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 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 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 CONECT 1276 4945 CONECT 1791 4945 CONECT 2062 4945 CONECT 2063 4945 CONECT 2082 4945 CONECT 4945 1276 1791 2062 2063 CONECT 4945 2082 MASTER 486 0 1 33 0 0 2 6 5001 2 7 60 END