HEADER NUCLEOTIDYLTRANSFERASE 12-APR-94 1BPD TITLE CRYSTAL STRUCTURE OF RAT DNA POLYMERASE BETA: EVIDENCE FOR A COMMON TITLE 2 POLYMERASE MECHANISM COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE BETA; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116 KEYWDS NUCLEOTIDYLTRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.R.SAWAYA,H.PELLETIER,A.KUMAR,S.H.WILSON,J.KRAUT REVDAT 4 07-FEB-24 1BPD 1 REMARK REVDAT 3 24-FEB-09 1BPD 1 VERSN REVDAT 2 15-OCT-94 1BPD 1 SOURCE REMARK REVDAT 1 22-JUN-94 1BPD 0 JRNL AUTH M.R.SAWAYA,H.PELLETIER,A.KUMAR,S.H.WILSON,J.KRAUT JRNL TITL CRYSTAL STRUCTURE OF RAT DNA POLYMERASE BETA: EVIDENCE FOR A JRNL TITL 2 COMMON POLYMERASE MECHANISM. JRNL REF SCIENCE V. 264 1930 1994 JRNL REFN ISSN 0036-8075 JRNL PMID 7516581 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.PELLETIER,M.R.SAWAYA,S.H.WILSON,J.KRAUT REMARK 1 TITL STRUCTURES OF TERNARY COMPLEXES OF RAT DNA POLYMERASE BETA, REMARK 1 TITL 2 A DNA TEMPLATE-PRIMER, AND DDCTP REMARK 1 REF SCIENCE V. 264 1891 1994 REMARK 1 REFN ISSN 0036-8075 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.KUMAR,S.G.WIDEN,K.R.WILLIAMS,P.KEDAR,R.L.KARPEL,S.H.WILSON REMARK 1 TITL STUDIES OF THE DOMAIN STRUCTURE OF MAMMALIAN DNA POLYMERASE REMARK 1 TITL 2 BETA. IDENTIFICATION OF A DISCRETE TEMPLATE BINDING DOMAIN REMARK 1 REF J.BIOL.CHEM. V. 265 2124 1990 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 3.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 4153 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2528 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.017 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.900 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171979. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.08300 REMARK 290 SMTRY3 2 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 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 6 REMARK 465 PRO A 7 REMARK 465 GLN A 8 REMARK 465 ASP A 246 REMARK 465 GLU A 247 REMARK 465 ASN A 248 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 PHE A 25 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 28 CG OD1 ND2 REMARK 470 SER A 55 OG REMARK 470 LYS A 60 CG CD CE NZ REMARK 470 LYS A 68 CG CD CE NZ REMARK 470 GLU A 71 CG CD OE1 OE2 REMARK 470 LYS A 72 CG CD CE NZ REMARK 470 LYS A 81 CG CD CE NZ REMARK 470 LEU A 82 CG CD1 CD2 REMARK 470 GLN A 90 CG CD OE1 NE2 REMARK 470 ASP A 92 CG OD1 OD2 REMARK 470 SER A 109 OG REMARK 470 ILE A 119 CG1 CG2 CD1 REMARK 470 GLU A 123 CG CD OE1 OE2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 LYS A 220 CG CD CE NZ REMARK 470 SER A 243 OG REMARK 470 GLU A 244 CG CD OE1 OE2 REMARK 470 ASN A 245 CG OD1 ND2 REMARK 470 LYS A 280 CG CD CE NZ REMARK 470 VAL A 303 CG1 CG2 REMARK 470 THR A 304 OG1 CG2 REMARK 470 VAL A 306 CG1 CG2 REMARK 470 ARG A 326 CG CD NE CZ NH1 NH2 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 C ILE A 150 CD PRO A 151 1.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 30 C GLN A 31 N 0.141 REMARK 500 GLU A 144 CD GLU A 144 OE1 0.071 REMARK 500 GLU A 186 CD GLU A 186 OE1 0.067 REMARK 500 GLU A 232 CD GLU A 232 OE1 0.067 REMARK 500 GLU A 295 CD GLU A 295 OE2 0.072 REMARK 500 GLU A 329 CD GLU A 329 OE1 0.068 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 ASP A 17 CB - CG - OD1 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP A 91 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 91 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 PRO A 108 C - N - CD ANGL. DEV. = -16.1 DEGREES REMARK 500 LEU A 114 CA - CB - CG ANGL. DEV. = -14.0 DEGREES REMARK 500 ASP A 116 CB - CG - OD1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 124 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG A 137 CD - NE - CZ ANGL. DEV. = 14.6 DEGREES REMARK 500 ARG A 137 NE - CZ - NH1 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 137 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = -6.4 DEGREES REMARK 500 PRO A 151 C - N - CD ANGL. DEV. = -49.6 DEGREES REMARK 500 CYS A 178 CA - CB - SG ANGL. DEV. = -12.2 DEGREES REMARK 500 ASP A 192 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 PRO A 198 C - N - CD ANGL. DEV. = -27.7 DEGREES REMARK 500 PRO A 208 C - N - CD ANGL. DEV. = -32.1 DEGREES REMARK 500 ASP A 226 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP A 226 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 253 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 263 CB - CG - OD1 ANGL. DEV. = -7.6 DEGREES REMARK 500 GLY A 274 C - N - CA ANGL. DEV. = -12.6 DEGREES REMARK 500 ASP A 276 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 PRO A 310 C - N - CA ANGL. DEV. = 10.1 DEGREES REMARK 500 PRO A 310 C - N - CD ANGL. DEV. = -23.7 DEGREES REMARK 500 ASP A 314 CB - CG - OD1 ANGL. DEV. = -6.1 DEGREES REMARK 500 ASP A 332 CB - CG - OD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 ASP A 332 CB - CG - OD2 ANGL. DEV. = 6.4 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 THR A 10 104.41 13.45 REMARK 500 SER A 30 -146.75 -114.16 REMARK 500 ALA A 32 87.90 -32.55 REMARK 500 ALA A 78 -89.63 -93.45 REMARK 500 GLU A 86 -19.56 -37.44 REMARK 500 ASP A 92 -120.02 43.75 REMARK 500 PRO A 108 -76.97 -22.23 REMARK 500 ASP A 116 -7.66 -59.95 REMARK 500 LYS A 127 -63.49 -96.85 REMARK 500 ASN A 128 26.31 -56.22 REMARK 500 LYS A 141 -17.95 -40.18 REMARK 500 PHE A 143 -53.90 -27.22 REMARK 500 PRO A 171 -7.74 -60.00 REMARK 500 THR A 176 104.03 -168.04 REMARK 500 CYS A 178 -154.55 -105.12 REMARK 500 SER A 180 -43.57 -7.84 REMARK 500 HIS A 197 119.80 -178.80 REMARK 500 PRO A 198 -29.22 -22.83 REMARK 500 PRO A 208 -64.51 -19.52 REMARK 500 LEU A 210 -76.79 -59.52 REMARK 500 ARG A 222 42.36 72.96 REMARK 500 GLN A 240 147.98 -176.44 REMARK 500 GLU A 244 -56.73 -166.89 REMARK 500 PRO A 251 -170.42 -58.90 REMARK 500 TYR A 271 -74.67 -62.87 REMARK 500 PHE A 272 -13.34 -48.47 REMARK 500 THR A 273 -72.25 -60.63 REMARK 500 SER A 275 124.52 52.17 REMARK 500 GLU A 295 -21.61 -26.71 REMARK 500 THR A 304 -0.03 87.85 REMARK 500 ALA A 307 152.64 169.39 REMARK 500 GLU A 309 65.58 144.83 REMARK 500 PRO A 310 136.44 -35.27 REMARK 500 GLN A 324 68.27 34.96 REMARK 500 TYR A 327 108.04 -46.81 REMARK 500 ASP A 332 39.89 -59.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 RESIDUE PHO IS PROBABLY PHOSPHATE OR SULFATE ANION IN REMARK 600 THE DEOXYNUCLEOSIDE TRIPHOSPHATE BINDING SITE. 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 337 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE N-TERMINAL METHIONINE IS INCLUDED IN THE GENE SEQUENCE REMARK 999 EVEN THOUGH IT IS REMOVED AFTER TRANSLATION IN THE CELL; REMARK 999 SEE MATSUKAGE ET AL., J. BIOL. CHEM. 262, 8960, (1987). REMARK 999 FOR THE AMINO ACID SEQUENCE SEE A. KUMAR ET AL., J. BIOL. REMARK 999 CHEM. 265, 2124, (1990). REMARK 999 REMARK 999 SEQUENCE ADVISORY NOTICE REMARK 999 DIFFERENCE BETWEEN SWISS-PROT AND PDB SEQUENCE. REMARK 999 REMARK 999 SWISS-PROT ENTRY NAME: DPOB_RAT REMARK 999 REMARK 999 SWISS-PROT RESIDUE PDB SEQRES REMARK 999 REMARK 999 NAME NUMBER NAME CHAIN SEQ/INSERT CODE REMARK 999 ARG 227 LEU 228 REMARK 999 REMARK 999 THE PAPER BY KUMAR, ET AL., J.BIOL.CHEM., 265, 2124, REMARK 999 (1990) REPORTS A CORRECTION TO THE SEQUENCE GIVEN IN REMARK 999 SWISS-PROT (SEE REFERENCE 3 ABOVE). DBREF 1BPD A 2 335 UNP P06766 DPOB_RAT 1 334 SEQRES 1 A 335 MET SER LYS ARG LYS ALA PRO GLN GLU THR LEU ASN GLY SEQRES 2 A 335 GLY ILE THR ASP MET LEU VAL GLU LEU ALA ASN PHE GLU SEQRES 3 A 335 LYS ASN VAL SER GLN ALA ILE HIS LYS TYR ASN ALA TYR SEQRES 4 A 335 ARG LYS ALA ALA SER VAL ILE ALA LYS TYR PRO HIS LYS SEQRES 5 A 335 ILE LYS SER GLY ALA GLU ALA LYS LYS LEU PRO GLY VAL SEQRES 6 A 335 GLY THR LYS ILE ALA GLU LYS ILE ASP GLU PHE LEU ALA SEQRES 7 A 335 THR GLY LYS LEU ARG LYS LEU GLU LYS ILE ARG GLN ASP SEQRES 8 A 335 ASP THR SER SER SER ILE ASN PHE LEU THR ARG VAL THR SEQRES 9 A 335 GLY ILE GLY PRO SER ALA ALA ARG LYS LEU VAL ASP GLU SEQRES 10 A 335 GLY ILE LYS THR LEU GLU ASP LEU ARG LYS ASN GLU ASP SEQRES 11 A 335 LYS LEU ASN HIS HIS GLN ARG ILE GLY LEU LYS TYR PHE SEQRES 12 A 335 GLU ASP PHE GLU LYS ARG ILE PRO ARG GLU GLU MET LEU SEQRES 13 A 335 GLN MET GLN ASP ILE VAL LEU ASN GLU VAL LYS LYS LEU SEQRES 14 A 335 ASP PRO GLU TYR ILE ALA THR VAL CYS GLY SER PHE ARG SEQRES 15 A 335 ARG GLY ALA GLU SER SER GLY ASP MET ASP VAL LEU LEU SEQRES 16 A 335 THR HIS PRO ASN PHE THR SER GLU SER SER LYS GLN PRO SEQRES 17 A 335 LYS LEU LEU HIS ARG VAL VAL GLU GLN LEU GLN LYS VAL SEQRES 18 A 335 ARG PHE ILE THR ASP THR LEU SER LYS GLY GLU THR LYS SEQRES 19 A 335 PHE MET GLY VAL CYS GLN LEU PRO SER GLU ASN ASP GLU SEQRES 20 A 335 ASN GLU TYR PRO HIS ARG ARG ILE ASP ILE ARG LEU ILE SEQRES 21 A 335 PRO LYS ASP GLN TYR TYR CYS GLY VAL LEU TYR PHE THR SEQRES 22 A 335 GLY SER ASP ILE PHE ASN LYS ASN MET ARG ALA HIS ALA SEQRES 23 A 335 LEU GLU LYS GLY PHE THR ILE ASN GLU TYR THR ILE ARG SEQRES 24 A 335 PRO LEU GLY VAL THR GLY VAL ALA GLY GLU PRO LEU PRO SEQRES 25 A 335 VAL ASP SER GLU GLN ASP ILE PHE ASP TYR ILE GLN TRP SEQRES 26 A 335 ARG TYR ARG GLU PRO LYS ASP ARG SER GLU HET PO4 A 337 5 HETNAM PO4 PHOSPHATE ION FORMUL 2 PO4 O4 P 3- HELIX 1 1 ASN A 12 SER A 30 1 19 HELIX 2 2 ALA A 32 TYR A 49 1 18 HELIX 3 3 SER A 55 LEU A 62 1 8 HELIX 4 4 GLY A 66 THR A 79 1 14 HELIX 5 5 LEU A 82 ASP A 91 1 10 HELIX 6 6 ASP A 92 VAL A 103 1 12 HELIX 7 7 GLY A 107 ASP A 116 1 10 HELIX 8 8 THR A 121 ARG A 126 1 6 HELIX 9 9 ASN A 128 LEU A 132 5 5 HELIX 10 10 ASN A 133 PHE A 143 1 11 HELIX 11 11 TYR A 142 GLU A 147 1 6 HELIX 12 12 PRO A 151 ASP A 170 1 20 HELIX 13 13 PRO A 208 VAL A 221 1 14 HELIX 14 14 GLN A 264 GLY A 274 1 11 HELIX 15 15 SER A 275 LYS A 289 1 15 HELIX 16 16 SER A 315 ILE A 323 1 9 SHEET 1 A 5 ILE A 174 VAL A 177 0 SHEET 2 A 5 MET A 191 THR A 196 -1 N LEU A 194 O THR A 176 SHEET 3 A 5 HIS A 252 LEU A 259 1 O ARG A 254 N MET A 191 SHEET 4 A 5 LYS A 234 GLN A 240 -1 O PHE A 235 N ILE A 257 SHEET 5 A 5 ILE A 224 LYS A 230 -1 N THR A 225 O VAL A 238 SHEET 1 B 2 PHE A 291 ASN A 294 0 SHEET 2 B 2 THR A 297 PRO A 300 -1 N THR A 297 O ASN A 294 SITE 1 AC1 3 ARG A 149 SER A 180 GLY A 189 CRYST1 39.499 68.166 75.280 90.00 91.68 90.00 P 1 21 1 2 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 0.025317 0.000000 0.000743 0.00000 SCALE2 0.000000 0.014670 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013289 0.00000