HEADER TRANSCRIPTION/DNA 19-AUG-16 5T1J TITLE CRYSTAL STRUCTURE OF THE TBOX DNA BINDING DOMAIN OF THE TRANSCRIPTION TITLE 2 FACTOR T-BET COMPND MOL_ID: 1; COMPND 2 MOLECULE: T-BOX TRANSCRIPTION FACTOR TBX21; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: TBOX DNA BINDING DOMAIN; COMPND 5 SYNONYM: T-BOX PROTEIN 21,T-CELL-SPECIFIC T-BOX TRANSCRIPTION FACTOR COMPND 6 T-BET,TRANSCRIPTION FACTOR TBLYM; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA; COMPND 10 CHAIN: C, D, E, F; COMPND 11 FRAGMENT: 24BP DNA; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: TBX21, TBET, TBLYM; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE30; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS T-BET, TBOX, TBX21, DNA LOOPING, TRANSCRIPTIONAL REGULATION, MASTER KEYWDS 2 REGULATOR, TRANSCRIPTION FACTOR, DNA BINDING, TRANSCRIPTION-DNA KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.F.LIU,G.S.BRANDT,Q.HOANG,E.S.HWANG,N.NAUMOVA,V.LAZAREVIC,J.DEKKER, AUTHOR 2 L.H.GLIMCHER,D.RINGE,G.A.PETSKO REVDAT 4 27-DEC-23 5T1J 1 REMARK REVDAT 3 22-NOV-17 5T1J 1 JRNL REMARK REVDAT 2 16-NOV-16 5T1J 1 JRNL REVDAT 1 26-OCT-16 5T1J 0 JRNL AUTH C.F.LIU,G.S.BRANDT,Q.Q.HOANG,N.NAUMOVA,V.LAZAREVIC, JRNL AUTH 2 E.S.HWANG,J.DEKKER,L.H.GLIMCHER,D.RINGE,G.A.PETSKO JRNL TITL CRYSTAL STRUCTURE OF THE DNA BINDING DOMAIN OF THE JRNL TITL 2 TRANSCRIPTION FACTOR T-BET SUGGESTS SIMULTANEOUS RECOGNITION JRNL TITL 3 OF DISTANT GENOME SITES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 E6572 2016 JRNL REFN ESSN 1091-6490 JRNL PMID 27791029 JRNL DOI 10.1073/PNAS.1613914113 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.9 REMARK 3 NUMBER OF REFLECTIONS : 22676 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.267 REMARK 3 R VALUE (WORKING SET) : 0.266 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 1155 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 43.7064 - 5.8907 0.98 3006 170 0.2477 0.2844 REMARK 3 2 5.8907 - 4.6773 1.00 3049 174 0.2668 0.2726 REMARK 3 3 4.6773 - 4.0866 1.00 3066 160 0.2429 0.2719 REMARK 3 4 4.0866 - 3.7132 1.00 3041 172 0.2821 0.3425 REMARK 3 5 3.7132 - 3.4471 1.00 3082 165 0.2882 0.3389 REMARK 3 6 3.4471 - 3.2440 0.95 2931 148 0.2985 0.2951 REMARK 3 7 3.2440 - 3.0815 0.68 2078 106 0.3061 0.3746 REMARK 3 8 3.0815 - 2.9474 0.41 1268 60 0.3461 0.2728 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 81.42 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 5380 REMARK 3 ANGLE : 1.741 7694 REMARK 3 CHIRALITY : 0.075 838 REMARK 3 PLANARITY : 0.012 660 REMARK 3 DIHEDRAL : 24.913 2106 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' REMARK 3 ORIGIN FOR THE GROUP (A): 59.3504 -22.1168 1.4907 REMARK 3 T TENSOR REMARK 3 T11: 1.3982 T22: 0.4207 REMARK 3 T33: 0.5911 T12: 1.2135 REMARK 3 T13: 0.1744 T23: -0.2038 REMARK 3 L TENSOR REMARK 3 L11: 1.6168 L22: 2.8213 REMARK 3 L33: 1.0815 L12: -0.8385 REMARK 3 L13: -0.3070 L23: 0.9689 REMARK 3 S TENSOR REMARK 3 S11: -0.0767 S12: -0.1061 S13: 0.3964 REMARK 3 S21: 0.0698 S22: 0.0340 S23: -0.3907 REMARK 3 S31: -0.0814 S32: 0.0369 S33: -0.1621 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' REMARK 3 ORIGIN FOR THE GROUP (A): 45.8043 1.3894 -3.6173 REMARK 3 T TENSOR REMARK 3 T11: 1.3950 T22: 0.4039 REMARK 3 T33: 0.6781 T12: 1.2550 REMARK 3 T13: 0.0942 T23: -0.2545 REMARK 3 L TENSOR REMARK 3 L11: 2.1340 L22: 2.8293 REMARK 3 L33: 1.2223 L12: -1.0328 REMARK 3 L13: -0.4729 L23: 0.1821 REMARK 3 S TENSOR REMARK 3 S11: -0.0755 S12: 0.0065 S13: 0.1784 REMARK 3 S21: -0.0353 S22: -0.0229 S23: -0.7279 REMARK 3 S31: -0.0335 S32: 0.1306 S33: -0.1259 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'C' OR CHAIN 'D' REMARK 3 ORIGIN FOR THE GROUP (A): 21.8778 -9.4416 -14.6006 REMARK 3 T TENSOR REMARK 3 T11: 2.2202 T22: 1.4249 REMARK 3 T33: 0.5085 T12: 0.4281 REMARK 3 T13: -0.0809 T23: -0.3720 REMARK 3 L TENSOR REMARK 3 L11: 0.8171 L22: 1.3280 REMARK 3 L33: 7.1009 L12: 0.5582 REMARK 3 L13: 0.1059 L23: 2.4621 REMARK 3 S TENSOR REMARK 3 S11: -0.1341 S12: 0.3462 S13: -0.2478 REMARK 3 S21: -0.5399 S22: 0.2729 S23: 0.2388 REMARK 3 S31: 0.4965 S32: -1.2044 S33: 0.1824 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'E' OR CHAIN 'F' REMARK 3 ORIGIN FOR THE GROUP (A): 38.3899 -36.3792 12.5292 REMARK 3 T TENSOR REMARK 3 T11: 2.0162 T22: 1.8063 REMARK 3 T33: 0.6099 T12: 0.8587 REMARK 3 T13: 0.2607 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 1.5208 L22: 0.8242 REMARK 3 L33: 8.2044 L12: 0.9395 REMARK 3 L13: -1.3460 L23: 0.4473 REMARK 3 S TENSOR REMARK 3 S11: 0.0338 S12: -0.7664 S13: -0.1072 REMARK 3 S21: 0.1349 S22: 0.1670 S23: 0.4729 REMARK 3 S31: 0.6101 S32: -1.4333 S33: 0.0413 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5T1J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000203214. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000, DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-2000, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22707 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.940 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.3 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.12400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 31.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.84800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CITRATE, SODIUM FORMATE, REMARK 280 ETHYLENE GLYCOL, PH 5.1, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 146.12967 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 292.25933 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 219.19450 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 365.32417 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 73.06483 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, 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 124 REMARK 465 ARG A 125 REMARK 465 GLY A 126 REMARK 465 SER A 127 REMARK 465 HIS A 128 REMARK 465 HIS A 129 REMARK 465 HIS A 130 REMARK 465 HIS A 131 REMARK 465 HIS A 132 REMARK 465 HIS A 133 REMARK 465 GLY A 134 REMARK 465 SER A 135 REMARK 465 MET B 124 REMARK 465 ARG B 125 REMARK 465 GLY B 126 REMARK 465 SER B 127 REMARK 465 HIS B 128 REMARK 465 HIS B 129 REMARK 465 HIS B 130 REMARK 465 HIS B 131 REMARK 465 HIS B 132 REMARK 465 HIS B 133 REMARK 465 GLY B 134 REMARK 465 SER B 135 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 ILE B 315 NH2 ARG B 325 2.08 REMARK 500 OG1 THR B 303 OP2 DT C 504 2.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DC C 511 O3' DC C 511 C3' -0.047 REMARK 500 DT D 516 O3' DT D 516 C3' -0.043 REMARK 500 DA D 521 O3' DA D 521 C3' -0.038 REMARK 500 DA D 522 O3' DA D 522 C3' -0.048 REMARK 500 DA E 501 N9 DA E 501 C4 0.038 REMARK 500 DC E 511 O3' DC E 511 C3' -0.042 REMARK 500 DG E 514 O3' DG E 514 C3' -0.045 REMARK 500 DT E 523 C5' DT E 523 C4' 0.047 REMARK 500 DT E 523 C1' DT E 523 N1 0.115 REMARK 500 DA F 522 O3' DA F 522 C3' -0.060 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 PRO A 215 C - N - CA ANGL. DEV. = 28.6 DEGREES REMARK 500 PRO A 215 C - N - CD ANGL. DEV. = -30.2 DEGREES REMARK 500 PRO A 319 C - N - CA ANGL. DEV. = 9.6 DEGREES REMARK 500 DC C 510 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC C 511 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG C 514 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT C 524 O3' - P - OP1 ANGL. DEV. = 7.0 DEGREES REMARK 500 DT D 503 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT D 505 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA D 509 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC D 510 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA D 513 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DG D 517 O5' - P - OP2 ANGL. DEV. = -5.4 DEGREES REMARK 500 DT D 524 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT E 503 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA E 522 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT E 523 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 DC F 510 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT F 524 O4' - C1' - N1 ANGL. DEV. = 1.9 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 GLN A 154 103.77 49.96 REMARK 500 SER A 171 119.51 -160.48 REMARK 500 PHE A 172 -150.81 -153.33 REMARK 500 SER A 201 42.81 38.24 REMARK 500 GLU A 211 -65.63 -144.12 REMARK 500 MET A 214 -138.07 -159.79 REMARK 500 PRO A 215 58.50 2.26 REMARK 500 ARG A 234 -81.02 -16.94 REMARK 500 GLU A 236 101.84 -3.56 REMARK 500 ALA A 250 42.09 -93.51 REMARK 500 ASN A 252 41.86 36.75 REMARK 500 ASN A 253 -117.54 59.14 REMARK 500 VAL A 254 50.91 38.47 REMARK 500 THR A 255 -64.97 -134.72 REMARK 500 PRO A 280 -145.41 -66.80 REMARK 500 GLU A 281 73.55 -118.40 REMARK 500 ALA A 282 70.59 -151.95 REMARK 500 GLU A 296 27.08 -75.55 REMARK 500 GLN A 298 170.20 -59.42 REMARK 500 PHE A 299 -174.31 -170.64 REMARK 500 GLN A 306 -80.20 -104.43 REMARK 500 PHE A 324 50.51 -105.44 REMARK 500 ARG A 325 -33.14 -142.49 REMARK 500 ASN B 143 15.94 58.15 REMARK 500 GLN B 154 107.53 49.05 REMARK 500 SER B 171 115.78 -162.37 REMARK 500 PHE B 172 -153.03 -151.56 REMARK 500 SER B 201 42.15 33.41 REMARK 500 GLU B 211 15.44 -148.90 REMARK 500 SER B 213 -159.17 -55.24 REMARK 500 MET B 214 -28.64 -142.06 REMARK 500 PRO B 215 -108.82 -119.70 REMARK 500 ASN B 217 141.72 64.44 REMARK 500 ALA B 250 44.31 -94.24 REMARK 500 ASN B 253 -115.76 60.31 REMARK 500 THR B 255 -70.15 -132.59 REMARK 500 PRO B 280 -176.50 -60.14 REMARK 500 ALA B 282 -179.67 69.22 REMARK 500 CYS B 284 -21.75 48.38 REMARK 500 ALA B 286 44.43 -151.13 REMARK 500 GLU B 296 24.58 -76.34 REMARK 500 PHE B 299 -175.26 -171.97 REMARK 500 GLN B 306 -82.69 -103.18 REMARK 500 PHE B 324 50.79 -104.81 REMARK 500 ARG B 325 -32.70 -138.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLN A 235 GLU A 236 149.12 REMARK 500 REMARK 500 REMARK: NULL DBREF 5T1J A 136 327 UNP Q9JKD8 TBX21_MOUSE 135 326 DBREF 5T1J B 136 327 UNP Q9JKD8 TBX21_MOUSE 135 326 DBREF 5T1J C 501 524 PDB 5T1J 5T1J 501 524 DBREF 5T1J D 501 524 PDB 5T1J 5T1J 501 524 DBREF 5T1J E 501 524 PDB 5T1J 5T1J 501 524 DBREF 5T1J F 501 524 PDB 5T1J 5T1J 501 524 SEQADV 5T1J MET A 124 UNP Q9JKD8 INITIATING METHIONINE SEQADV 5T1J ARG A 125 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J GLY A 126 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J SER A 127 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 128 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 129 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 130 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 131 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 132 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS A 133 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J GLY A 134 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J SER A 135 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J MET B 124 UNP Q9JKD8 INITIATING METHIONINE SEQADV 5T1J ARG B 125 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J GLY B 126 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J SER B 127 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 128 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 129 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 130 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 131 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 132 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J HIS B 133 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J GLY B 134 UNP Q9JKD8 EXPRESSION TAG SEQADV 5T1J SER B 135 UNP Q9JKD8 EXPRESSION TAG SEQRES 1 A 204 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER LYS SEQRES 2 A 204 LEU ARG VAL ALA LEU SER ASN HIS LEU LEU TRP SER LYS SEQRES 3 A 204 PHE ASN GLN HIS GLN THR GLU MET ILE ILE THR LYS GLN SEQRES 4 A 204 GLY ARG ARG MET PHE PRO PHE LEU SER PHE THR VAL ALA SEQRES 5 A 204 GLY LEU GLU PRO THR SER HIS TYR ARG MET PHE VAL ASP SEQRES 6 A 204 VAL VAL LEU VAL ASP GLN HIS HIS TRP ARG TYR GLN SER SEQRES 7 A 204 GLY LYS TRP VAL GLN CYS GLY LYS ALA GLU GLY SER MET SEQRES 8 A 204 PRO GLY ASN ARG LEU TYR VAL HIS PRO ASP SER PRO ASN SEQRES 9 A 204 THR GLY ALA HIS TRP MET ARG GLN GLU VAL SER PHE GLY SEQRES 10 A 204 LYS LEU LYS LEU THR ASN ASN LYS GLY ALA SER ASN ASN SEQRES 11 A 204 VAL THR GLN MET ILE VAL LEU GLN SER LEU HIS LYS TYR SEQRES 12 A 204 GLN PRO ARG LEU HIS ILE VAL GLU VAL ASN ASP GLY GLU SEQRES 13 A 204 PRO GLU ALA ALA CYS SER ALA SER ASN THR HIS VAL PHE SEQRES 14 A 204 THR PHE GLN GLU THR GLN PHE ILE ALA VAL THR ALA TYR SEQRES 15 A 204 GLN ASN ALA GLU ILE THR GLN LEU LYS ILE ASP ASN ASN SEQRES 16 A 204 PRO PHE ALA LYS GLY PHE ARG GLU ASN SEQRES 1 B 204 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER LYS SEQRES 2 B 204 LEU ARG VAL ALA LEU SER ASN HIS LEU LEU TRP SER LYS SEQRES 3 B 204 PHE ASN GLN HIS GLN THR GLU MET ILE ILE THR LYS GLN SEQRES 4 B 204 GLY ARG ARG MET PHE PRO PHE LEU SER PHE THR VAL ALA SEQRES 5 B 204 GLY LEU GLU PRO THR SER HIS TYR ARG MET PHE VAL ASP SEQRES 6 B 204 VAL VAL LEU VAL ASP GLN HIS HIS TRP ARG TYR GLN SER SEQRES 7 B 204 GLY LYS TRP VAL GLN CYS GLY LYS ALA GLU GLY SER MET SEQRES 8 B 204 PRO GLY ASN ARG LEU TYR VAL HIS PRO ASP SER PRO ASN SEQRES 9 B 204 THR GLY ALA HIS TRP MET ARG GLN GLU VAL SER PHE GLY SEQRES 10 B 204 LYS LEU LYS LEU THR ASN ASN LYS GLY ALA SER ASN ASN SEQRES 11 B 204 VAL THR GLN MET ILE VAL LEU GLN SER LEU HIS LYS TYR SEQRES 12 B 204 GLN PRO ARG LEU HIS ILE VAL GLU VAL ASN ASP GLY GLU SEQRES 13 B 204 PRO GLU ALA ALA CYS SER ALA SER ASN THR HIS VAL PHE SEQRES 14 B 204 THR PHE GLN GLU THR GLN PHE ILE ALA VAL THR ALA TYR SEQRES 15 B 204 GLN ASN ALA GLU ILE THR GLN LEU LYS ILE ASP ASN ASN SEQRES 16 B 204 PRO PHE ALA LYS GLY PHE ARG GLU ASN SEQRES 1 C 24 DA DA DT DT DT DC DA DC DA DC DC DT DA SEQRES 2 C 24 DG DG DT DG DT DG DA DA DA DT DT SEQRES 1 D 24 DA DA DT DT DT DC DA DC DA DC DC DT DA SEQRES 2 D 24 DG DG DT DG DT DG DA DA DA DT DT SEQRES 1 E 24 DA DA DT DT DT DC DA DC DA DC DC DT DA SEQRES 2 E 24 DG DG DT DG DT DG DA DA DA DT DT SEQRES 1 F 24 DA DA DT DT DT DC DA DC DA DC DC DT DA SEQRES 2 F 24 DG DG DT DG DT DG DA DA DA DT DT HELIX 1 AA1 ASN A 143 HIS A 153 1 11 HELIX 2 AA2 GLY A 229 GLN A 235 1 7 HELIX 3 AA3 GLN A 295 GLN A 298 5 4 HELIX 4 AA4 ASN A 307 ASN A 318 1 12 HELIX 5 AA5 ALA A 321 ARG A 325 5 5 HELIX 6 AA6 ASN B 143 GLN B 152 1 10 HELIX 7 AA7 GLY B 229 ARG B 234 1 6 HELIX 8 AA8 GLN B 295 GLN B 298 5 4 HELIX 9 AA9 ASN B 307 ASN B 318 1 12 HELIX 10 AB1 PRO B 319 ARG B 325 5 7 SHEET 1 AA1 3 VAL A 139 LEU A 141 0 SHEET 2 AA1 3 SER A 171 VAL A 174 -1 O THR A 173 N ALA A 140 SHEET 3 AA1 3 VAL A 237 SER A 238 -1 O VAL A 237 N PHE A 172 SHEET 1 AA2 5 GLU A 156 ILE A 158 0 SHEET 2 AA2 5 PHE A 299 VAL A 302 1 O VAL A 302 N MET A 157 SHEET 3 AA2 5 LYS A 265 GLU A 274 -1 N TYR A 266 O PHE A 299 SHEET 4 AA2 5 HIS A 182 ASP A 193 -1 N ARG A 184 O VAL A 273 SHEET 5 AA2 5 ASN A 227 THR A 228 -1 O ASN A 227 N TYR A 183 SHEET 1 AA3 4 LEU A 219 VAL A 221 0 SHEET 2 AA3 4 HIS A 182 ASP A 193 -1 N VAL A 187 O TYR A 220 SHEET 3 AA3 4 LYS A 265 GLU A 274 -1 O VAL A 273 N ARG A 184 SHEET 4 AA3 4 VAL A 291 THR A 293 -1 O PHE A 292 N LEU A 270 SHEET 1 AA4 3 ARG A 164 ARG A 165 0 SHEET 2 AA4 3 LYS A 243 THR A 245 -1 O LEU A 244 N ARG A 164 SHEET 3 AA4 3 ILE A 258 VAL A 259 1 O ILE A 258 N THR A 245 SHEET 1 AA5 2 HIS A 196 GLN A 200 0 SHEET 2 AA5 2 LYS A 203 CYS A 207 -1 O LYS A 203 N GLN A 200 SHEET 1 AA6 3 ARG B 138 LEU B 141 0 SHEET 2 AA6 3 SER B 171 ALA B 175 -1 O ALA B 175 N ARG B 138 SHEET 3 AA6 3 VAL B 237 SER B 238 -1 O VAL B 237 N PHE B 172 SHEET 1 AA7 5 GLU B 156 ILE B 158 0 SHEET 2 AA7 5 PHE B 299 VAL B 302 1 O VAL B 302 N MET B 157 SHEET 3 AA7 5 LYS B 265 GLU B 274 -1 N TYR B 266 O PHE B 299 SHEET 4 AA7 5 HIS B 182 ASP B 193 -1 N ASP B 188 O ARG B 269 SHEET 5 AA7 5 ASN B 227 THR B 228 -1 O ASN B 227 N TYR B 183 SHEET 1 AA8 4 TYR B 220 VAL B 221 0 SHEET 2 AA8 4 HIS B 182 ASP B 193 -1 N VAL B 187 O TYR B 220 SHEET 3 AA8 4 LYS B 265 GLU B 274 -1 O ARG B 269 N ASP B 188 SHEET 4 AA8 4 PHE B 292 THR B 293 -1 O PHE B 292 N LEU B 270 SHEET 1 AA9 3 ARG B 164 ARG B 165 0 SHEET 2 AA9 3 LYS B 243 THR B 245 -1 O LEU B 244 N ARG B 164 SHEET 3 AA9 3 ILE B 258 VAL B 259 1 O ILE B 258 N LYS B 243 SHEET 1 AB1 2 HIS B 196 GLN B 200 0 SHEET 2 AB1 2 LYS B 203 CYS B 207 -1 O LYS B 203 N GLN B 200 CISPEP 1 PHE A 167 PRO A 168 0 2.31 CISPEP 2 MET A 214 PRO A 215 0 23.83 CISPEP 3 SER A 225 PRO A 226 0 3.26 CISPEP 4 GLU A 281 ALA A 282 0 -0.86 CISPEP 5 CYS A 284 SER A 285 0 4.72 CISPEP 6 PHE B 167 PRO B 168 0 2.99 CISPEP 7 GLU B 211 GLY B 212 0 13.02 CISPEP 8 GLY B 216 ASN B 217 0 18.75 CISPEP 9 SER B 225 PRO B 226 0 4.45 CISPEP 10 SER B 287 ASN B 288 0 11.51 CRYST1 70.450 70.450 438.389 90.00 90.00 120.00 P 61 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 0.014194 0.008195 0.000000 0.00000 SCALE2 0.000000 0.016390 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002281 0.00000