HEADER TRANSFERASE 25-JUL-12 4GA4 TITLE CRYSTAL STRUCTURE OF AMP PHOSPHORYLASE N-TERMINAL DELETION MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE THYMIDINE PHOSPHORYLASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 85-503; COMPND 5 SYNONYM: TDRPASE; COMPND 6 EC: 2.4.2.4; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 3 ORGANISM_TAXID: 69014; SOURCE 4 STRAIN: KOD1; SOURCE 5 GENE: DEOA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-21A(+) KEYWDS PHOSPHOROLYSIS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.NISHITANI,R.AONO,A.NAKAMURA,T.SATO,H.ATOMI,T.IMANAKA,K.MIKI REVDAT 3 08-NOV-23 4GA4 1 REMARK SEQADV REVDAT 2 12-MAR-14 4GA4 1 JRNL REVDAT 1 15-MAY-13 4GA4 0 JRNL AUTH Y.NISHITANI,R.AONO,A.NAKAMURA,T.SATO,H.ATOMI,T.IMANAKA, JRNL AUTH 2 K.MIKI JRNL TITL STRUCTURE ANALYSIS OF ARCHAEAL AMP PHOSPHORYLASE REVEALS TWO JRNL TITL 2 UNIQUE MODES OF DIMERIZATION JRNL REF J.MOL.BIOL. V. 425 2709 2013 JRNL REFN ISSN 0022-2836 JRNL PMID 23659790 JRNL DOI 10.1016/J.JMB.2013.04.026 REMARK 2 REMARK 2 RESOLUTION. 3.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 18500 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 REMARK 3 R VALUE (WORKING SET) : 0.272 REMARK 3 FREE R VALUE : 0.322 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 943 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 : 5670 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.82500 REMARK 3 B22 (A**2) : 3.82500 REMARK 3 B33 (A**2) : -7.65000 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) : 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) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.700 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 38.83 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 : ION.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4GA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000073929. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18550 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.510 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 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) : 3.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.39800 REMARK 200 FOR SHELL : 5.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2DSJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, 1.65M 1,6-HEXANEDIOL, PH 5.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.29267 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.14633 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 46.71950 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 15.57317 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 77.86583 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 84 REMARK 465 ILE A 503 REMARK 465 GLY A 504 REMARK 465 ASN A 505 REMARK 465 SER A 506 REMARK 465 SER A 507 REMARK 465 SER A 508 REMARK 465 VAL A 509 REMARK 465 ASP A 510 REMARK 465 LYS A 511 REMARK 465 LEU A 512 REMARK 465 ALA A 513 REMARK 465 ALA A 514 REMARK 465 ALA A 515 REMARK 465 LEU A 516 REMARK 465 GLU A 517 REMARK 465 HIS A 518 REMARK 465 HIS A 519 REMARK 465 HIS A 520 REMARK 465 HIS A 521 REMARK 465 HIS A 522 REMARK 465 HIS A 523 REMARK 465 MET B 84 REMARK 465 ILE B 503 REMARK 465 GLY B 504 REMARK 465 ASN B 505 REMARK 465 SER B 506 REMARK 465 SER B 507 REMARK 465 SER B 508 REMARK 465 VAL B 509 REMARK 465 ASP B 510 REMARK 465 LYS B 511 REMARK 465 LEU B 512 REMARK 465 ALA B 513 REMARK 465 ALA B 514 REMARK 465 ALA B 515 REMARK 465 LEU B 516 REMARK 465 GLU B 517 REMARK 465 HIS B 518 REMARK 465 HIS B 519 REMARK 465 HIS B 520 REMARK 465 HIS B 521 REMARK 465 HIS B 522 REMARK 465 HIS B 523 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 GLU A 86 CG CD OE1 OE2 REMARK 470 ARG A 89 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 93 CG CD CE NZ REMARK 470 ARG A 101 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 102 CG CD CE NZ REMARK 470 VAL A 113 CG1 CG2 REMARK 470 ARG A 115 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 116 CG CD CE NZ REMARK 470 ILE A 122 CG1 CG2 CD1 REMARK 470 SER A 124 OG REMARK 470 ILE A 139 CG1 CG2 CD1 REMARK 470 LEU A 153 CG CD1 CD2 REMARK 470 ILE A 155 CG1 CG2 CD1 REMARK 470 ASP A 156 CG OD1 OD2 REMARK 470 ARG A 157 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 158 CG CD CE NZ REMARK 470 VAL A 163 CG1 CG2 REMARK 470 ILE A 166 CG1 CG2 CD1 REMARK 470 VAL A 169 CG1 CG2 REMARK 470 LYS A 173 CG CD CE NZ REMARK 470 ILE A 181 CG1 CG2 CD1 REMARK 470 VAL A 182 CG1 CG2 REMARK 470 LYS A 191 CG CD CE NZ REMARK 470 SER A 194 OG REMARK 470 ARG A 195 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 197 CG1 CG2 CD1 REMARK 470 THR A 198 OG1 CG2 REMARK 470 SER A 199 OG REMARK 470 VAL A 207 CG1 CG2 REMARK 470 VAL A 209 CG1 CG2 REMARK 470 VAL A 213 CG1 CG2 REMARK 470 SER A 216 OG REMARK 470 LYS A 221 CG CD CE NZ REMARK 470 LYS A 226 CG CD CE NZ REMARK 470 VAL A 227 CG1 CG2 REMARK 470 VAL A 232 CG1 CG2 REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 ARG A 251 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 265 CG1 CG2 CD1 REMARK 470 THR A 283 OG1 CG2 REMARK 470 LYS A 285 CG CD CE NZ REMARK 470 VAL A 287 CG1 CG2 REMARK 470 LYS A 288 CG CD CE NZ REMARK 470 VAL A 289 CG1 CG2 REMARK 470 ARG A 296 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 TYR A 312 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 314 CG CD OE1 OE2 REMARK 470 VAL A 315 CG1 CG2 REMARK 470 ILE A 324 CG1 CG2 CD1 REMARK 470 THR A 327 OG1 CG2 REMARK 470 SER A 339 OG REMARK 470 LYS A 345 CG CD CE NZ REMARK 470 GLU A 352 CG CD OE1 OE2 REMARK 470 ILE A 360 CG1 CG2 CD1 REMARK 470 VAL A 367 CG1 CG2 REMARK 470 THR A 372 OG1 CG2 REMARK 470 LYS A 374 CG CD CE NZ REMARK 470 LYS A 375 CG CD CE NZ REMARK 470 GLU A 379 CG CD OE1 OE2 REMARK 470 ILE A 380 CG1 CG2 CD1 REMARK 470 LEU A 381 CG CD1 CD2 REMARK 470 LYS A 385 CG CD CE NZ REMARK 470 GLU A 388 CG CD OE1 OE2 REMARK 470 LYS A 389 CG CD CE NZ REMARK 470 LYS A 391 CG CD CE NZ REMARK 470 ILE A 394 CG1 CG2 CD1 REMARK 470 LYS A 404 CG CD CE NZ REMARK 470 GLU A 406 CG CD OE1 OE2 REMARK 470 THR A 418 OG1 CG2 REMARK 470 THR A 421 OG1 CG2 REMARK 470 SER A 422 OG REMARK 470 THR A 426 OG1 CG2 REMARK 470 ARG A 431 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 454 CG1 CG2 REMARK 470 LYS A 459 CG CD CE NZ REMARK 470 VAL A 460 CG1 CG2 REMARK 470 LYS A 461 CG CD CE NZ REMARK 470 GLU A 462 CG CD OE1 OE2 REMARK 470 GLN A 479 CG CD OE1 NE2 REMARK 470 GLU A 488 CG CD OE1 OE2 REMARK 470 ILE A 492 CG1 CG2 CD1 REMARK 470 VAL A 496 CG1 CG2 REMARK 470 ARG A 499 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 500 CG1 CG2 CD1 REMARK 470 ASN A 502 CG OD1 ND2 REMARK 470 GLU B 86 CG CD OE1 OE2 REMARK 470 ARG B 89 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 93 CG CD CE NZ REMARK 470 ARG B 101 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 102 CG CD CE NZ REMARK 470 VAL B 113 CG1 CG2 REMARK 470 ARG B 115 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 116 CG CD CE NZ REMARK 470 ILE B 122 CG1 CG2 CD1 REMARK 470 SER B 124 OG REMARK 470 ILE B 139 CG1 CG2 CD1 REMARK 470 LEU B 153 CG CD1 CD2 REMARK 470 ILE B 155 CG1 CG2 CD1 REMARK 470 ASP B 156 CG OD1 OD2 REMARK 470 ARG B 157 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 158 CG CD CE NZ REMARK 470 VAL B 163 CG1 CG2 REMARK 470 ILE B 166 CG1 CG2 CD1 REMARK 470 VAL B 169 CG1 CG2 REMARK 470 LYS B 173 CG CD CE NZ REMARK 470 ILE B 181 CG1 CG2 CD1 REMARK 470 VAL B 182 CG1 CG2 REMARK 470 LYS B 191 CG CD CE NZ REMARK 470 SER B 194 OG REMARK 470 ARG B 195 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 197 CG1 CG2 CD1 REMARK 470 THR B 198 OG1 CG2 REMARK 470 SER B 199 OG REMARK 470 VAL B 207 CG1 CG2 REMARK 470 VAL B 209 CG1 CG2 REMARK 470 VAL B 213 CG1 CG2 REMARK 470 SER B 216 OG REMARK 470 LYS B 221 CG CD CE NZ REMARK 470 LYS B 226 CG CD CE NZ REMARK 470 VAL B 227 CG1 CG2 REMARK 470 VAL B 232 CG1 CG2 REMARK 470 LYS B 248 CG CD CE NZ REMARK 470 ARG B 251 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 265 CG1 CG2 CD1 REMARK 470 THR B 283 OG1 CG2 REMARK 470 LYS B 285 CG CD CE NZ REMARK 470 VAL B 287 CG1 CG2 REMARK 470 LYS B 288 CG CD CE NZ REMARK 470 VAL B 289 CG1 CG2 REMARK 470 ARG B 296 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 307 CG CD CE NZ REMARK 470 TYR B 312 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU B 314 CG CD OE1 OE2 REMARK 470 VAL B 315 CG1 CG2 REMARK 470 ILE B 324 CG1 CG2 CD1 REMARK 470 THR B 327 OG1 CG2 REMARK 470 SER B 339 OG REMARK 470 LYS B 345 CG CD CE NZ REMARK 470 GLU B 352 CG CD OE1 OE2 REMARK 470 ILE B 360 CG1 CG2 CD1 REMARK 470 VAL B 367 CG1 CG2 REMARK 470 THR B 372 OG1 CG2 REMARK 470 LYS B 374 CG CD CE NZ REMARK 470 LYS B 375 CG CD CE NZ REMARK 470 GLU B 379 CG CD OE1 OE2 REMARK 470 ILE B 380 CG1 CG2 CD1 REMARK 470 LEU B 381 CG CD1 CD2 REMARK 470 LYS B 385 CG CD CE NZ REMARK 470 GLU B 388 CG CD OE1 OE2 REMARK 470 LYS B 389 CG CD CE NZ REMARK 470 LYS B 391 CG CD CE NZ REMARK 470 ILE B 394 CG1 CG2 CD1 REMARK 470 LYS B 404 CG CD CE NZ REMARK 470 GLU B 406 CG CD OE1 OE2 REMARK 470 THR B 418 OG1 CG2 REMARK 470 THR B 421 OG1 CG2 REMARK 470 SER B 422 OG REMARK 470 THR B 426 OG1 CG2 REMARK 470 ARG B 431 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 454 CG1 CG2 REMARK 470 LYS B 459 CG CD CE NZ REMARK 470 VAL B 460 CG1 CG2 REMARK 470 LYS B 461 CG CD CE NZ REMARK 470 GLU B 462 CG CD OE1 OE2 REMARK 470 GLN B 479 CG CD OE1 NE2 REMARK 470 GLU B 488 CG CD OE1 OE2 REMARK 470 ILE B 492 CG1 CG2 CD1 REMARK 470 VAL B 496 CG1 CG2 REMARK 470 ARG B 499 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 500 CG1 CG2 CD1 REMARK 470 ASN B 502 CG OD1 ND2 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 ILE A 403 131.20 -25.38 REMARK 500 ARG B 115 11.83 84.97 REMARK 500 ALA B 211 -162.46 -164.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GA5 RELATED DB: PDB REMARK 900 RELATED ID: 4GA6 RELATED DB: PDB DBREF 4GA4 A 85 503 UNP Q5JCX3 TYPH_PYRKO 85 503 DBREF 4GA4 B 85 503 UNP Q5JCX3 TYPH_PYRKO 85 503 SEQADV 4GA4 MET A 84 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 GLY A 504 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ASN A 505 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER A 506 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER A 507 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER A 508 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 VAL A 509 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ASP A 510 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LYS A 511 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LEU A 512 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA A 513 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA A 514 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA A 515 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LEU A 516 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 GLU A 517 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 518 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 519 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 520 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 521 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 522 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS A 523 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 MET B 84 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 GLY B 504 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ASN B 505 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER B 506 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER B 507 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 SER B 508 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 VAL B 509 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ASP B 510 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LYS B 511 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LEU B 512 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA B 513 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA B 514 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 ALA B 515 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 LEU B 516 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 GLU B 517 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 518 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 519 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 520 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 521 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 522 UNP Q5JCX3 EXPRESSION TAG SEQADV 4GA4 HIS B 523 UNP Q5JCX3 EXPRESSION TAG SEQRES 1 A 440 MET PRO GLU SER VAL ARG TYR ILE LYS LYS LYS MET HIS SEQRES 2 A 440 GLY GLU LYS LEU ARG LYS VAL GLU ILE GLU ALA ILE VAL SEQRES 3 A 440 ARG ASP ILE VAL ASP ARG LYS LEU ARG ASP ILE GLU ILE SEQRES 4 A 440 SER SER PHE VAL THR ALA LEU GLU ILE ASN GLY LEU ASP SEQRES 5 A 440 MET ASP GLU ILE ALA ALA LEU THR ILE ALA MET ALA GLU SEQRES 6 A 440 THR GLY ASP MET LEU ASP ILE ASP ARG LYS PRO ILE MET SEQRES 7 A 440 ASP VAL HIS SER ILE GLY GLY VAL PRO GLY ASN LYS THR SEQRES 8 A 440 ASN ILE LEU VAL VAL PRO ILE VAL ALA ALA ALA GLY LEU SEQRES 9 A 440 THR ILE PRO LYS THR SER SER ARG ALA ILE THR SER ALA SEQRES 10 A 440 ALA GLY THR ALA ASP VAL VAL GLU VAL PHE ALA ASP VAL SEQRES 11 A 440 SER PHE SER LEU ASP GLU ILE LYS ARG ILE VAL GLU LYS SEQRES 12 A 440 VAL GLY ALA CYS LEU VAL TRP GLY GLY ALA LEU ASN LEU SEQRES 13 A 440 ALA PRO ALA ASP ASP ILE THR ILE LYS ALA GLU ARG ALA SEQRES 14 A 440 LEU SER ILE ASP PRO THR GLY LEU MET LEU ALA SER ILE SEQRES 15 A 440 MET SER LYS LYS TYR ALA MET GLY SER GLN TYR VAL LEU SEQRES 16 A 440 ILE ASP ILE PRO THR GLY LYS GLY VAL LYS VAL GLU THR SEQRES 17 A 440 VAL GLU GLU ALA ARG SER LEU ALA ARG ASP PHE ILE GLU SEQRES 18 A 440 LEU GLY LYS ARG LEU GLY GLN TYR VAL GLU VAL ALA ILE SEQRES 19 A 440 THR TYR GLY GLY GLN PRO ILE GLY HIS THR VAL GLY PRO SEQRES 20 A 440 ALA LEU GLU ALA ARG GLU ALA LEU SER ALA LEU MET THR SEQRES 21 A 440 GLY LYS GLY PRO GLY SER LEU ILE GLU LYS ALA THR GLY SEQRES 22 A 440 LEU ALA GLY ILE LEU LEU GLU MET GLY GLY VAL ALA PRO SEQRES 23 A 440 ALA GLY THR GLY LYS LYS MET ALA LYS GLU ILE LEU GLU SEQRES 24 A 440 SER GLY LYS ALA TRP GLU LYS MET LYS GLU ILE ILE GLU SEQRES 25 A 440 ALA GLN GLY GLY ASP PRO ASN ILE LYS PRO GLU GLU ILE SEQRES 26 A 440 PRO ILE GLY ASP LYS THR TYR THR PHE THR ALA ALA THR SEQRES 27 A 440 SER GLY TYR VAL THR ALA ILE ASP ASN ARG ALA ILE THR SEQRES 28 A 440 ALA ILE ALA ARG ALA ALA GLY ALA PRO GLU ASP LYS GLY SEQRES 29 A 440 ALA GLY ILE GLU LEU TYR VAL LYS VAL GLY GLU LYS VAL SEQRES 30 A 440 LYS GLU GLY ASP PRO LEU PHE THR ILE HIS ALA GLU HIS SEQRES 31 A 440 GLU ALA ARG LEU ASP GLN ALA ILE VAL LEU ALA ARG ARG SEQRES 32 A 440 THR GLU PRO ILE ARG ILE GLU GLY MET VAL LEU GLN ARG SEQRES 33 A 440 ILE GLY ASN ILE GLY ASN SER SER SER VAL ASP LYS LEU SEQRES 34 A 440 ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 440 MET PRO GLU SER VAL ARG TYR ILE LYS LYS LYS MET HIS SEQRES 2 B 440 GLY GLU LYS LEU ARG LYS VAL GLU ILE GLU ALA ILE VAL SEQRES 3 B 440 ARG ASP ILE VAL ASP ARG LYS LEU ARG ASP ILE GLU ILE SEQRES 4 B 440 SER SER PHE VAL THR ALA LEU GLU ILE ASN GLY LEU ASP SEQRES 5 B 440 MET ASP GLU ILE ALA ALA LEU THR ILE ALA MET ALA GLU SEQRES 6 B 440 THR GLY ASP MET LEU ASP ILE ASP ARG LYS PRO ILE MET SEQRES 7 B 440 ASP VAL HIS SER ILE GLY GLY VAL PRO GLY ASN LYS THR SEQRES 8 B 440 ASN ILE LEU VAL VAL PRO ILE VAL ALA ALA ALA GLY LEU SEQRES 9 B 440 THR ILE PRO LYS THR SER SER ARG ALA ILE THR SER ALA SEQRES 10 B 440 ALA GLY THR ALA ASP VAL VAL GLU VAL PHE ALA ASP VAL SEQRES 11 B 440 SER PHE SER LEU ASP GLU ILE LYS ARG ILE VAL GLU LYS SEQRES 12 B 440 VAL GLY ALA CYS LEU VAL TRP GLY GLY ALA LEU ASN LEU SEQRES 13 B 440 ALA PRO ALA ASP ASP ILE THR ILE LYS ALA GLU ARG ALA SEQRES 14 B 440 LEU SER ILE ASP PRO THR GLY LEU MET LEU ALA SER ILE SEQRES 15 B 440 MET SER LYS LYS TYR ALA MET GLY SER GLN TYR VAL LEU SEQRES 16 B 440 ILE ASP ILE PRO THR GLY LYS GLY VAL LYS VAL GLU THR SEQRES 17 B 440 VAL GLU GLU ALA ARG SER LEU ALA ARG ASP PHE ILE GLU SEQRES 18 B 440 LEU GLY LYS ARG LEU GLY GLN TYR VAL GLU VAL ALA ILE SEQRES 19 B 440 THR TYR GLY GLY GLN PRO ILE GLY HIS THR VAL GLY PRO SEQRES 20 B 440 ALA LEU GLU ALA ARG GLU ALA LEU SER ALA LEU MET THR SEQRES 21 B 440 GLY LYS GLY PRO GLY SER LEU ILE GLU LYS ALA THR GLY SEQRES 22 B 440 LEU ALA GLY ILE LEU LEU GLU MET GLY GLY VAL ALA PRO SEQRES 23 B 440 ALA GLY THR GLY LYS LYS MET ALA LYS GLU ILE LEU GLU SEQRES 24 B 440 SER GLY LYS ALA TRP GLU LYS MET LYS GLU ILE ILE GLU SEQRES 25 B 440 ALA GLN GLY GLY ASP PRO ASN ILE LYS PRO GLU GLU ILE SEQRES 26 B 440 PRO ILE GLY ASP LYS THR TYR THR PHE THR ALA ALA THR SEQRES 27 B 440 SER GLY TYR VAL THR ALA ILE ASP ASN ARG ALA ILE THR SEQRES 28 B 440 ALA ILE ALA ARG ALA ALA GLY ALA PRO GLU ASP LYS GLY SEQRES 29 B 440 ALA GLY ILE GLU LEU TYR VAL LYS VAL GLY GLU LYS VAL SEQRES 30 B 440 LYS GLU GLY ASP PRO LEU PHE THR ILE HIS ALA GLU HIS SEQRES 31 B 440 GLU ALA ARG LEU ASP GLN ALA ILE VAL LEU ALA ARG ARG SEQRES 32 B 440 THR GLU PRO ILE ARG ILE GLU GLY MET VAL LEU GLN ARG SEQRES 33 B 440 ILE GLY ASN ILE GLY ASN SER SER SER VAL ASP LYS LEU SEQRES 34 B 440 ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET PO4 A 601 5 HET PO4 B 601 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 2(O4 P 3-) HELIX 1 1 GLU A 86 HIS A 96 1 11 HELIX 2 2 ARG A 101 ASP A 114 1 14 HELIX 3 3 ARG A 118 GLY A 133 1 16 HELIX 4 4 ASP A 135 THR A 149 1 15 HELIX 5 5 LYS A 173 ALA A 185 1 13 HELIX 6 6 GLY A 202 ALA A 211 1 10 HELIX 7 7 SER A 216 GLY A 228 1 13 HELIX 8 8 ALA A 240 SER A 254 1 15 HELIX 9 9 PRO A 257 GLY A 273 1 17 HELIX 10 10 THR A 291 LEU A 309 1 19 HELIX 11 11 GLY A 329 GLY A 344 1 16 HELIX 12 12 PRO A 347 GLY A 366 1 20 HELIX 13 13 THR A 372 SER A 383 1 12 HELIX 14 14 GLY A 384 GLY A 398 1 15 HELIX 15 15 LYS A 404 ILE A 408 5 5 HELIX 16 16 ASP A 429 ALA A 440 1 12 HELIX 17 17 HIS A 473 GLU A 488 1 16 HELIX 18 18 GLU B 86 HIS B 96 1 11 HELIX 19 19 ARG B 101 ARG B 115 1 15 HELIX 20 20 ARG B 118 GLY B 133 1 16 HELIX 21 21 ASP B 135 THR B 149 1 15 HELIX 22 22 LYS B 173 GLY B 186 1 14 HELIX 23 23 GLY B 202 PHE B 210 1 9 HELIX 24 24 SER B 216 GLY B 228 1 13 HELIX 25 25 ALA B 240 SER B 254 1 15 HELIX 26 26 PRO B 257 MET B 272 1 16 HELIX 27 27 THR B 291 LEU B 309 1 19 HELIX 28 28 GLY B 329 GLY B 344 1 16 HELIX 29 29 PRO B 347 GLY B 366 1 20 HELIX 30 30 THR B 372 GLY B 384 1 13 HELIX 31 31 GLY B 384 GLY B 398 1 15 HELIX 32 32 LYS B 404 ILE B 408 5 5 HELIX 33 33 ASP B 429 ALA B 440 1 12 HELIX 34 34 HIS B 473 GLU B 488 1 16 SHEET 1 A 4 MET A 161 SER A 165 0 SHEET 2 A 4 TYR A 276 THR A 283 1 O ASP A 280 N HIS A 164 SHEET 3 A 4 TYR A 312 TYR A 319 1 O TYR A 312 N VAL A 277 SHEET 4 A 4 VAL B 496 ILE B 500 -1 O ILE B 500 N VAL A 315 SHEET 1 B 2 ILE A 189 SER A 193 0 SHEET 2 B 2 ALA A 229 TRP A 233 1 O CYS A 230 N LYS A 191 SHEET 1 C 4 THR A 327 VAL A 328 0 SHEET 2 C 4 GLY A 449 LEU A 452 -1 O ILE A 450 N VAL A 328 SHEET 3 C 4 PRO A 465 ALA A 471 -1 O THR A 468 N GLU A 451 SHEET 4 C 4 LYS A 413 THR A 418 -1 N TYR A 415 O ILE A 469 SHEET 1 D 3 LYS A 459 VAL A 460 0 SHEET 2 D 3 GLY A 423 ILE A 428 -1 N GLY A 423 O VAL A 460 SHEET 3 D 3 ILE A 490 GLU A 493 -1 O GLU A 493 N TYR A 424 SHEET 1 E 4 GLN A 498 ILE A 500 0 SHEET 2 E 4 TYR B 312 TYR B 319 -1 O VAL B 315 N ILE A 500 SHEET 3 E 4 TYR B 276 THR B 283 1 N THR B 283 O THR B 318 SHEET 4 E 4 MET B 161 SER B 165 1 N ASP B 162 O TYR B 276 SHEET 1 F 2 ILE B 189 SER B 193 0 SHEET 2 F 2 ALA B 229 TRP B 233 1 O VAL B 232 N SER B 193 SHEET 1 G 4 THR B 327 VAL B 328 0 SHEET 2 G 4 GLY B 449 LEU B 452 -1 O ILE B 450 N VAL B 328 SHEET 3 G 4 PRO B 465 ALA B 471 -1 O HIS B 470 N GLY B 449 SHEET 4 G 4 LYS B 413 THR B 418 -1 N TYR B 415 O ILE B 469 SHEET 1 H 3 LYS B 459 VAL B 460 0 SHEET 2 H 3 GLY B 423 ILE B 428 -1 N GLY B 423 O VAL B 460 SHEET 3 H 3 ILE B 490 GLU B 493 -1 O ARG B 491 N THR B 426 CISPEP 1 LYS A 158 PRO A 159 0 -1.54 CISPEP 2 ALA A 442 PRO A 443 0 1.88 CISPEP 3 LYS B 158 PRO B 159 0 -1.22 CISPEP 4 ALA B 442 PRO B 443 0 6.08 SITE 1 AC1 4 HIS A 164 SER A 165 ASN A 175 SER A 193 SITE 1 AC2 3 HIS B 164 SER B 165 ASN B 175 CRYST1 166.122 166.122 93.439 90.00 90.00 120.00 P 65 12 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 0.006020 0.003475 0.000000 0.00000 SCALE2 0.000000 0.006951 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010702 0.00000