HEADER DNA BINDING PROTEIN 30-JUN-14 4QR9 TITLE CRYSTAL STRUCTURE OF TWO HMGB1 BOX A DOMAINS COOPERATING TO UNDERWIND TITLE 2 AND KINK A DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH MOBILITY GROUP PROTEIN B1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 8-81; COMPND 5 SYNONYM: AMPHOTERIN, HEPARIN-BINDING PROTEIN P30, HIGH MOBILITY GROUP COMPND 6 PROTEIN 1, HMG-1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*AP*TP*AP*TP*CP*GP*AP*TP*AP*T)-3'); COMPND 10 CHAIN: C, D, E, F; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: HMGB1, HMG-1, HMG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX2T; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS HMG-BOX, HMGB1, BOX A DOMAIN, HIGH MOBILITY GROUP, DNA-BINDING, BEND KEYWDS 2 DNA, KINK DNA, ARCHITECTURAL FACTOR, MINOR GROOVE, CHROMATIN, KEYWDS 3 NUCLEUS, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.SANCHEZ-GIRALDO,F.J.ACOSTA-REYES,C.S.MALARKEY,N.SAPERAS, AUTHOR 2 M.E.A.CHURCHILL,J.L.CAMPOS REVDAT 4 20-SEP-23 4QR9 1 REMARK SEQADV LINK REVDAT 3 29-JUL-15 4QR9 1 SOURCE JRNL REMARK REVDAT 2 08-JUL-15 4QR9 1 JRNL REVDAT 1 01-JUL-15 4QR9 0 JRNL AUTH R.SANCHEZ-GIRALDO,F.J.ACOSTA-REYES,C.S.MALARKEY,N.SAPERAS, JRNL AUTH 2 M.E.CHURCHILL,J.L.CAMPOS JRNL TITL TWO HIGH-MOBILITY GROUP BOX DOMAINS ACT TOGETHER TO JRNL TITL 2 UNDERWIND AND KINK DNA. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 71 1423 2015 JRNL REFN ISSN 0907-4449 JRNL PMID 26143914 JRNL DOI 10.1107/S1399004715007452 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.12 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 22219 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1176 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1486 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1234 REMARK 3 NUCLEIC ACID ATOMS : 808 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 115 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.43000 REMARK 3 B22 (A**2) : -1.21000 REMARK 3 B33 (A**2) : -1.22000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.161 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.442 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2200 ; 0.016 ; 0.016 REMARK 3 BOND LENGTHS OTHERS (A): 1676 ; 0.012 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3094 ; 1.622 ; 1.602 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3933 ; 2.924 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 154 ; 5.485 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 59 ;32.956 ;22.881 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 269 ;18.187 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;18.229 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 279 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1872 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 466 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 5 79 B 5 79 3839 0.17 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 79 REMARK 3 RESIDUE RANGE : A 101 A 120 REMARK 3 ORIGIN FOR THE GROUP (A): -8.8554 -22.7288 20.4295 REMARK 3 T TENSOR REMARK 3 T11: 0.0526 T22: 0.0914 REMARK 3 T33: 0.0910 T12: 0.0129 REMARK 3 T13: -0.0372 T23: 0.0204 REMARK 3 L TENSOR REMARK 3 L11: 0.4021 L22: 0.6477 REMARK 3 L33: 1.2846 L12: 0.1851 REMARK 3 L13: 0.0694 L23: -0.3296 REMARK 3 S TENSOR REMARK 3 S11: 0.0932 S12: 0.0263 S13: -0.0807 REMARK 3 S21: 0.1243 S22: -0.0993 S23: -0.1538 REMARK 3 S31: 0.0995 S32: 0.1894 S33: 0.0061 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 5 B 79 REMARK 3 RESIDUE RANGE : B 101 B 131 REMARK 3 ORIGIN FOR THE GROUP (A): -30.7182 -12.0619 9.8549 REMARK 3 T TENSOR REMARK 3 T11: 0.0407 T22: 0.0927 REMARK 3 T33: 0.0648 T12: 0.0139 REMARK 3 T13: -0.0312 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.2471 L22: 0.0606 REMARK 3 L33: 0.3977 L12: -0.1036 REMARK 3 L13: 0.0175 L23: 0.0673 REMARK 3 S TENSOR REMARK 3 S11: -0.0198 S12: -0.0573 S13: -0.0202 REMARK 3 S21: -0.0165 S22: -0.0076 S23: 0.0242 REMARK 3 S31: -0.0614 S32: -0.0962 S33: 0.0275 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 10 REMARK 3 RESIDUE RANGE : C 101 C 129 REMARK 3 ORIGIN FOR THE GROUP (A): -18.8661 -17.6308 11.9551 REMARK 3 T TENSOR REMARK 3 T11: 0.0317 T22: 0.0883 REMARK 3 T33: 0.0585 T12: 0.0041 REMARK 3 T13: 0.0070 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 0.3026 L22: 0.5917 REMARK 3 L33: 0.6428 L12: 0.2962 REMARK 3 L13: 0.3142 L23: -0.0003 REMARK 3 S TENSOR REMARK 3 S11: -0.0082 S12: 0.0001 S13: 0.0048 REMARK 3 S21: -0.0162 S22: -0.0008 S23: -0.0109 REMARK 3 S31: 0.0065 S32: 0.0034 S33: 0.0090 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 11 D 20 REMARK 3 RESIDUE RANGE : D 101 D 101 REMARK 3 RESIDUE RANGE : D 201 D 227 REMARK 3 ORIGIN FOR THE GROUP (A): -20.4637 -16.6418 18.4660 REMARK 3 T TENSOR REMARK 3 T11: 0.0308 T22: 0.0857 REMARK 3 T33: 0.0566 T12: 0.0031 REMARK 3 T13: 0.0017 T23: -0.0112 REMARK 3 L TENSOR REMARK 3 L11: 0.2850 L22: 0.8225 REMARK 3 L33: 0.8710 L12: 0.3212 REMARK 3 L13: 0.3451 L23: -0.0673 REMARK 3 S TENSOR REMARK 3 S11: 0.0100 S12: -0.0009 S13: 0.0007 REMARK 3 S21: 0.0333 S22: -0.0037 S23: 0.0032 REMARK 3 S31: -0.0153 S32: -0.0007 S33: -0.0063 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : E 1 E 10 REMARK 3 RESIDUE RANGE : E 101 E 105 REMARK 3 ORIGIN FOR THE GROUP (A): -12.5959 0.6902 -8.5549 REMARK 3 T TENSOR REMARK 3 T11: 0.1515 T22: 0.0822 REMARK 3 T33: 0.1045 T12: -0.0061 REMARK 3 T13: 0.0609 T23: 0.0288 REMARK 3 L TENSOR REMARK 3 L11: 0.6501 L22: 0.1479 REMARK 3 L33: 1.2088 L12: 0.2776 REMARK 3 L13: -0.3527 L23: -0.3218 REMARK 3 S TENSOR REMARK 3 S11: 0.1732 S12: -0.0737 S13: 0.0704 REMARK 3 S21: 0.0421 S22: -0.0399 S23: 0.0483 REMARK 3 S31: 0.0463 S32: 0.1722 S33: -0.1333 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 11 F 20 REMARK 3 RESIDUE RANGE : F 101 F 103 REMARK 3 ORIGIN FOR THE GROUP (A): -12.7330 0.5379 -8.7752 REMARK 3 T TENSOR REMARK 3 T11: 0.1353 T22: 0.1306 REMARK 3 T33: 0.0959 T12: -0.0427 REMARK 3 T13: 0.0402 T23: 0.0301 REMARK 3 L TENSOR REMARK 3 L11: 0.0176 L22: 0.0673 REMARK 3 L33: 0.8615 L12: -0.0198 REMARK 3 L13: 0.0499 L23: -0.2331 REMARK 3 S TENSOR REMARK 3 S11: 0.0792 S12: -0.0164 S13: 0.0006 REMARK 3 S21: -0.0285 S22: 0.0122 S23: 0.0409 REMARK 3 S31: 0.0504 S32: 0.1538 S33: -0.0914 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4QR9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000086412. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : CHANNEL-CUT SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23441 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 42.120 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.0250 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.65800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1CKT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.025M SODIUM CACODYLATE 0.020M REMARK 280 MAGNESIUM CHLORIDE 2.5% MPD (EQUILIBRATED AGAINST 40% MPD), PH 6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 21.37550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.11350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.08500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.11350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.37550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.08500 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 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 PRO A 80 REMARK 465 PRO B 80 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 MG D 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 107 O REMARK 620 2 HOH C 113 O 88.4 REMARK 620 3 HOH C 116 O 89.5 85.1 REMARK 620 4 HOH D 205 O 176.4 90.2 87.0 REMARK 620 5 HOH D 226 O 93.7 176.7 92.3 87.6 REMARK 620 6 HOH D 227 O 92.3 86.7 171.5 91.0 95.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 101 DBREF 4QR9 A 7 80 UNP P63159 HMGB1_RAT 8 81 DBREF 4QR9 B 7 80 UNP P63159 HMGB1_RAT 8 81 DBREF 4QR9 C 1 10 PDB 4QR9 4QR9 1 10 DBREF 4QR9 D 11 20 PDB 4QR9 4QR9 11 20 DBREF 4QR9 E 1 10 PDB 4QR9 4QR9 1 10 DBREF 4QR9 F 11 20 PDB 4QR9 4QR9 11 20 SEQADV 4QR9 GLY A 5 UNP P63159 EXPRESSION TAG SEQADV 4QR9 SER A 6 UNP P63159 EXPRESSION TAG SEQADV 4QR9 GLY B 5 UNP P63159 EXPRESSION TAG SEQADV 4QR9 SER B 6 UNP P63159 EXPRESSION TAG SEQRES 1 A 76 GLY SER LYS PRO ARG GLY LYS MET SER SER TYR ALA PHE SEQRES 2 A 76 PHE VAL GLN THR CYS ARG GLU GLU HIS LYS LYS LYS HIS SEQRES 3 A 76 PRO ASP ALA SER VAL ASN PHE SER GLU PHE SER LYS LYS SEQRES 4 A 76 CYS SER GLU ARG TRP LYS THR MET SER ALA LYS GLU LYS SEQRES 5 A 76 GLY LYS PHE GLU ASP MET ALA LYS ALA ASP LYS ALA ARG SEQRES 6 A 76 TYR GLU ARG GLU MET LYS THR TYR ILE PRO PRO SEQRES 1 B 76 GLY SER LYS PRO ARG GLY LYS MET SER SER TYR ALA PHE SEQRES 2 B 76 PHE VAL GLN THR CYS ARG GLU GLU HIS LYS LYS LYS HIS SEQRES 3 B 76 PRO ASP ALA SER VAL ASN PHE SER GLU PHE SER LYS LYS SEQRES 4 B 76 CYS SER GLU ARG TRP LYS THR MET SER ALA LYS GLU LYS SEQRES 5 B 76 GLY LYS PHE GLU ASP MET ALA LYS ALA ASP LYS ALA ARG SEQRES 6 B 76 TYR GLU ARG GLU MET LYS THR TYR ILE PRO PRO SEQRES 1 C 10 DA DT DA DT DC DG DA DT DA DT SEQRES 1 D 10 DA DT DA DT DC DG DA DT DA DT SEQRES 1 E 10 DA DT DA DT DC DG DA DT DA DT SEQRES 1 F 10 DA DT DA DT DC DG DA DT DA DT HET MG D 101 1 HETNAM MG MAGNESIUM ION FORMUL 7 MG MG 2+ FORMUL 8 HOH *115(H2 O) HELIX 1 1 SER A 13 HIS A 30 1 18 HELIX 2 2 ASN A 36 MET A 51 1 16 HELIX 3 3 SER A 52 THR A 76 1 25 HELIX 4 4 SER B 13 HIS B 30 1 18 HELIX 5 5 ASN B 36 MET B 51 1 16 HELIX 6 6 SER B 52 LYS B 75 1 24 SSBOND 1 CYS A 22 CYS A 44 1555 1555 2.11 LINK O HOH C 107 MG MG D 101 1555 1555 2.07 LINK O HOH C 113 MG MG D 101 1555 1555 2.16 LINK O HOH C 116 MG MG D 101 1555 1555 2.14 LINK MG MG D 101 O HOH D 205 1555 1555 2.01 LINK MG MG D 101 O HOH D 226 1555 1555 2.03 LINK MG MG D 101 O HOH D 227 1555 1555 2.14 SITE 1 AC1 6 HOH C 107 HOH C 113 HOH C 116 HOH D 205 SITE 2 AC1 6 HOH D 226 HOH D 227 CRYST1 42.751 84.170 94.227 90.00 90.00 90.00 P 21 21 21 16 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 0.023391 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011881 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010613 0.00000