HEADER OXIDOREDUCTASE 10-JUL-01 1JK0 TITLE RIBONUCLEOTIDE REDUCTASE Y2Y4 HETERODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SMALL CHAIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RNR Y2; COMPND 5 EC: 1.17.4.1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE SMALL CHAIN 2; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: RNR Y4; COMPND 11 EC: 1.17.4.1; COMPND 12 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: RNR2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-14B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 4932; SOURCE 15 GENE: RNR4; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET-14B KEYWDS RIBONUCLEOTIDE REDUCTASE, R2, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.C.VOEGTLI,D.L.PERLSTEIN,J.GE,J.STUBBE,A.C.ROSENZWEIG REVDAT 3 07-FEB-24 1JK0 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1JK0 1 VERSN REVDAT 1 05-SEP-01 1JK0 0 JRNL AUTH W.C.VOEGTLI,J.GE,D.L.PERLSTEIN,J.STUBBE,A.C.ROSENZWEIG JRNL TITL STRUCTURE OF THE YEAST RIBONUCLEOTIDE REDUCTASE Y2Y4 JRNL TITL 2 HETERODIMER. JRNL REF PROC.NATL.ACAD.SCI.USA V. 98 10073 2001 JRNL REFN ISSN 0027-8424 JRNL PMID 11526233 JRNL DOI 10.1073/PNAS.181336398 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS DERIVED MIR PHASES WITH SITES FOUND IN SOLVE REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 564143.990 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 19752 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.243 REMARK 3 FREE R VALUE : 0.296 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1453 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2714 REMARK 3 BIN R VALUE (WORKING SET) : 0.3170 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 236 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.024 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4942 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 58 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.09000 REMARK 3 B22 (A**2) : -2.64000 REMARK 3 B33 (A**2) : 8.74000 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.32 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.48 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.47 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.870 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.44 REMARK 3 BSOL : 56.55 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : TOPPER_ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : TOPPER_ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1JK0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-01. REMARK 100 THE DEPOSITION ID IS D_1000013863. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-00 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 4.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.946 REMARK 200 MONOCHROMATOR : SI DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19844 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 9.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : 0.06100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.28600 REMARK 200 R SYM FOR SHELL (I) : 0.28600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: CNS DERIVED MIR PHASES WITH SITES FOUND IN SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM ACETATE, 14% W/V REMARK 280 POLYETHYLENEGLYCOL 4000, 200 MM NACL, PH 4.9, SANDWICH DROP, REMARK 280 TEMPERATURE 293K 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 46.45000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.70000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.50000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.70000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.45000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.50000 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 300 REMARK: BIOLOGICAL ASSEMBLY IS A HETERODIMER OF MONOMERS OF Y2 AND REMARK 300 Y4 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: 2460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 PRO A 2 REMARK 465 LYS A 3 REMARK 465 GLU A 4 REMARK 465 THR A 5 REMARK 465 PRO A 6 REMARK 465 SER A 7 REMARK 465 LYS A 8 REMARK 465 ALA A 9 REMARK 465 ALA A 10 REMARK 465 ALA A 11 REMARK 465 ASP A 12 REMARK 465 ALA A 13 REMARK 465 LEU A 14 REMARK 465 SER A 15 REMARK 465 ASP A 16 REMARK 465 LEU A 17 REMARK 465 GLU A 18 REMARK 465 ILE A 19 REMARK 465 LYS A 20 REMARK 465 ASP A 21 REMARK 465 SER A 22 REMARK 465 LYS A 23 REMARK 465 SER A 24 REMARK 465 ASN A 25 REMARK 465 ILE A 360 REMARK 465 SER A 361 REMARK 465 LEU A 362 REMARK 465 ALA A 363 REMARK 465 GLY A 364 REMARK 465 LYS A 365 REMARK 465 THR A 366 REMARK 465 ASN A 367 REMARK 465 PHE A 368 REMARK 465 PHE A 369 REMARK 465 GLU A 370 REMARK 465 LYS A 371 REMARK 465 ARG A 372 REMARK 465 VAL A 373 REMARK 465 SER A 374 REMARK 465 ASP A 375 REMARK 465 TYR A 376 REMARK 465 GLN A 377 REMARK 465 LYS A 378 REMARK 465 ALA A 379 REMARK 465 GLY A 380 REMARK 465 VAL A 381 REMARK 465 MET A 382 REMARK 465 SER A 383 REMARK 465 LYS A 384 REMARK 465 SER A 385 REMARK 465 THR A 386 REMARK 465 LYS A 387 REMARK 465 GLN A 388 REMARK 465 GLU A 389 REMARK 465 ALA A 390 REMARK 465 GLY A 391 REMARK 465 ALA A 392 REMARK 465 PHE A 393 REMARK 465 THR A 394 REMARK 465 PHE A 395 REMARK 465 ASN A 396 REMARK 465 GLU A 397 REMARK 465 ASP A 398 REMARK 465 PHE A 399 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 ALA B 3 REMARK 465 HIS B 4 REMARK 465 ASN B 5 REMARK 465 GLN B 6 REMARK 465 PHE B 7 REMARK 465 LEU B 8 REMARK 465 LYS B 9 REMARK 465 THR B 10 REMARK 465 SER B 91 REMARK 465 SER B 92 REMARK 465 ASP B 93 REMARK 465 ASN B 94 REMARK 465 LEU B 95 REMARK 465 VAL B 96 REMARK 465 ASN B 97 REMARK 465 LYS B 98 REMARK 465 TYR B 99 REMARK 465 VAL B 264 REMARK 465 GLU B 265 REMARK 465 LYS B 266 REMARK 465 PHE B 267 REMARK 465 GLY B 268 REMARK 465 MET B 269 REMARK 465 ASP B 270 REMARK 465 LEU B 271 REMARK 465 LYS B 272 REMARK 465 SER B 273 REMARK 465 ILE B 274 REMARK 465 ASN B 296 REMARK 465 ALA B 297 REMARK 465 VAL B 298 REMARK 465 ASN B 299 REMARK 465 PRO B 300 REMARK 465 PHE B 301 REMARK 465 GLU B 302 REMARK 465 PHE B 303 REMARK 465 MET B 304 REMARK 465 GLU B 305 REMARK 465 ASP B 306 REMARK 465 VAL B 307 REMARK 465 ALA B 308 REMARK 465 THR B 309 REMARK 465 ALA B 310 REMARK 465 GLY B 311 REMARK 465 LYS B 312 REMARK 465 THR B 313 REMARK 465 THR B 314 REMARK 465 PHE B 315 REMARK 465 PHE B 316 REMARK 465 GLU B 317 REMARK 465 LYS B 318 REMARK 465 LYS B 319 REMARK 465 VAL B 320 REMARK 465 SER B 321 REMARK 465 ASP B 322 REMARK 465 TYR B 323 REMARK 465 GLN B 324 REMARK 465 LYS B 325 REMARK 465 ALA B 326 REMARK 465 SER B 327 REMARK 465 ASP B 328 REMARK 465 MET B 329 REMARK 465 SER B 330 REMARK 465 LYS B 331 REMARK 465 SER B 332 REMARK 465 ALA B 333 REMARK 465 THR B 334 REMARK 465 PRO B 335 REMARK 465 SER B 336 REMARK 465 LYS B 337 REMARK 465 GLU B 338 REMARK 465 ILE B 339 REMARK 465 ASN B 340 REMARK 465 PHE B 341 REMARK 465 ASP B 342 REMARK 465 ASP B 343 REMARK 465 ASP B 344 REMARK 465 PHE B 345 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO B 39 C - N - CA ANGL. DEV. = -11.7 DEGREES 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 LYS A 50 36.89 -88.10 REMARK 500 PHE A 89 -78.46 -116.18 REMARK 500 PRO A 90 92.32 -20.45 REMARK 500 ILE A 91 104.61 -43.88 REMARK 500 SER A 144 47.08 -147.34 REMARK 500 VAL A 153 -92.90 -104.34 REMARK 500 GLU A 154 -18.45 -36.72 REMARK 500 PHE A 156 -74.71 -150.51 REMARK 500 GLU A 159 -161.38 -76.82 REMARK 500 VAL A 160 81.50 53.67 REMARK 500 GLN A 161 28.55 -78.46 REMARK 500 ILE A 221 -61.94 -122.74 REMARK 500 ALA A 224 176.54 -59.26 REMARK 500 VAL A 241 -51.83 -126.42 REMARK 500 ARG A 256 2.76 -62.33 REMARK 500 ASP A 313 -67.53 -108.88 REMARK 500 ALA A 314 -80.05 -63.31 REMARK 500 LYS A 346 161.15 -46.34 REMARK 500 LYS A 349 14.76 56.51 REMARK 500 GLU B 22 -3.04 -50.22 REMARK 500 SER B 32 157.94 -31.59 REMARK 500 ARG B 33 -6.87 75.85 REMARK 500 TYR B 42 74.23 -118.08 REMARK 500 TYR B 81 -71.47 -57.91 REMARK 500 LEU B 88 -70.23 -70.80 REMARK 500 PHE B 138 -67.61 -96.21 REMARK 500 PHE B 139 36.45 -85.39 REMARK 500 LYS B 140 160.11 51.10 REMARK 500 ILE B 151 42.91 -107.02 REMARK 500 PRO B 155 -75.16 -9.72 REMARK 500 ILE B 188 -73.97 -67.16 REMARK 500 PHE B 189 -104.00 -23.39 REMARK 500 GLN B 190 16.43 -55.89 REMARK 500 LEU B 200 -18.57 -49.81 REMARK 500 LYS B 203 97.47 70.48 REMARK 500 LYS B 204 -34.70 60.40 REMARK 500 MET B 206 81.22 45.02 REMARK 500 GLU B 256 -96.05 -41.36 REMARK 500 THR B 276 30.74 -79.59 REMARK 500 REMARK 500 REMARK: NULL 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 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 176 OE1 REMARK 620 2 GLU A 239 OE1 137.4 REMARK 620 3 GLU A 273 OE1 75.8 81.5 REMARK 620 4 GLU A 273 OE2 78.1 59.7 50.8 REMARK 620 5 HIS A 276 ND1 113.2 92.0 70.8 116.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 DBREF 1JK0 A 1 399 UNP P09938 RIR2_YEAST 1 399 DBREF 1JK0 B 1 345 UNP P49723 RIR4_YEAST 1 345 SEQADV 1JK0 MET A -19 UNP P09938 EXPRESSION TAG SEQADV 1JK0 GLY A -18 UNP P09938 EXPRESSION TAG SEQADV 1JK0 SER A -17 UNP P09938 EXPRESSION TAG SEQADV 1JK0 SER A -16 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -15 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -14 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -13 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -12 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -11 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A -10 UNP P09938 EXPRESSION TAG SEQADV 1JK0 SER A -9 UNP P09938 EXPRESSION TAG SEQADV 1JK0 SER A -8 UNP P09938 EXPRESSION TAG SEQADV 1JK0 GLY A -7 UNP P09938 EXPRESSION TAG SEQADV 1JK0 LEU A -6 UNP P09938 EXPRESSION TAG SEQADV 1JK0 VAL A -5 UNP P09938 EXPRESSION TAG SEQADV 1JK0 PRO A -4 UNP P09938 EXPRESSION TAG SEQADV 1JK0 ARG A -3 UNP P09938 EXPRESSION TAG SEQADV 1JK0 GLY A -2 UNP P09938 EXPRESSION TAG SEQADV 1JK0 SER A -1 UNP P09938 EXPRESSION TAG SEQADV 1JK0 HIS A 0 UNP P09938 EXPRESSION TAG SEQRES 1 A 419 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 419 LEU VAL PRO ARG GLY SER HIS MET PRO LYS GLU THR PRO SEQRES 3 A 419 SER LYS ALA ALA ALA ASP ALA LEU SER ASP LEU GLU ILE SEQRES 4 A 419 LYS ASP SER LYS SER ASN LEU ASN LYS GLU LEU GLU THR SEQRES 5 A 419 LEU ARG GLU GLU ASN ARG VAL LYS SER ASP MET LEU LYS SEQRES 6 A 419 GLU LYS LEU SER LYS ASP ALA GLU ASN HIS LYS ALA TYR SEQRES 7 A 419 LEU LYS SER HIS GLN VAL HIS ARG HIS LYS LEU LYS GLU SEQRES 8 A 419 MET GLU LYS GLU GLU PRO LEU LEU ASN GLU ASP LYS GLU SEQRES 9 A 419 ARG THR VAL LEU PHE PRO ILE LYS TYR HIS GLU ILE TRP SEQRES 10 A 419 GLN ALA TYR LYS ARG ALA GLU ALA SER PHE TRP THR ALA SEQRES 11 A 419 GLU GLU ILE ASP LEU SER LYS ASP ILE HIS ASP TRP ASN SEQRES 12 A 419 ASN ARG MET ASN GLU ASN GLU ARG PHE PHE ILE SER ARG SEQRES 13 A 419 VAL LEU ALA PHE PHE ALA ALA SER ASP GLY ILE VAL ASN SEQRES 14 A 419 GLU ASN LEU VAL GLU ASN PHE SER THR GLU VAL GLN ILE SEQRES 15 A 419 PRO GLU ALA LYS SER PHE TYR GLY PHE GLN ILE MET ILE SEQRES 16 A 419 GLU ASN ILE HIS SER GLU THR TYR SER LEU LEU ILE ASP SEQRES 17 A 419 THR TYR ILE LYS ASP PRO LYS GLU SER GLU PHE LEU PHE SEQRES 18 A 419 ASN ALA ILE HIS THR ILE PRO GLU ILE GLY GLU LYS ALA SEQRES 19 A 419 GLU TRP ALA LEU ARG TRP ILE GLN ASP ALA ASP ALA LEU SEQRES 20 A 419 PHE GLY GLU ARG LEU VAL ALA PHE ALA SER ILE GLU GLY SEQRES 21 A 419 VAL PHE PHE SER GLY SER PHE ALA SER ILE PHE TRP LEU SEQRES 22 A 419 LYS LYS ARG GLY MET MET PRO GLY LEU THR PHE SER ASN SEQRES 23 A 419 GLU LEU ILE CYS ARG ASP GLU GLY LEU HIS THR ASP PHE SEQRES 24 A 419 ALA CYS LEU LEU PHE ALA HIS LEU LYS ASN LYS PRO ASP SEQRES 25 A 419 PRO ALA ILE VAL GLU LYS ILE VAL THR GLU ALA VAL GLU SEQRES 26 A 419 ILE GLU GLN ARG TYR PHE LEU ASP ALA LEU PRO VAL ALA SEQRES 27 A 419 LEU LEU GLY MET ASN ALA ASP LEU MET ASN GLN TYR VAL SEQRES 28 A 419 GLU PHE VAL ALA ASP ARG LEU LEU VAL ALA PHE GLY ASN SEQRES 29 A 419 LYS LYS TYR TYR LYS VAL GLU ASN PRO PHE ASP PHE MET SEQRES 30 A 419 GLU ASN ILE SER LEU ALA GLY LYS THR ASN PHE PHE GLU SEQRES 31 A 419 LYS ARG VAL SER ASP TYR GLN LYS ALA GLY VAL MET SER SEQRES 32 A 419 LYS SER THR LYS GLN GLU ALA GLY ALA PHE THR PHE ASN SEQRES 33 A 419 GLU ASP PHE SEQRES 1 B 345 MET GLU ALA HIS ASN GLN PHE LEU LYS THR PHE GLN LYS SEQRES 2 B 345 GLU ARG HIS ASP MET LYS GLU ALA GLU LYS ASP GLU ILE SEQRES 3 B 345 LEU LEU MET GLU ASN SER ARG ARG PHE VAL MET PHE PRO SEQRES 4 B 345 ILE LYS TYR HIS GLU ILE TRP ALA ALA TYR LYS LYS VAL SEQRES 5 B 345 GLU ALA SER PHE TRP THR ALA GLU GLU ILE GLU LEU ALA SEQRES 6 B 345 LYS ASP THR GLU ASP PHE GLN LYS LEU THR ASP ASP GLN SEQRES 7 B 345 LYS THR TYR ILE GLY ASN LEU LEU ALA LEU SER ILE SER SEQRES 8 B 345 SER ASP ASN LEU VAL ASN LYS TYR LEU ILE GLU ASN PHE SEQRES 9 B 345 SER ALA GLN LEU GLN ASN PRO GLU GLY LYS SER PHE TYR SEQRES 10 B 345 GLY PHE GLN ILE MET MET GLU ASN ILE TYR SER GLU VAL SEQRES 11 B 345 TYR SER MET MET VAL ASP ALA PHE PHE LYS ASP PRO LYS SEQRES 12 B 345 ASN ILE PRO LEU PHE LYS GLU ILE ALA ASN LEU PRO GLU SEQRES 13 B 345 VAL LYS HIS LYS ALA ALA PHE ILE GLU ARG TRP ILE SER SEQRES 14 B 345 ASN ASP ASP SER LEU TYR ALA GLU ARG LEU VAL ALA PHE SEQRES 15 B 345 ALA ALA LYS GLU GLY ILE PHE GLN ALA GLY ASN TYR ALA SEQRES 16 B 345 SER MET PHE TRP LEU THR ASP LYS LYS ILE MET PRO GLY SEQRES 17 B 345 LEU ALA MET ALA ASN ARG ASN ILE CYS ARG ASP ARG GLY SEQRES 18 B 345 ALA TYR THR ASP PHE SER CYS LEU LEU PHE ALA HIS LEU SEQRES 19 B 345 ARG THR LYS PRO ASN PRO LYS ILE ILE GLU LYS ILE ILE SEQRES 20 B 345 THR GLU ALA VAL GLU ILE GLU LYS GLU TYR TYR SER ASN SEQRES 21 B 345 SER LEU PRO VAL GLU LYS PHE GLY MET ASP LEU LYS SER SEQRES 22 B 345 ILE HIS THR TYR ILE GLU PHE VAL ALA ASP GLY LEU LEU SEQRES 23 B 345 GLN GLY PHE GLY ASN GLU LYS TYR TYR ASN ALA VAL ASN SEQRES 24 B 345 PRO PHE GLU PHE MET GLU ASP VAL ALA THR ALA GLY LYS SEQRES 25 B 345 THR THR PHE PHE GLU LYS LYS VAL SER ASP TYR GLN LYS SEQRES 26 B 345 ALA SER ASP MET SER LYS SER ALA THR PRO SER LYS GLU SEQRES 27 B 345 ILE ASN PHE ASP ASP ASP PHE HET ZN A 501 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ FORMUL 4 HOH *58(H2 O) HELIX 1 1 LEU A 26 ASN A 37 1 12 HELIX 2 2 ASN A 37 LYS A 50 1 14 HELIX 3 3 LYS A 50 HIS A 62 1 13 HELIX 4 4 HIS A 62 GLU A 73 1 12 HELIX 5 5 LYS A 74 ASN A 80 5 7 HELIX 6 6 TYR A 93 ALA A 105 1 13 HELIX 7 7 THR A 109 ILE A 113 5 5 HELIX 8 8 LYS A 117 ARG A 125 1 9 HELIX 9 9 ASN A 127 ALA A 143 1 17 HELIX 10 10 GLY A 146 VAL A 153 1 8 HELIX 11 11 ILE A 162 ILE A 191 1 30 HELIX 12 12 ASP A 193 HIS A 205 1 13 HELIX 13 13 ILE A 207 ILE A 221 1 15 HELIX 14 14 LEU A 227 VAL A 241 1 15 HELIX 15 15 PHE A 243 ARG A 256 1 14 HELIX 16 16 MET A 259 HIS A 286 1 28 HELIX 17 17 ASP A 292 ASP A 313 1 22 HELIX 18 18 PRO A 316 GLY A 321 5 6 HELIX 19 19 ASN A 323 ALA A 341 1 19 HELIX 20 20 PHE A 354 ASN A 359 5 6 HELIX 21 21 GLN B 12 GLU B 22 1 11 HELIX 22 22 TYR B 42 SER B 55 1 14 HELIX 23 23 THR B 58 ILE B 62 5 5 HELIX 24 24 ASP B 77 ILE B 90 1 14 HELIX 25 25 LEU B 100 LEU B 108 1 9 HELIX 26 26 ASN B 110 PHE B 139 1 30 HELIX 27 27 LEU B 147 ALA B 152 5 6 HELIX 28 28 LEU B 154 TRP B 167 1 14 HELIX 29 29 LEU B 174 ILE B 188 1 15 HELIX 30 30 GLN B 190 THR B 201 1 12 HELIX 31 31 MET B 206 HIS B 233 1 28 HELIX 32 32 ASN B 239 SER B 259 1 21 HELIX 33 33 THR B 276 PHE B 289 1 14 LINK OE1 GLU A 176 ZN ZN A 501 1555 1555 2.03 LINK OE1 GLU A 239 ZN ZN A 501 1555 1555 2.04 LINK OE1 GLU A 273 ZN ZN A 501 1555 1555 2.31 LINK OE2 GLU A 273 ZN ZN A 501 1555 1555 2.68 LINK ND1 HIS A 276 ZN ZN A 501 1555 1555 2.13 SITE 1 AC1 5 GLN A 172 GLU A 176 GLU A 239 GLU A 273 SITE 2 AC1 5 HIS A 276 CRYST1 92.900 93.000 97.400 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 0.010764 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010753 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010267 0.00000