HEADER TRANSCRIPTION 17-MAR-10 2KVM TITLE SOLUTION STRUCTURE OF THE CBX7 CHROMODOMAIN IN COMPLEX WITH A H3K27ME2 TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHROMOBOX PROTEIN HOMOLOG 7; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CHROMODOMAIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HISTONE H3 PEPTIDE (RESIDUES 15-30) WITH DIMETHYLATED COMPND 8 LYSINE 27; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CBX7, D15ERTD417E; 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: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS HISTONE MODIFICATION, LYSINE METHYLATION, CHROMOBOX, POLYCOMB, KEYWDS 2 CHROMATIN-BINDING, CHROMATIN REGULATOR, NUCLEUS, REPRESSOR, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.L.YAP,L.ZENG,M.ZHOU REVDAT 2 05-FEB-20 2KVM 1 REMARK SEQADV LINK REVDAT 1 30-JUN-10 2KVM 0 JRNL AUTH K.L.YAP,S.LI,A.M.MUNOZ-CABELLO,S.RAGUZ,L.ZENG,S.MUJTABA, JRNL AUTH 2 J.GIL,M.J.WALSH,M.M.ZHOU JRNL TITL MOLECULAR INTERPLAY OF THE NONCODING RNA ANRIL AND JRNL TITL 2 METHYLATED HISTONE H3 LYSINE 27 BY POLYCOMB CBX7 IN JRNL TITL 3 TRANSCRIPTIONAL SILENCING OF INK4A. JRNL REF MOL.CELL V. 38 662 2010 JRNL REFN ISSN 1097-2765 JRNL PMID 20541999 JRNL DOI 10.1016/J.MOLCEL.2010.03.021 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 2.0, CNS 1.1 REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KVM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000101628. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298; 298 REMARK 210 PH : 7.4; 7.4; 7.4 REMARK 210 IONIC STRENGTH : 140; 140; 140 REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 15N] CBX7 REMARK 210 CHROMODOMAIN, 0.75 MM H3K27ME2 REMARK 210 PEPTIDE, 4.3 MM SODIUM PHOSPHATE, REMARK 210 1.4 MM POTASSIUM PHOSPHATE, 5 REMARK 210 MM DTT, 137 MM SODIUM CHLORIDE, REMARK 210 3 MM POTASSIUM CHLORIDE, 90% H2O/ REMARK 210 10% D2O; 0.5 MM [U-100% 13C; U- REMARK 210 100% 15N] CBX7 CHROMODOMAIN, REMARK 210 0.75 MM H3K27ME2 PEPTIDE, 4.3 MM REMARK 210 SODIUM PHOSPHATE, 1.4 MM REMARK 210 POTASSIUM PHOSPHATE, 5 MM DTT, REMARK 210 137 MM SODIUM CHLORIDE, 3 MM REMARK 210 POTASSIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O; 0.5 MM H3K27ME2 PEPTIDE, REMARK 210 4.3 MM SODIUM PHOSPHATE, 1.4 MM REMARK 210 POTASSIUM PHOSPHATE, 5 MM DTT, REMARK 210 137 MM SODIUM CHLORIDE, 3 MM REMARK 210 POTASSIUM CHLORIDE, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 3D HNCACB; 3D REMARK 210 HN(COCA)CB; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA 2.0, TALOS, NMRPIPE, REMARK 210 NMRVIEW REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 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 SER A 4 78.38 -159.42 REMARK 500 1 ALA A 5 -88.91 63.07 REMARK 500 1 ILE A 6 -87.64 48.19 REMARK 500 1 GLN A 9 -67.85 -149.94 REMARK 500 1 VAL A 10 119.80 65.24 REMARK 500 1 PHE A 11 -151.03 -137.35 REMARK 500 1 SER A 15 160.86 166.63 REMARK 500 1 LEU A 29 87.86 -68.75 REMARK 500 1 LYS A 33 -74.64 -52.33 REMARK 500 1 ILE A 48 100.83 -52.97 REMARK 500 1 LEU A 49 2.49 -68.89 REMARK 500 1 ALA A 66 95.99 -51.51 REMARK 500 1 SER A 67 -43.48 -141.21 REMARK 500 1 ARG A 70 -162.57 -163.93 REMARK 500 1 GLN B 19 -92.80 59.09 REMARK 500 1 ALA B 21 -9.65 -157.80 REMARK 500 1 SER B 28 -176.67 60.15 REMARK 500 2 SER A 4 -59.70 -132.46 REMARK 500 2 GLU A 8 -174.02 56.89 REMARK 500 2 GLN A 9 -53.01 -174.76 REMARK 500 2 VAL A 10 133.28 63.29 REMARK 500 2 SER A 15 163.06 166.55 REMARK 500 2 LYS A 33 -70.72 -56.52 REMARK 500 2 PRO A 44 150.81 -47.47 REMARK 500 2 ILE A 48 100.03 -52.77 REMARK 500 2 LEU A 49 1.89 -66.12 REMARK 500 2 ALA A 66 -85.88 53.72 REMARK 500 2 SER A 67 -55.78 -126.20 REMARK 500 2 ARG A 70 -147.35 59.86 REMARK 500 2 GLN B 19 -83.35 61.91 REMARK 500 2 ALA B 25 -162.76 -161.36 REMARK 500 2 SER B 28 -160.20 -124.12 REMARK 500 2 ALA B 29 65.44 61.41 REMARK 500 3 SER A 4 -12.00 -169.70 REMARK 500 3 ILE A 6 -82.14 -79.41 REMARK 500 3 GLU A 8 -161.43 -120.25 REMARK 500 3 GLN A 9 -38.24 -170.23 REMARK 500 3 VAL A 10 140.11 68.23 REMARK 500 3 SER A 15 156.95 160.67 REMARK 500 3 LEU A 29 87.67 -66.40 REMARK 500 3 ILE A 48 100.54 -52.84 REMARK 500 3 LEU A 49 2.28 -68.04 REMARK 500 3 ARG A 65 -78.02 -45.83 REMARK 500 3 ALA A 66 -40.92 174.56 REMARK 500 3 SER A 67 -56.94 -173.54 REMARK 500 3 ARG A 70 -162.58 -105.18 REMARK 500 3 ALA B 21 -87.64 62.92 REMARK 500 3 THR B 22 -94.24 44.66 REMARK 500 4 ILE A 6 -74.90 -45.23 REMARK 500 4 GLU A 8 -179.13 63.74 REMARK 500 REMARK 500 THIS ENTRY HAS 335 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16778 RELATED DB: BMRB DBREF 2KVM A 1 71 UNP Q8VDS3 CBX7_MOUSE 1 71 DBREF 2KVM B 15 30 PDB 2KVM 2KVM 15 30 SEQADV 2KVM GLY A -2 UNP Q8VDS3 EXPRESSION TAG SEQADV 2KVM SER A -1 UNP Q8VDS3 EXPRESSION TAG SEQADV 2KVM HIS A 0 UNP Q8VDS3 EXPRESSION TAG SEQRES 1 A 74 GLY SER HIS MET GLU LEU SER ALA ILE GLY GLU GLN VAL SEQRES 2 A 74 PHE ALA VAL GLU SER ILE ARG LYS LYS ARG VAL ARG LYS SEQRES 3 A 74 GLY LYS VAL GLU TYR LEU VAL LYS TRP LYS GLY TRP PRO SEQRES 4 A 74 PRO LYS TYR SER THR TRP GLU PRO GLU GLU HIS ILE LEU SEQRES 5 A 74 ASP PRO ARG LEU VAL MET ALA TYR GLU GLU LYS GLU GLU SEQRES 6 A 74 ARG ASP ARG ALA SER GLY TYR ARG LYS SEQRES 1 B 16 ALA PRO ARG LYS GLN LEU ALA THR LYS ALA ALA ARG MLY SEQRES 2 B 16 SER ALA PRO MODRES 2KVM MLY B 27 LYS N-DIMETHYL-LYSINE HET MLY B 27 28 HETNAM MLY N-DIMETHYL-LYSINE FORMUL 2 MLY C8 H18 N2 O2 HELIX 1 1 PRO A 36 SER A 40 5 5 HELIX 2 2 ASP A 50 ALA A 66 1 17 SHEET 1 A 3 VAL A 13 ARG A 22 0 SHEET 2 A 3 LYS A 25 TRP A 32 -1 O LYS A 25 N ARG A 22 SHEET 3 A 3 THR A 41 PRO A 44 -1 O THR A 41 N VAL A 30 LINK C ARG B 26 N MLY B 27 1555 1555 1.33 LINK C MLY B 27 N SER B 28 1555 1555 1.33 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