HEADER TRANSCRIPTION 13-DEC-07 2JYI TITLE SOLUTION STRUCTURE OF MLL CXXC DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC FINGER PROTEIN HRX; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CXXC DOMAIN; COMPND 5 SYNONYM: ALL-1, TRITHORAX-LIKE PROTEIN; COMPND 6 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: MLL, ALL1, HRX, HTRX, TRX1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX 4-T2 KEYWDS PROTEIN, CXXC DOMAIN, MLL, ALTERNATIVE SPLICING, BROMODOMAIN, KEYWDS 2 CHROMOSOMAL REARRANGEMENT, DNA-BINDING, METAL-BINDING, NUCLEUS, KEYWDS 3 PHOSPHOPROTEIN, POLYMORPHISM, PROTO-ONCOGENE, TRANSCRIPTION, KEYWDS 4 TRANSCRIPTION REGULATION, UBL CONJUGATION, ZINC, ZINC-FINGER EXPDTA SOLUTION NMR NUMMDL 14 AUTHOR T.CIERPICKI,J.H.BUSHWELLER REVDAT 2 16-MAR-22 2JYI 1 REMARK REVDAT 1 09-DEC-08 2JYI 0 JRNL AUTH T.CIERPICKI,L.E.RIESBECK,J.GREMBECKA,S.M.LUKASIK, JRNL AUTH 2 M.OMONKOWSKA,D.SHULTIS,N.J.ZELEZNIK-LE,J.H.BUSHWELLER JRNL TITL STRUCTURAL BASIS FOR MAINTENANCE OF UNMETHYLATED CPG JRNL TITL 2 ELEMENTS BY THE CXXC DOMAIN OF MLL AND ITS CRITICAL JRNL TITL 3 CONTRIBUTIONS TO MLL-AF9 IMMORTALIZATION ACTIVITY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY 3.110, CNS 1.2 REMARK 3 AUTHORS : GODDARD (SPARKY), BRUNGER, ADAMS, CLORE, GROS, REMARK 3 NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HIGH TEMP ANNEALING WITHOUT RRDCS, LOW REMARK 3 TEMP ANNEALING WITH RDCS REMARK 4 REMARK 4 2JYI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000100449. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298; 298 REMARK 210 PH : 7.1; 7.1; 7.1 REMARK 210 IONIC STRENGTH : 0.3; 0.3; 0.3 REMARK 210 PRESSURE : AMBIENT ATM; AMBIENT ATM; REMARK 210 AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 1 MM [U-98% 13C; U-98% 15N] REMARK 210 CXXC, 95% H2O/5% D2O; 1 MM [U-98% REMARK 210 13C; U-98% 15N] CXXC, 95% H2O/5% REMARK 210 D2O; 1 MM [U-98% 13C; U-98% 15N] REMARK 210 CXXC, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; IPAP; HNCO NCO; HNCO COCA REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.110, NMRPIPE 2.5, CNS REMARK 210 1.2 REMARK 210 METHOD USED : SIMULATED ANNEALING, DISTANCE REMARK 210 GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 14 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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: 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 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 ARG A1150 89.39 60.84 REMARK 500 1 SER A1152 102.50 60.82 REMARK 500 1 ARG A1182 10.09 -154.70 REMARK 500 1 LYS A1185 22.11 -143.99 REMARK 500 1 LYS A1186 -146.34 46.27 REMARK 500 1 GLN A1187 125.60 65.21 REMARK 500 1 SER A1202 171.45 60.05 REMARK 500 2 ASN A1183 91.60 33.46 REMARK 500 2 GLN A1187 161.97 62.09 REMARK 500 2 CYS A1188 -70.56 -124.94 REMARK 500 2 GLN A1198 57.13 -111.20 REMARK 500 2 MET A1200 -59.64 -122.20 REMARK 500 2 SER A1202 132.64 64.12 REMARK 500 3 ARG A1151 44.11 -99.42 REMARK 500 3 LYS A1185 -40.90 -141.89 REMARK 500 3 LYS A1186 96.04 70.73 REMARK 500 3 GLN A1198 55.97 -107.87 REMARK 500 3 TRP A1199 -67.93 -155.69 REMARK 500 4 LYS A1185 -140.85 -100.50 REMARK 500 4 GLN A1187 156.88 61.97 REMARK 500 4 SER A1202 -172.01 58.35 REMARK 500 5 ARG A1151 -66.08 68.99 REMARK 500 5 SER A1152 83.08 64.83 REMARK 500 5 ARG A1182 10.23 -154.54 REMARK 500 5 CYS A1188 36.09 -177.10 REMARK 500 5 CYS A1189 112.77 56.72 REMARK 500 5 SER A1202 132.86 -178.37 REMARK 500 6 ARG A1151 89.18 59.45 REMARK 500 6 ASN A1183 88.65 36.55 REMARK 500 6 LYS A1185 -39.34 -146.48 REMARK 500 6 LYS A1186 94.85 73.84 REMARK 500 6 SER A1202 94.35 53.68 REMARK 500 7 ARG A1150 23.62 -150.69 REMARK 500 7 ARG A1151 92.62 53.66 REMARK 500 7 SER A1152 -67.32 -141.29 REMARK 500 7 ARG A1153 102.24 59.89 REMARK 500 7 ARG A1182 11.24 -154.67 REMARK 500 7 ILE A1184 -73.00 -79.72 REMARK 500 7 LYS A1186 137.79 62.34 REMARK 500 7 CYS A1188 130.70 76.71 REMARK 500 7 GLN A1198 142.00 60.05 REMARK 500 8 LYS A1148 105.35 60.71 REMARK 500 8 ARG A1151 93.48 60.75 REMARK 500 8 SER A1152 125.53 63.43 REMARK 500 8 ARG A1182 10.49 -156.24 REMARK 500 8 LYS A1185 -100.35 -141.27 REMARK 500 8 GLN A1187 179.53 60.30 REMARK 500 8 CYS A1188 -50.77 -140.05 REMARK 500 8 TRP A1199 85.20 -152.98 REMARK 500 8 MET A1200 107.48 58.87 REMARK 500 REMARK 500 THIS ENTRY HAS 94 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 ZN A2001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1155 SG REMARK 620 2 CYS A1158 SG 100.4 REMARK 620 3 CYS A1161 SG 111.4 113.4 REMARK 620 4 CYS A1194 SG 103.5 120.7 106.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1167 SG REMARK 620 2 CYS A1170 SG 99.4 REMARK 620 3 CYS A1173 SG 122.0 96.9 REMARK 620 4 CYS A1189 SG 118.6 106.3 109.1 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 A2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A2002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J2S RELATED DB: PDB REMARK 900 INDEPENDENTLY DETERMINED STRUCTURE OF CXXC DOMAIN DBREF 2JYI A 1147 1203 UNP Q03164 HRX_HUMAN 1147 1203 SEQRES 1 A 57 LYS LYS GLY ARG ARG SER ARG ARG CYS GLY GLN CYS PRO SEQRES 2 A 57 GLY CYS GLN VAL PRO GLU ASP CYS GLY VAL CYS THR ASN SEQRES 3 A 57 CYS LEU ASP LYS PRO LYS PHE GLY GLY ARG ASN ILE LYS SEQRES 4 A 57 LYS GLN CYS CYS LYS MET ARG LYS CYS GLN ASN LEU GLN SEQRES 5 A 57 TRP MET PRO SER LYS HET ZN A2001 1 HET ZN A2002 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 CYS A 1158 VAL A 1163 1 6 HELIX 2 2 CYS A 1170 ASP A 1175 1 6 HELIX 3 3 LYS A 1176 GLY A 1180 5 5 HELIX 4 4 CYS A 1189 LYS A 1193 5 5 LINK SG CYS A1155 ZN ZN A2001 1555 1555 2.25 LINK SG CYS A1158 ZN ZN A2001 1555 1555 2.29 LINK SG CYS A1161 ZN ZN A2001 1555 1555 2.29 LINK SG CYS A1167 ZN ZN A2002 1555 1555 2.26 LINK SG CYS A1170 ZN ZN A2002 1555 1555 2.31 LINK SG CYS A1173 ZN ZN A2002 1555 1555 2.35 LINK SG CYS A1189 ZN ZN A2002 1555 1555 2.32 LINK SG CYS A1194 ZN ZN A2001 1555 1555 2.34 SITE 1 AC1 5 ARG A1153 CYS A1155 GLN A1157 CYS A1158 SITE 2 AC1 5 GLY A1160 SITE 1 AC2 6 ASP A1166 CYS A1167 GLY A1168 VAL A1169 SITE 2 AC2 6 CYS A1170 CYS A1173 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