HEADER PEPTIDE BINDING PROTEIN 02-APR-23 8SB6 TITLE STRUCTURE OF HUMAN BRD2-BD1 BOUND TO A HISTONE H4 ACETYL-METHYLLYSINE TITLE 2 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BROMODOMAIN CONTAINING 2; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: BROMODOMAIN-CONTAINING PROTEIN 2; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HISTONE H4; COMPND 8 CHAIN: D, E; COMPND 9 FRAGMENT: N-TERMINAL PEPTIDE (UNP RESIDUES 2-16); COMPND 10 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: BRD2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS HISTONE PEPTIDE PROTEIN COMPLEX, PEPTIDE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.J.CONNOR,B.E.EKUNDAYO,W.J.LU-CULLIGAN,M.D.SIMON,F.BLEICHERT REVDAT 5 15-NOV-23 8SB6 1 LINK REVDAT 4 11-OCT-23 8SB6 1 JRNL REVDAT 3 04-OCT-23 8SB6 1 JRNL REVDAT 2 20-SEP-23 8SB6 1 JRNL REVDAT 1 26-JUL-23 8SB6 0 JRNL AUTH W.J.LU-CULLIGAN,L.J.CONNOR,Y.XIE,B.E.EKUNDAYO,B.T.ROSE, JRNL AUTH 2 M.MACHYNA,A.P.PINTADO-URBANC,J.T.ZIMMER,I.W.VOCK,N.V.BHANU, JRNL AUTH 3 M.C.KING,B.A.GARCIA,F.BLEICHERT,M.D.SIMON JRNL TITL ACETYL-METHYLLYSINE MARKS CHROMATIN AT ACTIVE TRANSCRIPTION JRNL TITL 2 START SITES. JRNL REF NATURE V. 622 173 2023 JRNL REFN ESSN 1476-4687 JRNL PMID 37731000 JRNL DOI 10.1038/S41586-023-06565-9 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122+SVN 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 39871 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 1930 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 67.8000 - 4.3400 0.98 2784 140 0.1740 0.1954 REMARK 3 2 4.3400 - 3.4400 0.99 2723 141 0.1501 0.1531 REMARK 3 3 3.4400 - 3.0100 0.99 2727 142 0.1771 0.2053 REMARK 3 4 3.0100 - 2.7300 1.00 2718 137 0.1738 0.1989 REMARK 3 5 2.7300 - 2.5400 0.99 2695 136 0.1812 0.2205 REMARK 3 6 2.5400 - 2.3900 0.99 2707 139 0.1685 0.1966 REMARK 3 7 2.3900 - 2.2700 0.99 2687 138 0.1696 0.2296 REMARK 3 8 2.2700 - 2.1700 0.99 2733 121 0.1752 0.1803 REMARK 3 9 2.1700 - 2.0900 1.00 2678 148 0.1775 0.2233 REMARK 3 10 2.0900 - 2.0100 0.99 2676 133 0.2141 0.2478 REMARK 3 11 2.0100 - 1.9500 1.00 2707 142 0.2342 0.2641 REMARK 3 12 1.9500 - 1.8900 0.99 2712 131 0.2496 0.2928 REMARK 3 13 1.8900 - 1.8500 0.99 2704 124 0.2842 0.3031 REMARK 3 14 1.8400 - 1.8000 1.00 2690 158 0.3220 0.3616 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) : 0.212 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.819 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.30 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 : 0.015 2851 REMARK 3 ANGLE : 1.174 3851 REMARK 3 CHIRALITY : 0.076 404 REMARK 3 PLANARITY : 0.011 484 REMARK 3 DIHEDRAL : 15.559 1072 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 76 THROUGH 183) REMARK 3 ORIGIN FOR THE GROUP (A): -19.4974 0.6780 32.4184 REMARK 3 T TENSOR REMARK 3 T11: 0.1587 T22: 0.1781 REMARK 3 T33: 0.2023 T12: 0.0016 REMARK 3 T13: 0.0230 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.8401 L22: 1.9506 REMARK 3 L33: 1.7400 L12: 0.4318 REMARK 3 L13: 0.0433 L23: -0.0655 REMARK 3 S TENSOR REMARK 3 S11: -0.0086 S12: 0.0748 S13: -0.0224 REMARK 3 S21: -0.1261 S22: 0.0027 S23: -0.1629 REMARK 3 S31: 0.0486 S32: 0.1783 S33: -0.0012 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 76 THROUGH 182) REMARK 3 ORIGIN FOR THE GROUP (A): -37.6670 2.2081 23.4609 REMARK 3 T TENSOR REMARK 3 T11: 0.2129 T22: 0.1718 REMARK 3 T33: 0.2120 T12: 0.0029 REMARK 3 T13: -0.0282 T23: 0.0045 REMARK 3 L TENSOR REMARK 3 L11: 1.2771 L22: 1.9768 REMARK 3 L33: 2.0963 L12: 0.2826 REMARK 3 L13: 0.0927 L23: 0.1070 REMARK 3 S TENSOR REMARK 3 S11: 0.0326 S12: 0.1218 S13: 0.0468 REMARK 3 S21: -0.2443 S22: -0.0060 S23: 0.0987 REMARK 3 S31: -0.0282 S32: -0.0257 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'C' AND RESID 76 THROUGH 181) REMARK 3 ORIGIN FOR THE GROUP (A): -0.7821 12.6237 10.2382 REMARK 3 T TENSOR REMARK 3 T11: 0.1942 T22: 0.3011 REMARK 3 T33: 0.1961 T12: 0.0043 REMARK 3 T13: 0.0009 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 1.6523 L22: 1.4596 REMARK 3 L33: 4.9901 L12: -0.1950 REMARK 3 L13: 1.2016 L23: 0.0139 REMARK 3 S TENSOR REMARK 3 S11: 0.0588 S12: -0.0693 S13: -0.0054 REMARK 3 S21: 0.1267 S22: 0.1312 S23: 0.0428 REMARK 3 S31: 0.0384 S32: -0.2449 S33: 0.0008 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 1 THROUGH 6) REMARK 3 ORIGIN FOR THE GROUP (A): -29.1102 2.5211 47.9144 REMARK 3 T TENSOR REMARK 3 T11: 0.5395 T22: 0.5170 REMARK 3 T33: 0.4455 T12: 0.0022 REMARK 3 T13: 0.0241 T23: -0.1062 REMARK 3 L TENSOR REMARK 3 L11: 0.0264 L22: 0.0012 REMARK 3 L33: 0.0183 L12: 0.0055 REMARK 3 L13: 0.0079 L23: 0.0006 REMARK 3 S TENSOR REMARK 3 S11: -0.3331 S12: -0.6925 S13: 0.4265 REMARK 3 S21: 0.6954 S22: -0.1712 S23: 0.1952 REMARK 3 S31: 0.2579 S32: -0.7187 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'E' AND RESID 1 THROUGH 6) REMARK 3 ORIGIN FOR THE GROUP (A): -44.3545 0.0764 39.7498 REMARK 3 T TENSOR REMARK 3 T11: 0.4298 T22: 0.5629 REMARK 3 T33: 0.6534 T12: -0.1233 REMARK 3 T13: 0.0559 T23: -0.0215 REMARK 3 L TENSOR REMARK 3 L11: 0.0195 L22: 0.0128 REMARK 3 L33: 0.0300 L12: 0.0115 REMARK 3 L13: -0.0055 L23: 0.0099 REMARK 3 S TENSOR REMARK 3 S11: 0.6386 S12: -0.9227 S13: 0.0800 REMARK 3 S21: 0.3570 S22: -0.1952 S23: 0.8914 REMARK 3 S31: -0.1529 S32: -0.1226 S33: 0.0000 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 8SB6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-23. REMARK 100 THE DEPOSITION ID IS D_1000273391. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : OTHER REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41240 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 67.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 6ONY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, PH 6.7, 20-25% PEG5000 MME, REMARK 280 0.2 M AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K 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 57.68900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.90950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 57.68900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.90950 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, 3 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, D 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH C 241 LIES ON A SPECIAL POSITION. 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 SER A 71 REMARK 465 ASN A 72 REMARK 465 ALA A 73 REMARK 465 ARG A 74 REMARK 465 VAL A 75 REMARK 465 GLU A 184 REMARK 465 GLN A 185 REMARK 465 GLU A 186 REMARK 465 LEU A 187 REMARK 465 VAL A 188 REMARK 465 VAL A 189 REMARK 465 THR A 190 REMARK 465 ILE A 191 REMARK 465 PRO A 192 REMARK 465 LYS A 193 REMARK 465 ASN A 194 REMARK 465 SER B 71 REMARK 465 ASN B 72 REMARK 465 ALA B 73 REMARK 465 ARG B 74 REMARK 465 VAL B 75 REMARK 465 GLU B 183 REMARK 465 GLU B 184 REMARK 465 GLN B 185 REMARK 465 GLU B 186 REMARK 465 LEU B 187 REMARK 465 VAL B 188 REMARK 465 VAL B 189 REMARK 465 THR B 190 REMARK 465 ILE B 191 REMARK 465 PRO B 192 REMARK 465 LYS B 193 REMARK 465 ASN B 194 REMARK 465 SER C 71 REMARK 465 ASN C 72 REMARK 465 ALA C 73 REMARK 465 ARG C 74 REMARK 465 VAL C 75 REMARK 465 GLN C 182 REMARK 465 GLU C 183 REMARK 465 GLU C 184 REMARK 465 GLN C 185 REMARK 465 GLU C 186 REMARK 465 LEU C 187 REMARK 465 VAL C 188 REMARK 465 VAL C 189 REMARK 465 THR C 190 REMARK 465 ILE C 191 REMARK 465 PRO C 192 REMARK 465 LYS C 193 REMARK 465 ASN C 194 REMARK 465 GLY D 7 REMARK 465 LYS D 8 REMARK 465 GLY D 9 REMARK 465 LEU D 10 REMARK 465 GLY D 11 REMARK 465 7QK D 12 REMARK 465 GLY D 13 REMARK 465 GLY D 14 REMARK 465 ALA D 15 REMARK 465 GLY E 7 REMARK 465 LYS E 8 REMARK 465 GLY E 9 REMARK 465 LEU E 10 REMARK 465 GLY E 11 REMARK 465 7QK E 12 REMARK 465 GLY E 13 REMARK 465 GLY E 14 REMARK 465 ALA E 15 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU C 170 O HOH C 201 1.84 REMARK 500 O HOH A 209 O HOH A 278 1.88 REMARK 500 OE1 GLN A 80 O HOH A 201 1.89 REMARK 500 O HOH C 238 O HOH C 244 1.91 REMARK 500 O HOH C 245 O HOH C 251 2.04 REMARK 500 O HOH C 236 O HOH C 248 2.05 REMARK 500 NH2 ARG C 100 O HOH C 202 2.09 REMARK 500 OH TYR A 134 O HOH A 202 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 279 O HOH B 252 4456 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS C 152 CB CYS C 152 SG -0.110 REMARK 500 REMARK 500 REMARK: NULL 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 7QK E 5 7.27 -68.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY D 4 12.04 REMARK 500 GLY E 4 13.56 REMARK 500 REMARK 500 REMARK: NULL DBREF 8SB6 A 74 194 UNP H0Y6K2 H0Y6K2_HUMAN 80 200 DBREF 8SB6 B 74 194 UNP H0Y6K2 H0Y6K2_HUMAN 80 200 DBREF 8SB6 C 74 194 UNP H0Y6K2 H0Y6K2_HUMAN 80 200 DBREF 8SB6 D 1 15 UNP P62805 H4_HUMAN 2 16 DBREF 8SB6 E 1 15 UNP P62805 H4_HUMAN 2 16 SEQADV 8SB6 SER A 71 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ASN A 72 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ALA A 73 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 SER B 71 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ASN B 72 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ALA B 73 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 SER C 71 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ASN C 72 UNP H0Y6K2 EXPRESSION TAG SEQADV 8SB6 ALA C 73 UNP H0Y6K2 EXPRESSION TAG SEQRES 1 A 124 SER ASN ALA ARG VAL THR ASN GLN LEU GLN TYR LEU HIS SEQRES 2 A 124 LYS VAL VAL MET LYS ALA LEU TRP LYS HIS GLN PHE ALA SEQRES 3 A 124 TRP PRO PHE ARG GLN PRO VAL ASP ALA VAL LYS LEU GLY SEQRES 4 A 124 LEU PRO ASP TYR HIS LYS ILE ILE LYS GLN PRO MET ASP SEQRES 5 A 124 MET GLY THR ILE LYS ARG ARG LEU GLU ASN ASN TYR TYR SEQRES 6 A 124 TRP ALA ALA SER GLU CYS MET GLN ASP PHE ASN THR MET SEQRES 7 A 124 PHE THR ASN CYS TYR ILE TYR ASN LYS PRO THR ASP ASP SEQRES 8 A 124 ILE VAL LEU MET ALA GLN THR LEU GLU LYS ILE PHE LEU SEQRES 9 A 124 GLN LYS VAL ALA SER MET PRO GLN GLU GLU GLN GLU LEU SEQRES 10 A 124 VAL VAL THR ILE PRO LYS ASN SEQRES 1 B 124 SER ASN ALA ARG VAL THR ASN GLN LEU GLN TYR LEU HIS SEQRES 2 B 124 LYS VAL VAL MET LYS ALA LEU TRP LYS HIS GLN PHE ALA SEQRES 3 B 124 TRP PRO PHE ARG GLN PRO VAL ASP ALA VAL LYS LEU GLY SEQRES 4 B 124 LEU PRO ASP TYR HIS LYS ILE ILE LYS GLN PRO MET ASP SEQRES 5 B 124 MET GLY THR ILE LYS ARG ARG LEU GLU ASN ASN TYR TYR SEQRES 6 B 124 TRP ALA ALA SER GLU CYS MET GLN ASP PHE ASN THR MET SEQRES 7 B 124 PHE THR ASN CYS TYR ILE TYR ASN LYS PRO THR ASP ASP SEQRES 8 B 124 ILE VAL LEU MET ALA GLN THR LEU GLU LYS ILE PHE LEU SEQRES 9 B 124 GLN LYS VAL ALA SER MET PRO GLN GLU GLU GLN GLU LEU SEQRES 10 B 124 VAL VAL THR ILE PRO LYS ASN SEQRES 1 C 124 SER ASN ALA ARG VAL THR ASN GLN LEU GLN TYR LEU HIS SEQRES 2 C 124 LYS VAL VAL MET LYS ALA LEU TRP LYS HIS GLN PHE ALA SEQRES 3 C 124 TRP PRO PHE ARG GLN PRO VAL ASP ALA VAL LYS LEU GLY SEQRES 4 C 124 LEU PRO ASP TYR HIS LYS ILE ILE LYS GLN PRO MET ASP SEQRES 5 C 124 MET GLY THR ILE LYS ARG ARG LEU GLU ASN ASN TYR TYR SEQRES 6 C 124 TRP ALA ALA SER GLU CYS MET GLN ASP PHE ASN THR MET SEQRES 7 C 124 PHE THR ASN CYS TYR ILE TYR ASN LYS PRO THR ASP ASP SEQRES 8 C 124 ILE VAL LEU MET ALA GLN THR LEU GLU LYS ILE PHE LEU SEQRES 9 C 124 GLN LYS VAL ALA SER MET PRO GLN GLU GLU GLN GLU LEU SEQRES 10 C 124 VAL VAL THR ILE PRO LYS ASN SEQRES 1 D 15 SER GLY ARG GLY 7QK GLY GLY LYS GLY LEU GLY 7QK GLY SEQRES 2 D 15 GLY ALA SEQRES 1 E 15 SER GLY ARG GLY 7QK GLY GLY LYS GLY LEU GLY 7QK GLY SEQRES 2 E 15 GLY ALA MODRES 8SB6 7QK D 5 LYS MODIFIED RESIDUE MODRES 8SB6 7QK E 5 LYS MODIFIED RESIDUE HET 7QK D 5 29 HET 7QK E 5 29 HETNAM 7QK N~6~-ACETYL-N~6~-METHYL-L-LYSINE FORMUL 4 7QK 2(C9 H18 N2 O3) FORMUL 6 HOH *214(H2 O) HELIX 1 AA1 THR A 76 VAL A 85 1 10 HELIX 2 AA2 VAL A 85 LYS A 92 1 8 HELIX 3 AA3 ALA A 96 ARG A 100 5 5 HELIX 4 AA4 ASP A 112 ILE A 117 1 6 HELIX 5 AA5 ASP A 122 ASN A 132 1 11 HELIX 6 AA6 ALA A 137 ASN A 156 1 20 HELIX 7 AA7 ASP A 160 ALA A 178 1 19 HELIX 8 AA8 ASN B 77 VAL B 85 1 9 HELIX 9 AA9 VAL B 85 LYS B 92 1 8 HELIX 10 AB1 ALA B 96 ARG B 100 5 5 HELIX 11 AB2 ASP B 112 ILE B 117 1 6 HELIX 12 AB3 ASP B 122 ASN B 132 1 11 HELIX 13 AB4 ALA B 137 ASN B 156 1 20 HELIX 14 AB5 ASP B 160 SER B 179 1 20 HELIX 15 AB6 ASN C 77 VAL C 85 1 9 HELIX 16 AB7 VAL C 85 HIS C 93 1 9 HELIX 17 AB8 GLN C 94 ARG C 100 5 7 HELIX 18 AB9 ASP C 112 ILE C 117 1 6 HELIX 19 AC1 ASP C 122 ASN C 132 1 11 HELIX 20 AC2 ALA C 137 ASN C 156 1 20 HELIX 21 AC3 ASP C 160 SER C 179 1 20 LINK C GLY D 4 N 7QK D 5 1555 1555 1.31 LINK C 7QK D 5 N GLY D 6 1555 1555 1.31 LINK C GLY E 4 N 7QK E 5 1555 1555 1.30 LINK C 7QK E 5 N GLY E 6 1555 1555 1.32 CRYST1 115.378 55.819 68.006 90.00 94.41 90.00 C 1 2 1 12 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 0.008667 0.000000 0.000669 0.00000 SCALE2 0.000000 0.017915 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014748 0.00000