HEADER HYDROLASE 17-JAN-23 8I3N TITLE CRYSTAL STRUCTURE OF YEAST CYTOSINE DEAMINASE MUTANT YCD-RQ COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOSINE DEAMINASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: YCD,CYTOSINE AMINOHYDROLASE,FLUOROCYTOSINE RESISTANCE COMPND 5 PROTEIN 1; COMPND 6 EC: 3.5.4.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: FCY1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS CYTOSINE DEAMINASE, MUTANT, METALLOENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.M.QIN,L.S.YAO,H.Z.DENG REVDAT 1 24-JAN-24 8I3N 0 JRNL AUTH M.M.QIN,L.S.YAO JRNL TITL THE CRYSTAL STRUCTURE OF RATIONAL DESIGNED YCD MUTANT YCD-RQ JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.73 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1-2155 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) : 1.73 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 82.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 3 NUMBER OF REFLECTIONS : 65362 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.040 REMARK 3 FREE R VALUE TEST SET COUNT : 3615 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 82.2900 - 5.1200 0.87 4303 134 0.1862 0.1805 REMARK 3 2 5.1100 - 4.0600 0.87 4319 136 0.1610 0.1734 REMARK 3 3 4.0600 - 3.5500 0.89 4417 142 0.1596 0.1691 REMARK 3 4 3.5500 - 3.2200 0.89 4424 135 0.1725 0.2227 REMARK 3 5 3.2200 - 2.9900 0.88 4394 135 0.1978 0.1975 REMARK 3 6 2.9900 - 2.8200 0.88 4345 136 0.2006 0.1887 REMARK 3 7 2.8100 - 2.6700 0.90 4424 139 0.1969 0.1916 REMARK 3 8 2.6700 - 2.5600 0.91 4542 142 0.1971 0.2168 REMARK 3 9 2.5600 - 2.4600 0.92 4546 144 0.2077 0.2005 REMARK 3 10 2.4600 - 2.3700 0.92 4549 140 0.2147 0.2183 REMARK 3 11 2.3700 - 2.3000 0.92 4576 146 0.2120 0.2558 REMARK 3 12 2.3000 - 2.2300 0.93 4571 142 0.2167 0.2455 REMARK 3 13 2.2300 - 2.1800 0.93 4633 151 0.2171 0.2822 REMARK 3 14 2.1800 - 2.1200 0.94 4666 148 0.2138 0.2274 REMARK 3 15 2.1200 - 2.0700 0.94 4666 137 0.2203 0.2374 REMARK 3 16 2.0700 - 2.0300 0.94 4705 150 0.2335 0.2820 REMARK 3 17 2.0300 - 1.9900 0.95 4635 148 0.2387 0.2906 REMARK 3 18 1.9900 - 1.9500 0.95 4795 154 0.2493 0.2910 REMARK 3 19 1.9500 - 1.9200 0.91 3497 114 0.2637 0.2771 REMARK 3 20 1.9100 - 1.8800 0.87 4025 126 0.2640 0.2886 REMARK 3 21 1.8800 - 1.8500 0.95 4683 149 0.2694 0.3148 REMARK 3 22 1.8500 - 1.8300 0.94 4708 150 0.2772 0.2978 REMARK 3 23 1.8300 - 1.8000 0.85 4197 130 0.2846 0.2411 REMARK 3 24 1.8000 - 1.7700 0.84 4207 129 0.3002 0.3030 REMARK 3 25 1.7700 - 1.7500 0.85 4160 132 0.3082 0.3276 REMARK 3 26 1.7500 - 1.7300 0.84 4222 126 0.3290 0.3484 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.020 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) : 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 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 : 0.006 4666 REMARK 3 ANGLE : 0.609 6294 REMARK 3 CHIRALITY : 0.064 677 REMARK 3 PLANARITY : 0.003 831 REMARK 3 DIHEDRAL : 24.173 1694 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 8I3N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JAN-23. REMARK 100 THE DEPOSITION ID IS D_1300034850. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-NOV-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97914 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65362 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730 REMARK 200 RESOLUTION RANGE LOW (A) : 82.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15M AMMOUNIUM ACETATE, 27%-29% REMARK 280 PEG3350, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 32.23500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -32.23500 REMARK 350 BIOMT3 2 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 MET A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 THR A 3 REMARK 465 GLY A 4 REMARK 465 GLY A 5 REMARK 465 GLU A 158 REMARK 465 ARG A 159 REMARK 465 ILE A 160 REMARK 465 GLU A 161 REMARK 465 LEU A 162 REMARK 465 GLN A 163 REMARK 465 MET B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 GLU B -6 REMARK 465 ASN B -5 REMARK 465 LEU B -4 REMARK 465 TYR B -3 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 VAL B 2 REMARK 465 THR B 3 REMARK 465 GLY B 4 REMARK 465 GLY B 5 REMARK 465 ARG B 159 REMARK 465 ILE B 160 REMARK 465 GLU B 161 REMARK 465 LEU B 162 REMARK 465 GLN B 163 REMARK 465 MET C -13 REMARK 465 HIS C -12 REMARK 465 HIS C -11 REMARK 465 HIS C -10 REMARK 465 HIS C -9 REMARK 465 HIS C -8 REMARK 465 HIS C -7 REMARK 465 GLU C -6 REMARK 465 ASN C -5 REMARK 465 LEU C -4 REMARK 465 TYR C -3 REMARK 465 PHE C -2 REMARK 465 GLN C -1 REMARK 465 GLY C 0 REMARK 465 MET C 1 REMARK 465 VAL C 2 REMARK 465 THR C 3 REMARK 465 GLY C 4 REMARK 465 GLY C 5 REMARK 465 GLU C 158 REMARK 465 ARG C 159 REMARK 465 ILE C 160 REMARK 465 GLU C 161 REMARK 465 LEU C 162 REMARK 465 GLN C 163 REMARK 465 MET D -13 REMARK 465 HIS D -12 REMARK 465 HIS D -11 REMARK 465 HIS D -10 REMARK 465 HIS D -9 REMARK 465 HIS D -8 REMARK 465 HIS D -7 REMARK 465 GLU D -6 REMARK 465 ASN D -5 REMARK 465 LEU D -4 REMARK 465 TYR D -3 REMARK 465 PHE D -2 REMARK 465 GLN D -1 REMARK 465 GLY D 0 REMARK 465 MET D 1 REMARK 465 VAL D 2 REMARK 465 THR D 3 REMARK 465 GLY D 4 REMARK 465 GLY D 5 REMARK 465 MET D 6 REMARK 465 ALA D 7 REMARK 465 ARG D 159 REMARK 465 ILE D 160 REMARK 465 GLU D 161 REMARK 465 LEU D 162 REMARK 465 GLN D 163 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 6 CG SD CE REMARK 470 LYS A 27 CG CD CE NZ REMARK 470 LYS A 41 CG CD CE NZ REMARK 470 LYS A 56 CE NZ REMARK 470 GLU A 75 CG CD OE1 OE2 REMARK 470 LYS A 77 CG CD CE NZ REMARK 470 ILE A 156 CG1 CG2 CD1 REMARK 470 MET B 6 CG SD CE REMARK 470 LYS B 27 CG CD CE NZ REMARK 470 LYS B 41 CG CD CE NZ REMARK 470 LYS B 56 CD CE NZ REMARK 470 GLU B 75 CG CD OE1 OE2 REMARK 470 LYS B 77 CG CD CE NZ REMARK 470 LYS B 80 CD CE NZ REMARK 470 LYS B 120 CG CD CE NZ REMARK 470 LYS B 142 CD CE NZ REMARK 470 MET C 6 CG SD CE REMARK 470 GLU C 20 CG CD OE1 OE2 REMARK 470 LYS C 27 CG CD CE NZ REMARK 470 LYS C 41 CB CG CD CE NZ REMARK 470 LYS C 56 CE NZ REMARK 470 GLU C 75 CG CD OE1 OE2 REMARK 470 LYS C 77 CG CD CE NZ REMARK 470 LYS C 120 CG CD CE NZ REMARK 470 GLU C 135 CG CD OE1 OE2 REMARK 470 LYS C 139 CG CD CE NZ REMARK 470 LYS C 142 CD CE NZ REMARK 470 GLN C 143 CG CD OE1 NE2 REMARK 470 GLU D 20 CG CD OE1 OE2 REMARK 470 LYS D 27 CG CD CE NZ REMARK 470 LYS D 41 CB CG CD CE NZ REMARK 470 LYS D 56 CE NZ REMARK 470 GLU D 75 CG CD OE1 OE2 REMARK 470 LYS D 77 CG CD CE NZ REMARK 470 LYS D 80 CG CD CE NZ REMARK 470 ASP D 81 CG OD1 OD2 REMARK 470 LYS D 120 CG CD CE NZ REMARK 470 GLN D 123 CG CD OE1 NE2 REMARK 470 GLU D 158 CG CD OE1 OE2 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 C 355 O HOH C 392 1.87 REMARK 500 O HOH A 405 O HOH A 415 1.88 REMARK 500 O HOH A 378 O HOH A 401 1.89 REMARK 500 O HOH A 374 O HOH A 419 1.90 REMARK 500 O HOH D 371 O HOH D 407 1.97 REMARK 500 OE1 GLU D 147 O HOH D 301 1.97 REMARK 500 O HOH B 371 O HOH B 417 1.98 REMARK 500 O HOH A 351 O HOH A 363 2.02 REMARK 500 O HOH A 357 O HOH A 402 2.06 REMARK 500 O HOH C 376 O HOH C 395 2.09 REMARK 500 O HOH B 386 O HOH B 424 2.10 REMARK 500 O HOH A 415 O HOH A 422 2.12 REMARK 500 OH TYR C 26 O HOH C 301 2.13 REMARK 500 O HOH A 365 O HOH A 419 2.14 REMARK 500 OD2 ASP D 11 O HOH D 302 2.15 REMARK 500 O GLY A 157 O HOH A 301 2.15 REMARK 500 O ASP B 155 O HOH B 301 2.15 REMARK 500 O ALA A 7 O HOH A 302 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 345 O HOH D 383 2545 1.93 REMARK 500 O HOH B 422 O HOH D 303 2545 2.04 REMARK 500 O HOH B 422 O HOH D 359 2545 2.07 REMARK 500 O ALA B 59 OH TYR D 101 2545 2.18 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 ASP A 155 -129.22 -119.64 REMARK 500 ASP B 155 -130.66 -118.70 REMARK 500 ASP C 155 -133.93 -119.89 REMARK 500 ASP D 155 -116.39 -102.13 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 449 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH B 462 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH C 416 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH D 417 DISTANCE = 6.01 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 62 ND1 REMARK 620 2 CYS A 91 SG 103.2 REMARK 620 3 CYS A 94 SG 112.9 116.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 62 ND1 REMARK 620 2 CYS B 91 SG 103.3 REMARK 620 3 CYS B 94 SG 114.4 117.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 62 ND1 REMARK 620 2 CYS C 91 SG 105.2 REMARK 620 3 CYS C 94 SG 113.9 115.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 62 ND1 REMARK 620 2 CYS D 91 SG 105.3 REMARK 620 3 CYS D 94 SG 114.4 115.3 REMARK 620 N 1 2 DBREF 8I3N A 1 158 UNP Q12178 FCY1_YEAST 1 158 DBREF 8I3N B 1 158 UNP Q12178 FCY1_YEAST 1 158 DBREF 8I3N C 1 158 UNP Q12178 FCY1_YEAST 1 158 DBREF 8I3N D 1 158 UNP Q12178 FCY1_YEAST 1 158 SEQADV 8I3N MET A -13 UNP Q12178 INITIATING METHIONINE SEQADV 8I3N HIS A -12 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS A -11 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS A -10 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS A -9 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS A -8 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS A -7 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU A -6 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ASN A -5 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU A -4 UNP Q12178 EXPRESSION TAG SEQADV 8I3N TYR A -3 UNP Q12178 EXPRESSION TAG SEQADV 8I3N PHE A -2 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN A -1 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLY A 0 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ARG A 159 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ILE A 160 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU A 161 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU A 162 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN A 163 UNP Q12178 EXPRESSION TAG SEQADV 8I3N MET B -13 UNP Q12178 INITIATING METHIONINE SEQADV 8I3N HIS B -12 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS B -11 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS B -10 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS B -9 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS B -8 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS B -7 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU B -6 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ASN B -5 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU B -4 UNP Q12178 EXPRESSION TAG SEQADV 8I3N TYR B -3 UNP Q12178 EXPRESSION TAG SEQADV 8I3N PHE B -2 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN B -1 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLY B 0 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ARG B 159 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ILE B 160 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU B 161 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU B 162 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN B 163 UNP Q12178 EXPRESSION TAG SEQADV 8I3N MET C -13 UNP Q12178 INITIATING METHIONINE SEQADV 8I3N HIS C -12 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS C -11 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS C -10 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS C -9 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS C -8 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS C -7 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU C -6 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ASN C -5 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU C -4 UNP Q12178 EXPRESSION TAG SEQADV 8I3N TYR C -3 UNP Q12178 EXPRESSION TAG SEQADV 8I3N PHE C -2 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN C -1 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLY C 0 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ARG C 159 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ILE C 160 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU C 161 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU C 162 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN C 163 UNP Q12178 EXPRESSION TAG SEQADV 8I3N MET D -13 UNP Q12178 INITIATING METHIONINE SEQADV 8I3N HIS D -12 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS D -11 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS D -10 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS D -9 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS D -8 UNP Q12178 EXPRESSION TAG SEQADV 8I3N HIS D -7 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU D -6 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ASN D -5 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU D -4 UNP Q12178 EXPRESSION TAG SEQADV 8I3N TYR D -3 UNP Q12178 EXPRESSION TAG SEQADV 8I3N PHE D -2 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN D -1 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLY D 0 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ARG D 159 UNP Q12178 EXPRESSION TAG SEQADV 8I3N ILE D 160 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLU D 161 UNP Q12178 EXPRESSION TAG SEQADV 8I3N LEU D 162 UNP Q12178 EXPRESSION TAG SEQADV 8I3N GLN D 163 UNP Q12178 EXPRESSION TAG SEQRES 1 A 177 MET HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SEQRES 2 A 177 GLY MET VAL THR GLY GLY MET ALA SER LYS TRP ASP GLN SEQRES 3 A 177 LYS GLY MET ASP ILE ALA TYR GLU GLU ALA ALA LEU GLY SEQRES 4 A 177 TYR LYS GLU GLY GLY VAL PRO ILE GLY GLY CYS LEU ILE SEQRES 5 A 177 ASN ASN LYS ASP GLY SER VAL LEU GLY ARG GLY HIS ASN SEQRES 6 A 177 MET ARG PHE GLN LYS GLY SER ALA THR LEU HIS GLY GLU SEQRES 7 A 177 ILE SER THR LEU GLU ASN CYS GLY ARG LEU GLU GLY LYS SEQRES 8 A 177 VAL TYR LYS ASP THR THR LEU TYR THR THR LEU SER PRO SEQRES 9 A 177 CYS ASP MET CYS THR GLY ALA ILE ILE MET TYR GLY ILE SEQRES 10 A 177 PRO ARG CYS VAL VAL GLY GLU ASN VAL ASN PHE LYS SER SEQRES 11 A 177 LYS GLY GLU LYS TYR LEU GLN THR ARG GLY HIS GLU VAL SEQRES 12 A 177 VAL VAL VAL ASP ASP GLU ARG CYS LYS LYS ILE MET LYS SEQRES 13 A 177 GLN PHE ILE ASP GLU ARG PRO GLN ASP TRP PHE GLU ASP SEQRES 14 A 177 ILE GLY GLU ARG ILE GLU LEU GLN SEQRES 1 B 177 MET HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SEQRES 2 B 177 GLY MET VAL THR GLY GLY MET ALA SER LYS TRP ASP GLN SEQRES 3 B 177 LYS GLY MET ASP ILE ALA TYR GLU GLU ALA ALA LEU GLY SEQRES 4 B 177 TYR LYS GLU GLY GLY VAL PRO ILE GLY GLY CYS LEU ILE SEQRES 5 B 177 ASN ASN LYS ASP GLY SER VAL LEU GLY ARG GLY HIS ASN SEQRES 6 B 177 MET ARG PHE GLN LYS GLY SER ALA THR LEU HIS GLY GLU SEQRES 7 B 177 ILE SER THR LEU GLU ASN CYS GLY ARG LEU GLU GLY LYS SEQRES 8 B 177 VAL TYR LYS ASP THR THR LEU TYR THR THR LEU SER PRO SEQRES 9 B 177 CYS ASP MET CYS THR GLY ALA ILE ILE MET TYR GLY ILE SEQRES 10 B 177 PRO ARG CYS VAL VAL GLY GLU ASN VAL ASN PHE LYS SER SEQRES 11 B 177 LYS GLY GLU LYS TYR LEU GLN THR ARG GLY HIS GLU VAL SEQRES 12 B 177 VAL VAL VAL ASP ASP GLU ARG CYS LYS LYS ILE MET LYS SEQRES 13 B 177 GLN PHE ILE ASP GLU ARG PRO GLN ASP TRP PHE GLU ASP SEQRES 14 B 177 ILE GLY GLU ARG ILE GLU LEU GLN SEQRES 1 C 177 MET HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SEQRES 2 C 177 GLY MET VAL THR GLY GLY MET ALA SER LYS TRP ASP GLN SEQRES 3 C 177 LYS GLY MET ASP ILE ALA TYR GLU GLU ALA ALA LEU GLY SEQRES 4 C 177 TYR LYS GLU GLY GLY VAL PRO ILE GLY GLY CYS LEU ILE SEQRES 5 C 177 ASN ASN LYS ASP GLY SER VAL LEU GLY ARG GLY HIS ASN SEQRES 6 C 177 MET ARG PHE GLN LYS GLY SER ALA THR LEU HIS GLY GLU SEQRES 7 C 177 ILE SER THR LEU GLU ASN CYS GLY ARG LEU GLU GLY LYS SEQRES 8 C 177 VAL TYR LYS ASP THR THR LEU TYR THR THR LEU SER PRO SEQRES 9 C 177 CYS ASP MET CYS THR GLY ALA ILE ILE MET TYR GLY ILE SEQRES 10 C 177 PRO ARG CYS VAL VAL GLY GLU ASN VAL ASN PHE LYS SER SEQRES 11 C 177 LYS GLY GLU LYS TYR LEU GLN THR ARG GLY HIS GLU VAL SEQRES 12 C 177 VAL VAL VAL ASP ASP GLU ARG CYS LYS LYS ILE MET LYS SEQRES 13 C 177 GLN PHE ILE ASP GLU ARG PRO GLN ASP TRP PHE GLU ASP SEQRES 14 C 177 ILE GLY GLU ARG ILE GLU LEU GLN SEQRES 1 D 177 MET HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE GLN SEQRES 2 D 177 GLY MET VAL THR GLY GLY MET ALA SER LYS TRP ASP GLN SEQRES 3 D 177 LYS GLY MET ASP ILE ALA TYR GLU GLU ALA ALA LEU GLY SEQRES 4 D 177 TYR LYS GLU GLY GLY VAL PRO ILE GLY GLY CYS LEU ILE SEQRES 5 D 177 ASN ASN LYS ASP GLY SER VAL LEU GLY ARG GLY HIS ASN SEQRES 6 D 177 MET ARG PHE GLN LYS GLY SER ALA THR LEU HIS GLY GLU SEQRES 7 D 177 ILE SER THR LEU GLU ASN CYS GLY ARG LEU GLU GLY LYS SEQRES 8 D 177 VAL TYR LYS ASP THR THR LEU TYR THR THR LEU SER PRO SEQRES 9 D 177 CYS ASP MET CYS THR GLY ALA ILE ILE MET TYR GLY ILE SEQRES 10 D 177 PRO ARG CYS VAL VAL GLY GLU ASN VAL ASN PHE LYS SER SEQRES 11 D 177 LYS GLY GLU LYS TYR LEU GLN THR ARG GLY HIS GLU VAL SEQRES 12 D 177 VAL VAL VAL ASP ASP GLU ARG CYS LYS LYS ILE MET LYS SEQRES 13 D 177 GLN PHE ILE ASP GLU ARG PRO GLN ASP TRP PHE GLU ASP SEQRES 14 D 177 ILE GLY GLU ARG ILE GLU LEU GLN HET ZN A 201 1 HET ZN B 201 1 HET ZN C 201 1 HET ZN D 201 1 HETNAM ZN ZINC ION FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *544(H2 O) HELIX 1 AA1 TRP A 10 GLU A 28 1 19 HELIX 2 AA2 HIS A 62 GLY A 72 1 11 HELIX 3 AA3 GLU A 75 LYS A 80 1 6 HELIX 4 AA4 CYS A 91 GLY A 102 1 12 HELIX 5 AA5 LYS A 117 ARG A 125 1 9 HELIX 6 AA6 ASP A 134 ARG A 148 1 15 HELIX 7 AA7 ARG A 148 GLU A 154 1 7 HELIX 8 AA8 TRP B 10 GLU B 28 1 19 HELIX 9 AA9 HIS B 62 GLY B 72 1 11 HELIX 10 AB1 GLU B 75 LYS B 80 1 6 HELIX 11 AB2 CYS B 91 GLY B 102 1 12 HELIX 12 AB3 LYS B 117 ARG B 125 1 9 HELIX 13 AB4 ASP B 134 ARG B 148 1 15 HELIX 14 AB5 ARG B 148 GLU B 154 1 7 HELIX 15 AB6 TRP C 10 GLU C 28 1 19 HELIX 16 AB7 HIS C 62 GLY C 72 1 11 HELIX 17 AB8 GLU C 75 LYS C 80 1 6 HELIX 18 AB9 CYS C 91 GLY C 102 1 12 HELIX 19 AC1 LYS C 117 ARG C 125 1 9 HELIX 20 AC2 ASP C 134 ARG C 148 1 15 HELIX 21 AC3 ARG C 148 GLU C 154 1 7 HELIX 22 AC4 TRP D 10 GLU D 28 1 19 HELIX 23 AC5 HIS D 62 GLY D 72 1 11 HELIX 24 AC6 GLU D 75 LYS D 80 1 6 HELIX 25 AC7 CYS D 91 GLY D 102 1 12 HELIX 26 AC8 LYS D 117 ARG D 125 1 9 HELIX 27 AC9 ASP D 134 ARG D 148 1 15 HELIX 28 AD1 ARG D 148 GLU D 154 1 7 SHEET 1 AA1 5 VAL A 45 HIS A 50 0 SHEET 2 AA1 5 GLY A 34 ASN A 39 -1 N LEU A 37 O LEU A 46 SHEET 3 AA1 5 THR A 82 LEU A 88 -1 O TYR A 85 N CYS A 36 SHEET 4 AA1 5 ARG A 105 GLU A 110 1 O ARG A 105 N LEU A 84 SHEET 5 AA1 5 GLU A 128 VAL A 131 1 O VAL A 130 N VAL A 108 SHEET 1 AA2 5 VAL B 45 HIS B 50 0 SHEET 2 AA2 5 GLY B 34 ASN B 39 -1 N LEU B 37 O LEU B 46 SHEET 3 AA2 5 THR B 82 LEU B 88 -1 O TYR B 85 N CYS B 36 SHEET 4 AA2 5 ARG B 105 GLU B 110 1 O GLY B 109 N THR B 86 SHEET 5 AA2 5 GLU B 128 VAL B 131 1 O VAL B 130 N VAL B 108 SHEET 1 AA3 5 VAL C 45 HIS C 50 0 SHEET 2 AA3 5 GLY C 34 ASN C 39 -1 N LEU C 37 O GLY C 47 SHEET 3 AA3 5 THR C 82 LEU C 88 -1 O TYR C 85 N CYS C 36 SHEET 4 AA3 5 ARG C 105 GLU C 110 1 O ARG C 105 N LEU C 84 SHEET 5 AA3 5 GLU C 128 VAL C 131 1 O VAL C 130 N VAL C 108 SHEET 1 AA4 5 VAL D 45 HIS D 50 0 SHEET 2 AA4 5 GLY D 34 ASN D 39 -1 N LEU D 37 O LEU D 46 SHEET 3 AA4 5 THR D 82 LEU D 88 -1 O TYR D 85 N CYS D 36 SHEET 4 AA4 5 ARG D 105 GLU D 110 1 O GLY D 109 N THR D 86 SHEET 5 AA4 5 GLU D 128 VAL D 131 1 O VAL D 130 N VAL D 108 LINK ND1 HIS A 62 ZN ZN A 201 1555 1555 2.13 LINK SG CYS A 91 ZN ZN A 201 1555 1555 2.36 LINK SG CYS A 94 ZN ZN A 201 1555 1555 2.27 LINK ND1 HIS B 62 ZN ZN B 201 1555 1555 2.14 LINK SG CYS B 91 ZN ZN B 201 1555 1555 2.36 LINK SG CYS B 94 ZN ZN B 201 1555 1555 2.27 LINK ND1 HIS C 62 ZN ZN C 201 1555 1555 2.13 LINK SG CYS C 91 ZN ZN C 201 1555 1555 2.34 LINK SG CYS C 94 ZN ZN C 201 1555 1555 2.32 LINK ND1 HIS D 62 ZN ZN D 201 1555 1555 2.08 LINK SG CYS D 91 ZN ZN D 201 1555 1555 2.35 LINK SG CYS D 94 ZN ZN D 201 1555 1555 2.29 CRYST1 61.669 64.470 83.092 90.00 97.97 90.00 P 1 21 1 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 0.016216 0.000000 0.002269 0.00000 SCALE2 0.000000 0.015511 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012152 0.00000