAL GLY GLY GLY SER TRP GLU ASN GLY VAL TRP ASP SEQRES 23 A 392 TYR LYS ASP MET PRO GLN GLN GLY ALA GLN VAL THR GLU SEQRES 24 A 392 LEU GLU ASP ILE ALA ALA SER TYR SER TYR ASP LYS ASN SEQRES 25 A 392 LYS ARG TYR LEU ILE SER TYR ASP THR VAL LYS ILE ALA SEQRES 26 A 392 GLY LYS LYS ALA GLU TYR ILE THR LYS ASN GLY MET GLY SEQRES 27 A 392 GLY GLY MET TRP TRP GLU SER SER SER ASP LYS THR GLY SEQRES 28 A 392 ASN GLU SER LEU VAL GLY THR VAL VAL ASN GLY LEU GLY SEQRES 29 A 392 GLY THR GLY LYS LEU GLU GLN ARG GLU ASN GLU LEU SER SEQRES 30 A 392 TYR PRO GLU SER VAL TYR ASP ASN LEU LYS ASN GLY MET SEQRES 31 A 392 PRO SER FORMUL 2 HOH *241(H2 O) HELIX 1 1 TRP A 47 TYR A 50 5 4 HELIX 2 2 ASN A 55 LEU A 59 5 5 HELIX 3 3 LYS A 60 PHE A 64 5 5 HELIX 4 4 ASP A 84 THR A 89 1 6 HELIX 5 5 TYR A 106 ASN A 119 1 14 HELIX 6 6 GLY A 130 SER A 134 1 5 HELIX 7 7 PHE A 137 SER A 142 1 6 HELIX 8 8 THR A 143 GLY A 162 1 20 HELIX 9 9 ASP A 175 LYS A 199 1 25 HELIX 10 10 GLY A 215 ASN A 220 1 6 HELIX 11 11 LYS A 223 LYS A 229 1 7 HELIX 12 12 LYS A 261 THR A 265 5 5 HELIX 13 13 SER A 268 ALA A 279 1 12 HELIX 14 14 PRO A 282 ASN A 284 5 3 HELIX 15 15 LYS A 323 MET A 325 5 3 HELIX 16 16 THR A 356 ASN A 370 1 15 HELIX 17 17 SER A 389 LEU A 398 1 10 HELIX 18 18 GLY A 399 GLY A 399 5 1 HELIX 19 19 GLY A 400 LYS A 403 5 4 HELIX 20 20 TYR A 418 ASN A 423 1 6 SHEET 1 A10 VAL A 80 LEU A 82 0 SHEET 2 A10 HIS A 66 ILE A 74 -1 N ASN A 73 O TYR A 81 SHEET 3 A10 ARG A 39 VAL A 45 1 O SER A 40 N HIS A 66 SHEET 4 A10 GLY A 374 TRP A 378 1 O GLY A 375 N VAL A 41 SHEET 5 A10 ILE A 286 PRO A 291 1 O ILE A 286 N GLY A 374 SHEET 6 A10 PHE A 233 MET A 237 1 O TRP A 234 N VAL A 287 SHEET 7 A10 LEU A 207 PRO A 213 1 O LEU A 208 N PHE A 233 SHEET 8 A10 GLY A 165 ASP A 169 1 N ILE A 166 O LEU A 207 SHEET 9 A10 LYS A 123 GLY A 129 1 O THR A 124 N GLY A 165 SHEET 10 A10 HIS A 66 ILE A 74 1 O ILE A 67 N LEU A 125 SHEET 1 B 5 VAL A 319 ASP A 321 0 SHEET 2 B 5 TYR A 293 PHE A 297 -1 O GLY A 294 N TRP A 320 SHEET 3 B 5 TYR A 350 SER A 353 -1 N LEU A 351 O PHE A 297 SHEET 4 B 5 ALA A 340 ASP A 345 -1 O SER A 343 N ILE A 352 SHEET 5 B 5 GLN A 331 LEU A 335 -1 N GLN A 331 O TYR A 344 CISPEP 1 ALA A 70 PHE A 71 0 -0.68 CISPEP 2 GLU A 171 TYR A 172 0 -0.24 CISPEP 3 MET A 325 PRO A 326 0 -0.55 CISPEP 4 TRP A 378 GLU A 379 0 -0.30 CRYST1 91.248 91.248 95.400 90.00 90.00 90.00 P 43 21 2 8 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 0.010959 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010959 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010482 0.00000