HEADER REPLICATION 14-MAY-04 1T94 TITLE CRYSTAL STRUCTURE OF THE CATALYTIC CORE OF HUMAN DNA POLYMERASE KAPPA COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYMERASE (DNA DIRECTED) KAPPA; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DINB PROTEIN, POLYMERASE (DNA-DIRECTED) KAPPA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DINB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 CODON +; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX KEYWDS REPLICATION; DNA REPAIR; Y-FAMILY DNA POLYMERASE; TRANSLESION DNA KEYWDS 2 SYNTHESIS; LESION BYPASS, REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR S.N.ULJON,R.E.JOHNSON,T.A.EDWARDS,S.PRAKASH,L.PRAKASH,A.K.AGGARWAL REVDAT 4 14-FEB-24 1T94 1 REMARK REVDAT 3 31-JAN-18 1T94 1 REMARK REVDAT 2 24-FEB-09 1T94 1 VERSN REVDAT 1 31-AUG-04 1T94 0 JRNL AUTH S.N.ULJON,R.E.JOHNSON,T.A.EDWARDS,S.PRAKASH,L.PRAKASH, JRNL AUTH 2 A.K.AGGARWAL JRNL TITL CRYSTAL STRUCTURE OF THE CATALYTIC CORE OF HUMAN DNA JRNL TITL 2 POLYMERASE KAPPA. JRNL REF STRUCTURE V. 12 1395 2004 JRNL REFN ISSN 0969-2126 JRNL PMID 15296733 JRNL DOI 10.1016/J.STR.2004.05.011 REMARK 2 REMARK 2 RESOLUTION. 2.40 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 3842947.110 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.2 REMARK 3 NUMBER OF REFLECTIONS : 71651 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) : 0.246 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3529 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 10070 REMARK 3 BIN R VALUE (WORKING SET) : 0.3300 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 501 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6172 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.97000 REMARK 3 B22 (A**2) : 5.15000 REMARK 3 B33 (A**2) : 3.82000 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) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.40 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) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.43 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.130 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) : 1.310 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.240 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.910 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.33 REMARK 3 BSOL : 38.87 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 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1T94 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1000022466. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-03; 30-JUN-03 REMARK 200 TEMPERATURE (KELVIN) : 110; NULL REMARK 200 PH : 7.75 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 14-ID-B; 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.12709; 0.97934, 0.97920, REMARK 200 0.96859 REMARK 200 MONOCHROMATOR : DIAMOND (111) DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR; SI 111 / SI 220 REMARK 200 OPTICS : DIAMOND (111) DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR; BENT CYLINDRICAL REMARK 200 SI-MIRROR (RH COATING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76925 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.43600 REMARK 200 R SYM FOR SHELL (I) : 0.01900 REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% PEG 8K, 8% ETHYLENE GLYCOL, AND REMARK 280 100MM HEPES (PH 7.75), VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 20K, TEMPERATURE 293.0K 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 42.60450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.60250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.73000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.60250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.60450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.73000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 68 REMARK 465 GLN A 69 REMARK 465 GLN A 70 REMARK 465 GLY A 226 REMARK 465 SER A 227 REMARK 465 SER A 228 REMARK 465 GLU A 254 REMARK 465 GLU A 255 REMARK 465 SER A 256 REMARK 465 PRO A 257 REMARK 465 SER A 258 REMARK 465 ASP A 259 REMARK 465 VAL A 260 REMARK 465 GLN A 261 REMARK 465 PRO A 262 REMARK 465 PRO A 263 REMARK 465 GLY A 264 REMARK 465 ASP A 265 REMARK 465 PRO A 266 REMARK 465 PHE A 267 REMARK 465 GLN A 268 REMARK 465 VAL A 269 REMARK 465 ASN A 270 REMARK 465 PHE A 271 REMARK 465 GLU A 272 REMARK 465 GLU A 273 REMARK 465 GLN A 274 REMARK 465 ASN A 275 REMARK 465 THR A 408 REMARK 465 ARG A 409 REMARK 465 ASP A 410 REMARK 465 GLU A 412 REMARK 465 ARG A 413 REMARK 465 LYS A 448 REMARK 465 GLU A 449 REMARK 465 ARG A 450 REMARK 465 THR A 473 REMARK 465 ALA A 481 REMARK 465 GLU A 482 REMARK 465 PHE A 516 REMARK 465 PRO A 517 REMARK 465 ASN A 518 REMARK 465 GLU A 519 REMARK 465 GLU A 520 REMARK 465 ASP A 521 REMARK 465 ARG A 522 REMARK 465 LYS A 523 REMARK 465 HIS A 524 REMARK 465 GLN A 525 REMARK 465 GLN A 526 REMARK 465 MET B 68 REMARK 465 GLN B 69 REMARK 465 GLN B 70 REMARK 465 LYS B 71 REMARK 465 ALA B 72 REMARK 465 GLN B 73 REMARK 465 ILE B 74 REMARK 465 MET B 225 REMARK 465 GLY B 226 REMARK 465 SER B 227 REMARK 465 SER B 228 REMARK 465 VAL B 229 REMARK 465 GLU B 230 REMARK 465 ASN B 231 REMARK 465 ASP B 232 REMARK 465 ASN B 233 REMARK 465 PRO B 234 REMARK 465 GLY B 235 REMARK 465 LYS B 236 REMARK 465 GLU B 237 REMARK 465 VAL B 238 REMARK 465 ASN B 239 REMARK 465 LYS B 240 REMARK 465 LEU B 241 REMARK 465 SER B 242 REMARK 465 GLU B 243 REMARK 465 HIS B 244 REMARK 465 GLU B 245 REMARK 465 ARG B 246 REMARK 465 SER B 247 REMARK 465 ILE B 248 REMARK 465 SER B 249 REMARK 465 PRO B 250 REMARK 465 LEU B 251 REMARK 465 LEU B 252 REMARK 465 PHE B 253 REMARK 465 GLU B 254 REMARK 465 GLU B 255 REMARK 465 SER B 256 REMARK 465 PRO B 257 REMARK 465 SER B 258 REMARK 465 ASP B 259 REMARK 465 VAL B 260 REMARK 465 GLN B 261 REMARK 465 PRO B 262 REMARK 465 PRO B 263 REMARK 465 GLY B 264 REMARK 465 ASP B 265 REMARK 465 PRO B 266 REMARK 465 PHE B 267 REMARK 465 GLN B 268 REMARK 465 VAL B 269 REMARK 465 ASN B 270 REMARK 465 PHE B 271 REMARK 465 GLU B 272 REMARK 465 GLU B 273 REMARK 465 GLN B 274 REMARK 465 ASN B 275 REMARK 465 ASN B 276 REMARK 465 PRO B 277 REMARK 465 GLN B 278 REMARK 465 ILE B 279 REMARK 465 LEU B 280 REMARK 465 ASP B 410 REMARK 465 GLY B 411 REMARK 465 GLU B 412 REMARK 465 VAL B 474 REMARK 465 SER B 475 REMARK 465 ASN B 518 REMARK 465 GLU B 519 REMARK 465 GLU B 520 REMARK 465 ASP B 521 REMARK 465 ARG B 522 REMARK 465 LYS B 523 REMARK 465 HIS B 524 REMARK 465 GLN B 525 REMARK 465 GLN B 526 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 GLN A 77 CG CD OE1 NE2 REMARK 470 ARG A 80 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 81 CG CD CE NZ REMARK 470 LYS A 124 CG CD CE NZ REMARK 470 LYS A 179 CG CD CE NZ REMARK 470 LYS A 347 CG CD CE NZ REMARK 470 LYS A 359 CG CD CE NZ REMARK 470 LYS A 414 CG CD CE NZ REMARK 470 ASP A 445 CG OD1 OD2 REMARK 470 LEU A 451 CG CD1 CD2 REMARK 470 LYS A 452 CG CD CE NZ REMARK 470 ARG A 454 CG CD NE CZ NH1 NH2 REMARK 470 THR A 455 OG1 CG2 REMARK 470 VAL A 474 CG1 CG2 REMARK 470 SER A 475 OG REMARK 470 SER A 476 OG REMARK 470 VAL A 477 CG1 CG2 REMARK 470 VAL A 478 CG1 CG2 REMARK 470 SER A 479 OG REMARK 470 THR A 480 OG1 CG2 REMARK 470 PHE A 500 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ILE A 513 CG1 CG2 CD1 REMARK 470 SER A 514 OG REMARK 470 SER A 515 OG REMARK 470 GLN B 78 CG CD OE1 NE2 REMARK 470 SER B 134 OG REMARK 470 ARG B 145 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 353 CG CD CE NZ REMARK 470 LYS B 359 CG CD CE NZ REMARK 470 LYS B 363 CG CD CE NZ REMARK 470 LEU B 368 CG CD1 CD2 REMARK 470 LYS B 414 CG CD CE NZ REMARK 470 LEU B 446 CG CD1 CD2 REMARK 470 ARG B 450 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 451 CG CD1 CD2 REMARK 470 LYS B 452 CG CD CE NZ REMARK 470 ARG B 454 CG CD NE CZ NH1 NH2 REMARK 470 SER B 476 OG REMARK 470 VAL B 477 CG1 CG2 REMARK 470 VAL B 478 CG1 CG2 REMARK 470 SER B 479 OG REMARK 470 THR B 480 OG1 CG2 REMARK 470 GLU B 482 CG CD OE1 OE2 REMARK 470 GLU B 483 CG CD OE1 OE2 REMARK 470 ILE B 484 CG1 CG2 CD1 REMARK 470 SER B 514 OG REMARK 470 SER B 515 OG 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 GLU A 389 CD GLU A 389 OE2 0.080 REMARK 500 THR A 455 N THR A 455 CA 0.127 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 ASN A 231 C - N - CA ANGL. DEV. = 16.2 DEGREES REMARK 500 LEU A 451 N - CA - C ANGL. DEV. = 19.6 DEGREES REMARK 500 LYS A 452 N - CA - C ANGL. DEV. = 18.0 DEGREES REMARK 500 SER A 475 N - CA - C ANGL. DEV. = 21.6 DEGREES REMARK 500 GLU B 449 N - CA - C ANGL. DEV. = -17.8 DEGREES REMARK 500 PRO B 517 C - N - CD ANGL. DEV. = -30.7 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 SER A 76 50.50 -67.11 REMARK 500 GLN A 77 -64.75 -151.86 REMARK 500 PHE A 111 -75.98 -32.83 REMARK 500 ASN A 170 81.39 -155.02 REMARK 500 ASP A 189 99.80 -160.50 REMARK 500 SER A 196 -159.49 -161.15 REMARK 500 ARG A 219 31.45 -140.94 REMARK 500 ARG A 246 -77.51 -46.37 REMARK 500 THR A 306 -8.30 80.42 REMARK 500 ASN A 327 48.24 -99.88 REMARK 500 LYS A 328 -118.03 -20.28 REMARK 500 PRO A 329 110.83 -34.78 REMARK 500 PRO A 337 33.06 -57.46 REMARK 500 ILE A 371 -62.71 -122.82 REMARK 500 GLN A 379 30.10 -92.40 REMARK 500 GLU A 419 127.41 178.78 REMARK 500 GLU A 424 125.84 -36.08 REMARK 500 LEU A 442 37.52 -86.12 REMARK 500 GLN A 444 72.77 -53.89 REMARK 500 ASP A 445 -99.72 -71.52 REMARK 500 LEU A 446 4.37 58.35 REMARK 500 LYS A 452 -96.74 162.87 REMARK 500 ARG A 454 -169.63 3.81 REMARK 500 THR A 455 92.20 -10.70 REMARK 500 SER A 475 153.10 114.33 REMARK 500 VAL A 478 147.76 -20.29 REMARK 500 SER A 479 162.65 172.67 REMARK 500 ALA A 498 116.13 -178.05 REMARK 500 PHE A 500 -34.83 -30.11 REMARK 500 SER A 514 -20.96 -147.20 REMARK 500 ALA B 110 45.99 38.45 REMARK 500 PHE B 111 -63.78 -28.78 REMARK 500 ASN B 120 74.16 -114.06 REMARK 500 MET B 135 127.20 178.28 REMARK 500 ARG B 219 35.88 -145.27 REMARK 500 THR B 305 -147.88 -101.50 REMARK 500 THR B 306 11.50 -148.81 REMARK 500 PRO B 329 -115.97 -63.37 REMARK 500 ASN B 330 71.61 -44.91 REMARK 500 LEU B 336 142.94 -38.16 REMARK 500 PRO B 337 61.05 -64.27 REMARK 500 ASP B 348 56.24 -101.04 REMARK 500 GLU B 424 131.53 -21.85 REMARK 500 GLU B 441 12.23 -69.98 REMARK 500 GLN B 447 37.67 -91.92 REMARK 500 LEU B 451 72.89 27.33 REMARK 500 PHE B 465 15.31 88.93 REMARK 500 VAL B 477 100.30 95.19 REMARK 500 PRO B 503 -132.58 -50.10 REMARK 500 LEU B 504 106.44 -166.96 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 474 SER A 475 149.10 REMARK 500 REMARK 500 REMARK: NULL DBREF 1T94 A 68 526 UNP Q9UBT6 POLK_HUMAN 68 526 DBREF 1T94 B 68 526 UNP Q9UBT6 POLK_HUMAN 68 526 SEQRES 1 A 459 MET GLN GLN LYS ALA GLN ILE THR SER GLN GLN LEU ARG SEQRES 2 A 459 LYS ALA GLN LEU GLN VAL ASP ARG PHE ALA MET GLU LEU SEQRES 3 A 459 GLU GLN SER ARG ASN LEU SER ASN THR ILE VAL HIS ILE SEQRES 4 A 459 ASP MET ASP ALA PHE TYR ALA ALA VAL GLU MET ARG ASP SEQRES 5 A 459 ASN PRO GLU LEU LYS ASP LYS PRO ILE ALA VAL GLY SER SEQRES 6 A 459 MET SER MET LEU SER THR SER ASN TYR HIS ALA ARG ARG SEQRES 7 A 459 PHE GLY VAL ARG ALA ALA MET PRO GLY PHE ILE ALA LYS SEQRES 8 A 459 ARG LEU CYS PRO GLN LEU ILE ILE VAL PRO PRO ASN PHE SEQRES 9 A 459 ASP LYS TYR ARG ALA VAL SER LYS GLU VAL LYS GLU ILE SEQRES 10 A 459 LEU ALA ASP TYR ASP PRO ASN PHE MET ALA MET SER LEU SEQRES 11 A 459 ASP GLU ALA TYR LEU ASN ILE THR LYS HIS LEU GLU GLU SEQRES 12 A 459 ARG GLN ASN TRP PRO GLU ASP LYS ARG ARG TYR PHE ILE SEQRES 13 A 459 LYS MET GLY SER SER VAL GLU ASN ASP ASN PRO GLY LYS SEQRES 14 A 459 GLU VAL ASN LYS LEU SER GLU HIS GLU ARG SER ILE SER SEQRES 15 A 459 PRO LEU LEU PHE GLU GLU SER PRO SER ASP VAL GLN PRO SEQRES 16 A 459 PRO GLY ASP PRO PHE GLN VAL ASN PHE GLU GLU GLN ASN SEQRES 17 A 459 ASN PRO GLN ILE LEU GLN ASN SER VAL VAL PHE GLY THR SEQRES 18 A 459 SER ALA GLN GLU VAL VAL LYS GLU ILE ARG PHE ARG ILE SEQRES 19 A 459 GLU GLN LYS THR THR LEU THR ALA SER ALA GLY ILE ALA SEQRES 20 A 459 PRO ASN THR MET LEU ALA LYS VAL CYS SER ASP LYS ASN SEQRES 21 A 459 LYS PRO ASN GLY GLN TYR GLN ILE LEU PRO ASN ARG GLN SEQRES 22 A 459 ALA VAL MET ASP PHE ILE LYS ASP LEU PRO ILE ARG LYS SEQRES 23 A 459 VAL SER GLY ILE GLY LYS VAL THR GLU LYS MET LEU LYS SEQRES 24 A 459 ALA LEU GLY ILE ILE THR CYS THR GLU LEU TYR GLN GLN SEQRES 25 A 459 ARG ALA LEU LEU SER LEU LEU PHE SER GLU THR SER TRP SEQRES 26 A 459 HIS TYR PHE LEU HIS ILE SER LEU GLY LEU GLY SER THR SEQRES 27 A 459 HIS LEU THR ARG ASP GLY GLU ARG LYS SER MET SER VAL SEQRES 28 A 459 GLU ARG THR PHE SER GLU ILE ASN LYS ALA GLU GLU GLN SEQRES 29 A 459 TYR SER LEU CYS GLN GLU LEU CYS SER GLU LEU ALA GLN SEQRES 30 A 459 ASP LEU GLN LYS GLU ARG LEU LYS GLY ARG THR VAL THR SEQRES 31 A 459 ILE LYS LEU LYS ASN VAL ASN PHE GLU VAL LYS THR ARG SEQRES 32 A 459 ALA SER THR VAL SER SER VAL VAL SER THR ALA GLU GLU SEQRES 33 A 459 ILE PHE ALA ILE ALA LYS GLU LEU LEU LYS THR GLU ILE SEQRES 34 A 459 ASP ALA ASP PHE PRO HIS PRO LEU ARG LEU ARG LEU MET SEQRES 35 A 459 GLY VAL ARG ILE SER SER PHE PRO ASN GLU GLU ASP ARG SEQRES 36 A 459 LYS HIS GLN GLN SEQRES 1 B 459 MET GLN GLN LYS ALA GLN ILE THR SER GLN GLN LEU ARG SEQRES 2 B 459 LYS ALA GLN LEU GLN VAL ASP ARG PHE ALA MET GLU LEU SEQRES 3 B 459 GLU GLN SER ARG ASN LEU SER ASN THR ILE VAL HIS ILE SEQRES 4 B 459 ASP MET ASP ALA PHE TYR ALA ALA VAL GLU MET ARG ASP SEQRES 5 B 459 ASN PRO GLU LEU LYS ASP LYS PRO ILE ALA VAL GLY SER SEQRES 6 B 459 MET SER MET LEU SER THR SER ASN TYR HIS ALA ARG ARG SEQRES 7 B 459 PHE GLY VAL ARG ALA ALA MET PRO GLY PHE ILE ALA LYS SEQRES 8 B 459 ARG LEU CYS PRO GLN LEU ILE ILE VAL PRO PRO ASN PHE SEQRES 9 B 459 ASP LYS TYR ARG ALA VAL SER LYS GLU VAL LYS GLU ILE SEQRES 10 B 459 LEU ALA ASP TYR ASP PRO ASN PHE MET ALA MET SER LEU SEQRES 11 B 459 ASP GLU ALA TYR LEU ASN ILE THR LYS HIS LEU GLU GLU SEQRES 12 B 459 ARG GLN ASN TRP PRO GLU ASP LYS ARG ARG TYR PHE ILE SEQRES 13 B 459 LYS MET GLY SER SER VAL GLU ASN ASP ASN PRO GLY LYS SEQRES 14 B 459 GLU VAL ASN LYS LEU SER GLU HIS GLU ARG SER ILE SER SEQRES 15 B 459 PRO LEU LEU PHE GLU GLU SER PRO SER ASP VAL GLN PRO SEQRES 16 B 459 PRO GLY ASP PRO PHE GLN VAL ASN PHE GLU GLU GLN ASN SEQRES 17 B 459 ASN PRO GLN ILE LEU GLN ASN SER VAL VAL PHE GLY THR SEQRES 18 B 459 SER ALA GLN GLU VAL VAL LYS GLU ILE ARG PHE ARG ILE SEQRES 19 B 459 GLU GLN LYS THR THR LEU THR ALA SER ALA GLY ILE ALA SEQRES 20 B 459 PRO ASN THR MET LEU ALA LYS VAL CYS SER ASP LYS ASN SEQRES 21 B 459 LYS PRO ASN GLY GLN TYR GLN ILE LEU PRO ASN ARG GLN SEQRES 22 B 459 ALA VAL MET ASP PHE ILE LYS ASP LEU PRO ILE ARG LYS SEQRES 23 B 459 VAL SER GLY ILE GLY LYS VAL THR GLU LYS MET LEU LYS SEQRES 24 B 459 ALA LEU GLY ILE ILE THR CYS THR GLU LEU TYR GLN GLN SEQRES 25 B 459 ARG ALA LEU LEU SER LEU LEU PHE SER GLU THR SER TRP SEQRES 26 B 459 HIS TYR PHE LEU HIS ILE SER LEU GLY LEU GLY SER THR SEQRES 27 B 459 HIS LEU THR ARG ASP GLY GLU ARG LYS SER MET SER VAL SEQRES 28 B 459 GLU ARG THR PHE SER GLU ILE ASN LYS ALA GLU GLU GLN SEQRES 29 B 459 TYR SER LEU CYS GLN GLU LEU CYS SER GLU LEU ALA GLN SEQRES 30 B 459 ASP LEU GLN LYS GLU ARG LEU LYS GLY ARG THR VAL THR SEQRES 31 B 459 ILE LYS LEU LYS ASN VAL ASN PHE GLU VAL LYS THR ARG SEQRES 32 B 459 ALA SER THR VAL SER SER VAL VAL SER THR ALA GLU GLU SEQRES 33 B 459 ILE PHE ALA ILE ALA LYS GLU LEU LEU LYS THR GLU ILE SEQRES 34 B 459 ASP ALA ASP PHE PRO HIS PRO LEU ARG LEU ARG LEU MET SEQRES 35 B 459 GLY VAL ARG ILE SER SER PHE PRO ASN GLU GLU ASP ARG SEQRES 36 B 459 LYS HIS GLN GLN FORMUL 3 HOH *360(H2 O) HELIX 1 1 GLN A 77 GLN A 95 1 19 HELIX 2 2 ALA A 110 ASN A 120 1 11 HELIX 3 3 PRO A 121 LYS A 124 5 4 HELIX 4 4 ASN A 140 PHE A 146 1 7 HELIX 5 5 PRO A 153 CYS A 161 1 9 HELIX 6 6 ASN A 170 ASP A 189 1 20 HELIX 7 7 ILE A 204 GLN A 212 1 9 HELIX 8 8 ASN A 213 TRP A 214 5 2 HELIX 9 9 PRO A 215 LYS A 218 5 4 HELIX 10 10 GLY A 235 SER A 242 5 8 HELIX 11 11 ILE A 248 LEU A 252 5 5 HELIX 12 12 SER A 289 THR A 306 1 18 HELIX 13 13 ASN A 316 ASN A 327 1 12 HELIX 14 14 ASN A 338 LYS A 347 1 10 HELIX 15 15 PRO A 350 VAL A 354 5 5 HELIX 16 16 GLY A 358 LEU A 368 1 11 HELIX 17 17 THR A 372 GLN A 379 1 8 HELIX 18 18 GLN A 379 PHE A 387 1 9 HELIX 19 19 SER A 388 LEU A 400 1 13 HELIX 20 20 LYS A 427 SER A 440 1 14 HELIX 21 21 GLU A 483 ASP A 497 1 15 HELIX 22 22 THR B 75 SER B 96 1 22 HELIX 23 23 ALA B 110 ASN B 120 1 11 HELIX 24 24 PRO B 121 LYS B 124 5 4 HELIX 25 25 ASN B 140 ARG B 145 1 6 HELIX 26 26 PRO B 153 CYS B 161 1 9 HELIX 27 27 ASN B 170 ALA B 186 1 17 HELIX 28 28 ILE B 204 GLN B 212 1 9 HELIX 29 29 ASN B 213 TRP B 214 5 2 HELIX 30 30 PRO B 215 LYS B 218 5 4 HELIX 31 31 SER B 289 THR B 305 1 17 HELIX 32 32 ASN B 316 SER B 324 1 9 HELIX 33 33 ASN B 338 ASP B 348 1 11 HELIX 34 34 LEU B 349 LEU B 349 5 1 HELIX 35 35 PRO B 350 VAL B 354 5 5 HELIX 36 36 GLY B 358 LYS B 366 1 9 HELIX 37 37 ALA B 367 GLY B 369 5 3 HELIX 38 38 THR B 372 GLN B 379 1 8 HELIX 39 39 GLN B 379 PHE B 387 1 9 HELIX 40 40 SER B 388 LEU B 400 1 13 HELIX 41 41 LYS B 427 GLN B 447 1 21 HELIX 42 42 ILE B 487 ASP B 499 1 13 SHEET 1 A 5 MET A 193 ALA A 194 0 SHEET 2 A 5 GLU A 199 ASN A 203 -1 O TYR A 201 N MET A 193 SHEET 3 A 5 ILE A 103 MET A 108 -1 N ILE A 106 O ALA A 200 SHEET 4 A 5 ALA A 309 ALA A 314 -1 O SER A 310 N ASP A 107 SHEET 5 A 5 GLN A 332 GLN A 334 1 O TYR A 333 N ILE A 313 SHEET 1 B 3 LEU A 136 SER A 139 0 SHEET 2 B 3 ILE A 128 GLY A 131 -1 N VAL A 130 O SER A 137 SHEET 3 B 3 ILE A 165 VAL A 167 1 O VAL A 167 N ALA A 129 SHEET 1 C 2 ARG A 220 PHE A 222 0 SHEET 2 C 2 SER A 283 VAL A 285 -1 O VAL A 284 N TYR A 221 SHEET 1 D 4 MET A 416 ILE A 425 0 SHEET 2 D 4 LEU A 506 ILE A 513 -1 O ARG A 507 N PHE A 422 SHEET 3 D 4 VAL A 456 ASN A 462 -1 N LYS A 459 O GLY A 510 SHEET 4 D 4 VAL A 467 ARG A 470 -1 O ARG A 470 N ILE A 458 SHEET 1 E 5 MET B 193 ALA B 194 0 SHEET 2 E 5 GLU B 199 ASN B 203 -1 O TYR B 201 N MET B 193 SHEET 3 E 5 ILE B 103 MET B 108 -1 N ILE B 106 O ALA B 200 SHEET 4 E 5 ALA B 309 ALA B 314 -1 O GLY B 312 N HIS B 105 SHEET 5 E 5 GLN B 332 GLN B 334 1 O TYR B 333 N ALA B 311 SHEET 1 F 3 MET B 135 SER B 139 0 SHEET 2 F 3 ILE B 128 SER B 132 -1 N VAL B 130 O SER B 137 SHEET 3 F 3 ILE B 165 VAL B 167 1 O VAL B 167 N GLY B 131 SHEET 1 G 2 ARG B 220 PHE B 222 0 SHEET 2 G 2 SER B 283 VAL B 285 -1 O VAL B 284 N TYR B 221 SHEET 1 H 4 SER B 415 ILE B 425 0 SHEET 2 H 4 LEU B 506 SER B 514 -1 O ILE B 513 N MET B 416 SHEET 3 H 4 THR B 455 ASN B 462 -1 N LYS B 461 O ARG B 507 SHEET 4 H 4 VAL B 467 SER B 472 -1 O ARG B 470 N ILE B 458 CISPEP 1 LYS B 328 PRO B 329 0 -2.84 CISPEP 2 PHE B 500 PRO B 501 0 2.97 CRYST1 85.209 109.460 111.205 90.00 90.00 90.00 P 21 21 21 8 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 0.011736 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009136 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008992 0.00000