HEADER TRANSFERASE 02-JUL-13 4LIL TITLE CRYSTAL STRUCTURE OF THE CATALYTIC SUBUNIT OF HUMAN PRIMASE BOUND TO TITLE 2 UTP AND MN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA PRIMASE SMALL SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC SUBUNIT P48, UNP RESIDUES 1-390 (DELTA 360-379); COMPND 5 SYNONYM: DNA PRIMASE 49 KDA SUBUNIT, P49; COMPND 6 EC: 2.7.7.-; COMPND 7 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: PRIM1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PRIM FOLD, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.VAITHIYALINGAM,B.F.EICHMAN,W.J.CHAZIN REVDAT 3 28-FEB-24 4LIL 1 REMARK SEQADV LINK REVDAT 2 05-FEB-14 4LIL 1 JRNL REVDAT 1 11-DEC-13 4LIL 0 JRNL AUTH S.VAITHIYALINGAM,D.R.ARNETT,A.AGGARWAL,B.F.EICHMAN, JRNL AUTH 2 E.FANNING,W.J.CHAZIN JRNL TITL INSIGHTS INTO EUKARYOTIC PRIMER SYNTHESIS FROM STRUCTURES OF JRNL TITL 2 THE P48 SUBUNIT OF HUMAN DNA PRIMASE. JRNL REF J.MOL.BIOL. V. 426 558 2014 JRNL REFN ISSN 0022-2836 JRNL PMID 24239947 JRNL DOI 10.1016/J.JMB.2013.11.007 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 15205 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 763 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 44.7371 - 4.4449 1.00 3070 145 0.1985 0.2255 REMARK 3 2 4.4449 - 3.5285 1.00 2905 147 0.1926 0.2185 REMARK 3 3 3.5285 - 3.0826 1.00 2872 135 0.2319 0.2694 REMARK 3 4 3.0826 - 2.8008 1.00 2801 176 0.2556 0.2995 REMARK 3 5 2.8008 - 2.6001 1.00 2794 160 0.2714 0.3326 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.930 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 : 0.011 3215 REMARK 3 ANGLE : 1.327 4345 REMARK 3 CHIRALITY : 0.092 457 REMARK 3 PLANARITY : 0.006 546 REMARK 3 DIHEDRAL : 15.591 1211 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 6 THROUGH 90 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.5386 75.5897 5.8255 REMARK 3 T TENSOR REMARK 3 T11: 0.2924 T22: 0.3057 REMARK 3 T33: 0.3691 T12: -0.0696 REMARK 3 T13: -0.1122 T23: 0.1528 REMARK 3 L TENSOR REMARK 3 L11: 3.0119 L22: 2.2151 REMARK 3 L33: 3.7608 L12: -0.8300 REMARK 3 L13: -1.0567 L23: -1.0953 REMARK 3 S TENSOR REMARK 3 S11: 0.0029 S12: 0.2699 S13: 0.2763 REMARK 3 S21: 0.1977 S22: -0.2760 S23: -0.2184 REMARK 3 S31: -0.5525 S32: 0.1846 S33: 0.1497 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 91 THROUGH 189 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3596 56.7572 13.7930 REMARK 3 T TENSOR REMARK 3 T11: 0.3250 T22: 0.3131 REMARK 3 T33: 0.3349 T12: -0.0705 REMARK 3 T13: -0.1076 T23: 0.0928 REMARK 3 L TENSOR REMARK 3 L11: 1.8638 L22: 2.9870 REMARK 3 L33: 3.8549 L12: -1.0373 REMARK 3 L13: -0.1696 L23: -2.1881 REMARK 3 S TENSOR REMARK 3 S11: -0.1320 S12: 0.2435 S13: -0.0892 REMARK 3 S21: -0.0702 S22: -0.0923 S23: -0.0628 REMARK 3 S31: 0.1483 S32: 0.0315 S33: 0.1382 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 301 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4582 31.7957 22.8852 REMARK 3 T TENSOR REMARK 3 T11: 0.5212 T22: 0.3625 REMARK 3 T33: 0.5299 T12: -0.1773 REMARK 3 T13: -0.0675 T23: 0.1120 REMARK 3 L TENSOR REMARK 3 L11: 4.6298 L22: 5.0817 REMARK 3 L33: 4.3960 L12: -0.5825 REMARK 3 L13: 1.2535 L23: -1.9062 REMARK 3 S TENSOR REMARK 3 S11: -0.2255 S12: 0.1603 S13: -1.0035 REMARK 3 S21: -0.7169 S22: 0.5396 S23: 0.9423 REMARK 3 S31: 0.9192 S32: -0.5175 S33: -0.1072 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 302 THROUGH 349 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2920 60.2403 14.9325 REMARK 3 T TENSOR REMARK 3 T11: 0.3411 T22: 0.3069 REMARK 3 T33: 0.3065 T12: -0.1534 REMARK 3 T13: -0.0565 T23: 0.1123 REMARK 3 L TENSOR REMARK 3 L11: 3.6077 L22: 2.4628 REMARK 3 L33: 2.9433 L12: -2.4930 REMARK 3 L13: -0.0496 L23: -0.4839 REMARK 3 S TENSOR REMARK 3 S11: -0.0697 S12: -0.0009 S13: -0.3328 REMARK 3 S21: 0.1496 S22: -0.0404 S23: -0.1020 REMARK 3 S31: 0.2876 S32: -0.2356 S33: 0.1418 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 350 THROUGH 404 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0122 74.7172 22.6911 REMARK 3 T TENSOR REMARK 3 T11: 0.5770 T22: 0.5190 REMARK 3 T33: 0.2796 T12: -0.0323 REMARK 3 T13: -0.0811 T23: 0.0520 REMARK 3 L TENSOR REMARK 3 L11: 7.1011 L22: 1.5940 REMARK 3 L33: 0.3592 L12: -1.0528 REMARK 3 L13: 1.0200 L23: -0.9370 REMARK 3 S TENSOR REMARK 3 S11: -0.1902 S12: -1.2450 S13: 0.5571 REMARK 3 S21: 0.6923 S22: 0.1151 S23: -0.2820 REMARK 3 S31: -0.7497 S32: -0.1431 S33: 0.1078 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 4LIL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080675. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9787 REMARK 200 MONOCHROMATOR : 0.99 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15266 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.76000 REMARK 200 FOR THE DATA SET : 37.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.45400 REMARK 200 FOR SHELL : 6.100 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M K/NA TARTRATE AND 20% PEG 3350, REMARK 280 PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 74.10000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.67300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.67300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 111.15000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.67300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.67300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 37.05000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.67300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.67300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 111.15000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.67300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.67300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 37.05000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 74.10000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 THR A 3 REMARK 465 PHE A 4 REMARK 465 ASP A 5 REMARK 465 GLY A 33 REMARK 465 GLY A 34 REMARK 465 VAL A 35 REMARK 465 SER A 124 REMARK 465 ALA A 125 REMARK 465 GLY A 194 REMARK 465 GLY A 195 REMARK 465 GLN A 196 REMARK 465 ASP A 197 REMARK 465 VAL A 198 REMARK 465 ARG A 406 REMARK 465 LYS A 407 REMARK 465 GLY A 408 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 LYS A 95 CG CD CE NZ REMARK 470 LYS A 261 CG CD CE NZ REMARK 470 GLU A 270 CG CD OE1 OE2 REMARK 470 LYS A 326 CG CD CE NZ 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 TRP A 29 -73.78 -54.42 REMARK 500 LEU A 49 -163.29 -106.20 REMARK 500 LEU A 96 124.43 -32.43 REMARK 500 ARG A 162 -81.88 -145.82 REMARK 500 LYS A 284 54.09 -100.70 REMARK 500 ASN A 285 126.86 179.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 UTP A 504 REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 109 OD1 REMARK 620 2 UTP A 504 O1B 103.5 REMARK 620 3 UTP A 504 O2G 175.6 78.0 REMARK 620 4 UTP A 504 O1A 96.1 61.8 80.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 121 SG REMARK 620 2 CYS A 122 SG 105.3 REMARK 620 3 CYS A 128 SG 104.1 93.9 REMARK 620 4 CYS A 131 SG 114.1 120.0 116.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UTP A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LIK RELATED DB: PDB REMARK 900 CATALYTIC SUBUNIT OF HUMAN PRIMASE REMARK 900 RELATED ID: 4LIM RELATED DB: PDB REMARK 900 CATALYTIC SUBUNIT OF HUMAN PRIMASE BOUND TO ZN DBREF 4LIL A 1 408 UNP P49642 PRI1_HUMAN 1 408 SEQADV 4LIL GLY A -3 UNP P49642 EXPRESSION TAG SEQADV 4LIL PRO A -2 UNP P49642 EXPRESSION TAG SEQADV 4LIL GLY A -1 UNP P49642 EXPRESSION TAG SEQADV 4LIL SER A 0 UNP P49642 EXPRESSION TAG SEQADV 4LIL A UNP P49642 ILE 360 DELETION SEQADV 4LIL A UNP P49642 SER 361 DELETION SEQADV 4LIL A UNP P49642 THR 362 DELETION SEQADV 4LIL A UNP P49642 ASN 363 DELETION SEQADV 4LIL A UNP P49642 GLU 364 DELETION SEQADV 4LIL A UNP P49642 GLU 365 DELETION SEQADV 4LIL A UNP P49642 GLU 366 DELETION SEQADV 4LIL A UNP P49642 LYS 367 DELETION SEQADV 4LIL A UNP P49642 GLU 368 DELETION SEQADV 4LIL A UNP P49642 GLU 369 DELETION SEQADV 4LIL A UNP P49642 ASN 370 DELETION SEQADV 4LIL A UNP P49642 GLU 371 DELETION SEQADV 4LIL A UNP P49642 ALA 372 DELETION SEQADV 4LIL A UNP P49642 GLU 373 DELETION SEQADV 4LIL A UNP P49642 SER 374 DELETION SEQADV 4LIL A UNP P49642 ASP 375 DELETION SEQADV 4LIL A UNP P49642 VAL 376 DELETION SEQADV 4LIL A UNP P49642 LYS 377 DELETION SEQADV 4LIL A UNP P49642 HIS 378 DELETION SEQADV 4LIL A UNP P49642 ARG 379 DELETION SEQRES 1 A 392 GLY PRO GLY SER MET GLU THR PHE ASP PRO THR GLU LEU SEQRES 2 A 392 PRO GLU LEU LEU LYS LEU TYR TYR ARG ARG LEU PHE PRO SEQRES 3 A 392 TYR SER GLN TYR TYR ARG TRP LEU ASN TYR GLY GLY VAL SEQRES 4 A 392 ILE LYS ASN TYR PHE GLN HIS ARG GLU PHE SER PHE THR SEQRES 5 A 392 LEU LYS ASP ASP ILE TYR ILE ARG TYR GLN SER PHE ASN SEQRES 6 A 392 ASN GLN SER ASP LEU GLU LYS GLU MET GLN LYS MET ASN SEQRES 7 A 392 PRO TYR LYS ILE ASP ILE GLY ALA VAL TYR SER HIS ARG SEQRES 8 A 392 PRO ASN GLN HIS ASN THR VAL LYS LEU GLY ALA PHE GLN SEQRES 9 A 392 ALA GLN GLU LYS GLU LEU VAL PHE ASP ILE ASP MET THR SEQRES 10 A 392 ASP TYR ASP ASP VAL ARG ARG CYS CYS SER SER ALA ASP SEQRES 11 A 392 ILE CYS PRO LYS CYS TRP THR LEU MET THR MET ALA ILE SEQRES 12 A 392 ARG ILE ILE ASP ARG ALA LEU LYS GLU ASP PHE GLY PHE SEQRES 13 A 392 LYS HIS ARG LEU TRP VAL TYR SER GLY ARG ARG GLY VAL SEQRES 14 A 392 HIS CYS TRP VAL CYS ASP GLU SER VAL ARG LYS LEU SER SEQRES 15 A 392 SER ALA VAL ARG SER GLY ILE VAL GLU TYR LEU SER LEU SEQRES 16 A 392 VAL LYS GLY GLY GLN ASP VAL LYS LYS LYS VAL HIS LEU SEQRES 17 A 392 SER GLU LYS ILE HIS PRO PHE ILE ARG LYS SER ILE ASN SEQRES 18 A 392 ILE ILE LYS LYS TYR PHE GLU GLU TYR ALA LEU VAL ASN SEQRES 19 A 392 GLN ASP ILE LEU GLU ASN LYS GLU SER TRP ASP LYS ILE SEQRES 20 A 392 LEU ALA LEU VAL PRO GLU THR ILE HIS ASP GLU LEU GLN SEQRES 21 A 392 GLN SER PHE GLN LYS SER HIS ASN SER LEU GLN ARG TRP SEQRES 22 A 392 GLU HIS LEU LYS LYS VAL ALA SER ARG TYR GLN ASN ASN SEQRES 23 A 392 ILE LYS ASN ASP LYS TYR GLY PRO TRP LEU GLU TRP GLU SEQRES 24 A 392 ILE MET LEU GLN TYR CYS PHE PRO ARG LEU ASP ILE ASN SEQRES 25 A 392 VAL SER LYS GLY ILE ASN HIS LEU LEU LYS SER PRO PHE SEQRES 26 A 392 SER VAL HIS PRO LYS THR GLY ARG ILE SER VAL PRO ILE SEQRES 27 A 392 ASP LEU GLN LYS VAL ASP GLN PHE ASP PRO PHE THR VAL SEQRES 28 A 392 PRO THR ILE SER PHE ILE CYS ARG GLU LEU ASP ALA THR SEQRES 29 A 392 ARG ASP TYR LYS LYS THR SER LEU ALA PRO TYR VAL LYS SEQRES 30 A 392 VAL PHE GLU HIS PHE LEU GLU ASN LEU ASP LYS SER ARG SEQRES 31 A 392 LYS GLY HET ZN A 501 1 HET MN A 502 1 HET MN A 503 1 HET UTP A 504 13 HETNAM ZN ZINC ION HETNAM MN MANGANESE (II) ION HETNAM UTP URIDINE 5'-TRIPHOSPHATE FORMUL 2 ZN ZN 2+ FORMUL 3 MN 2(MN 2+) FORMUL 5 UTP C9 H15 N2 O15 P3 FORMUL 6 HOH *34(H2 O) HELIX 1 1 GLU A 8 LEU A 20 1 13 HELIX 2 2 PRO A 22 TYR A 32 1 11 HELIX 3 3 LYS A 50 ASP A 52 5 3 HELIX 4 4 ASN A 62 ASN A 74 1 13 HELIX 5 5 ARG A 87 HIS A 91 5 5 HELIX 6 6 THR A 113 ARG A 119 5 7 HELIX 7 7 CYS A 128 ASP A 149 1 22 HELIX 8 8 SER A 173 LEU A 177 5 5 HELIX 9 9 SER A 178 SER A 190 1 13 HELIX 10 10 HIS A 209 LEU A 228 1 20 HELIX 11 11 ASN A 236 ALA A 245 1 10 HELIX 12 12 LEU A 246 VAL A 247 5 2 HELIX 13 13 PRO A 248 THR A 250 5 3 HELIX 14 14 ILE A 251 SER A 262 1 12 HELIX 15 15 ASN A 264 SER A 277 1 14 HELIX 16 16 PRO A 290 PHE A 302 1 13 HELIX 17 17 ASP A 306 GLY A 312 1 7 HELIX 18 18 ASP A 335 PHE A 342 5 8 HELIX 19 19 ASP A 343 VAL A 347 5 5 HELIX 20 20 THR A 349 ARG A 381 1 13 HELIX 21 21 LEU A 388 SER A 405 1 18 SHEET 1 A 4 TYR A 54 GLN A 58 0 SHEET 2 A 4 ARG A 43 THR A 48 -1 N PHE A 45 O GLN A 58 SHEET 3 A 4 LYS A 77 TYR A 84 -1 O GLY A 81 N GLU A 44 SHEET 4 A 4 ALA A 101 GLU A 103 -1 O GLU A 103 N VAL A 83 SHEET 1 B 4 TYR A 54 GLN A 58 0 SHEET 2 B 4 ARG A 43 THR A 48 -1 N PHE A 45 O GLN A 58 SHEET 3 B 4 LYS A 77 TYR A 84 -1 O GLY A 81 N GLU A 44 SHEET 4 B 4 LEU A 317 LYS A 318 -1 O LEU A 317 N ILE A 80 SHEET 1 C 3 LEU A 106 ASP A 111 0 SHEET 2 C 3 GLY A 164 VAL A 169 -1 O VAL A 169 N LEU A 106 SHEET 3 C 3 ARG A 155 TYR A 159 -1 N VAL A 158 O HIS A 166 LINK OD1 ASP A 109 MN MN A 502 1555 1555 2.62 LINK OD2 ASP A 109 MN MN A 503 1555 1555 2.48 LINK SG CYS A 121 ZN ZN A 501 1555 1555 2.50 LINK SG CYS A 122 ZN ZN A 501 1555 1555 2.68 LINK SG CYS A 128 ZN ZN A 501 1555 1555 2.30 LINK SG CYS A 131 ZN ZN A 501 1555 1555 2.39 LINK MN MN A 502 O1B UTP A 504 1555 1555 2.15 LINK MN MN A 502 O2G UTP A 504 1555 1555 2.45 LINK MN MN A 502 O1A UTP A 504 1555 1555 2.47 SITE 1 AC1 4 CYS A 121 CYS A 122 CYS A 128 CYS A 131 SITE 1 AC2 4 ASP A 109 ARG A 163 HIS A 166 UTP A 504 SITE 1 AC3 3 ASP A 109 UTP A 504 HOH A 627 SITE 1 AC4 9 ASP A 109 SER A 160 ARG A 162 ARG A 163 SITE 2 AC4 9 HIS A 166 LYS A 318 HIS A 324 MN A 502 SITE 3 AC4 9 MN A 503 CRYST1 79.346 79.346 148.200 90.00 90.00 90.00 P 43 21 2 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 0.012603 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012603 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006748 0.00000