PDB Short entry for 2NQB HEADER STRUCTURAL PROTEIN/DNA 30-OCT-06 2NQB TITLE DROSOPHILA NUCLEOSOME STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-SATELLITE DNA; COMPND 3 CHAIN: I, J; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HISTONE H3; COMPND 7 CHAIN: A, E; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HISTONE H4; COMPND 11 CHAIN: B, F; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: HISTONE H2A; COMPND 15 CHAIN: C, G; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 5; COMPND 18 MOLECULE: HISTONE H2B; COMPND 19 CHAIN: D, H; COMPND 20 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: HIS3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 10 ORGANISM_COMMON: FRUIT FLY; SOURCE 11 ORGANISM_TAXID: 7227; SOURCE 12 GENE: HIS4; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 17 ORGANISM_COMMON: FRUIT FLY; SOURCE 18 ORGANISM_TAXID: 7227; SOURCE 19 GENE: HIS2A; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 22 MOL_ID: 4; SOURCE 23 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 24 ORGANISM_COMMON: FRUIT FLY; SOURCE 25 ORGANISM_TAXID: 7227; SOURCE 26 GENE: HIS2B; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 29 MOL_ID: 5; SOURCE 30 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 31 ORGANISM_COMMON: FRUIT FLY; SOURCE 32 ORGANISM_TAXID: 7227; SOURCE 33 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 34 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEOSOME, NCP, CHROMATIN, HISTONE, STRUCTURAL PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.LUGER,S.CHAKRAVARTHY REVDAT 4 30-AUG-23 2NQB 1 REMARK REVDAT 3 20-OCT-21 2NQB 1 SEQADV REVDAT 2 24-FEB-09 2NQB 1 VERSN REVDAT 1 11-SEP-07 2NQB 0 JRNL AUTH S.CHAKRAVARTHY,K.LUGER JRNL TITL COMPARATIVE ANALYSIS OF NUCLEOSOME STRUCTURES FROM DIFFERENT JRNL TITL 2 SPECIES. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 99.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 91209 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2267 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6050 REMARK 3 NUCLEIC ACID ATOMS : 5980 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 264 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.47300 REMARK 3 B22 (A**2) : 5.93400 REMARK 3 B33 (A**2) : -2.46100 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 0.956 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL 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 : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2NQB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040172. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93949 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.30200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 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 1AOI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CONSTITUENTS OF THE CRYSTALLIZATION REMARK 280 BUFFER: POTASSIUM CHLORIDE, MANGANESE CHLORIDE, AND POTASSIUM REMARK 280 CACODYLATE., PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 53.07150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 91.02250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.79050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 91.02250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.07150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.79050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 300 REMARK: EACH NUCLEOSOME HAS TWO COPIES EACH OF HISTONES H2A, H2B, REMARK 300 H3 AND H4, AND A 146 BASE PAIRS LONG PALINDROMIC STRAND OF DNA REMARK 300 DERIVED FROM HUMAN ALPHA-SATELLITE SEQUENCE. 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: DECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: I, J, A, B, C, D, E, F, G, H 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 ALA A 401 REMARK 465 ARG A 402 REMARK 465 THR A 403 REMARK 465 LYS A 404 REMARK 465 GLN A 405 REMARK 465 THR A 406 REMARK 465 ALA A 407 REMARK 465 ARG A 408 REMARK 465 LYS A 409 REMARK 465 SER A 410 REMARK 465 THR A 411 REMARK 465 GLY A 412 REMARK 465 GLY A 413 REMARK 465 LYS A 414 REMARK 465 ALA A 415 REMARK 465 PRO A 416 REMARK 465 ARG A 417 REMARK 465 LYS A 418 REMARK 465 GLN A 419 REMARK 465 LEU A 420 REMARK 465 ALA A 421 REMARK 465 THR A 422 REMARK 465 LYS A 423 REMARK 465 ALA A 424 REMARK 465 ALA A 425 REMARK 465 ARG A 426 REMARK 465 LYS A 427 REMARK 465 SER A 428 REMARK 465 ALA A 429 REMARK 465 PRO A 430 REMARK 465 ALA A 431 REMARK 465 THR A 432 REMARK 465 GLY A 433 REMARK 465 GLY A 434 REMARK 465 VAL A 435 REMARK 465 LYS A 436 REMARK 465 LYS A 437 REMARK 465 ILE B 0 REMARK 465 THR B 1 REMARK 465 GLY B 2 REMARK 465 ARG B 3 REMARK 465 GLY B 4 REMARK 465 LYS B 5 REMARK 465 GLY B 6 REMARK 465 GLY B 7 REMARK 465 LYS B 8 REMARK 465 GLY B 9 REMARK 465 LEU B 10 REMARK 465 GLY B 11 REMARK 465 LYS B 12 REMARK 465 GLY B 13 REMARK 465 GLY B 14 REMARK 465 ALA B 15 REMARK 465 LYS B 16 REMARK 465 ARG B 17 REMARK 465 HIS B 18 REMARK 465 ARG B 19 REMARK 465 LYS B 20 REMARK 465 VAL B 21 REMARK 465 SER C 802 REMARK 465 GLY C 803 REMARK 465 ARG C 804 REMARK 465 GLY C 805 REMARK 465 LYS C 806 REMARK 465 GLY C 807 REMARK 465 GLY C 808 REMARK 465 LYS C 809 REMARK 465 VAL C 810 REMARK 465 LYS C 811 REMARK 465 GLY C 812 REMARK 465 LYS C 813 REMARK 465 THR C 920 REMARK 465 GLU C 921 REMARK 465 LYS C 922 REMARK 465 LYS C 923 REMARK 465 ALA C 924 REMARK 465 ILE D 1200 REMARK 465 PRO D 1201 REMARK 465 PRO D 1202 REMARK 465 LYS D 1203 REMARK 465 THR D 1204 REMARK 465 SER D 1205 REMARK 465 GLY D 1206 REMARK 465 LYS D 1207 REMARK 465 ALA D 1208 REMARK 465 ALA D 1209 REMARK 465 LYS D 1210 REMARK 465 LYS D 1211 REMARK 465 ALA D 1212 REMARK 465 GLY D 1213 REMARK 465 LYS D 1214 REMARK 465 ALA D 1215 REMARK 465 GLN D 1216 REMARK 465 LYS D 1217 REMARK 465 ASN D 1218 REMARK 465 ILE D 1219 REMARK 465 THR D 1220 REMARK 465 LYS D 1221 REMARK 465 THR D 1222 REMARK 465 ASP D 1223 REMARK 465 LYS D 1224 REMARK 465 LYS D 1225 REMARK 465 LYS D 1226 REMARK 465 LYS D 1227 REMARK 465 ALA E 601 REMARK 465 ARG E 602 REMARK 465 THR E 603 REMARK 465 LYS E 604 REMARK 465 GLN E 605 REMARK 465 THR E 606 REMARK 465 ALA E 607 REMARK 465 ARG E 608 REMARK 465 LYS E 609 REMARK 465 SER E 610 REMARK 465 THR E 611 REMARK 465 GLY E 612 REMARK 465 GLY E 613 REMARK 465 LYS E 614 REMARK 465 ALA E 615 REMARK 465 PRO E 616 REMARK 465 ARG E 617 REMARK 465 LYS E 618 REMARK 465 GLN E 619 REMARK 465 LEU E 620 REMARK 465 ALA E 621 REMARK 465 THR E 622 REMARK 465 LYS E 623 REMARK 465 ALA E 624 REMARK 465 ALA E 625 REMARK 465 ARG E 626 REMARK 465 LYS E 627 REMARK 465 SER E 628 REMARK 465 ALA E 629 REMARK 465 PRO E 630 REMARK 465 ALA E 631 REMARK 465 THR E 632 REMARK 465 GLY E 633 REMARK 465 GLY E 634 REMARK 465 VAL E 635 REMARK 465 LYS E 636 REMARK 465 LYS E 637 REMARK 465 ILE F 200 REMARK 465 THR F 201 REMARK 465 GLY F 202 REMARK 465 ARG F 203 REMARK 465 GLY F 204 REMARK 465 LYS F 205 REMARK 465 GLY F 206 REMARK 465 GLY F 207 REMARK 465 LYS F 208 REMARK 465 GLY F 209 REMARK 465 LEU F 210 REMARK 465 GLY F 211 REMARK 465 LYS F 212 REMARK 465 GLY F 213 REMARK 465 GLY F 214 REMARK 465 ALA F 215 REMARK 465 LYS F 216 REMARK 465 SER G 1002 REMARK 465 GLY G 1003 REMARK 465 ARG G 1004 REMARK 465 GLY G 1005 REMARK 465 LYS G 1006 REMARK 465 GLY G 1007 REMARK 465 GLY G 1008 REMARK 465 LYS G 1009 REMARK 465 VAL G 1010 REMARK 465 LYS G 1011 REMARK 465 GLY G 1012 REMARK 465 LYS G 1013 REMARK 465 LYS G 1119 REMARK 465 THR G 1120 REMARK 465 GLU G 1121 REMARK 465 LYS G 1122 REMARK 465 LYS G 1123 REMARK 465 ALA G 1124 REMARK 465 ILE H 1400 REMARK 465 PRO H 1401 REMARK 465 PRO H 1402 REMARK 465 LYS H 1403 REMARK 465 THR H 1404 REMARK 465 SER H 1405 REMARK 465 GLY H 1406 REMARK 465 LYS H 1407 REMARK 465 ALA H 1408 REMARK 465 ALA H 1409 REMARK 465 LYS H 1410 REMARK 465 LYS H 1411 REMARK 465 ALA H 1412 REMARK 465 GLY H 1413 REMARK 465 LYS H 1414 REMARK 465 ALA H 1415 REMARK 465 GLN H 1416 REMARK 465 LYS H 1417 REMARK 465 ASN H 1418 REMARK 465 ILE H 1419 REMARK 465 THR H 1420 REMARK 465 LYS H 1421 REMARK 465 THR H 1422 REMARK 465 ASP H 1423 REMARK 465 LYS H 1424 REMARK 465 LYS H 1425 REMARK 465 LYS H 1426 REMARK 465 LYS H 1427 REMARK 465 ARG H 1428 REMARK 465 LYS H 1522 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 O HOH I 322 O HOH I 516 1.24 REMARK 500 O HOH G 363 O HOH G 518 1.26 REMARK 500 O3' DA I 28 O HOH I 522 1.63 REMARK 500 CB ARG F 292 O HOH F 517 1.65 REMARK 500 C5' DT J 166 O HOH J 529 1.65 REMARK 500 O HOH J 364 O HOH J 521 1.71 REMARK 500 N VAL F 265 O HOH F 531 1.78 REMARK 500 O4' DT J 166 O HOH J 529 1.81 REMARK 500 O5' DT J 166 O HOH J 529 1.86 REMARK 500 O HOH C 499 O HOH D 362 1.90 REMARK 500 O LEU F 262 O HOH F 531 1.94 REMARK 500 N4 DC J 149 O HOH J 587 1.97 REMARK 500 N7 DG I 100 O HOH I 516 2.02 REMARK 500 CG ARG F 292 O HOH F 517 2.05 REMARK 500 N3 DA I 55 O HOH I 565 2.06 REMARK 500 C4' DT J 166 O HOH J 529 2.06 REMARK 500 O PHE F 261 O HOH F 531 2.10 REMARK 500 O HOH I 471 O HOH J 364 2.13 REMARK 500 NH1 ARG C 881 O HOH C 478 2.14 REMARK 500 O HOH J 364 O HOH J 465 2.18 REMARK 500 C4 DA I 55 O HOH I 565 2.18 REMARK 500 N3 DG I 58 O HOH I 525 2.18 REMARK 500 OD1 ASP E 677 O HOH E 736 2.18 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 ARG B 23 173.37 178.25 REMARK 500 ARG B 95 52.72 -117.41 REMARK 500 PRO C 826 92.62 -64.12 REMARK 500 ASN C 910 114.02 -164.44 REMARK 500 LYS C 918 -153.66 42.37 REMARK 500 ARG E 734 16.14 -178.12 REMARK 500 ARG F 219 -138.95 18.75 REMARK 500 LYS F 220 75.04 144.06 REMARK 500 VAL F 221 124.53 -18.29 REMARK 500 ASP F 224 43.60 37.16 REMARK 500 ARG F 295 66.87 -108.57 REMARK 500 PRO G1026 94.27 -66.66 REMARK 500 ASN G1110 112.06 -163.86 REMARK 500 ARG H1430 170.93 -26.99 REMARK 500 LYS H1431 103.85 178.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DG I 131 0.05 SIDE CHAIN REMARK 500 DG J 214 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AOI RELATED DB: PDB REMARK 900 XENOPUS NUCLEOSOME STRUCTURE REMARK 900 RELATED ID: 1ID3 RELATED DB: PDB REMARK 900 YEAST NUCLEOSOME STRUCTURE REMARK 900 RELATED ID: 2CV5 RELATED DB: PDB REMARK 900 HUMAN NUCLEOSOME STRUCTURE DBREF 2NQB A 401 535 UNP P02299 H3_DROME 1 135 DBREF 2NQB E 601 735 UNP P02299 H3_DROME 1 135 DBREF 2NQB B 1 102 UNP P84040 H4_DROME 1 102 DBREF 2NQB F 201 302 UNP P84040 H4_DROME 1 102 DBREF 2NQB C 802 924 UNP P84051 H2A_DROME 1 123 DBREF 2NQB G 1002 1124 UNP P84051 H2A_DROME 1 123 DBREF 2NQB D 1200 1322 UNP P02283 H2B_DROME 1 123 DBREF 2NQB H 1400 1522 UNP P02283 H2B_DROME 1 123 DBREF 2NQB I 1 146 PDB 2NQB 2NQB 1 146 DBREF 2NQB J 147 292 PDB 2NQB 2NQB 147 292 SEQADV 2NQB ILE B 0 UNP P84040 EXPRESSION TAG SEQADV 2NQB ILE F 200 UNP P84040 EXPRESSION TAG SEQADV 2NQB ILE D 1200 UNP P02283 EXPRESSION TAG SEQADV 2NQB THR D 1240 UNP P02283 LYS 40 ENGINEERED MUTATION SEQADV 2NQB ILE H 1400 UNP P02283 EXPRESSION TAG SEQADV 2NQB THR H 1440 UNP P02283 LYS 40 ENGINEERED MUTATION SEQRES 1 I 146 DA DT DC DA DA DT DA DT DC DC DA DC DC SEQRES 2 I 146 DT DG DC DA DG DA DT DT DC DT DA DC DC SEQRES 3 I 146 DA DA DA DA DG DT DG DT DA DT DT DT DG SEQRES 4 I 146 DG DA DA DA DC DT DG DC DT DC DC DA DT SEQRES 5 I 146 DC DA DA DA DA DG DG DC DA DT DG DT DT SEQRES 6 I 146 DC DA DG DC DG DG DA DA DT DT DC DC DG SEQRES 7 I 146 DC DT DG DA DA DC DA DT DG DC DC DT DT SEQRES 8 I 146 DT DT DG DA DT DG DG DA DG DC DA DG DT SEQRES 9 I 146 DT DT DC DC DA DA DA DT DA DC DA DC DT SEQRES 10 I 146 DT DT DT DG DG DT DA DG DA DA DT DC DT SEQRES 11 I 146 DG DC DA DG DG DT DG DG DA DT DA DT DT SEQRES 12 I 146 DG DA DT SEQRES 1 J 146 DA DT DC DA DA DT DA DT DC DC DA DC DC SEQRES 2 J 146 DT DG DC DA DG DA DT DT DC DT DA DC DC SEQRES 3 J 146 DA DA DA DA DG DT DG DT DA DT DT DT DG SEQRES 4 J 146 DG DA DA DA DC DT DG DC DT DC DC DA DT SEQRES 5 J 146 DC DA DA DA DA DG DG DC DA DT DG DT DT SEQRES 6 J 146 DC DA DG DC DG DG DA DA DT DT DC DC DG SEQRES 7 J 146 DC DT DG DA DA DC DA DT DG DC DC DT DT SEQRES 8 J 146 DT DT DG DA DT DG DG DA DG DC DA DG DT SEQRES 9 J 146 DT DT DC DC DA DA DA DT DA DC DA DC DT SEQRES 10 J 146 DT DT DT DG DG DT DA DG DA DA DT DC DT SEQRES 11 J 146 DG DC DA DG DG DT DG DG DA DT DA DT DT SEQRES 12 J 146 DG DA DT SEQRES 1 A 135 ALA ARG THR LYS GLN THR ALA ARG LYS SER THR GLY GLY SEQRES 2 A 135 LYS ALA PRO ARG LYS GLN LEU ALA THR LYS ALA ALA ARG SEQRES 3 A 135 LYS SER ALA PRO ALA THR GLY GLY VAL LYS LYS PRO HIS SEQRES 4 A 135 ARG TYR ARG PRO GLY THR VAL ALA LEU ARG GLU ILE ARG SEQRES 5 A 135 ARG TYR GLN LYS SER THR GLU LEU LEU ILE ARG LYS LEU SEQRES 6 A 135 PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA GLN ASP PHE SEQRES 7 A 135 LYS THR ASP LEU ARG PHE GLN SER SER ALA VAL MET ALA SEQRES 8 A 135 LEU GLN GLU ALA SER GLU ALA TYR LEU VAL GLY LEU PHE SEQRES 9 A 135 GLU ASP THR ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL SEQRES 10 A 135 THR ILE MET PRO LYS ASP ILE GLN LEU ALA ARG ARG ILE SEQRES 11 A 135 ARG GLY GLU ARG ALA SEQRES 1 B 103 ILE THR GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS SEQRES 2 B 103 GLY GLY ALA LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN SEQRES 3 B 103 ILE GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA SEQRES 4 B 103 ARG ARG GLY GLY VAL LYS ARG ILE SER GLY LEU ILE TYR SEQRES 5 B 103 GLU GLU THR ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN SEQRES 6 B 103 VAL ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS SEQRES 7 B 103 ARG LYS THR VAL THR ALA MET ASP VAL VAL TYR ALA LEU SEQRES 8 B 103 LYS ARG GLN GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 C 123 SER GLY ARG GLY LYS GLY GLY LYS VAL LYS GLY LYS ALA SEQRES 2 C 123 LYS SER ARG SER ASN ARG ALA GLY LEU GLN PHE PRO VAL SEQRES 3 C 123 GLY ARG ILE HIS ARG LEU LEU ARG LYS GLY ASN TYR ALA SEQRES 4 C 123 GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU ALA ALA SEQRES 5 C 123 VAL MET GLU TYR LEU ALA ALA GLU VAL LEU GLU LEU ALA SEQRES 6 C 123 GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG ILE ILE SEQRES 7 C 123 PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN ASP GLU GLU SEQRES 8 C 123 LEU ASN LYS LEU LEU SER GLY VAL THR ILE ALA GLN GLY SEQRES 9 C 123 GLY VAL LEU PRO ASN ILE GLN ALA VAL LEU LEU PRO LYS SEQRES 10 C 123 LYS THR GLU LYS LYS ALA SEQRES 1 D 123 ILE PRO PRO LYS THR SER GLY LYS ALA ALA LYS LYS ALA SEQRES 2 D 123 GLY LYS ALA GLN LYS ASN ILE THR LYS THR ASP LYS LYS SEQRES 3 D 123 LYS LYS ARG LYS ARG LYS GLU SER TYR ALA ILE TYR ILE SEQRES 4 D 123 TYR THR VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SEQRES 5 D 123 SER SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN SEQRES 6 D 123 ASP ILE PHE GLU ARG ILE ALA ALA GLU ALA SER ARG LEU SEQRES 7 D 123 ALA HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU SEQRES 8 D 123 ILE GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU SEQRES 9 D 123 ALA LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR SEQRES 10 D 123 LYS TYR THR SER SER LYS SEQRES 1 E 135 ALA ARG THR LYS GLN THR ALA ARG LYS SER THR GLY GLY SEQRES 2 E 135 LYS ALA PRO ARG LYS GLN LEU ALA THR LYS ALA ALA ARG SEQRES 3 E 135 LYS SER ALA PRO ALA THR GLY GLY VAL LYS LYS PRO HIS SEQRES 4 E 135 ARG TYR ARG PRO GLY THR VAL ALA LEU ARG GLU ILE ARG SEQRES 5 E 135 ARG TYR GLN LYS SER THR GLU LEU LEU ILE ARG LYS LEU SEQRES 6 E 135 PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA GLN ASP PHE SEQRES 7 E 135 LYS THR ASP LEU ARG PHE GLN SER SER ALA VAL MET ALA SEQRES 8 E 135 LEU GLN GLU ALA SER GLU ALA TYR LEU VAL GLY LEU PHE SEQRES 9 E 135 GLU ASP THR ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL SEQRES 10 E 135 THR ILE MET PRO LYS ASP ILE GLN LEU ALA ARG ARG ILE SEQRES 11 E 135 ARG GLY GLU ARG ALA SEQRES 1 F 103 ILE THR GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS SEQRES 2 F 103 GLY GLY ALA LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN SEQRES 3 F 103 ILE GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA SEQRES 4 F 103 ARG ARG GLY GLY VAL LYS ARG ILE SER GLY LEU ILE TYR SEQRES 5 F 103 GLU GLU THR ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN SEQRES 6 F 103 VAL ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS SEQRES 7 F 103 ARG LYS THR VAL THR ALA MET ASP VAL VAL TYR ALA LEU SEQRES 8 F 103 LYS ARG GLN GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 G 123 SER GLY ARG GLY LYS GLY GLY LYS VAL LYS GLY LYS ALA SEQRES 2 G 123 LYS SER ARG SER ASN ARG ALA GLY LEU GLN PHE PRO VAL SEQRES 3 G 123 GLY ARG ILE HIS ARG LEU LEU ARG LYS GLY ASN TYR ALA SEQRES 4 G 123 GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU ALA ALA SEQRES 5 G 123 VAL MET GLU TYR LEU ALA ALA GLU VAL LEU GLU LEU ALA SEQRES 6 G 123 GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG ILE ILE SEQRES 7 G 123 PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN ASP GLU GLU SEQRES 8 G 123 LEU ASN LYS LEU LEU SER GLY VAL THR ILE ALA GLN GLY SEQRES 9 G 123 GLY VAL LEU PRO ASN ILE GLN ALA VAL LEU LEU PRO LYS SEQRES 10 G 123 LYS THR GLU LYS LYS ALA SEQRES 1 H 123 ILE PRO PRO LYS THR SER GLY LYS ALA ALA LYS LYS ALA SEQRES 2 H 123 GLY LYS ALA GLN LYS ASN ILE THR LYS THR ASP LYS LYS SEQRES 3 H 123 LYS LYS ARG LYS ARG LYS GLU SER TYR ALA ILE TYR ILE SEQRES 4 H 123 TYR THR VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SEQRES 5 H 123 SER SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN SEQRES 6 H 123 ASP ILE PHE GLU ARG ILE ALA ALA GLU ALA SER ARG LEU SEQRES 7 H 123 ALA HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU SEQRES 8 H 123 ILE GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU SEQRES 9 H 123 ALA LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR SEQRES 10 H 123 LYS TYR THR SER SER LYS FORMUL 11 HOH *264(H2 O) HELIX 1 1 GLY A 444 SER A 457 1 14 HELIX 2 2 ARG A 463 ASP A 477 1 15 HELIX 3 3 GLN A 485 ALA A 514 1 30 HELIX 4 4 MET A 520 ARG A 531 1 12 HELIX 5 5 ASP B 24 ILE B 29 5 6 HELIX 6 6 THR B 30 GLY B 41 1 12 HELIX 7 7 LEU B 49 ALA B 76 1 28 HELIX 8 8 THR B 82 GLN B 93 1 12 HELIX 9 9 SER C 816 GLY C 822 1 7 HELIX 10 10 PRO C 826 GLY C 837 1 12 HELIX 11 11 ALA C 845 ASN C 873 1 29 HELIX 12 12 ILE C 879 ASN C 889 1 11 HELIX 13 13 ASP C 890 LEU C 897 1 8 HELIX 14 14 GLN C 912 LEU C 916 5 5 HELIX 15 15 TYR D 1234 HIS D 1246 1 13 HELIX 16 16 SER D 1252 ASN D 1281 1 30 HELIX 17 17 THR D 1287 LEU D 1299 1 13 HELIX 18 18 PRO D 1300 SER D 1321 1 22 HELIX 19 19 GLY E 644 SER E 657 1 14 HELIX 20 20 ARG E 663 LYS E 679 1 17 HELIX 21 21 GLN E 685 ALA E 714 1 30 HELIX 22 22 MET E 720 GLY E 732 1 13 HELIX 23 23 ASP F 224 ILE F 229 5 6 HELIX 24 24 THR F 230 GLY F 241 1 12 HELIX 25 25 LEU F 249 ALA F 276 1 28 HELIX 26 26 THR F 282 GLN F 293 1 12 HELIX 27 27 SER G 1016 GLY G 1022 1 7 HELIX 28 28 PRO G 1026 GLY G 1037 1 12 HELIX 29 29 ALA G 1045 ASN G 1073 1 29 HELIX 30 30 ILE G 1079 ASN G 1089 1 11 HELIX 31 31 ASP G 1090 LEU G 1097 1 8 HELIX 32 32 GLN G 1112 LEU G 1116 5 5 HELIX 33 33 TYR H 1434 HIS H 1446 1 13 HELIX 34 34 SER H 1452 ASN H 1481 1 30 HELIX 35 35 THR H 1487 LEU H 1499 1 13 HELIX 36 36 PRO H 1500 SER H 1520 1 21 SHEET 1 A 2 ARG A 483 PHE A 484 0 SHEET 2 A 2 THR B 80 VAL B 81 1 O VAL B 81 N ARG A 483 SHEET 1 B 2 THR A 518 ILE A 519 0 SHEET 2 B 2 ARG B 45 ILE B 46 1 O ARG B 45 N ILE A 519 SHEET 1 C 2 LEU B 97 TYR B 98 0 SHEET 2 C 2 THR G1101 ILE G1102 1 O THR G1101 N TYR B 98 SHEET 1 D 2 ARG C 842 VAL C 843 0 SHEET 2 D 2 THR D1285 ILE D1286 1 O ILE D1286 N ARG C 842 SHEET 1 E 2 ARG C 877 ILE C 878 0 SHEET 2 E 2 GLY D1250 ILE D1251 1 O GLY D1250 N ILE C 878 SHEET 1 F 2 VAL C 900 ILE C 902 0 SHEET 2 F 2 THR F 296 TYR F 298 1 O TYR F 298 N THR C 901 SHEET 1 G 2 ARG E 683 PHE E 684 0 SHEET 2 G 2 THR F 280 VAL F 281 1 O VAL F 281 N ARG E 683 SHEET 1 H 2 THR E 718 ILE E 719 0 SHEET 2 H 2 ARG F 245 ILE F 246 1 O ARG F 245 N ILE E 719 SHEET 1 I 2 ARG G1042 VAL G1043 0 SHEET 2 I 2 THR H1485 ILE H1486 1 O ILE H1486 N ARG G1042 SHEET 1 J 2 ARG G1077 ILE G1078 0 SHEET 2 J 2 GLY H1450 ILE H1451 1 O GLY H1450 N ILE G1078 CRYST1 106.143 109.581 182.045 90.00 90.00 90.00 P 21 21 21 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 0.009421 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009126 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005493 0.00000