PDB Short entry for 2I9T HEADER TRANSCRIPTION/DNA 06-SEP-06 2I9T TITLE STRUCTURE OF NF-KB P65-P50 HETERODIMER BOUND TO PRDII ELEMENT OF B- TITLE 2 INTERFERON PROMOTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*GP*TP*GP*GP*GP*AP*AP*AP*TP*TP*CP*CP*TP*CP*TP*G)- COMPND 3 3'; COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PRDII DNA ELEMENT; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*CP*AP*GP*AP*GP*GP*AP*AP*TP*TP*TP*CP*CP*CP*AP*CP*T)- COMPND 9 3'; COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: TRANSCRIPTION FACTOR P65; COMPND 14 CHAIN: A; COMPND 15 FRAGMENT: RESIDUES 19-291; COMPND 16 SYNONYM: NUCLEAR FACTOR NF-KAPPA-B P65 SUBUNIT; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: NUCLEAR FACTOR NF-KAPPA-B P105 SUBUNIT; COMPND 20 CHAIN: B; COMPND 21 FRAGMENT: RESIDUES 39-350; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 7 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 8 ORGANISM_TAXID: 10090; SOURCE 9 GENE: RELA, NFKB3; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET-15B; SOURCE 15 MOL_ID: 4; SOURCE 16 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 17 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 18 ORGANISM_TAXID: 10090; SOURCE 19 GENE: NFKB1; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 22 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 23 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 24 EXPRESSION_SYSTEM_PLASMID: PET-9A KEYWDS PROTEIN-DNA COMPLEX, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.R.ESCALANTE,L.SHEN,D.THANOS,A.K.AGGARWAL REVDAT 4 21-FEB-24 2I9T 1 SEQADV REVDAT 3 24-JAN-18 2I9T 1 AUTHOR REVDAT 2 24-FEB-09 2I9T 1 VERSN REVDAT 1 06-FEB-07 2I9T 0 JRNL AUTH C.R.ESCALANTE,L.SHEN,D.THANOS,A.K.AGGARWAL JRNL TITL STRUCTURE OF NF-KAPPAB P50/P65 HETERODIMER BOUND TO THE JRNL TITL 2 PRDII DNA ELEMENT FROM THE INTERFERON-BETA PROMOTER JRNL REF STRUCTURE V. 10 383 2002 JRNL REFN ISSN 0969-2126 JRNL PMID 12005436 JRNL DOI 10.1016/S0969-2126(02)00723-2 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 24647 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 SET) : 0.233 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2438 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 : 4514 REMARK 3 NUCLEIC ACID ATOMS : 691 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 21 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 74.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.00000 REMARK 3 B22 (A**2) : 4.66000 REMARK 3 B33 (A**2) : 3.35000 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) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.35 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.47 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.50 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.340 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2I9T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039317. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-FEB-99 REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 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 : PT-COATED TOROIDAL SI MIRROR FOR REMARK 200 HORIZONTAL AND VERTICAL REMARK 200 FOCUSSING FOLLOWED BY DOUBLE REMARK 200 FLAT SI CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRANDEIS - B4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24691 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.680 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.06400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 27.8700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.33700 REMARK 200 R SYM FOR SHELL (I) : 0.33700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% PEG 5K MONOMETHYLETHER, 200MM REMARK 280 SODIUM ACETATE, PH 5.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K, PH 5.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 48.81000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 83.05500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.81000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 83.05500 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (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 GLY A 13 REMARK 465 SER A 14 REMARK 465 HIS A 15 REMARK 465 MET A 16 REMARK 465 MET B 338 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 45 OG REMARK 470 LYS A 62 CG CD CE NZ REMARK 470 THR A 67 OG1 CG2 REMARK 470 ASP A 107 CG OD1 OD2 REMARK 470 ARG A 108 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 130 CG1 CG2 CD1 REMARK 470 GLN A 132 CG CD OE1 NE2 REMARK 470 GLN A 135 CG CD OE1 NE2 REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 GLU A 147 CG CD OE1 OE2 REMARK 470 ARG A 171 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 173 CG CD1 CD2 REMARK 470 THR A 191 OG1 CG2 REMARK 470 VAL A 199 CG1 CG2 REMARK 470 VAL A 251 CG1 CG2 REMARK 470 ARG A 253 CG CD NE CZ NH1 NH2 REMARK 470 THR A 254 OG1 CG2 REMARK 470 LEU A 262 CG CD1 CD2 REMARK 470 GLU A 282 CG CD OE1 OE2 REMARK 470 LEU A 289 CG CD1 CD2 REMARK 470 ASP A 291 CG OD1 OD2 REMARK 470 GLU B 346 CG CD OE1 OE2 REMARK 470 LEU B 367 CG CD1 CD2 REMARK 470 GLU B 373 CG CD OE1 OE2 REMARK 470 ASN B 375 CG OD1 ND2 REMARK 470 VAL B 423 CG1 CG2 REMARK 470 ASN B 436 CG OD1 ND2 REMARK 470 GLU B 449 CG CD OE1 OE2 REMARK 470 GLU B 452 CG CD OE1 OE2 REMARK 470 ILE B 460 CG1 CG2 CD1 REMARK 470 LEU B 476 CG CD1 CD2 REMARK 470 GLU B 479 CG CD OE1 OE2 REMARK 470 THR B 487 OG1 CG2 REMARK 470 GLU B 492 CG CD OE1 OE2 REMARK 470 ILE B 493 CG1 CG2 CD1 REMARK 470 VAL B 499 CG1 CG2 REMARK 470 SER B 521 OG REMARK 470 ARG B 527 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 586 CG CD OE1 OE2 REMARK 470 ASP B 636 CG OD1 OD2 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 B 803 O HOH B 829 1.21 REMARK 500 O HOH B 825 O HOH B 827 1.27 REMARK 500 O HOH B 817 O HOH B 821 2.01 REMARK 500 O HOH B 803 O HOH B 832 2.06 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 B 808 O HOH B 822 2555 0.58 REMARK 500 O HOH B 810 O HOH B 815 2555 1.53 REMARK 500 O HOH B 816 O HOH B 826 2555 1.98 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 704 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG C 705 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT C 710 N1 - C1' - C2' ANGL. DEV. = 9.4 DEGREES REMARK 500 DT C 710 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 712 N1 - C1' - C2' ANGL. DEV. = 8.6 DEGREES REMARK 500 DC C 712 O4' - C1' - N1 ANGL. DEV. = 3.2 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 GLU A 39 1.31 -66.12 REMARK 500 SER A 51 -179.42 -65.79 REMARK 500 THR A 52 -169.74 -170.19 REMARK 500 ASN A 64 131.25 -28.53 REMARK 500 TYR A 66 131.68 176.51 REMARK 500 ARG A 124 -79.58 -57.87 REMARK 500 ASP A 125 47.76 -59.35 REMARK 500 ILE A 134 -77.45 -52.07 REMARK 500 GLN A 135 -17.74 -41.59 REMARK 500 ASN A 137 72.80 49.48 REMARK 500 ASN A 139 77.09 -0.67 REMARK 500 ARG A 149 -32.06 -141.79 REMARK 500 VAL A 165 -157.92 -111.07 REMARK 500 ASN A 202 35.85 -140.09 REMARK 500 SER A 203 -74.29 -120.01 REMARK 500 VAL A 219 -164.83 -129.02 REMARK 500 GLN A 247 -1.41 62.99 REMARK 500 LEU A 262 42.24 -65.45 REMARK 500 ALA A 264 117.50 88.78 REMARK 500 GLU A 285 130.18 91.93 REMARK 500 LYS B 349 -72.51 -53.89 REMARK 500 GLN B 350 -47.05 124.08 REMARK 500 PRO B 362 -156.29 -95.59 REMARK 500 SER B 372 138.08 -35.65 REMARK 500 LYS B 374 -91.10 -48.97 REMARK 500 TYR B 387 166.07 -32.42 REMARK 500 HIS B 415 4.04 91.59 REMARK 500 THR B 424 116.92 -165.84 REMARK 500 PRO B 427 -150.18 -72.42 REMARK 500 LEU B 467 -45.43 78.96 REMARK 500 VAL B 469 -82.90 -134.32 REMARK 500 TYR B 475 143.11 -38.77 REMARK 500 LEU B 476 88.86 49.53 REMARK 500 ALA B 478 -17.14 165.17 REMARK 500 GLU B 479 36.75 -85.65 REMARK 500 THR B 487 -163.26 -124.27 REMARK 500 GLU B 490 -36.14 -138.63 REMARK 500 LEU B 507 5.81 -59.26 REMARK 500 THR B 522 176.39 54.70 REMARK 500 SER B 524 -146.07 -146.79 REMARK 500 THR B 526 -6.99 -147.82 REMARK 500 GLU B 530 101.74 68.58 REMARK 500 ALA B 545 9.49 -155.41 REMARK 500 LYS B 572 128.52 -38.20 REMARK 500 GLU B 586 -151.96 -84.66 REMARK 500 ASN B 588 30.50 -92.97 REMARK 500 GLN B 606 -3.25 62.67 REMARK 500 LYS B 617 -72.82 -41.54 REMARK 500 VAL B 619 25.64 -76.93 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 C 702 0.06 SIDE CHAIN REMARK 500 DT C 703 0.06 SIDE CHAIN REMARK 500 DA C 709 0.05 SIDE CHAIN REMARK 500 DT C 714 0.08 SIDE CHAIN REMARK 500 DC C 715 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2I9T A 19 291 UNP Q04207 TF65_MOUSE 19 291 DBREF 2I9T B 339 650 UNP P25799 NFKB1_MOUSE 39 350 DBREF 2I9T C 701 717 PDB 2I9T 2I9T 701 717 DBREF 2I9T D 718 734 PDB 2I9T 2I9T 718 734 SEQADV 2I9T GLY A 13 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T SER A 14 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T HIS A 15 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T MET A 16 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T HIS A 17 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T ALA A 18 UNP Q04207 CLONING ARTIFACT SEQADV 2I9T MET B 338 UNP P25799 INITIATING METHIONINE SEQRES 1 C 17 DA DG DT DG DG DG DA DA DA DT DT DC DC SEQRES 2 C 17 DT DC DT DG SEQRES 1 D 17 DC DA DG DA DG DG DA DA DT DT DT DC DC SEQRES 2 D 17 DC DA DC DT SEQRES 1 A 279 GLY SER HIS MET HIS ALA PRO TYR VAL GLU ILE ILE GLU SEQRES 2 A 279 GLN PRO LYS GLN ARG GLY MET ARG PHE ARG TYR LYS CYS SEQRES 3 A 279 GLU GLY ARG SER ALA GLY SER ILE PRO GLY GLU ARG SER SEQRES 4 A 279 THR ASP THR THR LYS THR HIS PRO THR ILE LYS ILE ASN SEQRES 5 A 279 GLY TYR THR GLY PRO GLY THR VAL ARG ILE SER LEU VAL SEQRES 6 A 279 THR LYS ASP PRO PRO HIS ARG PRO HIS PRO HIS GLU LEU SEQRES 7 A 279 VAL GLY LYS ASP CYS ARG ASP GLY TYR TYR GLU ALA ASP SEQRES 8 A 279 LEU CYS PRO ASP ARG SER ILE HIS SER PHE GLN ASN LEU SEQRES 9 A 279 GLY ILE GLN CYS VAL LYS LYS ARG ASP LEU GLU GLN ALA SEQRES 10 A 279 ILE SER GLN ARG ILE GLN THR ASN ASN ASN PRO PHE HIS SEQRES 11 A 279 VAL PRO ILE GLU GLU GLN ARG GLY ASP TYR ASP LEU ASN SEQRES 12 A 279 ALA VAL ARG LEU CYS PHE GLN VAL THR VAL ARG ASP PRO SEQRES 13 A 279 ALA GLY ARG PRO LEU LEU LEU THR PRO VAL LEU SER HIS SEQRES 14 A 279 PRO ILE PHE ASP ASN ARG ALA PRO ASN THR ALA GLU LEU SEQRES 15 A 279 LYS ILE CYS ARG VAL ASN ARG ASN SER GLY SER CYS LEU SEQRES 16 A 279 GLY GLY ASP GLU ILE PHE LEU LEU CYS ASP LYS VAL GLN SEQRES 17 A 279 LYS GLU ASP ILE GLU VAL TYR PHE THR GLY PRO GLY TRP SEQRES 18 A 279 GLU ALA ARG GLY SER PHE SER GLN ALA ASP VAL HIS ARG SEQRES 19 A 279 GLN VAL ALA ILE VAL PHE ARG THR PRO PRO TYR ALA ASP SEQRES 20 A 279 PRO SER LEU GLN ALA PRO VAL ARG VAL SER MET GLN LEU SEQRES 21 A 279 ARG ARG PRO SER ASP ARG GLU LEU SER GLU PRO MET GLU SEQRES 22 A 279 PHE GLN TYR LEU PRO ASP SEQRES 1 B 313 MET GLY PRO TYR LEU GLN ILE LEU GLU GLN PRO LYS GLN SEQRES 2 B 313 ARG GLY PHE ARG PHE ARG TYR VAL CYS GLU GLY PRO SER SEQRES 3 B 313 HIS GLY GLY LEU PRO GLY ALA SER SER GLU LYS ASN LYS SEQRES 4 B 313 LYS SER TYR PRO GLN VAL LYS ILE CYS ASN TYR VAL GLY SEQRES 5 B 313 PRO ALA LYS VAL ILE VAL GLN LEU VAL THR ASN GLY LYS SEQRES 6 B 313 ASN ILE HIS LEU HIS ALA HIS SER LEU VAL GLY LYS HIS SEQRES 7 B 313 CYS GLU ASP GLY VAL CYS THR VAL THR ALA GLY PRO LYS SEQRES 8 B 313 ASP MET VAL VAL GLY PHE ALA ASN LEU GLY ILE LEU HIS SEQRES 9 B 313 VAL THR LYS LYS LYS VAL PHE GLU THR LEU GLU ALA ARG SEQRES 10 B 313 MET THR GLU ALA CYS ILE ARG GLY TYR ASN PRO GLY LEU SEQRES 11 B 313 LEU VAL HIS SER ASP LEU ALA TYR LEU GLN ALA GLU GLY SEQRES 12 B 313 GLY GLY ASP ARG GLN LEU THR ASP ARG GLU LYS GLU ILE SEQRES 13 B 313 ILE ARG GLN ALA ALA VAL GLN GLN THR LYS GLU MET ASP SEQRES 14 B 313 LEU SER VAL VAL ARG LEU MET PHE THR ALA PHE LEU PRO SEQRES 15 B 313 ASP SER THR GLY SER PHE THR ARG ARG LEU GLU PRO VAL SEQRES 16 B 313 VAL SER ASP ALA ILE TYR ASP SER LYS ALA PRO ASN ALA SEQRES 17 B 313 SER ASN LEU LYS ILE VAL ARG MET ASP ARG THR ALA GLY SEQRES 18 B 313 CYS VAL THR GLY GLY GLU GLU ILE TYR LEU LEU CYS ASP SEQRES 19 B 313 LYS VAL GLN LYS ASP ASP ILE GLN ILE ARG PHE TYR GLU SEQRES 20 B 313 GLU GLU GLU ASN GLY GLY VAL TRP GLU GLY PHE GLY ASP SEQRES 21 B 313 PHE SER PRO THR ASP VAL HIS ARG GLN PHE ALA ILE VAL SEQRES 22 B 313 PHE LYS THR PRO LYS TYR LYS ASP VAL ASN ILE THR LYS SEQRES 23 B 313 PRO ALA SER VAL PHE VAL GLN LEU ARG ARG LYS SER ASP SEQRES 24 B 313 LEU GLU THR SER GLU PRO LYS PRO PHE LEU TYR TYR PRO SEQRES 25 B 313 GLU FORMUL 5 HOH *21(H2 O) HELIX 1 1 CYS A 38 GLY A 40 5 3 HELIX 2 2 LYS A 123 ASP A 125 5 3 HELIX 3 3 LEU A 126 THR A 136 1 11 HELIX 4 4 PRO A 144 GLN A 148 5 5 HELIX 5 5 GLN A 220 ILE A 224 5 5 HELIX 6 6 SER A 240 ALA A 242 5 3 HELIX 7 7 TYR B 357 GLY B 361 5 5 HELIX 8 8 THR B 443 LYS B 445 5 3 HELIX 9 9 LYS B 446 GLY B 462 1 17 HELIX 10 10 HIS B 470 ALA B 474 5 5 HELIX 11 11 THR B 487 MET B 505 1 19 HELIX 12 12 ALA B 542 SER B 546 5 5 HELIX 13 13 GLN B 574 ASP B 576 5 3 HELIX 14 14 SER B 599 THR B 601 5 3 SHEET 1 A 3 GLU A 22 GLU A 25 0 SHEET 2 A 3 THR A 60 LYS A 62 -1 O LYS A 62 N GLU A 22 SHEET 3 A 3 ILE A 110 SER A 112 -1 O HIS A 111 N ILE A 61 SHEET 1 B 3 ARG A 35 TYR A 36 0 SHEET 2 B 3 GLY A 117 CYS A 120 1 O ILE A 118 N ARG A 35 SHEET 3 B 3 GLU A 89 VAL A 91 -1 N GLU A 89 O GLN A 119 SHEET 1 C 5 CYS A 95 ARG A 96 0 SHEET 2 C 5 TYR A 99 ASP A 103 -1 O TYR A 99 N ARG A 96 SHEET 3 C 5 THR A 71 VAL A 77 -1 N VAL A 72 O ALA A 102 SHEET 4 C 5 ALA A 156 ARG A 166 -1 O GLN A 162 N ARG A 73 SHEET 5 C 5 PRO A 172 LEU A 174 -1 O LEU A 173 N VAL A 165 SHEET 1 D 5 CYS A 95 ARG A 96 0 SHEET 2 D 5 TYR A 99 ASP A 103 -1 O TYR A 99 N ARG A 96 SHEET 3 D 5 THR A 71 VAL A 77 -1 N VAL A 72 O ALA A 102 SHEET 4 D 5 ALA A 156 ARG A 166 -1 O GLN A 162 N ARG A 73 SHEET 5 D 5 VAL A 178 PHE A 184 -1 O ILE A 183 N VAL A 157 SHEET 1 E 4 ILE A 196 VAL A 199 0 SHEET 2 E 4 GLU A 211 CYS A 216 -1 O LEU A 215 N ARG A 198 SHEET 3 E 4 ALA A 249 ARG A 253 -1 O ILE A 250 N LEU A 214 SHEET 4 E 4 VAL A 244 HIS A 245 -1 N HIS A 245 O ALA A 249 SHEET 1 F 4 TRP A 233 ARG A 236 0 SHEET 2 F 4 GLU A 225 GLY A 230 -1 N PHE A 228 O ALA A 235 SHEET 3 F 4 VAL A 266 ARG A 274 -1 O SER A 269 N THR A 229 SHEET 4 F 4 GLU A 279 LEU A 280 -1 O GLU A 279 N ARG A 274 SHEET 1 G 4 TRP A 233 ARG A 236 0 SHEET 2 G 4 GLU A 225 GLY A 230 -1 N PHE A 228 O ALA A 235 SHEET 3 G 4 VAL A 266 ARG A 274 -1 O SER A 269 N THR A 229 SHEET 4 G 4 PHE A 286 TYR A 288 -1 O TYR A 288 N VAL A 266 SHEET 1 H 2 TYR B 341 GLU B 346 0 SHEET 2 H 2 GLN B 381 CYS B 385 -1 O CYS B 385 N TYR B 341 SHEET 1 I 5 CYS B 416 GLU B 417 0 SHEET 2 I 5 VAL B 420 ALA B 425 -1 O VAL B 420 N GLU B 417 SHEET 3 I 5 ALA B 391 VAL B 398 -1 N VAL B 393 O VAL B 423 SHEET 4 I 5 VAL B 509 ASP B 520 -1 O PHE B 517 N LYS B 392 SHEET 5 I 5 SER B 524 ARG B 528 -1 O ARG B 527 N LEU B 518 SHEET 1 J 5 CYS B 416 GLU B 417 0 SHEET 2 J 5 VAL B 420 ALA B 425 -1 O VAL B 420 N GLU B 417 SHEET 3 J 5 ALA B 391 VAL B 398 -1 N VAL B 393 O VAL B 423 SHEET 4 J 5 VAL B 509 ASP B 520 -1 O PHE B 517 N LYS B 392 SHEET 5 J 5 VAL B 532 TYR B 538 -1 O SER B 534 N LEU B 512 SHEET 1 K 2 SER B 410 VAL B 412 0 SHEET 2 K 2 GLY B 438 LEU B 440 -1 O LEU B 440 N SER B 410 SHEET 1 L 4 ILE B 550 MET B 553 0 SHEET 2 L 4 GLU B 565 CYS B 570 -1 O LEU B 569 N ARG B 552 SHEET 3 L 4 ALA B 608 LYS B 612 -1 O ILE B 609 N LEU B 568 SHEET 4 L 4 VAL B 603 HIS B 604 -1 N HIS B 604 O ALA B 608 SHEET 1 M 5 ALA B 557 CYS B 559 0 SHEET 2 M 5 LYS B 643 TYR B 648 1 O LEU B 646 N GLY B 558 SHEET 3 M 5 ALA B 625 ARG B 633 -1 N VAL B 629 O LYS B 643 SHEET 4 M 5 ILE B 578 GLU B 585 -1 N ARG B 581 O GLN B 630 SHEET 5 M 5 VAL B 591 PHE B 595 -1 O GLY B 594 N PHE B 582 CISPEP 1 PRO A 81 PRO A 82 0 -0.03 CRYST1 97.620 166.110 60.050 90.00 90.00 90.00 P 21 21 2 4 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 0.010244 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006020 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016653 0.00000