HEADER LYASE 26-SEP-07 2ZA1 TITLE CRYSTAL STRUCTURE OF OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE TITLE 2 COMPLEXED WITH OROTIDINE 5'-MONOPHOSPHATE FROM P.FALCIPARUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: OROTIDINE 5'-PHOSPHATE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.23; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_COMMON: MALARIA PARASITE P. FALCIPARUM; SOURCE 4 ORGANISM_TAXID: 5833; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PTRCHIS-TOPO KEYWDS OROTIDINE 5'-MONOPHOSPHATE DECARBOXYLASE, PLASMODIUM FALCIPARUM, KEYWDS 2 OROTIDINE 5'-MONOPHOSPHATE, LYASE, PYRIMIDINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR K.TOKUOKA,T.INOUE REVDAT 4 01-NOV-23 2ZA1 1 REMARK REVDAT 3 24-FEB-09 2ZA1 1 VERSN REVDAT 2 05-FEB-08 2ZA1 1 JRNL REVDAT 1 04-DEC-07 2ZA1 0 JRNL AUTH K.TOKUOKA,Y.KUSAKARI,S.R.KRUNGKRAI,H.MATSUMURA,Y.KAI, JRNL AUTH 2 J.KRUNGKRAI,T.HORII,T.INOUE JRNL TITL STRUCTURAL BASIS FOR THE DECARBOXYLATION OF OROTIDINE JRNL TITL 2 5'-MONOPHOSPHATE (OMP) BY PLASMODIUM FALCIPARUM OMP JRNL TITL 3 DECARBOXYLASE JRNL REF J.BIOCHEM.(TOKYO) V. 143 69 2008 JRNL REFN ISSN 0021-924X JRNL PMID 17981823 JRNL DOI 10.1093/JB/MVM193 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2228635.270 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 19268 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) : 0.210 REMARK 3 FREE R VALUE : 0.292 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1877 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2872 REMARK 3 BIN R VALUE (WORKING SET) : 0.3150 REMARK 3 BIN FREE R VALUE : 0.4390 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 312 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.025 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5109 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 118 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.92000 REMARK 3 B22 (A**2) : 2.92000 REMARK 3 B33 (A**2) : -5.83000 REMARK 3 B12 (A**2) : 8.36000 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) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.35 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) : 0.49 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.54 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.000 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 : 0.34 REMARK 3 BSOL : 49.41 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 : OMP.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 : OMP.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ZA1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1000027709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 9.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20677 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 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 (%) : 98.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33900 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2ZA2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 3000, PH 9.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 100.90000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 58.25464 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 14.73333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 100.90000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 58.25464 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.73333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 100.90000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 58.25464 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 14.73333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 116.50928 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 29.46667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 116.50928 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 29.46667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 116.50928 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 29.46667 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: 6270 ANGSTROM**2 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 GLN A 319 REMARK 465 ASN A 320 REMARK 465 MET A 321 REMARK 465 GLU A 322 REMARK 465 SER A 323 REMARK 465 ILE B 71 REMARK 465 ARG B 72 REMARK 465 GLU B 73 REMARK 465 GLN B 319 REMARK 465 ASN B 320 REMARK 465 MET B 321 REMARK 465 GLU B 322 REMARK 465 SER B 323 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 1 CG SD CE REMARK 470 ASP A 68 CG OD1 OD2 REMARK 470 ASN A 69 CG OD1 ND2 REMARK 470 ILE A 70 CG1 CG2 CD1 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 73 CG CD OE1 OE2 REMARK 470 GLU A 180 CG CD OE1 OE2 REMARK 470 ASN A 270 CG OD1 ND2 REMARK 470 TYR A 281 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 ASN A 314 CG OD1 ND2 REMARK 470 LYS A 318 CG CD CE NZ REMARK 470 MET B 1 CG SD CE REMARK 470 LYS B 34 CG CD CE NZ REMARK 470 LYS B 45 CG CD CE NZ REMARK 470 ASN B 69 CG OD1 ND2 REMARK 470 ILE B 70 CG1 CG2 CD1 REMARK 470 GLU B 74 CG CD OE1 OE2 REMARK 470 LYS B 75 CG CD CE NZ REMARK 470 SER B 76 OG REMARK 470 LYS B 96 CG CD CE NZ REMARK 470 ASN B 270 CG OD1 ND2 REMARK 470 LYS B 275 CG CD CE NZ REMARK 470 TYR B 281 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 304 CG CD CE NZ REMARK 470 ASN B 314 CG OD1 ND2 REMARK 470 LEU B 317 CG CD1 CD2 REMARK 470 LYS B 318 CG CD CE NZ 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 GLN B 232 N ASN B 234 1.86 REMARK 500 O LEU B 230 O GLN B 232 2.11 REMARK 500 O ASN A 69 N ILE A 71 2.13 REMARK 500 O LYS B 275 N LEU B 277 2.15 REMARK 500 OD1 ASP B 23 O3' OMP B 600 2.18 REMARK 500 O GLU A 74 N SER A 76 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 230 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 TYR A 285 N - CA - C ANGL. DEV. = 17.2 DEGREES REMARK 500 LEU B 129 N - CA - C ANGL. DEV. = -18.8 DEGREES REMARK 500 PRO B 257 C - N - CA ANGL. DEV. = 12.1 DEGREES REMARK 500 LEU B 277 N - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 GLY B 280 N - CA - C ANGL. DEV. = -15.6 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 ASN A 15 82.06 47.11 REMARK 500 THR A 16 146.12 170.86 REMARK 500 ASN A 35 -73.29 -54.74 REMARK 500 ASN A 39 43.56 -88.66 REMARK 500 ASN A 40 81.72 28.20 REMARK 500 TYR A 41 67.85 32.91 REMARK 500 LEU A 48 -7.67 -53.06 REMARK 500 LYS A 65 101.84 170.41 REMARK 500 ALA A 66 113.57 -12.61 REMARK 500 PRO A 67 100.34 12.53 REMARK 500 ASP A 68 160.05 60.82 REMARK 500 ILE A 70 -28.31 14.51 REMARK 500 ILE A 71 92.45 94.27 REMARK 500 ARG A 72 88.94 130.24 REMARK 500 GLU A 73 72.72 103.03 REMARK 500 GLU A 74 -55.04 107.62 REMARK 500 LYS A 75 -62.95 51.35 REMARK 500 LYS A 138 65.80 26.82 REMARK 500 ASN A 140 131.04 177.37 REMARK 500 THR A 145 -36.17 157.18 REMARK 500 GLU A 155 -63.39 -99.47 REMARK 500 GLU A 181 4.21 -176.01 REMARK 500 ASP A 198 21.12 -73.89 REMARK 500 SER A 199 13.01 -64.97 REMARK 500 ASN A 205 -0.72 -47.60 REMARK 500 LEU A 208 -58.88 -133.42 REMARK 500 ASN A 210 -16.86 79.56 REMARK 500 ASN A 229 48.74 -75.45 REMARK 500 GLU A 231 -32.98 161.01 REMARK 500 THR A 254 -71.78 -54.55 REMARK 500 ALA A 268 -41.32 132.96 REMARK 500 ASN A 270 -166.71 90.63 REMARK 500 ASP A 272 104.15 113.57 REMARK 500 HIS A 274 -47.08 -27.82 REMARK 500 LYS A 275 -132.26 -93.18 REMARK 500 HIS A 282 -179.32 -69.37 REMARK 500 LYS A 283 -174.69 142.22 REMARK 500 SER A 284 97.66 -65.07 REMARK 500 TYR A 285 -20.49 -25.77 REMARK 500 LYS A 287 -37.65 -35.82 REMARK 500 ARG A 294 -17.23 -47.76 REMARK 500 MET A 308 -59.39 -28.95 REMARK 500 ALA A 315 -71.45 -56.27 REMARK 500 LEU A 317 40.32 -75.69 REMARK 500 ALA B 13 -15.99 -44.30 REMARK 500 ILE B 14 -6.45 -156.61 REMARK 500 ASN B 15 -161.79 57.32 REMARK 500 THR B 16 142.67 65.16 REMARK 500 ASP B 23 72.30 -115.90 REMARK 500 ASN B 35 63.75 -115.52 REMARK 500 REMARK 500 THIS ENTRY HAS 92 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR B 251 0.09 SIDE CHAIN 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 OMP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OMP B 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2F84 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH PO4 ION REMARK 900 RELATED ID: 2ZA2 RELATED DB: PDB REMARK 900 THE SAME PROTEIN, APO-FORM REMARK 900 RELATED ID: 2ZA3 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH 2'-DEOXYURIDINE 5'-MONOPHOSPHATE DBREF 2ZA1 A 1 323 UNP Q8T6J6 Q8T6J6_PLAFA 1 323 DBREF 2ZA1 B 1 323 UNP Q8T6J6 Q8T6J6_PLAFA 1 323 SEQRES 1 A 323 MET GLY PHE LYS VAL LYS LEU GLU LYS ARG ARG ASN ALA SEQRES 2 A 323 ILE ASN THR CYS LEU CYS ILE GLY LEU ASP PRO ASP GLU SEQRES 3 A 323 LYS ASP ILE GLU ASN PHE MET LYS ASN GLU LYS GLU ASN SEQRES 4 A 323 ASN TYR ASN ASN ILE LYS LYS ASN LEU LYS GLU LYS TYR SEQRES 5 A 323 ILE ASN ASN VAL SER ILE LYS LYS ASP ILE LEU LEU LYS SEQRES 6 A 323 ALA PRO ASP ASN ILE ILE ARG GLU GLU LYS SER GLU GLU SEQRES 7 A 323 PHE PHE TYR PHE PHE ASN HIS PHE CYS PHE TYR ILE ILE SEQRES 8 A 323 ASN GLU THR ASN LYS TYR ALA LEU THR PHE LYS MET ASN SEQRES 9 A 323 PHE ALA PHE TYR ILE PRO TYR GLY SER VAL GLY ILE ASP SEQRES 10 A 323 VAL LEU LYS ASN VAL PHE ASP TYR LEU TYR GLU LEU ASN SEQRES 11 A 323 ILE PRO THR ILE LEU ASP MET LYS ILE ASN ASP ILE GLY SEQRES 12 A 323 ASN THR VAL LYS ASN TYR ARG LYS PHE ILE PHE GLU TYR SEQRES 13 A 323 LEU LYS SER ASP SER CYS THR VAL ASN ILE TYR MET GLY SEQRES 14 A 323 THR ASN MET LEU LYS ASP ILE CYS TYR ASP GLU GLU LYS SEQRES 15 A 323 ASN LYS TYR TYR SER ALA PHE VAL LEU VAL LYS THR THR SEQRES 16 A 323 ASN PRO ASP SER ALA ILE PHE GLN LYS ASN LEU SER LEU SEQRES 17 A 323 ASP ASN LYS GLN ALA TYR VAL ILE MET ALA GLN GLU ALA SEQRES 18 A 323 LEU ASN MET SER SER TYR LEU ASN LEU GLU GLN ASN ASN SEQRES 19 A 323 GLU PHE ILE GLY PHE VAL VAL GLY ALA ASN SER TYR ASP SEQRES 20 A 323 GLU MET ASN TYR ILE ARG THR TYR PHE PRO ASN CYS TYR SEQRES 21 A 323 ILE LEU SER PRO GLY ILE GLY ALA GLN ASN GLY ASP LEU SEQRES 22 A 323 HIS LYS THR LEU THR ASN GLY TYR HIS LYS SER TYR GLU SEQRES 23 A 323 LYS ILE LEU ILE ASN ILE GLY ARG ALA ILE THR LYS ASN SEQRES 24 A 323 PRO TYR PRO GLN LYS ALA ALA GLN MET TYR TYR ASP GLN SEQRES 25 A 323 ILE ASN ALA ILE LEU LYS GLN ASN MET GLU SER SEQRES 1 B 323 MET GLY PHE LYS VAL LYS LEU GLU LYS ARG ARG ASN ALA SEQRES 2 B 323 ILE ASN THR CYS LEU CYS ILE GLY LEU ASP PRO ASP GLU SEQRES 3 B 323 LYS ASP ILE GLU ASN PHE MET LYS ASN GLU LYS GLU ASN SEQRES 4 B 323 ASN TYR ASN ASN ILE LYS LYS ASN LEU LYS GLU LYS TYR SEQRES 5 B 323 ILE ASN ASN VAL SER ILE LYS LYS ASP ILE LEU LEU LYS SEQRES 6 B 323 ALA PRO ASP ASN ILE ILE ARG GLU GLU LYS SER GLU GLU SEQRES 7 B 323 PHE PHE TYR PHE PHE ASN HIS PHE CYS PHE TYR ILE ILE SEQRES 8 B 323 ASN GLU THR ASN LYS TYR ALA LEU THR PHE LYS MET ASN SEQRES 9 B 323 PHE ALA PHE TYR ILE PRO TYR GLY SER VAL GLY ILE ASP SEQRES 10 B 323 VAL LEU LYS ASN VAL PHE ASP TYR LEU TYR GLU LEU ASN SEQRES 11 B 323 ILE PRO THR ILE LEU ASP MET LYS ILE ASN ASP ILE GLY SEQRES 12 B 323 ASN THR VAL LYS ASN TYR ARG LYS PHE ILE PHE GLU TYR SEQRES 13 B 323 LEU LYS SER ASP SER CYS THR VAL ASN ILE TYR MET GLY SEQRES 14 B 323 THR ASN MET LEU LYS ASP ILE CYS TYR ASP GLU GLU LYS SEQRES 15 B 323 ASN LYS TYR TYR SER ALA PHE VAL LEU VAL LYS THR THR SEQRES 16 B 323 ASN PRO ASP SER ALA ILE PHE GLN LYS ASN LEU SER LEU SEQRES 17 B 323 ASP ASN LYS GLN ALA TYR VAL ILE MET ALA GLN GLU ALA SEQRES 18 B 323 LEU ASN MET SER SER TYR LEU ASN LEU GLU GLN ASN ASN SEQRES 19 B 323 GLU PHE ILE GLY PHE VAL VAL GLY ALA ASN SER TYR ASP SEQRES 20 B 323 GLU MET ASN TYR ILE ARG THR TYR PHE PRO ASN CYS TYR SEQRES 21 B 323 ILE LEU SER PRO GLY ILE GLY ALA GLN ASN GLY ASP LEU SEQRES 22 B 323 HIS LYS THR LEU THR ASN GLY TYR HIS LYS SER TYR GLU SEQRES 23 B 323 LYS ILE LEU ILE ASN ILE GLY ARG ALA ILE THR LYS ASN SEQRES 24 B 323 PRO TYR PRO GLN LYS ALA ALA GLN MET TYR TYR ASP GLN SEQRES 25 B 323 ILE ASN ALA ILE LEU LYS GLN ASN MET GLU SER HET OMP A 500 24 HET OMP B 600 24 HETNAM OMP OROTIDINE-5'-MONOPHOSPHATE FORMUL 3 OMP 2(C10 H13 N2 O11 P) FORMUL 5 HOH *118(H2 O) HELIX 1 1 GLY A 2 ASN A 15 1 14 HELIX 2 2 ASP A 25 ASN A 39 1 15 HELIX 3 3 TYR A 41 LEU A 48 1 8 HELIX 4 4 LYS A 49 VAL A 56 5 8 HELIX 5 5 LYS A 59 LEU A 64 1 6 HELIX 6 6 GLU A 77 ASN A 95 1 19 HELIX 7 7 LYS A 96 ALA A 98 5 3 HELIX 8 8 ALA A 106 TYR A 108 5 3 HELIX 9 9 SER A 113 ASN A 130 1 18 HELIX 10 10 THR A 145 GLU A 155 1 11 HELIX 11 11 ASN A 171 CYS A 177 1 7 HELIX 12 12 GLN A 212 LEU A 228 1 17 HELIX 13 13 SER A 245 PHE A 256 1 12 HELIX 14 14 LYS A 275 GLY A 280 1 6 HELIX 15 15 SER A 284 GLU A 286 5 3 HELIX 16 16 GLY A 293 LYS A 298 1 6 HELIX 17 17 TYR A 301 LEU A 317 1 17 HELIX 18 18 GLY B 2 ASN B 15 1 14 HELIX 19 19 ASP B 25 ASN B 35 1 11 HELIX 20 20 GLU B 36 ASN B 40 5 5 HELIX 21 21 TYR B 41 GLU B 50 1 10 HELIX 22 22 LYS B 51 ASN B 55 5 5 HELIX 23 23 LYS B 59 LEU B 64 1 6 HELIX 24 24 PHE B 79 ASN B 95 1 17 HELIX 25 25 LYS B 96 ALA B 98 5 3 HELIX 26 26 ALA B 106 ILE B 109 5 4 HELIX 27 27 SER B 113 LEU B 129 1 17 HELIX 28 28 ILE B 142 GLU B 155 1 14 HELIX 29 29 ILE B 166 THR B 170 5 5 HELIX 30 30 ASN B 171 CYS B 177 1 7 HELIX 31 31 ALA B 213 TYR B 227 1 15 HELIX 32 32 GLU B 231 GLU B 235 5 5 HELIX 33 33 SER B 245 PHE B 256 1 12 HELIX 34 34 SER B 284 GLU B 286 5 3 HELIX 35 35 GLY B 293 LYS B 298 1 6 HELIX 36 36 GLN B 303 ASN B 314 1 12 SHEET 1 A 9 LEU A 18 GLY A 21 0 SHEET 2 A 9 THR A 100 ASN A 104 1 O LYS A 102 N ILE A 20 SHEET 3 A 9 THR A 133 ILE A 139 1 O ASP A 136 N MET A 103 SHEET 4 A 9 SER A 161 VAL A 164 1 O SER A 161 N LEU A 135 SHEET 5 A 9 SER A 187 LYS A 193 1 O PHE A 189 N VAL A 164 SHEET 6 A 9 ILE A 237 VAL A 241 1 O GLY A 238 N ALA A 188 SHEET 7 A 9 ILE A 261 PRO A 264 1 O LEU A 262 N PHE A 239 SHEET 8 A 9 ILE A 288 ILE A 292 1 O LEU A 289 N ILE A 261 SHEET 9 A 9 LEU A 18 GLY A 21 1 N GLY A 21 O ILE A 292 SHEET 1 B 9 LEU B 18 GLY B 21 0 SHEET 2 B 9 THR B 100 ASN B 104 1 O LYS B 102 N ILE B 20 SHEET 3 B 9 THR B 133 ILE B 139 1 O ILE B 134 N MET B 103 SHEET 4 B 9 SER B 161 VAL B 164 1 O SER B 161 N LEU B 135 SHEET 5 B 9 SER B 187 LYS B 193 1 O PHE B 189 N VAL B 164 SHEET 6 B 9 ILE B 237 VAL B 241 1 O GLY B 238 N VAL B 190 SHEET 7 B 9 ILE B 261 PRO B 264 1 O LEU B 262 N PHE B 239 SHEET 8 B 9 ILE B 288 ILE B 292 1 O LEU B 289 N SER B 263 SHEET 9 B 9 LEU B 18 GLY B 21 1 N CYS B 19 O ILE B 290 SHEET 1 C 2 TYR B 178 ASP B 179 0 SHEET 2 C 2 ASN B 183 TYR B 185 -1 O LYS B 184 N ASP B 179 SHEET 1 D 2 SER B 207 LEU B 208 0 SHEET 2 D 2 LYS B 211 GLN B 212 -1 O LYS B 211 N LEU B 208 SITE 1 AC1 18 ASP A 23 LYS A 102 ASN A 104 ASP A 136 SITE 2 AC1 18 LYS A 138 THR A 194 THR A 195 PRO A 264 SITE 3 AC1 18 GLY A 267 ALA A 268 GLN A 269 ASN A 291 SITE 4 AC1 18 GLY A 293 ARG A 294 HOH A 501 HOH A 506 SITE 5 AC1 18 HOH A 564 ASP B 141 SITE 1 AC2 18 ILE A 142 ASP B 23 LYS B 102 ASN B 104 SITE 2 AC2 18 ASP B 136 THR B 194 THR B 195 VAL B 240 SITE 3 AC2 18 PRO B 264 GLY B 267 GLN B 269 ASN B 291 SITE 4 AC2 18 GLY B 293 ARG B 294 HOH B 647 HOH B 648 SITE 5 AC2 18 HOH B 651 HOH B 652 CRYST1 201.800 201.800 44.200 90.00 90.00 120.00 H 3 18 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 0.004955 0.002861 0.000000 0.00000 SCALE2 0.000000 0.005722 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022624 0.00000