HEADER DNA BINDING PROTEIN-DNA/DNA 05-DEC-21 7W7L TITLE STRUCTURE OF NF-KB P52 HOMODIMER BOUND TO 13-MER A/T-CENTRIC P- TITLE 2 SELECTIN KB DNA FRAGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEAR FACTOR NF-KAPPA-B P52 SUBUNIT; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*GP*GP*GP*GP*GP*TP*AP*AP*CP*CP*CP*CP*T)-3'); COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (5'-D(*AP*GP*GP*GP*GP*TP*TP*AP*CP*CP*CP*CP*C)-3'); COMPND 11 CHAIN: D; COMPND 12 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: NFKB2, LYT10; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: ROSETTA; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET11A; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 MOL_ID: 3; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_TAXID: 9606 KEYWDS DNA-PROTEIN COMPLEX, TRANSCRIPTION FACTOR, TRANSCRIPTION, DNA BINDING KEYWDS 2 PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX, DNA BINDING PROTEIN-DNA- KEYWDS 3 DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR V.A.MESHCHERYAKOV,V.Y.-F.WANG REVDAT 3 29-NOV-23 7W7L 1 REMARK REVDAT 2 15-MAR-23 7W7L 1 JRNL REVDAT 1 26-JAN-22 7W7L 0 JRNL AUTH W.PAN,V.A.MESHCHERYAKOV,T.LI,Y.WANG,G.GHOSH,V.Y.WANG JRNL TITL STRUCTURES OF NF-KAPPA B P52 HOMODIMER-DNA COMPLEXES JRNL TITL 2 RATIONALIZE BINDING MECHANISMS AND TRANSCRIPTION ACTIVATION. JRNL REF ELIFE V. 12 2023 JRNL REFN ESSN 2050-084X JRNL PMID 36779700 JRNL DOI 10.7554/ELIFE.86258 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 29472 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.188 REMARK 3 FREE R VALUE TEST SET COUNT : 1529 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.29 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6495 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 380 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4640 REMARK 3 NUCLEIC ACID ATOMS : 527 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 116.6 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.94000 REMARK 3 B22 (A**2) : 1.94000 REMARK 3 B33 (A**2) : -6.29400 REMARK 3 B12 (A**2) : 0.97000 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): 0.617 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.340 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.292 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.908 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.891 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5331 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4835 ; 0.002 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7291 ; 1.887 ; 1.666 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11203 ; 1.395 ; 1.587 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 586 ; 7.661 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 257 ;31.450 ;21.362 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 866 ;18.997 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;16.592 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 692 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5648 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1177 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1026 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 38 ; 0.140 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2408 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 114 ; 0.165 ; 0.200 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): 2349 ; 9.118 ;12.700 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2348 ; 9.113 ;12.699 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2934 ;13.925 ;19.045 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2935 ;13.924 ;19.046 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2981 ; 7.445 ;11.973 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2982 ; 7.444 ;11.972 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4357 ;11.676 ;17.757 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4358 ;11.675 ;17.755 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 NUMBER OF DIFFERENT NCS GROUPS : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 34 A 325 NULL REMARK 3 2 B 34 B 325 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 4 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 3 C 2 C 12 NULL REMARK 3 4 D 2 D 12 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7W7L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-DEC-21. REMARK 100 THE DEPOSITION ID IS D_1300026124. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979183 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29500 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 48.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 37.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 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 : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1A3Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM MES, PH 6.0, 10MM MGCL2, 10% PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.62467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 32.31233 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 64.62467 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 32.31233 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.62467 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 32.31233 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 64.62467 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 32.31233 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, B, 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 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 MET A 1 REMARK 465 GLU A 2 REMARK 465 SER A 3 REMARK 465 CYS A 4 REMARK 465 TYR A 5 REMARK 465 ASN A 6 REMARK 465 PRO A 7 REMARK 465 GLY A 8 REMARK 465 LEU A 9 REMARK 465 ASP A 10 REMARK 465 GLY A 11 REMARK 465 ILE A 12 REMARK 465 ILE A 13 REMARK 465 GLU A 14 REMARK 465 TYR A 15 REMARK 465 ASP A 16 REMARK 465 ASP A 17 REMARK 465 PHE A 18 REMARK 465 LYS A 19 REMARK 465 LEU A 20 REMARK 465 ASN A 21 REMARK 465 SER A 22 REMARK 465 SER A 23 REMARK 465 ILE A 24 REMARK 465 VAL A 25 REMARK 465 GLU A 26 REMARK 465 PRO A 27 REMARK 465 LYS A 28 REMARK 465 GLU A 29 REMARK 465 PRO A 30 REMARK 465 ALA A 31 REMARK 465 PRO A 32 REMARK 465 PRO A 327 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 SER B 3 REMARK 465 CYS B 4 REMARK 465 TYR B 5 REMARK 465 ASN B 6 REMARK 465 PRO B 7 REMARK 465 GLY B 8 REMARK 465 LEU B 9 REMARK 465 ASP B 10 REMARK 465 GLY B 11 REMARK 465 ILE B 12 REMARK 465 ILE B 13 REMARK 465 GLU B 14 REMARK 465 TYR B 15 REMARK 465 ASP B 16 REMARK 465 ASP B 17 REMARK 465 PHE B 18 REMARK 465 LYS B 19 REMARK 465 LEU B 20 REMARK 465 ASN B 21 REMARK 465 SER B 22 REMARK 465 SER B 23 REMARK 465 ILE B 24 REMARK 465 VAL B 25 REMARK 465 GLU B 26 REMARK 465 PRO B 27 REMARK 465 LYS B 28 REMARK 465 GLU B 29 REMARK 465 PRO B 30 REMARK 465 ALA B 31 REMARK 465 PRO B 32 REMARK 465 GLU B 33 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 TYR A 326 O TYR A 326 10444 1.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 DG C 1 C3' - O3' - P ANGL. DEV. = -10.4 DEGREES REMARK 500 DG C 2 C1' - O4' - C4' ANGL. DEV. = -6.1 DEGREES REMARK 500 DG C 2 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG C 3 C3' - O3' - P ANGL. DEV. = -8.3 DEGREES REMARK 500 DG D 2 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG D 3 C3' - O3' - P ANGL. DEV. = -8.9 DEGREES REMARK 500 DG D 5 O3' - P - OP2 ANGL. DEV. = 6.6 DEGREES REMARK 500 DT D 7 C3' - O3' - P ANGL. DEV. = -8.0 DEGREES REMARK 500 DC D 12 C3' - O3' - P ANGL. DEV. = -8.3 DEGREES 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 ALA A 35 34.66 -146.47 REMARK 500 LEU A 65 109.77 -54.62 REMARK 500 TYR A 85 142.49 -172.45 REMARK 500 ARG A 160 -91.40 -126.72 REMARK 500 GLN A 284 10.11 58.45 REMARK 500 MET A 297 -30.77 -134.88 REMARK 500 LYS A 298 77.69 -118.41 REMARK 500 ASN B 84 34.23 72.61 REMARK 500 TYR B 85 148.03 -174.62 REMARK 500 ARG B 160 -62.22 -128.11 REMARK 500 ARG B 162 69.97 31.50 REMARK 500 ALA B 225 -2.41 -144.79 REMARK 500 ASN B 268 35.39 -146.64 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 LYS A 179 10.60 REMARK 500 REMARK 500 REMARK: NULL DBREF 7W7L A 1 327 UNP Q00653 NFKB2_HUMAN 1 327 DBREF 7W7L C 1 13 PDB 7W7L 7W7L 1 13 DBREF 7W7L B 1 327 UNP Q00653 NFKB2_HUMAN 1 327 DBREF 7W7L D 1 13 PDB 7W7L 7W7L 1 13 SEQRES 1 A 327 MET GLU SER CYS TYR ASN PRO GLY LEU ASP GLY ILE ILE SEQRES 2 A 327 GLU TYR ASP ASP PHE LYS LEU ASN SER SER ILE VAL GLU SEQRES 3 A 327 PRO LYS GLU PRO ALA PRO GLU THR ALA ASP GLY PRO TYR SEQRES 4 A 327 LEU VAL ILE VAL GLU GLN PRO LYS GLN ARG GLY PHE ARG SEQRES 5 A 327 PHE ARG TYR GLY CYS GLU GLY PRO SER HIS GLY GLY LEU SEQRES 6 A 327 PRO GLY ALA SER SER GLU LYS GLY ARG LYS THR TYR PRO SEQRES 7 A 327 THR VAL LYS ILE CYS ASN TYR GLU GLY PRO ALA LYS ILE SEQRES 8 A 327 GLU VAL ASP LEU VAL THR HIS SER ASP PRO PRO ARG ALA SEQRES 9 A 327 HIS ALA HIS SER LEU VAL GLY LYS GLN CYS SER GLU LEU SEQRES 10 A 327 GLY ILE CYS ALA VAL SER VAL GLY PRO LYS ASP MET THR SEQRES 11 A 327 ALA GLN PHE ASN ASN LEU GLY VAL LEU HIS VAL THR LYS SEQRES 12 A 327 LYS ASN MET MET GLY THR MET ILE GLN LYS LEU GLN ARG SEQRES 13 A 327 GLN ARG LEU ARG SER ARG PRO GLN GLY LEU THR GLU ALA SEQRES 14 A 327 GLU GLN ARG GLU LEU GLU GLN GLU ALA LYS GLU LEU LYS SEQRES 15 A 327 LYS VAL MET ASP LEU SER ILE VAL ARG LEU ARG PHE SER SEQRES 16 A 327 ALA PHE LEU ARG ALA SER ASP GLY SER PHE SER LEU PRO SEQRES 17 A 327 LEU LYS PRO VAL ILE SER GLN PRO ILE HIS ASP SER LYS SEQRES 18 A 327 SER PRO GLY ALA SER ASN LEU LYS ILE SER ARG MET ASP SEQRES 19 A 327 LYS THR ALA GLY SER VAL ARG GLY GLY ASP GLU VAL TYR SEQRES 20 A 327 LEU LEU CYS ASP LYS VAL GLN LYS ASP ASP ILE GLU VAL SEQRES 21 A 327 ARG PHE TYR GLU ASP ASP GLU ASN GLY TRP GLN ALA PHE SEQRES 22 A 327 GLY ASP PHE SER PRO THR ASP VAL HIS LYS GLN TYR ALA SEQRES 23 A 327 ILE VAL PHE ARG THR PRO PRO TYR HIS LYS MET LYS ILE SEQRES 24 A 327 GLU ARG PRO VAL THR VAL PHE LEU GLN LEU LYS ARG LYS SEQRES 25 A 327 ARG GLY GLY ASP VAL SER ASP SER LYS GLN PHE THR TYR SEQRES 26 A 327 TYR PRO SEQRES 1 C 13 DG DG DG DG DG DT DA DA DC DC DC DC DT SEQRES 1 B 327 MET GLU SER CYS TYR ASN PRO GLY LEU ASP GLY ILE ILE SEQRES 2 B 327 GLU TYR ASP ASP PHE LYS LEU ASN SER SER ILE VAL GLU SEQRES 3 B 327 PRO LYS GLU PRO ALA PRO GLU THR ALA ASP GLY PRO TYR SEQRES 4 B 327 LEU VAL ILE VAL GLU GLN PRO LYS GLN ARG GLY PHE ARG SEQRES 5 B 327 PHE ARG TYR GLY CYS GLU GLY PRO SER HIS GLY GLY LEU SEQRES 6 B 327 PRO GLY ALA SER SER GLU LYS GLY ARG LYS THR TYR PRO SEQRES 7 B 327 THR VAL LYS ILE CYS ASN TYR GLU GLY PRO ALA LYS ILE SEQRES 8 B 327 GLU VAL ASP LEU VAL THR HIS SER ASP PRO PRO ARG ALA SEQRES 9 B 327 HIS ALA HIS SER LEU VAL GLY LYS GLN CYS SER GLU LEU SEQRES 10 B 327 GLY ILE CYS ALA VAL SER VAL GLY PRO LYS ASP MET THR SEQRES 11 B 327 ALA GLN PHE ASN ASN LEU GLY VAL LEU HIS VAL THR LYS SEQRES 12 B 327 LYS ASN MET MET GLY THR MET ILE GLN LYS LEU GLN ARG SEQRES 13 B 327 GLN ARG LEU ARG SER ARG PRO GLN GLY LEU THR GLU ALA SEQRES 14 B 327 GLU GLN ARG GLU LEU GLU GLN GLU ALA LYS GLU LEU LYS SEQRES 15 B 327 LYS VAL MET ASP LEU SER ILE VAL ARG LEU ARG PHE SER SEQRES 16 B 327 ALA PHE LEU ARG ALA SER ASP GLY SER PHE SER LEU PRO SEQRES 17 B 327 LEU LYS PRO VAL ILE SER GLN PRO ILE HIS ASP SER LYS SEQRES 18 B 327 SER PRO GLY ALA SER ASN LEU LYS ILE SER ARG MET ASP SEQRES 19 B 327 LYS THR ALA GLY SER VAL ARG GLY GLY ASP GLU VAL TYR SEQRES 20 B 327 LEU LEU CYS ASP LYS VAL GLN LYS ASP ASP ILE GLU VAL SEQRES 21 B 327 ARG PHE TYR GLU ASP ASP GLU ASN GLY TRP GLN ALA PHE SEQRES 22 B 327 GLY ASP PHE SER PRO THR ASP VAL HIS LYS GLN TYR ALA SEQRES 23 B 327 ILE VAL PHE ARG THR PRO PRO TYR HIS LYS MET LYS ILE SEQRES 24 B 327 GLU ARG PRO VAL THR VAL PHE LEU GLN LEU LYS ARG LYS SEQRES 25 B 327 ARG GLY GLY ASP VAL SER ASP SER LYS GLN PHE THR TYR SEQRES 26 B 327 TYR PRO SEQRES 1 D 13 DA DG DG DG DG DT DT DA DC DC DC DC DC FORMUL 5 HOH *24(H2 O) HELIX 1 AA1 CYS A 57 GLY A 59 5 3 HELIX 2 AA2 THR A 142 ARG A 162 1 21 HELIX 3 AA3 THR A 167 LYS A 182 1 16 HELIX 4 AA4 GLN A 254 ASP A 256 5 3 HELIX 5 AA5 SER A 277 THR A 279 5 3 HELIX 6 AA6 CYS B 57 GLY B 59 5 3 HELIX 7 AA7 ASN B 145 ARG B 158 1 14 HELIX 8 AA8 ARG B 162 GLU B 170 1 9 HELIX 9 AA9 LEU B 174 LYS B 183 1 10 HELIX 10 AB1 SER B 222 SER B 226 5 5 HELIX 11 AB2 GLN B 254 ASP B 256 5 3 HELIX 12 AB3 SER B 277 THR B 279 5 3 SHEET 1 AA1 3 TYR A 39 GLU A 44 0 SHEET 2 AA1 3 THR A 79 CYS A 83 -1 O CYS A 83 N TYR A 39 SHEET 3 AA1 3 THR A 130 GLN A 132 -1 O ALA A 131 N VAL A 80 SHEET 1 AA2 3 ARG A 54 TYR A 55 0 SHEET 2 AA2 3 LEU A 136 HIS A 140 1 O HIS A 140 N ARG A 54 SHEET 3 AA2 3 SER A 108 GLY A 111 -1 N SER A 108 O LEU A 139 SHEET 1 AA3 4 CYS A 120 VAL A 124 0 SHEET 2 AA3 4 ALA A 89 VAL A 96 -1 N ALA A 89 O VAL A 124 SHEET 3 AA3 4 ILE A 189 LEU A 198 -1 O PHE A 197 N LYS A 90 SHEET 4 AA3 4 VAL A 212 ILE A 213 -1 O VAL A 212 N PHE A 194 SHEET 1 AA4 3 LEU A 207 PRO A 208 0 SHEET 2 AA4 3 ILE A 189 LEU A 198 -1 N LEU A 198 O LEU A 207 SHEET 3 AA4 3 ILE A 217 HIS A 218 -1 O ILE A 217 N VAL A 190 SHEET 1 AA5 4 ILE A 230 MET A 233 0 SHEET 2 AA5 4 GLU A 245 CYS A 250 -1 O LEU A 249 N ARG A 232 SHEET 3 AA5 4 ALA A 286 ARG A 290 -1 O PHE A 289 N VAL A 246 SHEET 4 AA5 4 VAL A 281 HIS A 282 -1 N HIS A 282 O ALA A 286 SHEET 1 AA6 5 ALA A 237 GLY A 238 0 SHEET 2 AA6 5 LYS A 321 TYR A 325 1 O THR A 324 N GLY A 238 SHEET 3 AA6 5 VAL A 303 ARG A 311 -1 N VAL A 303 O TYR A 325 SHEET 4 AA6 5 ILE A 258 TYR A 263 -1 N TYR A 263 O PHE A 306 SHEET 5 AA6 5 GLN A 271 PHE A 273 -1 O ALA A 272 N PHE A 262 SHEET 1 AA7 3 TYR B 39 GLU B 44 0 SHEET 2 AA7 3 THR B 79 CYS B 83 -1 O CYS B 83 N TYR B 39 SHEET 3 AA7 3 THR B 130 GLN B 132 -1 O ALA B 131 N VAL B 80 SHEET 1 AA8 3 ARG B 54 TYR B 55 0 SHEET 2 AA8 3 LEU B 136 HIS B 140 1 O HIS B 140 N ARG B 54 SHEET 3 AA8 3 SER B 108 GLY B 111 -1 N SER B 108 O LEU B 139 SHEET 1 AA9 4 CYS B 120 VAL B 124 0 SHEET 2 AA9 4 ALA B 89 VAL B 96 -1 N ALA B 89 O VAL B 124 SHEET 3 AA9 4 ILE B 189 LEU B 198 -1 O ARG B 191 N VAL B 96 SHEET 4 AA9 4 VAL B 212 ILE B 213 -1 O VAL B 212 N PHE B 194 SHEET 1 AB1 3 LEU B 207 PRO B 208 0 SHEET 2 AB1 3 ILE B 189 LEU B 198 -1 N LEU B 198 O LEU B 207 SHEET 3 AB1 3 ILE B 217 HIS B 218 -1 O ILE B 217 N VAL B 190 SHEET 1 AB2 4 ILE B 230 MET B 233 0 SHEET 2 AB2 4 GLU B 245 CYS B 250 -1 O LEU B 249 N ARG B 232 SHEET 3 AB2 4 ALA B 286 ARG B 290 -1 O PHE B 289 N VAL B 246 SHEET 4 AB2 4 VAL B 281 HIS B 282 -1 N HIS B 282 O ALA B 286 SHEET 1 AB3 5 ALA B 237 SER B 239 0 SHEET 2 AB3 5 LYS B 321 TYR B 326 1 O TYR B 326 N GLY B 238 SHEET 3 AB3 5 VAL B 303 ARG B 311 -1 N VAL B 303 O TYR B 325 SHEET 4 AB3 5 ILE B 258 TYR B 263 -1 N ARG B 261 O GLN B 308 SHEET 5 AB3 5 GLN B 271 PHE B 273 -1 O ALA B 272 N PHE B 262 SSBOND 1 CYS A 114 CYS A 120 1555 1555 2.02 SSBOND 2 CYS B 114 CYS B 120 1555 1555 2.05 CRYST1 225.276 225.276 96.937 90.00 90.00 120.00 P 62 2 2 24 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 0.004439 0.002563 0.000000 0.00000 SCALE2 0.000000 0.005126 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010316 0.00000