10 20 30 40 50 60 70 80 1YYP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER REPLICATION/TRANSFERASE 25-FEB-05 1YYP
TITLE CRYSTAL STRUCTURE OF CYTOMEGALOVIRUS UL44 BOUND TO C-TERMINAL PEPTIDE TITLE 2 FROM CMV UL54
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE PROCESSIVITY FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN; COMPND 5 SYNONYM: POLYMERASE ACCESSORY PROTEIN, PAP, ICP36 PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA POLYMERASE; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: C-TERMINAL 22 RESIDUES; COMPND 11 SYNONYM: POL; COMPND 12 EC: 2.7.7.7; COMPND 13 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 5; SOURCE 3 ORGANISM_COMMON: HUMAN CYTOMEGALOVIRUS; SOURCE 4 ORGANISM_TAXID: 10359; SOURCE 5 GENE: UL44; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PDEST15; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES
KEYWDS PROCESSIVITY FOLD (SAME FOLD AS HSV UL42, PCNA, AND HOMOTRIMERIC KEYWDS 2 SLIDING CLAMPS), REPLICATION-TRANSFERASE COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR B.A.APPLETON,J.BROOKS,A LOREGIAN,D.J.FILMAN,D.M.COEN,J.M.HOGLE
REVDAT 4 13-JUL-11 1YYP 1 VERSN REVDAT 3 24-FEB-09 1YYP 1 VERSN REVDAT 2 30-MAY-06 1YYP 1 JRNL REVDAT 1 27-DEC-05 1YYP 0
JRNL AUTH B.A.APPLETON,J.BROOKS,A.LOREGIAN,D.J.FILMAN,D.M.COEN, JRNL AUTH 2 J.M.HOGLE JRNL TITL CRYSTAL STRUCTURE OF THE CYTOMEGALOVIRUS DNA POLYMERASE JRNL TITL 2 SUBUNIT UL44 IN COMPLEX WITH THE C TERMINUS FROM THE JRNL TITL 3 CATALYTIC SUBUNIT. DIFFERENCES IN STRUCTURE AND FUNCTION JRNL TITL 4 RELATIVE TO UNLIGANDED UL44. JRNL REF J.BIOL.CHEM. V. 281 5224 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16371349 JRNL DOI 10.1074/JBC.M506900200
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 TITL THE CYTOMEGALOVIRUS DNA POLYMERASE SUBUNIT UL44 FORMS A C REMARK 1 TITL 2 CLAMP-SHAPED DIMER REMARK 1 REF MOL.CELL V. 15 233 2004 REMARK 1 REFN ISSN 1097-2765 REMARK 1 REFERENCE 2 REMARK 1 TITL SPECIFIC RESIDUES IN THE CONNECTOR LOOP OF THE HUMAN REMARK 1 TITL 2 CYTOMEGALOVIRUS DNA POLYMERASE ACCESSORY PROTEIN UL44 ARE REMARK 1 TITL 3 CRUCIAL FOR INTERACTION WITH THE UL54 CATALYTIC SUBUNIT REMARK 1 REF J.VIROL. V. 78 9084 2004 REMARK 1 REFN ISSN 0022-538X REMARK 1 REFERENCE 3 REMARK 1 TITL RESIDUES OF HUMAN CYTOMEGALOVIRUS DNA POLYMERASE CATALYTIC REMARK 1 TITL 2 SUBUNIT UL54 THAT ARE NECESSARY AND SUFFICIENT FOR REMARK 1 TITL 3 INTERACTION WITH THE ACCESSORY PROTEIN UL44 REMARK 1 REF J.VIROL. V. 78 158 2004 REMARK 1 REFN ISSN 0022-538X REMARK 1 REFERENCE 4 REMARK 1 TITL PHYSICAL AND FUNCTIONAL INTERACTION OF HUMAN CYTOMEGALOVIRUS REMARK 1 TITL 2 DNA POLYMERASE AND ITS ACCESSORY PROTEIN (ICP36) EXPRESSED REMARK 1 TITL 3 IN INSECT CELLS REMARK 1 REF J.VIROL. V. 66 4126 1992 REMARK 1 REFN ISSN 0022-538X
REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.19 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 13046 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 + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 687 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.63 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1870 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 106 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2105 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 48 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 53.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.01000 REMARK 3 B22 (A**2) : -0.27000 REMARK 3 B33 (A**2) : -0.74000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.354 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.237 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.157 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.010 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2174 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2950 ; 1.880 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 266 ; 0.349 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 350 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1582 ; 0.001 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 871 ; 0.235 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 88 ; 0.125 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 42 ; 0.251 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.468 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1349 ; 3.285 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2202 ; 5.670 ; 4.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 825 ; 7.746 ; 4.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 748 ;10.784 ; 6.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 9 A 271 REMARK 3 ORIGIN FOR THE GROUP (A): 70.1423 25.0227 24.8646 REMARK 3 T TENSOR REMARK 3 T11: 0.0515 T22: 0.0738 REMARK 3 T33: 0.0187 T12: 0.0273 REMARK 3 T13: 0.0151 T23: -0.0211 REMARK 3 L TENSOR REMARK 3 L11: 3.2973 L22: 4.7507 REMARK 3 L33: 1.4820 L12: 2.6233 REMARK 3 L13: -0.2691 L23: -0.5573 REMARK 3 S TENSOR REMARK 3 S11: -0.1542 S12: 0.1009 S13: 0.0496 REMARK 3 S21: -0.0910 S22: 0.2226 S23: 0.2762 REMARK 3 S31: 0.0485 S32: -0.0723 S33: -0.0684 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1YYP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAR-05. REMARK 100 THE RCSB ID CODE IS RCSB032079.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-AUG-03 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793, 0.9794, 1.008, 0.9537 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13802 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.200 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 44.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.20300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 13.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: 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 (%): 55.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 M AMMONIUM SULFATE, 100 MM PHOSPHATE REMARK 280 -CITRATE, AND 10 MM DTT , PH 4.2, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 32.98750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 32.98750 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.89350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.79600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.89350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.79600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 32.98750 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.89350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 63.79600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 32.98750 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.89350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 63.79600 REMARK 290 SMTRY3 8 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: TETRAMERIC 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 183.57400 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 32.98750
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 ASP A 2 REMARK 465 ARG A 3 REMARK 465 LYS A 4 REMARK 465 THR A 5 REMARK 465 ARG A 6 REMARK 465 LEU A 7 REMARK 465 SER A 8 REMARK 465 HIS A 163 REMARK 465 THR A 164 REMARK 465 ARG A 165 REMARK 465 VAL A 166 REMARK 465 LYS A 167 REMARK 465 ARG A 168 REMARK 465 ASN A 169 REMARK 465 VAL A 170 REMARK 465 LYS A 171 REMARK 465 LYS A 172 REMARK 465 ALA A 173 REMARK 465 PRO A 174 REMARK 465 CYS A 175 REMARK 465 PRO A 176 REMARK 465 PHE A 272 REMARK 465 GLN A 273 REMARK 465 ARG A 274 REMARK 465 GLY A 275 REMARK 465 ASP A 276 REMARK 465 PRO A 277 REMARK 465 PHE A 278 REMARK 465 ASP A 279 REMARK 465 LYS A 280 REMARK 465 ASN A 281 REMARK 465 TYR A 282 REMARK 465 VAL A 283 REMARK 465 GLY A 284 REMARK 465 ASN A 285 REMARK 465 SER A 286 REMARK 465 GLY A 287 REMARK 465 LYS A 288 REMARK 465 SER A 289 REMARK 465 ARG A 290 REMARK 465 LEU B 1221 REMARK 465 PRO B 1222
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 140 CG CD OE1 OE2 REMARK 470 THR A 177 OG1 CG2 REMARK 470 GLU A 247 CD OE1 OE2 REMARK 470 GLU B1240 CG CD OE1 OE2
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 PRO A 85 O HOH A 425 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 444 O HOH A 444 3755 1.79 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 68 CA - CB - CG ANGL. DEV. = 15.9 DEGREES REMARK 500 ASP A 109 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP A 120 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 PHE A 121 N - CA - CB ANGL. DEV. = -11.6 DEGREES REMARK 500 ASP A 249 CB - CG - OD2 ANGL. DEV. = 6.6 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 LYS A 35 -116.85 -122.40 REMARK 500 ASN A 37 39.79 -99.59 REMARK 500 ASN A 89 99.38 -54.34 REMARK 500 PRO A 119 -70.18 -26.57 REMARK 500 GLU A 140 -71.64 -39.37 REMARK 500 ALA A 186 -76.95 -56.25 REMARK 500 ASN A 206 -167.14 -165.10 REMARK 500 HIS A 212 -75.40 -97.76 REMARK 500 HIS A 248 -124.84 -127.90 REMARK 500 ARG B1224 -94.09 20.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LEU A 17 20.2 L L OUTSIDE RANGE REMARK 500 ARG B1224 22.2 L L OUTSIDE RANGE 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 SO4 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 803
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T6L RELATED DB: PDB
REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHOR STATES THAT THE SER 205 IS INDEED CORRECT AND IT MAY REMARK 999 REPRESENT A DIFFERENT ISOLATE CYTOMEGALOVIRUS, REFERRING TO REMARK 999 ERTL PF, POWELL KL. "PHYSICAL AND FUNCTIONAL INTERACTION OF REMARK 999 HUMAN CYTOMEGALOVIRUS DNA POLYMERASE AND ITS ACCESSORY REMARK 999 PROTEIN (ICP36) EXPRESSED IN INSECT CELLS." REMARK 999 J VIROL. 1992 JUL;66(7):4126-33.
DBREF 1YYP A 1 290 UNP P16790 VPAP_HCMVA 1 290 DBREF 1YYP B 1221 1242 UNP P08546 DPOL_HCMVA 1221 1242
SEQADV 1YYP SER A 205 UNP P16790 ALA 205 SEE REMARK 999
SEQRES 1 A 290 MET ASP ARG LYS THR ARG LEU SER GLU PRO PRO THR LEU SEQRES 2 A 290 ALA LEU ARG LEU LYS PRO TYR LYS THR ALA ILE GLN GLN SEQRES 3 A 290 LEU ARG SER VAL ILE ARG ALA LEU LYS GLU ASN THR THR SEQRES 4 A 290 VAL THR PHE LEU PRO THR PRO SER LEU ILE LEU GLN THR SEQRES 5 A 290 VAL ARG SER HIS CYS VAL SER LYS ILE THR PHE ASN SER SEQRES 6 A 290 SER CYS LEU TYR ILE THR ASP LYS SER PHE GLN PRO LYS SEQRES 7 A 290 THR ILE ASN ASN SER THR PRO LEU LEU GLY ASN PHE MET SEQRES 8 A 290 TYR LEU THR SER SER LYS ASP LEU THR LYS PHE TYR VAL SEQRES 9 A 290 GLN ASP ILE SER ASP LEU SER ALA LYS ILE SER MET CYS SEQRES 10 A 290 ALA PRO ASP PHE ASN MET GLU PHE SER SER ALA CYS VAL SEQRES 11 A 290 HIS GLY GLN ASP ILE VAL ARG GLU SER GLU ASN SER ALA SEQRES 12 A 290 VAL HIS VAL ASP LEU ASP PHE GLY VAL VAL ALA ASP LEU SEQRES 13 A 290 LEU LYS TRP ILE GLY PRO HIS THR ARG VAL LYS ARG ASN SEQRES 14 A 290 VAL LYS LYS ALA PRO CYS PRO THR GLY THR VAL GLN ILE SEQRES 15 A 290 LEU VAL HIS ALA GLY PRO PRO ALA ILE LYS PHE ILE LEU SEQRES 16 A 290 THR ASN GLY SER GLU LEU GLU PHE THR SER ASN ASN ARG SEQRES 17 A 290 VAL SER PHE HIS GLY VAL LYS ASN MET ARG ILE ASN VAL SEQRES 18 A 290 GLN LEU LYS ASN PHE TYR GLN THR LEU LEU ASN CYS ALA SEQRES 19 A 290 VAL THR LYS LEU PRO CYS THR LEU ARG ILE VAL THR GLU SEQRES 20 A 290 HIS ASP THR LEU LEU TYR VAL ALA SER ARG ASN GLY LEU SEQRES 21 A 290 PHE ALA VAL GLU ASN PHE LEU THR GLU GLU PRO PHE GLN SEQRES 22 A 290 ARG GLY ASP PRO PHE ASP LYS ASN TYR VAL GLY ASN SER SEQRES 23 A 290 GLY LYS SER ARG SEQRES 1 B 22 LEU PRO ARG ARG LEU HIS LEU GLU PRO ALA PHE LEU PRO SEQRES 2 B 22 TYR SER VAL LYS ALA HIS GLU CYS CYS
HET SO4 A 701 5 HET SO4 A 702 5 HET SO4 B 703 5 HET SO4 B 704 5 HET EDO A 801 4 HET EDO A 802 4 HET EDO A 803 4
HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL
HETSYN EDO ETHYLENE GLYCOL
FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 EDO 3(C2 H6 O2) FORMUL 10 HOH *48(H2 O)
HELIX 1 1 ARG A 16 LEU A 27 1 12 HELIX 2 2 LEU A 27 ALA A 33 1 7 HELIX 3 3 PHE A 90 THR A 94 1 5 HELIX 4 4 ASP A 149 GLY A 161 1 13 HELIX 5 5 LEU A 223 VAL A 235 1 13 HELIX 6 6 GLU B 1228 PRO B 1233 5 6 HELIX 7 7 HIS B 1239 CYS B 1241 5 3
SHEET 1 A 5 LEU A 68 ILE A 70 0 SHEET 2 A 5 THR A 12 LEU A 15 -1 N ALA A 14 O TYR A 69 SHEET 3 A 5 LYS A 101 GLN A 105 -1 O VAL A 104 N LEU A 13 SHEET 4 A 5 SER A 111 ALA A 118 -1 O SER A 115 N TYR A 103 SHEET 5 A 5 PHE A 121 ALA A 128 -1 O PHE A 125 N ILE A 114 SHEET 1 B 9 LYS A 78 ASN A 81 0 SHEET 2 B 9 THR A 38 LEU A 43 -1 N PHE A 42 O LYS A 78 SHEET 3 B 9 SER A 47 ARG A 54 -1 O SER A 47 N LEU A 43 SHEET 4 B 9 CYS A 57 PHE A 63 -1 O SER A 59 N THR A 52 SHEET 5 B 9 PHE A 261 THR A 268 -1 O GLU A 264 N LYS A 60 SHEET 6 B 9 LEU A 251 ARG A 257 -1 N SER A 256 O VAL A 263 SHEET 7 B 9 CYS A 240 VAL A 245 -1 N ARG A 243 O TYR A 253 SHEET 8 B 9 VAL A 144 LEU A 148 -1 N VAL A 146 O LEU A 242 SHEET 9 B 9 VAL A 209 GLY A 213 -1 O SER A 210 N ASP A 147 SHEET 1 C 2 SER A 83 THR A 84 0 SHEET 2 C 2 GLY A 88 ASN A 89 -1 O GLY A 88 N THR A 84 SHEET 1 D 2 ASP A 134 VAL A 136 0 SHEET 2 D 2 SER B1235 LYS B1237 -1 O VAL B1236 N ILE A 135 SHEET 1 E 4 GLU A 200 THR A 204 0 SHEET 2 E 4 ALA A 190 LEU A 195 -1 N PHE A 193 O LEU A 201 SHEET 3 E 4 THR A 179 HIS A 185 -1 N LEU A 183 O LYS A 192 SHEET 4 E 4 MET A 217 GLN A 222 -1 O VAL A 221 N VAL A 180
CISPEP 1 THR A 45 PRO A 46 0 -0.06 CISPEP 2 GLY A 187 PRO A 188 0 0.05
SITE 1 AC1 5 PRO A 119 ASN A 141 HIS A 145 HIS A 212 SITE 2 AC1 5 ARG A 243 SITE 1 AC2 6 ARG A 54 SER A 55 HIS A 56 GLN A 222 SITE 2 AC2 6 ASN A 225 HOH A 416 SITE 1 AC3 4 VAL A 130 HIS A 131 GLY A 132 HIS B1239 SITE 1 AC4 2 ARG A 257 ARG B1224 SITE 1 AC5 4 GLU A 138 TYR A 253 ALA A 255 HOH A 414 SITE 1 AC6 1 LYS A 21 SITE 1 AC7 5 ASN A 81 THR A 84 SER A 127 ALA A 128 SITE 2 AC7 5 HOH A 442
CRYST1 91.787 127.592 65.975 90.00 90.00 90.00 C 2 2 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 0.010890 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007840 0.000000 0.00000
SCALE3 0.000000 0.000000 0.015160 0.00000