HEADER TRANSFERASE 21-DEC-10 3Q36 TITLE CRYSTAL STRUCTURE OF THE 4FE-4S CLUSTER DOMAIN OF HUMAN DNA PRIMASE TITLE 2 LARGE SUBUNIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA PRIMASE LARGE SUBUNIT; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: 4FE-4S CLUSTER DOMAIN (UNP RESIDUES 266-457); COMPND 5 SYNONYM: DNA PRIMASE 58 KDA SUBUNIT, P58; 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: PRIM2, PRIM2A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS POL ALPHA, PRIMASE, DNA REPLICATION, POLYMERASE, IRON-SULFUR CLUSTER, KEYWDS 2 DNA-BINDING, DNA-DIRECTED RNA POLYMERASE, METAL-BINDING, KEYWDS 3 NUCLEOTIDYLTRANSFERASE, PHOSPHOPROTEIN, PRIMOSOME, TRANSCRIPTION, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR V.B.AGARKAR,N.D.BABAYEVA,T.H.TAHIROV REVDAT 1 13-APR-11 3Q36 0 JRNL AUTH V.B.AGARKAR,N.D.BABAYEVA,Y.I.PAVLOV,T.H.TAHIROV JRNL TITL CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF HUMAN DNA JRNL TITL 2 PRIMASE LARGE SUBUNIT: IMPLICATIONS FOR THE MECHANISM OF THE JRNL TITL 3 PRIMASE - POLYMERASE ALPHA SWITCH. JRNL REF CELL CYCLE V. 10 926 2011 JRNL REFN ISSN 1538-4101 JRNL PMID 21346410 REMARK 2 REMARK 2 RESOLUTION. 2.50 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2327525.910 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 16588 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) : 0.228 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 813 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2520 REMARK 3 BIN R VALUE (WORKING SET) : 0.3250 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 133 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.028 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2906 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 21 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.36000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : -0.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.19000 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) : 0.43 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) : 0.50 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.95 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 43.35 REMARK 3 REMARK 3 NCS MODEL : NONE 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 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : SF4.PAR REMARK 3 PARAMETER FILE 5 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : SF4.TOP REMARK 3 TOPOLOGY FILE 5 : WATER.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3Q36 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-11. REMARK 100 THE RCSB ID CODE IS RCSB063135. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97916 REMARK 200 MONOCHROMATOR : NULL 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 : 16851 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.6000 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) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.45100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 3LGB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM ACETATE TETRAHYDRATE, REMARK 280 0.05 M SODIUM CACODYLATE, 15% W/V PEG8000, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 63.23800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.86200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 63.23800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.86200 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 GLY A 266 REMARK 465 ASN A 267 REMARK 465 VAL A 268 REMARK 465 GLY A 269 REMARK 465 LYS A 270 REMARK 465 LYS A 355 REMARK 465 GLU A 356 REMARK 465 GLY A 357 REMARK 465 LYS A 358 REMARK 465 ARG A 359 REMARK 465 THR A 360 REMARK 465 ASP A 361 REMARK 465 ASN A 456 REMARK 465 GLY A 457 REMARK 465 GLY B 266 REMARK 465 ASN B 267 REMARK 465 VAL B 268 REMARK 465 GLY B 269 REMARK 465 LYS B 270 REMARK 465 GLY B 354 REMARK 465 LYS B 355 REMARK 465 GLU B 356 REMARK 465 GLY B 357 REMARK 465 LYS B 358 REMARK 465 ARG B 359 REMARK 465 THR B 360 REMARK 465 ASN B 456 REMARK 465 GLY B 457 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 TYR A 345 -59.79 -130.67 REMARK 500 ASN A 374 70.69 33.70 REMARK 500 PHE A 439 146.88 -174.22 REMARK 500 ASN A 442 3.19 -156.17 REMARK 500 ILE B 276 -38.17 -30.21 REMARK 500 HIS B 299 29.66 41.56 REMARK 500 TYR B 345 -36.60 -140.62 REMARK 500 TYR B 362 71.66 -102.20 REMARK 500 SER B 377 -167.10 -106.03 REMARK 500 ASN B 433 70.51 59.12 REMARK 500 ASP B 436 107.78 -174.57 REMARK 500 REMARK 500 REMARK: NULL 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 SF4 B 458 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 424 SG REMARK 620 2 SF4 B 458 S1 125.9 REMARK 620 3 SF4 B 458 S2 124.3 82.7 REMARK 620 4 SF4 B 458 S4 126.0 92.3 93.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 458 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 384 SG REMARK 620 2 SF4 A 458 S1 127.2 REMARK 620 3 SF4 A 458 S3 118.1 85.8 REMARK 620 4 SF4 A 458 S4 128.9 90.1 95.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 458 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 424 SG REMARK 620 2 SF4 A 458 S1 129.2 REMARK 620 3 SF4 A 458 S2 126.7 84.2 REMARK 620 4 SF4 A 458 S4 119.1 92.8 94.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 458 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 384 SG REMARK 620 2 SF4 B 458 S1 132.2 REMARK 620 3 SF4 B 458 S3 117.9 85.9 REMARK 620 4 SF4 B 458 S4 122.3 91.5 97.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 458 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 367 SG REMARK 620 2 SF4 A 458 S2 111.9 REMARK 620 3 SF4 A 458 S3 126.9 87.7 REMARK 620 4 SF4 A 458 S4 130.6 92.2 95.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 458 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 287 SG REMARK 620 2 SF4 B 458 S1 119.5 REMARK 620 3 SF4 B 458 S2 139.8 84.6 REMARK 620 4 SF4 B 458 S3 118.6 89.8 90.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 458 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 287 SG REMARK 620 2 SF4 A 458 S1 110.6 REMARK 620 3 SF4 A 458 S2 133.5 87.5 REMARK 620 4 SF4 A 458 S3 128.5 90.1 92.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 458 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 367 SG REMARK 620 2 SF4 B 458 S2 111.9 REMARK 620 3 SF4 B 458 S3 130.8 87.2 REMARK 620 4 SF4 B 458 S4 125.0 92.7 97.2 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 SF4 A 458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 B 458 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LGB RELATED DB: PDB REMARK 900 FE-S DOMAIN OF THE YEAST DNA PRIMASE REMARK 900 RELATED ID: 3L9Q RELATED DB: PDB REMARK 900 HUMAN DNA PRIMASE P58 IRON-SULFUR CLUSTER DOMAIN DBREF 3Q36 A 266 457 UNP P49643 PRI2_HUMAN 266 457 DBREF 3Q36 B 266 457 UNP P49643 PRI2_HUMAN 266 457 SEQRES 1 A 192 GLY ASN VAL GLY LYS ILE SER LEU ASP GLN ILE ASP LEU SEQRES 2 A 192 LEU SER THR LYS SER PHE PRO PRO CYS MET ARG GLN LEU SEQRES 3 A 192 HIS LYS ALA LEU ARG GLU ASN HIS HIS LEU ARG HIS GLY SEQRES 4 A 192 GLY ARG MET GLN TYR GLY LEU PHE LEU LYS GLY ILE GLY SEQRES 5 A 192 LEU THR LEU GLU GLN ALA LEU GLN PHE TRP LYS GLN GLU SEQRES 6 A 192 PHE ILE LYS GLY LYS MET ASP PRO ASP LYS PHE ASP LYS SEQRES 7 A 192 GLY TYR SER TYR ASN ILE ARG HIS SER PHE GLY LYS GLU SEQRES 8 A 192 GLY LYS ARG THR ASP TYR THR PRO PHE SER CYS LEU LYS SEQRES 9 A 192 ILE ILE LEU SER ASN PRO PRO SER GLN GLY ASP TYR HIS SEQRES 10 A 192 GLY CYS PRO PHE ARG HIS SER ASP PRO GLU LEU LEU LYS SEQRES 11 A 192 GLN LYS LEU GLN SER TYR LYS ILE SER PRO GLY GLY ILE SEQRES 12 A 192 SER GLN ILE LEU ASP LEU VAL LYS GLY THR HIS TYR GLN SEQRES 13 A 192 VAL ALA CYS GLN LYS TYR PHE GLU MET ILE HIS ASN VAL SEQRES 14 A 192 ASP ASP CYS GLY PHE SER LEU ASN HIS PRO ASN GLN PHE SEQRES 15 A 192 PHE CYS GLU SER GLN ARG ILE LEU ASN GLY SEQRES 1 B 192 GLY ASN VAL GLY LYS ILE SER LEU ASP GLN ILE ASP LEU SEQRES 2 B 192 LEU SER THR LYS SER PHE PRO PRO CYS MET ARG GLN LEU SEQRES 3 B 192 HIS LYS ALA LEU ARG GLU ASN HIS HIS LEU ARG HIS GLY SEQRES 4 B 192 GLY ARG MET GLN TYR GLY LEU PHE LEU LYS GLY ILE GLY SEQRES 5 B 192 LEU THR LEU GLU GLN ALA LEU GLN PHE TRP LYS GLN GLU SEQRES 6 B 192 PHE ILE LYS GLY LYS MET ASP PRO ASP LYS PHE ASP LYS SEQRES 7 B 192 GLY TYR SER TYR ASN ILE ARG HIS SER PHE GLY LYS GLU SEQRES 8 B 192 GLY LYS ARG THR ASP TYR THR PRO PHE SER CYS LEU LYS SEQRES 9 B 192 ILE ILE LEU SER ASN PRO PRO SER GLN GLY ASP TYR HIS SEQRES 10 B 192 GLY CYS PRO PHE ARG HIS SER ASP PRO GLU LEU LEU LYS SEQRES 11 B 192 GLN LYS LEU GLN SER TYR LYS ILE SER PRO GLY GLY ILE SEQRES 12 B 192 SER GLN ILE LEU ASP LEU VAL LYS GLY THR HIS TYR GLN SEQRES 13 B 192 VAL ALA CYS GLN LYS TYR PHE GLU MET ILE HIS ASN VAL SEQRES 14 B 192 ASP ASP CYS GLY PHE SER LEU ASN HIS PRO ASN GLN PHE SEQRES 15 B 192 PHE CYS GLU SER GLN ARG ILE LEU ASN GLY HET SF4 A 458 8 HET SF4 B 458 8 HET FE B 1 1 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM FE FE (III) ION FORMUL 3 SF4 2(FE4 S4) FORMUL 5 FE FE 3+ FORMUL 6 HOH *21(H2 O) HELIX 1 1 SER A 272 ASP A 274 5 3 HELIX 2 2 GLN A 275 SER A 283 1 9 HELIX 3 3 PRO A 285 HIS A 299 1 15 HELIX 4 4 ARG A 302 ILE A 316 1 15 HELIX 5 5 THR A 319 LYS A 333 1 15 HELIX 6 6 ASP A 337 TYR A 345 1 9 HELIX 7 7 TYR A 345 PHE A 353 1 9 HELIX 8 8 SER A 366 SER A 373 1 8 HELIX 9 9 CYS A 384 SER A 389 1 6 HELIX 10 10 ASP A 390 TYR A 401 1 12 HELIX 11 11 SER A 404 GLY A 417 1 14 HELIX 12 12 HIS A 419 ASN A 433 1 15 HELIX 13 13 HIS A 443 ARG A 453 1 11 HELIX 14 14 GLN B 275 SER B 283 1 9 HELIX 15 15 PRO B 285 HIS B 299 1 15 HELIX 16 16 ARG B 302 ILE B 316 1 15 HELIX 17 17 THR B 319 ILE B 332 1 14 HELIX 18 18 ASP B 337 TYR B 345 1 9 HELIX 19 19 TYR B 345 PHE B 353 1 9 HELIX 20 20 SER B 366 SER B 373 1 8 HELIX 21 21 CYS B 384 SER B 389 1 6 HELIX 22 22 ASP B 390 TYR B 401 1 12 HELIX 23 23 SER B 404 GLY B 417 1 14 HELIX 24 24 HIS B 419 ASN B 433 1 15 HELIX 25 25 HIS B 443 LEU B 455 1 13 LINK SG CYS B 424 FE3 SF4 B 458 1555 1555 2.12 LINK SG CYS A 384 FE2 SF4 A 458 1555 1555 2.19 LINK SG CYS A 424 FE3 SF4 A 458 1555 1555 2.23 LINK SG CYS B 384 FE2 SF4 B 458 1555 1555 2.26 LINK SG CYS A 367 FE1 SF4 A 458 1555 1555 2.26 LINK SG CYS B 287 FE4 SF4 B 458 1555 1555 2.28 LINK SG CYS A 287 FE4 SF4 A 458 1555 1555 2.38 LINK SG CYS B 367 FE1 SF4 B 458 1555 1555 2.47 SITE 1 AC1 5 PRO A 285 CYS A 287 CYS A 367 CYS A 384 SITE 2 AC1 5 CYS A 424 SITE 1 AC2 5 PRO B 285 CYS B 287 CYS B 367 CYS B 384 SITE 2 AC2 5 CYS B 424 SITE 1 AC3 1 HOH A 14 CRYST1 126.476 83.724 47.561 90.00 97.65 90.00 C 1 2 1 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 0.007907 0.000000 0.001062 0.00000 SCALE2 0.000000 0.011944 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021215 0.00000 MASTER 384 0 3 25 0 0 5 6 0 0 0 30 END