HEADER REPLICATION/SIGNALING PROTEIN 03-JUL-14 2MRE TITLE NMR STRUCTURE OF THE RAD18-UBZ/UBIQUITIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYUBIQUITIN-C; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-76; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RAD18; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: UNP RESIDUES 198-227; COMPND 10 SYNONYM: POSTREPLICATION REPAIR PROTEIN RAD18, HHR18, HRAD18, RING COMPND 11 FINGER PROTEIN 73; COMPND 12 EC: 6.3.2.-; COMPND 13 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: UBC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET15B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: RAD18, RNF73; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PGEX KEYWDS PROTEIN COMPLEX, LIGASE-TRANSLATION COMPLEX, REPLICATION-SIGNALING KEYWDS 2 PROTEIN COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.A.RIZZO,P.E.SALERNO,I.BEZSONOVA,D.M.KORZHNEV REVDAT 2 29-OCT-14 2MRE 1 DBREF SOURCE REVDAT 1 22-OCT-14 2MRE 0 JRNL AUTH A.A.RIZZO,P.E.SALERNO,I.BEZSONOVA,D.M.KORZHNEV JRNL TITL NMR STRUCTURE OF THE HUMAN RAD18 ZINC FINGER IN COMPLEX WITH JRNL TITL 2 UBIQUITIN DEFINES A CLASS OF UBZ DOMAINS IN PROTEINS LINKED JRNL TITL 3 TO THE DNA DAMAGE RESPONSE. JRNL REF BIOCHEMISTRY V. 53 5895 2014 JRNL REFN ISSN 0006-2960 JRNL PMID 25162118 JRNL DOI 10.1021/BI500823H REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MRE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-AUG-14. REMARK 100 THE RCSB ID CODE IS RCSB103961. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 125 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-13C; U-15N] UBIQUITIN- REMARK 210 BINDING ZINC FINGER (UBZ) DOMAIN REMARK 210 FROM HUMAN RAD18, 5 MM UBIQUITIN, REMARK 210 90% H2O/10% D2O; 2 MM [U-13C; U- REMARK 210 15N] UBIQUITIN, 7-10 MM UBIQUITIN REMARK 210 -BINDING ZINC FINGER (UBZ) DOMAIN REMARK 210 FROM HUMAN RAD18, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCACB; 3D HBHA(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D 15N/13C-FILTERED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : VNMRS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ANALYSIS, CYANA 2.1, NMRPIPE, REMARK 210 CNS, TALOS+ REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: DIMERIC 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 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 1 ASP A 21 -94.96 -74.89 REMARK 500 1 THR A 22 149.28 176.95 REMARK 500 1 LYS A 33 -70.10 -95.10 REMARK 500 1 VAL B 206 -64.09 -92.24 REMARK 500 1 SER B 225 86.15 -68.24 REMARK 500 2 SER A -1 -164.34 54.60 REMARK 500 2 ASP A 21 -98.32 -65.82 REMARK 500 2 THR A 22 143.54 170.11 REMARK 500 2 LYS A 33 -66.31 -90.65 REMARK 500 2 ARG B 226 37.69 -144.56 REMARK 500 3 HIS A 0 -73.65 -153.44 REMARK 500 3 ASP A 21 -92.57 -82.13 REMARK 500 3 THR A 22 149.49 177.81 REMARK 500 3 SER B 225 2.38 -63.70 REMARK 500 3 ARG B 226 98.50 -57.14 REMARK 500 4 HIS A 0 132.61 70.57 REMARK 500 4 GLU A 16 78.29 -110.69 REMARK 500 4 ASP A 21 -87.33 -73.03 REMARK 500 4 THR A 22 148.86 173.65 REMARK 500 4 LYS A 33 -68.70 -91.76 REMARK 500 4 ARG B 197 -33.65 -162.46 REMARK 500 5 GLU A 16 71.87 -110.60 REMARK 500 5 ASP A 21 -98.97 -71.75 REMARK 500 5 THR A 22 142.45 174.75 REMARK 500 5 LYS A 33 -70.37 -93.55 REMARK 500 5 SER B 225 103.93 -51.62 REMARK 500 6 ASP A 21 -94.78 -80.73 REMARK 500 6 THR A 22 145.65 179.58 REMARK 500 6 LYS A 33 -68.84 -100.61 REMARK 500 6 VAL B 199 108.98 -58.06 REMARK 500 6 VAL B 206 -62.95 -93.88 REMARK 500 7 ASP A 21 -98.58 -77.79 REMARK 500 7 THR A 22 143.85 -170.50 REMARK 500 7 LYS A 33 -70.43 -91.85 REMARK 500 7 GLU A 64 14.62 56.24 REMARK 500 7 ARG A 74 87.06 -67.64 REMARK 500 7 SER B 225 83.75 -69.49 REMARK 500 8 ASP A 21 -92.30 -74.46 REMARK 500 8 THR A 22 145.50 177.08 REMARK 500 8 LYS A 33 -68.02 -95.69 REMARK 500 9 ASP A 21 -99.71 -76.02 REMARK 500 9 THR A 22 140.44 173.55 REMARK 500 9 LYS A 33 -67.66 -98.66 REMARK 500 9 VAL B 199 101.22 -55.34 REMARK 500 10 SER A -1 97.84 -65.93 REMARK 500 10 GLU A 16 76.95 -108.94 REMARK 500 10 ASP A 21 -94.74 -80.73 REMARK 500 10 THR A 22 143.87 177.05 REMARK 500 10 LYS A 33 -67.98 -95.23 REMARK 500 10 PRO B 205 9.01 -68.45 REMARK 500 REMARK 500 THIS ENTRY HAS 97 RAMACHANDRAN OUTLIERS. 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 1 ZN B 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 219 ND1 REMARK 620 2 CYS B 207 SG 106.7 REMARK 620 3 CYS B 204 SG 107.5 107.7 REMARK 620 4 CYS B 223 SG 107.6 112.8 114.2 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 ZN B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25070 RELATED DB: BMRB DBREF 2MRE A 1 76 UNP P0CG48 UBC_HUMAN 1 76 DBREF 2MRE B 198 227 UNP Q9NS91 RAD18_HUMAN 198 227 SEQADV 2MRE GLY A -2 UNP P0CG48 EXPRESSION TAG SEQADV 2MRE SER A -1 UNP P0CG48 EXPRESSION TAG SEQADV 2MRE HIS A 0 UNP P0CG48 EXPRESSION TAG SEQADV 2MRE GLY B 195 UNP Q9NS91 EXPRESSION TAG SEQADV 2MRE SER B 196 UNP Q9NS91 EXPRESSION TAG SEQADV 2MRE ARG B 197 UNP Q9NS91 EXPRESSION TAG SEQRES 1 A 79 GLY SER HIS MET GLN ILE PHE VAL LYS THR LEU THR GLY SEQRES 2 A 79 LYS THR ILE THR LEU GLU VAL GLU PRO SER ASP THR ILE SEQRES 3 A 79 GLU ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE SEQRES 4 A 79 PRO PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN SEQRES 5 A 79 LEU GLU ASP GLY ARG THR LEU SER ASP TYR ASN ILE GLN SEQRES 6 A 79 LYS GLU SER THR LEU HIS LEU VAL LEU ARG LEU ARG GLY SEQRES 7 A 79 GLY SEQRES 1 B 33 GLY SER ARG GLN VAL THR LYS VAL ASP CYS PRO VAL CYS SEQRES 2 B 33 GLY VAL ASN ILE PRO GLU SER HIS ILE ASN LYS HIS LEU SEQRES 3 B 33 ASP SER CYS LEU SER ARG GLU HET ZN B 301 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ HELIX 1 1 THR A 22 GLU A 34 1 13 HELIX 2 2 LEU A 56 ASN A 60 5 5 HELIX 3 3 GLU B 213 LEU B 224 1 12 SHEET 1 A 5 THR A 12 VAL A 17 0 SHEET 2 A 5 MET A 1 THR A 7 -1 N VAL A 5 O ILE A 13 SHEET 3 A 5 THR A 66 LEU A 71 1 O LEU A 67 N LYS A 6 SHEET 4 A 5 GLN A 41 PHE A 45 -1 N ARG A 42 O VAL A 70 SHEET 5 A 5 LYS A 48 GLN A 49 -1 O LYS A 48 N PHE A 45 SHEET 1 B 2 LYS B 201 CYS B 204 0 SHEET 2 B 2 VAL B 209 PRO B 212 -1 O ILE B 211 N VAL B 202 LINK ND1 HIS B 219 ZN ZN B 301 1555 1555 2.12 LINK SG CYS B 207 ZN ZN B 301 1555 1555 2.35 LINK SG CYS B 204 ZN ZN B 301 1555 1555 2.36 LINK SG CYS B 223 ZN ZN B 301 1555 1555 2.39 SITE 1 AC1 4 CYS B 204 CYS B 207 HIS B 219 CYS B 223 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1