HEADER DNA BINDING PROTEIN/INHIBITOR 19-AUG-15 5DA7 TITLE MONOMERIC PCNA BOUND TO A SMALL PROTEIN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE SLIDING CLAMP 1, PROLIFERATING CELL NUCLEAR COMPND 3 ANTIGEN; COMPND 4 CHAIN: A, D; COMPND 5 SYNONYM: PROLIFERATING CELL NUCLEAR ANTIGEN HOMOLOG 1,PCNA 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: THERMOCOCCALES INHIBITOR OF PCNA; COMPND 9 CHAIN: B, E; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS (STRAIN ATCC BAA-918 SOURCE 3 / JCM 12380 / KOD1); SOURCE 4 ORGANISM_TAXID: 69014; SOURCE 5 STRAIN: ATCC BAA-918 / JCM 12380 / KOD1; SOURCE 6 GENE: PCN1, TK0535; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS (STRAIN ATCC BAA-918 SOURCE 12 / JCM 12380 / KOD1); SOURCE 13 ORGANISM_TAXID: 69014 KEYWDS COMPLEX, INHIBITOR, DNA BINDING PROTEIN-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.E.LADNER,A.S.ALTIERI,Z.KELMAN REVDAT 4 27-SEP-23 5DA7 1 JRNL REMARK REVDAT 3 10-AUG-16 5DA7 1 JRNL REVDAT 2 18-MAY-16 5DA7 1 JRNL REVDAT 1 11-MAY-16 5DA7 0 JRNL AUTH A.S.ALTIERI,J.E.LADNER,Z.LI,H.ROBINSON,Z.F.SALLMAN, JRNL AUTH 2 J.P.MARINO,Z.KELMAN JRNL TITL A SMALL PROTEIN INHIBITS PROLIFERATING CELL NUCLEAR ANTIGEN JRNL TITL 2 BY BREAKING THE DNA CLAMP. JRNL REF NUCLEIC ACIDS RES. V. 44 6232 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27141962 JRNL DOI 10.1093/NAR/GKW351 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 30681 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1544 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.9641 - 6.2153 1.00 2827 136 0.1751 0.2413 REMARK 3 2 6.2153 - 4.9405 1.00 2716 152 0.1984 0.2696 REMARK 3 3 4.9405 - 4.3180 1.00 2660 162 0.1640 0.2169 REMARK 3 4 4.3180 - 3.9242 1.00 2689 147 0.1977 0.2212 REMARK 3 5 3.9242 - 3.6434 1.00 2688 131 0.2044 0.2645 REMARK 3 6 3.6434 - 3.4289 1.00 2634 148 0.2268 0.3244 REMARK 3 7 3.4289 - 3.2574 1.00 2660 133 0.2358 0.3052 REMARK 3 8 3.2574 - 3.1158 1.00 2697 138 0.2355 0.3074 REMARK 3 9 3.1158 - 2.9960 1.00 2637 147 0.2748 0.3317 REMARK 3 10 2.9960 - 2.8927 0.98 2612 120 0.2871 0.3197 REMARK 3 11 2.8927 - 2.8023 0.88 2317 130 0.3002 0.3594 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.150 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 4644 REMARK 3 ANGLE : 1.360 6252 REMARK 3 CHIRALITY : 0.051 704 REMARK 3 PLANARITY : 0.006 794 REMARK 3 DIHEDRAL : 17.314 1780 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5DA7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212901. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : COATED MIRROR 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 : 30707 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 19.80 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.89200 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: PHASER REMARK 200 STARTING MODEL: 3LX1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: WELL SOLUTION: 1.2 M AMMONIUM SULFATE, REMARK 280 50 MM SODIUM CITRATE BUFFER, AND 10% GLYCEROL, PH 4.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: F 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z+1/2 REMARK 290 7555 -X,Y+1/2,-Z+1/2 REMARK 290 8555 X,-Y+1/2,-Z+1/2 REMARK 290 9555 X+1/2,Y,Z+1/2 REMARK 290 10555 -X+1/2,-Y,Z+1/2 REMARK 290 11555 -X+1/2,Y,-Z+1/2 REMARK 290 12555 X+1/2,-Y,-Z+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z REMARK 290 14555 -X+1/2,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y+1/2,-Z REMARK 290 16555 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 92.03950 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 165.34200 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 92.03950 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 165.34200 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 92.03950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 165.34200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 92.03950 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 165.34200 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 165.34200 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 165.34200 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 165.34200 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 165.34200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 92.03950 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 92.03950 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 92.03950 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 41.17050 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 92.03950 REMARK 290 SMTRY3 16 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 4240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -106.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E 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 GLU A 249 REMARK 465 HIS A 250 REMARK 465 HIS A 251 REMARK 465 HIS A 252 REMARK 465 HIS A 253 REMARK 465 HIS A 254 REMARK 465 HIS A 255 REMARK 465 MET D 1 REMARK 465 GLU D 249 REMARK 465 HIS D 250 REMARK 465 HIS D 251 REMARK 465 HIS D 252 REMARK 465 HIS D 253 REMARK 465 HIS D 254 REMARK 465 HIS D 255 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 ARG B 3 REMARK 465 LYS B 4 REMARK 465 LEU B 5 REMARK 465 ASP B 6 REMARK 465 GLU B 7 REMARK 465 PHE B 8 REMARK 465 ILE B 9 REMARK 465 GLY B 10 REMARK 465 ASP B 11 REMARK 465 ALA B 12 REMARK 465 THR B 13 REMARK 465 PRO B 14 REMARK 465 LYS B 15 REMARK 465 LYS B 16 REMARK 465 VAL B 17 REMARK 465 SER B 18 REMARK 465 LYS B 19 REMARK 465 GLU B 20 REMARK 465 LYS B 21 REMARK 465 PRO B 22 REMARK 465 VAL B 23 REMARK 465 ARG B 24 REMARK 465 ARG B 25 REMARK 465 LYS B 26 REMARK 465 LYS B 27 REMARK 465 GLU B 63 REMARK 465 LEU B 64 REMARK 465 MET E 1 REMARK 465 ASP E 2 REMARK 465 ARG E 3 REMARK 465 LYS E 4 REMARK 465 LEU E 5 REMARK 465 ASP E 6 REMARK 465 GLU E 7 REMARK 465 PHE E 8 REMARK 465 ILE E 9 REMARK 465 GLY E 10 REMARK 465 ASP E 11 REMARK 465 ALA E 12 REMARK 465 THR E 13 REMARK 465 PRO E 14 REMARK 465 LYS E 15 REMARK 465 LYS E 16 REMARK 465 VAL E 17 REMARK 465 SER E 18 REMARK 465 LYS E 19 REMARK 465 GLU E 20 REMARK 465 LYS E 21 REMARK 465 PRO E 22 REMARK 465 VAL E 23 REMARK 465 ARG E 24 REMARK 465 ARG E 25 REMARK 465 LYS E 26 REMARK 465 LYS E 27 REMARK 465 GLU E 63 REMARK 465 LEU E 64 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 ARG B 28 CG CD NE CZ NH1 NH2 REMARK 470 ARG E 28 CG CD NE CZ NH1 NH2 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 OE1 GLU D 216 OD2 ASP D 235 2555 1.76 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 ARG D 246 O - C - N ANGL. DEV. = 12.6 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 SER A 59 -74.83 -47.64 REMARK 500 GLU A 64 -79.65 -62.47 REMARK 500 ARG A 82 45.97 -89.58 REMARK 500 LYS A 84 175.61 -57.54 REMARK 500 THR A 106 -101.26 46.77 REMARK 500 GLU A 124 166.76 175.45 REMARK 500 LEU A 125 70.02 -152.06 REMARK 500 GLU A 127 95.08 -54.03 REMARK 500 GLU A 236 -67.51 -103.65 REMARK 500 GLU D 64 -92.51 -53.50 REMARK 500 THR D 106 -119.78 56.99 REMARK 500 GLU D 122 70.82 -103.41 REMARK 500 LEU D 123 142.05 -1.02 REMARK 500 GLU D 124 103.66 119.38 REMARK 500 SER D 197 -161.37 -124.96 REMARK 500 ARG D 234 24.99 38.11 REMARK 500 ALA B 59 112.58 70.42 REMARK 500 ARG E 57 -4.72 -39.17 REMARK 500 ALA E 59 71.49 81.43 REMARK 500 ILE E 61 -135.92 -77.16 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 GLU D 122 LEU D 123 139.83 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 E 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 E 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LX1 RELATED DB: PDB REMARK 900 3LX1 IS THE SAME PROTEIN WITHOUT THE BOUND INHIBITOR PROTEIN REMARK 900 RELATED ID: 5DAI RELATED DB: PDB DBREF 5DA7 A 1 249 UNP Q5JF32 PCNA1_THEKO 1 249 DBREF 5DA7 D 1 249 UNP Q5JF32 PCNA1_THEKO 1 249 DBREF 5DA7 B 1 64 UNP Q5JH72 Q5JH72_THEKO 1 64 DBREF 5DA7 E 1 64 UNP Q5JH72 Q5JH72_THEKO 1 64 SEQADV 5DA7 HIS A 250 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS A 251 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS A 252 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS A 253 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS A 254 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS A 255 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 250 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 251 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 252 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 253 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 254 UNP Q5JF32 EXPRESSION TAG SEQADV 5DA7 HIS D 255 UNP Q5JF32 EXPRESSION TAG SEQRES 1 A 255 MET PRO PHE GLU VAL VAL PHE ASP GLY ALA LYS GLU PHE SEQRES 2 A 255 ALA ASP LEU ILE ALA THR ALA SER ASN LEU ILE ASP GLU SEQRES 3 A 255 ALA ALA PHE LYS PHE THR GLU GLU GLY ILE SER MET ARG SEQRES 4 A 255 ALA MET ASP PRO SER ARG VAL VAL LEU ILE ASP LEU ASN SEQRES 5 A 255 LEU PRO GLU SER ILE PHE SER LYS TYR GLU VAL GLU GLU SEQRES 6 A 255 PRO GLU THR ILE GLY ILE ASN MET ASP GLN PHE LYS LYS SEQRES 7 A 255 ILE LEU LYS ARG GLY LYS ALA LYS ASP THR LEU ILE LEU SEQRES 8 A 255 ARG LYS GLY ASP GLU ASN PHE LEU GLU ILE THR PHE GLU SEQRES 9 A 255 GLY THR ALA LYS ARG THR PHE ARG LEU PRO LEU ILE ASP SEQRES 10 A 255 VAL GLU GLU LEU GLU LEU GLU LEU PRO GLU LEU PRO PHE SEQRES 11 A 255 THR ALA LYS VAL VAL LEU LEU GLY GLU VAL LEU LYS GLU SEQRES 12 A 255 GLY ILE LYS ASP ALA SER LEU VAL SER ASP ALA ILE LYS SEQRES 13 A 255 PHE ILE ALA LYS GLU ASN GLU PHE THR MET LYS ALA GLU SEQRES 14 A 255 GLY GLU THR ASN GLU VAL GLU ILE ARG LEU THR LEU GLU SEQRES 15 A 255 ASP GLU GLY LEU LEU ASP LEU GLU VAL GLU GLU GLU THR SEQRES 16 A 255 LYS SER ALA TYR GLY ILE ARG TYR LEU SER ASP MET VAL SEQRES 17 A 255 LYS GLY ILE GLY LYS ALA ASP GLU VAL ILE LEU ARG PHE SEQRES 18 A 255 GLY ASN GLU MET PRO LEU GLN MET GLU TYR MET ILE ARG SEQRES 19 A 255 ASP GLU GLY ARG LEU THR PHE LEU LEU ALA PRO ARG VAL SEQRES 20 A 255 GLU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 D 255 MET PRO PHE GLU VAL VAL PHE ASP GLY ALA LYS GLU PHE SEQRES 2 D 255 ALA ASP LEU ILE ALA THR ALA SER ASN LEU ILE ASP GLU SEQRES 3 D 255 ALA ALA PHE LYS PHE THR GLU GLU GLY ILE SER MET ARG SEQRES 4 D 255 ALA MET ASP PRO SER ARG VAL VAL LEU ILE ASP LEU ASN SEQRES 5 D 255 LEU PRO GLU SER ILE PHE SER LYS TYR GLU VAL GLU GLU SEQRES 6 D 255 PRO GLU THR ILE GLY ILE ASN MET ASP GLN PHE LYS LYS SEQRES 7 D 255 ILE LEU LYS ARG GLY LYS ALA LYS ASP THR LEU ILE LEU SEQRES 8 D 255 ARG LYS GLY ASP GLU ASN PHE LEU GLU ILE THR PHE GLU SEQRES 9 D 255 GLY THR ALA LYS ARG THR PHE ARG LEU PRO LEU ILE ASP SEQRES 10 D 255 VAL GLU GLU LEU GLU LEU GLU LEU PRO GLU LEU PRO PHE SEQRES 11 D 255 THR ALA LYS VAL VAL LEU LEU GLY GLU VAL LEU LYS GLU SEQRES 12 D 255 GLY ILE LYS ASP ALA SER LEU VAL SER ASP ALA ILE LYS SEQRES 13 D 255 PHE ILE ALA LYS GLU ASN GLU PHE THR MET LYS ALA GLU SEQRES 14 D 255 GLY GLU THR ASN GLU VAL GLU ILE ARG LEU THR LEU GLU SEQRES 15 D 255 ASP GLU GLY LEU LEU ASP LEU GLU VAL GLU GLU GLU THR SEQRES 16 D 255 LYS SER ALA TYR GLY ILE ARG TYR LEU SER ASP MET VAL SEQRES 17 D 255 LYS GLY ILE GLY LYS ALA ASP GLU VAL ILE LEU ARG PHE SEQRES 18 D 255 GLY ASN GLU MET PRO LEU GLN MET GLU TYR MET ILE ARG SEQRES 19 D 255 ASP GLU GLY ARG LEU THR PHE LEU LEU ALA PRO ARG VAL SEQRES 20 D 255 GLU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 64 MET ASP ARG LYS LEU ASP GLU PHE ILE GLY ASP ALA THR SEQRES 2 B 64 PRO LYS LYS VAL SER LYS GLU LYS PRO VAL ARG ARG LYS SEQRES 3 B 64 LYS ARG LEU LYS PRO THR SER LEU ASP SER PHE LEU PRO SEQRES 4 B 64 GLU GLU HIS ILE ASN TYR PHE ARG ASP LEU ARG ILE GLY SEQRES 5 B 64 SER LYS LYS ILE ARG ASN ALA LYS ILE GLU GLU LEU SEQRES 1 E 64 MET ASP ARG LYS LEU ASP GLU PHE ILE GLY ASP ALA THR SEQRES 2 E 64 PRO LYS LYS VAL SER LYS GLU LYS PRO VAL ARG ARG LYS SEQRES 3 E 64 LYS ARG LEU LYS PRO THR SER LEU ASP SER PHE LEU PRO SEQRES 4 E 64 GLU GLU HIS ILE ASN TYR PHE ARG ASP LEU ARG ILE GLY SEQRES 5 E 64 SER LYS LYS ILE ARG ASN ALA LYS ILE GLU GLU LEU HET SO4 A 301 5 HET SO4 A 302 5 HET SO4 A 303 5 HET SO4 A 304 5 HET SO4 A 305 5 HET SO4 A 306 5 HET SO4 A 307 5 HET SO4 A 308 5 HET SO4 A 309 5 HET SO4 A 310 5 HET SO4 D 301 5 HET SO4 D 302 5 HET SO4 D 303 5 HET SO4 D 304 5 HET SO4 B 101 5 HET SO4 B 102 5 HET SO4 E 101 5 HET SO4 E 102 5 HETNAM SO4 SULFATE ION FORMUL 5 SO4 18(O4 S 2-) HELIX 1 AA1 GLY A 9 SER A 21 1 13 HELIX 2 AA2 SER A 56 PHE A 58 5 3 HELIX 3 AA3 MET A 73 LYS A 81 1 9 HELIX 4 AA4 GLY A 138 LEU A 150 1 13 HELIX 5 AA5 ILE A 201 LYS A 209 1 9 HELIX 6 AA6 GLY D 9 SER D 21 1 13 HELIX 7 AA7 SER D 56 PHE D 58 5 3 HELIX 8 AA8 MET D 73 ARG D 82 1 10 HELIX 9 AA9 GLY D 138 LEU D 150 1 13 HELIX 10 AB1 ILE D 201 VAL D 208 1 8 HELIX 11 AB2 SER B 33 PHE B 37 5 5 HELIX 12 AB3 PRO B 39 ILE B 56 1 18 HELIX 13 AB4 SER E 33 PHE E 37 5 5 HELIX 14 AB5 PRO E 39 LYS E 55 1 17 SHEET 1 AA1 5 TYR A 61 VAL A 63 0 SHEET 2 AA1 5 PHE A 3 ASP A 8 -1 N GLU A 4 O GLU A 62 SHEET 3 AA1 5 THR A 88 LYS A 93 -1 O LYS A 93 N PHE A 3 SHEET 4 AA1 5 PHE A 98 GLU A 104 -1 O GLU A 100 N ARG A 92 SHEET 5 AA1 5 ARG A 109 PRO A 114 -1 O LEU A 113 N LEU A 99 SHEET 1 AA2 9 GLU A 67 ASN A 72 0 SHEET 2 AA2 9 GLU A 26 PHE A 31 -1 N PHE A 31 O GLU A 67 SHEET 3 AA2 9 GLY A 35 MET A 41 -1 O ARG A 39 N ALA A 28 SHEET 4 AA2 9 VAL A 47 PRO A 54 -1 O LEU A 53 N ILE A 36 SHEET 5 AA2 9 GLY A 237 LEU A 243 -1 O LEU A 242 N LEU A 48 SHEET 6 AA2 9 LEU A 227 ILE A 233 -1 N MET A 229 O PHE A 241 SHEET 7 AA2 9 GLU A 216 PHE A 221 -1 N ARG A 220 O GLN A 228 SHEET 8 AA2 9 ALA A 132 LEU A 137 -1 N VAL A 134 O LEU A 219 SHEET 9 AA2 9 LEU A 186 VAL A 191 -1 O GLU A 190 N LYS A 133 SHEET 1 AA3 4 GLU A 174 LEU A 179 0 SHEET 2 AA3 4 PHE A 164 GLU A 169 -1 N PHE A 164 O LEU A 179 SHEET 3 AA3 4 ALA A 154 ALA A 159 -1 N LYS A 156 O LYS A 167 SHEET 4 AA3 4 THR A 195 GLY A 200 -1 O SER A 197 N PHE A 157 SHEET 1 AA4 2 ARG A 246 VAL A 247 0 SHEET 2 AA4 2 LYS B 30 PRO B 31 -1 O LYS B 30 N VAL A 247 SHEET 1 AA5 5 TYR D 61 VAL D 63 0 SHEET 2 AA5 5 PHE D 3 ASP D 8 -1 N GLU D 4 O GLU D 62 SHEET 3 AA5 5 THR D 88 LYS D 93 -1 O LYS D 93 N PHE D 3 SHEET 4 AA5 5 PHE D 98 GLU D 104 -1 O THR D 102 N ILE D 90 SHEET 5 AA5 5 ARG D 109 PRO D 114 -1 O ARG D 109 N PHE D 103 SHEET 1 AA6 9 GLU D 67 ASN D 72 0 SHEET 2 AA6 9 GLU D 26 PHE D 31 -1 N PHE D 31 O GLU D 67 SHEET 3 AA6 9 GLY D 35 MET D 41 -1 O SER D 37 N LYS D 30 SHEET 4 AA6 9 VAL D 47 PRO D 54 -1 O ILE D 49 N ALA D 40 SHEET 5 AA6 9 GLY D 237 LEU D 243 -1 O THR D 240 N ASP D 50 SHEET 6 AA6 9 LEU D 227 ILE D 233 -1 N LEU D 227 O LEU D 243 SHEET 7 AA6 9 GLU D 216 PHE D 221 -1 N ARG D 220 O GLN D 228 SHEET 8 AA6 9 ALA D 132 LEU D 137 -1 N VAL D 134 O LEU D 219 SHEET 9 AA6 9 LEU D 186 VAL D 191 -1 O GLU D 190 N LYS D 133 SHEET 1 AA7 4 GLU D 174 THR D 180 0 SHEET 2 AA7 4 GLU D 163 GLU D 169 -1 N ALA D 168 O VAL D 175 SHEET 3 AA7 4 ALA D 154 ALA D 159 -1 N ILE D 158 O THR D 165 SHEET 4 AA7 4 THR D 195 GLY D 200 -1 O TYR D 199 N ILE D 155 SHEET 1 AA8 2 ARG D 246 VAL D 247 0 SHEET 2 AA8 2 LYS E 30 PRO E 31 -1 O LYS E 30 N VAL D 247 SITE 1 AC1 2 ARG A 45 ARG B 47 SITE 1 AC2 4 GLY A 94 ASP A 95 GLU A 96 ARG A 112 SITE 1 AC3 3 LYS A 160 GLU A 194 LYS A 196 SITE 1 AC4 7 VAL A 46 GLY A 200 TYR A 203 ALA A 244 SITE 2 AC4 7 PRO A 245 ARG A 246 THR B 32 SITE 1 AC5 2 ASP A 117 ASP D 117 SITE 1 AC6 2 GLY A 212 LYS A 213 SITE 1 AC7 1 ASP A 117 SITE 1 AC8 5 LYS A 133 GLU A 192 GLU A 193 GLU A 194 SITE 2 AC8 5 ARG A 220 SITE 1 AC9 3 LYS A 30 GLU A 122 LEU A 123 SITE 1 AD1 2 ASP A 153 ARG A 246 SITE 1 AD2 2 ARG D 45 ARG E 47 SITE 1 AD3 4 GLY D 94 ASP D 95 GLU D 96 ARG D 112 SITE 1 AD4 3 LYS D 160 GLU D 194 LYS D 196 SITE 1 AD5 8 VAL D 46 GLY D 200 TYR D 203 ALA D 244 SITE 2 AD5 8 PRO D 245 ARG D 246 PRO E 31 THR E 32 SITE 1 AD6 3 THR B 32 SER B 33 SER B 36 SITE 1 AD7 2 ARG B 50 LYS B 54 SITE 1 AD8 3 PRO D 43 ARG E 50 LYS E 54 SITE 1 AD9 3 THR E 32 SER E 33 SER E 36 CRYST1 82.341 184.079 330.684 90.00 90.00 90.00 F 2 2 2 32 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 0.012145 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005432 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003024 0.00000