PDB Short entry for 3BRD HEADER DNA BINDING PROTEIN/DNA 21-DEC-07 3BRD TITLE CSL (LAG-1) BOUND TO DNA WITH LIN-12 RAM PEPTIDE, P212121 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*DTP*DTP*DAP*DCP*DTP*DGP*DTP*DGP*DGP*DGP*DAP*DAP*DAP*DGP*DA)-3'); COMPND 4 CHAIN: B; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'- COMPND 8 D(*DAP*DAP*DTP*DCP*DTP*DTP*DTP*DCP*DCP*DCP*DAP*DCP*DAP*DGP*DT)-3'); COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: LIN-12 AND GLP-1 PHENOTYPE PROTEIN 1, ISOFORM A; COMPND 13 CHAIN: A; COMPND 14 FRAGMENT: CORE DOMAIN; COMPND 15 SYNONYM: DNA-BINDING PROTEIN LAG-1, LAG-1 PROTEIN; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: PROTEIN LIN-12; COMPND 19 CHAIN: D; COMPND 20 FRAGMENT: RAM PEPTIDE; COMPND 21 SYNONYM: ABNORMAL CELL LINEAGE PROTEIN 12; 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: CAENORHABDITIS ELEGANS; SOURCE 7 ORGANISM_TAXID: 6239; SOURCE 8 GENE: LAG-1; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PGEX6P-1; SOURCE 14 MOL_ID: 4; SOURCE 15 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 16 ORGANISM_TAXID: 6239; SOURCE 17 GENE: LIN-12; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 22 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS PROTEIN-DNA COMPLEX, SIGNALING, TRANSCRIPTION, NOTCH, DNA-BINDING, KEYWDS 2 ANK REPEAT, DEVELOPMENTAL PROTEIN, DIFFERENTIATION, EGF-LIKE DOMAIN, KEYWDS 3 GLYCOPROTEIN, MEMBRANE, TRANSMEMBRANE, DNA BINDING PROTEIN-DNA KEYWDS 4 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.J.WILSON,R.A.KOVALL REVDAT 6 21-FEB-24 3BRD 1 REMARK SEQADV REVDAT 5 25-OCT-17 3BRD 1 REMARK REVDAT 4 24-FEB-09 3BRD 1 VERSN REVDAT 3 03-JUN-08 3BRD 1 JRNL REVDAT 2 22-APR-08 3BRD 1 JRNL REVDAT 1 01-APR-08 3BRD 0 JRNL AUTH D.R.FRIEDMANN,J.J.WILSON,R.A.KOVALL JRNL TITL RAM-INDUCED ALLOSTERY FACILITATES ASSEMBLY OF A NOTCH JRNL TITL 2 PATHWAY ACTIVE TRANSCRIPTION COMPLEX. JRNL REF J.BIOL.CHEM. V. 283 14781 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18381292 JRNL DOI 10.1074/JBC.M709501200 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0020 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) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 36498 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1819 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) : 2.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1820 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.37 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3527 REMARK 3 NUCLEIC ACID ATOMS : 609 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : 0.16000 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): 0.238 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.208 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.155 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.004 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4339 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5969 ; 1.795 ; 2.130 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 440 ; 6.699 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 173 ;36.209 ;23.642 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 633 ;19.600 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;17.293 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 655 ; 0.122 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3051 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1527 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2805 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 224 ; 0.167 ; 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): 53 ; 0.224 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.280 ; 0.200 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): 2259 ; 0.866 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3569 ; 1.487 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2570 ; 1.931 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2398 ; 2.695 ; 4.500 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 NUMBER OF DIFFERENT NCS GROUPS : NULL 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 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 3BRD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000045872. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36557 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 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 (%) : 94.8 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.34500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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 (%): 56.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS, AMMONIUM SULFATE, PEG 3350, REMARK 280 ETHYLENE GLYCOL, PH 5.5, UNDER OIL MICROBATCH, 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 30.07650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.15650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.43300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.15650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.07650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.43300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7400 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, A, 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 GLY A 187 REMARK 465 PRO A 188 REMARK 465 LEU A 189 REMARK 465 GLY A 190 REMARK 465 SER A 191 REMARK 465 GLY A 192 REMARK 465 ASP A 193 REMARK 465 SER A 194 REMARK 465 LYS A 264 REMARK 465 ALA A 265 REMARK 465 SER A 266 REMARK 465 ALA A 267 REMARK 465 GLN A 268 REMARK 465 LYS A 269 REMARK 465 ASP A 270 REMARK 465 ALA A 271 REMARK 465 ALA A 272 REMARK 465 ILE A 273 REMARK 465 GLU A 274 REMARK 465 ASN A 275 REMARK 465 ASP A 276 REMARK 465 PRO A 277 REMARK 465 ILE A 278 REMARK 465 HIS A 279 REMARK 465 GLU A 280 REMARK 465 SER A 305 REMARK 465 THR A 306 REMARK 465 GLY A 307 REMARK 465 LYS A 308 REMARK 465 VAL A 309 REMARK 465 ARG A 310 REMARK 465 HIS A 311 REMARK 465 PRO A 312 REMARK 465 GLY A 313 REMARK 465 ASP A 314 REMARK 465 GLN A 315 REMARK 465 ARG A 316 REMARK 465 GLN A 317 REMARK 465 ASP A 318 REMARK 465 GLN A 374 REMARK 465 SER A 375 REMARK 465 MET A 376 REMARK 465 LYS A 377 REMARK 465 ASN A 378 REMARK 465 GLU A 433 REMARK 465 ARG A 434 REMARK 465 GLY A 435 REMARK 465 LEU A 436 REMARK 465 GLU A 662 REMARK 465 ARG A 663 REMARK 465 SER D 929 REMARK 465 PRO D 930 REMARK 465 GLY D 931 REMARK 465 ASN D 932 REMARK 465 ARG D 933 REMARK 465 THR D 934 REMARK 465 ARG D 935 REMARK 465 LYS D 936 REMARK 465 GLU D 952 REMARK 465 GLU D 953 REMARK 465 LYS D 954 REMARK 465 ASN D 955 REMARK 465 ARG D 956 REMARK 465 LYS D 957 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 DA C 1 C5' DA C 1 C4' 0.063 REMARK 500 DA C 1 C2' DA C 1 C1' 0.077 REMARK 500 DA C 1 O4' DA C 1 C1' 0.076 REMARK 500 CYS A 237 CB CYS A 237 SG -0.186 REMARK 500 CYS A 509 CB CYS A 509 SG -0.110 REMARK 500 GLU D 950 CD GLU D 950 OE1 0.447 REMARK 500 GLU D 950 CD GLU D 950 OE2 0.292 REMARK 500 ASN D 951 CG ASN D 951 OD1 0.234 REMARK 500 ASN D 951 CG ASN D 951 ND2 0.201 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 DT B 2 O4' - C1' - N1 ANGL. DEV. = -5.2 DEGREES REMARK 500 DC B 4 C3' - O3' - P ANGL. DEV. = 8.2 DEGREES REMARK 500 DT B 7 C4 - C5 - C7 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT B 7 C6 - C5 - C7 ANGL. DEV. = -4.2 DEGREES REMARK 500 DG B 8 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG B 8 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DA B 12 O4' - C1' - N9 ANGL. DEV. = -5.0 DEGREES REMARK 500 DC C 4 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT C 6 O4' - C1' - N1 ANGL. DEV. = -4.6 DEGREES REMARK 500 DC C 10 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DC C 12 N1 - C1' - C2' ANGL. DEV. = 9.7 DEGREES REMARK 500 DC C 12 O4' - C1' - N1 ANGL. DEV. = -6.9 DEGREES REMARK 500 DA C 13 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG C 14 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 GLU D 950 OE1 - CD - OE2 ANGL. DEV. = 7.6 DEGREES REMARK 500 GLU D 950 CG - CD - OE2 ANGL. DEV. = -15.4 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 ASN A 209 39.50 -143.44 REMARK 500 ARG A 399 48.31 38.63 REMARK 500 ASP A 431 -71.05 -87.19 REMARK 500 ALA A 483 44.98 -67.15 REMARK 500 SER A 484 -29.33 -154.24 REMARK 500 ILE A 523 -71.70 -76.37 REMARK 500 ILE A 530 -156.08 -124.88 REMARK 500 SER A 660 -166.79 -52.11 REMARK 500 GLU D 950 -79.04 -50.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO C 16 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 10 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3BRF RELATED DB: PDB REMARK 900 RELATED ID: 3BRG RELATED DB: PDB DBREF 3BRD A 192 663 UNP Q9TYY1 Q9TYY1_CAEEL 192 663 DBREF 3BRD D 930 957 UNP P14585 LIN12_CAEEL 930 957 DBREF 3BRD B 1 15 PDB 3BRD 3BRD 1 15 DBREF 3BRD C 1 15 PDB 3BRD 3BRD 1 15 SEQADV 3BRD GLY A 187 UNP Q9TYY1 EXPRESSION TAG SEQADV 3BRD PRO A 188 UNP Q9TYY1 EXPRESSION TAG SEQADV 3BRD LEU A 189 UNP Q9TYY1 EXPRESSION TAG SEQADV 3BRD GLY A 190 UNP Q9TYY1 EXPRESSION TAG SEQADV 3BRD SER A 191 UNP Q9TYY1 EXPRESSION TAG SEQADV 3BRD SER D 929 UNP P14585 EXPRESSION TAG SEQRES 1 B 15 DT DT DA DC DT DG DT DG DG DG DA DA DA SEQRES 2 B 15 DG DA SEQRES 1 C 15 DA DA DT DC DT DT DT DC DC DC DA DC DA SEQRES 2 C 15 DG DT SEQRES 1 A 477 GLY PRO LEU GLY SER GLY ASP SER VAL GLN SER LEU THR SEQRES 2 A 477 SER ASP ARG MET ILE ASP PHE LEU SER ASN LYS GLU LYS SEQRES 3 A 477 TYR GLU CYS VAL ILE SER ILE PHE HIS ALA LYS VAL ALA SEQRES 4 A 477 GLN LYS SER TYR GLY ASN GLU LYS ARG PHE PHE CYS PRO SEQRES 5 A 477 PRO PRO CYS ILE TYR LEU ILE GLY GLN GLY TRP LYS LEU SEQRES 6 A 477 LYS LYS ASP ARG VAL ALA GLN LEU TYR LYS THR LEU LYS SEQRES 7 A 477 ALA SER ALA GLN LYS ASP ALA ALA ILE GLU ASN ASP PRO SEQRES 8 A 477 ILE HIS GLU GLN GLN ALA THR GLU LEU VAL ALA TYR ILE SEQRES 9 A 477 GLY ILE GLY SER ASP THR SER GLU ARG GLN GLN LEU ASP SEQRES 10 A 477 PHE SER THR GLY LYS VAL ARG HIS PRO GLY ASP GLN ARG SEQRES 11 A 477 GLN ASP PRO ASN ILE TYR ASP TYR CYS ALA ALA LYS THR SEQRES 12 A 477 LEU TYR ILE SER ASP SER ASP LYS ARG LYS TYR PHE ASP SEQRES 13 A 477 LEU ASN ALA GLN PHE PHE TYR GLY CYS GLY MET GLU ILE SEQRES 14 A 477 GLY GLY PHE VAL SER GLN ARG ILE LYS VAL ILE SER LYS SEQRES 15 A 477 PRO SER LYS LYS LYS GLN SER MET LYS ASN THR ASP CYS SEQRES 16 A 477 LYS TYR LEU CYS ILE ALA SER GLY THR LYS VAL ALA LEU SEQRES 17 A 477 PHE ASN ARG LEU ARG SER GLN THR VAL SER THR ARG TYR SEQRES 18 A 477 LEU HIS VAL GLU GLY ASN ALA PHE HIS ALA SER SER THR SEQRES 19 A 477 LYS TRP GLY ALA PHE THR ILE HIS LEU PHE ASP ASP GLU SEQRES 20 A 477 ARG GLY LEU GLN GLU THR ASP ASN PHE ALA VAL ARG ASP SEQRES 21 A 477 GLY PHE VAL TYR TYR GLY SER VAL VAL LYS LEU VAL ASP SEQRES 22 A 477 SER VAL THR GLY ILE ALA LEU PRO ARG LEU ARG ILE ARG SEQRES 23 A 477 LYS VAL ASP LYS GLN GLN VAL ILE LEU ASP ALA SER CYS SEQRES 24 A 477 SER GLU GLU PRO VAL SER GLN LEU HIS LYS CYS ALA PHE SEQRES 25 A 477 GLN MET ILE ASP ASN GLU LEU VAL TYR LEU CYS LEU SER SEQRES 26 A 477 HIS ASP LYS ILE ILE GLN HIS GLN ALA THR ALA ILE ASN SEQRES 27 A 477 GLU HIS ARG HIS GLN ILE ASN ASP GLY ALA ALA TRP THR SEQRES 28 A 477 ILE ILE SER THR ASP LYS ALA GLU TYR ARG PHE PHE GLU SEQRES 29 A 477 ALA MET GLY GLN VAL ALA ASN PRO ILE SER PRO CYS PRO SEQRES 30 A 477 VAL VAL GLY SER LEU GLU VAL ASP GLY HIS GLY GLU ALA SEQRES 31 A 477 SER ARG VAL GLU LEU HIS GLY ARG ASP PHE LYS PRO ASN SEQRES 32 A 477 LEU LYS VAL TRP PHE GLY ALA THR PRO VAL GLU THR THR SEQRES 33 A 477 PHE ARG SER GLU GLU SER LEU HIS CYS SER ILE PRO PRO SEQRES 34 A 477 VAL SER GLN VAL ARG ASN GLU GLN THR HIS TRP MET PHE SEQRES 35 A 477 THR ASN ARG THR THR GLY ASP VAL GLU VAL PRO ILE SER SEQRES 36 A 477 LEU VAL ARG ASP ASP GLY VAL VAL TYR SER SER GLY LEU SEQRES 37 A 477 THR PHE SER TYR LYS SER LEU GLU ARG SEQRES 1 D 29 SER PRO GLY ASN ARG THR ARG LYS ARG ARG MET ILE ASN SEQRES 2 D 29 ALA SER VAL TRP MET PRO PRO MET GLU ASN GLU GLU LYS SEQRES 3 D 29 ASN ARG LYS HET EDO C 16 4 HET EDO A 1 4 HET EDO A 2 4 HET EDO A 3 4 HET EDO A 4 4 HET EDO A 5 4 HET EDO A 8 4 HET EDO A 9 4 HET EDO A 10 4 HET EDO D 6 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 5 EDO 10(C2 H6 O2) FORMUL 15 HOH *131(H2 O) HELIX 1 1 THR A 199 ASN A 209 1 11 HELIX 2 2 ASN A 209 GLU A 214 1 6 HELIX 3 3 GLN A 247 LEU A 259 1 13 HELIX 4 4 ASP A 380 CYS A 385 1 6 HELIX 5 5 GLN A 401 THR A 405 5 5 HELIX 6 6 SER A 484 GLU A 488 5 5 HELIX 7 7 ASN A 531 ALA A 535 5 5 HELIX 8 8 HIS A 573 ALA A 576 5 4 HELIX 9 9 PRO A 615 ARG A 620 1 6 HELIX 10 10 THR A 624 THR A 629 1 6 SHEET 1 A 9 THR A 521 ASN A 524 0 SHEET 2 A 9 ARG A 527 GLN A 529 -1 O GLN A 529 N THR A 521 SHEET 3 A 9 GLN A 478 ILE A 480 -1 N VAL A 479 O HIS A 528 SHEET 4 A 9 LEU A 469 ASP A 475 -1 N ASP A 475 O GLN A 478 SHEET 5 A 9 VAL A 454 ASP A 459 -1 N VAL A 455 O LEU A 469 SHEET 6 A 9 PHE A 425 PHE A 430 -1 N THR A 426 O VAL A 458 SHEET 7 A 9 LYS A 391 ASN A 396 -1 N VAL A 392 O PHE A 425 SHEET 8 A 9 ARG A 406 GLU A 411 -1 O ARG A 406 N ASN A 396 SHEET 9 A 9 ALA A 414 SER A 418 -1 O SER A 418 N TYR A 407 SHEET 1 B 9 ARG D 938 ASN D 941 0 SHEET 2 B 9 ASN A 441 ARG A 445 -1 N PHE A 442 O ILE D 940 SHEET 3 B 9 PHE A 425 PHE A 430 -1 N LEU A 429 O ARG A 445 SHEET 4 B 9 LYS A 391 ASN A 396 -1 N VAL A 392 O PHE A 425 SHEET 5 B 9 TRP A 536 GLU A 550 -1 O THR A 537 N PHE A 395 SHEET 6 B 9 VAL A 648 SER A 657 -1 O VAL A 649 N PHE A 549 SHEET 7 B 9 GLU A 637 ARG A 644 -1 N LEU A 642 O TYR A 650 SHEET 8 B 9 LEU A 590 PHE A 594 -1 N TRP A 593 O SER A 641 SHEET 9 B 9 THR A 597 VAL A 599 -1 O THR A 597 N PHE A 594 SHEET 1 C 9 ILE A 321 ALA A 326 0 SHEET 2 C 9 CYS A 241 ILE A 245 -1 N LEU A 244 O ASP A 323 SHEET 3 C 9 CYS A 215 ALA A 222 -1 N PHE A 220 O CYS A 241 SHEET 4 C 9 TRP A 536 GLU A 550 -1 O PHE A 548 N CYS A 215 SHEET 5 C 9 HIS A 494 MET A 500 -1 N CYS A 496 O TRP A 536 SHEET 6 C 9 LEU A 469 ASP A 475 -1 N ARG A 470 O GLN A 499 SHEET 7 C 9 GLN A 478 ILE A 480 -1 O GLN A 478 N ASP A 475 SHEET 8 C 9 ARG A 527 GLN A 529 -1 O HIS A 528 N VAL A 479 SHEET 9 C 9 THR A 521 ASN A 524 -1 N THR A 521 O GLN A 529 SHEET 1 D 3 VAL A 224 GLN A 226 0 SHEET 2 D 3 ILE A 363 ILE A 366 1 O ILE A 366 N ALA A 225 SHEET 3 D 3 TYR A 340 PHE A 341 -1 N PHE A 341 O ILE A 363 SHEET 1 E 4 GLN A 300 GLN A 301 0 SHEET 2 E 4 LEU A 286 GLY A 291 -1 N ILE A 290 O GLN A 300 SHEET 3 E 4 ASN A 344 TYR A 349 -1 O PHE A 348 N VAL A 287 SHEET 4 E 4 GLU A 354 VAL A 359 -1 O GLY A 356 N PHE A 347 SHEET 1 F 2 VAL A 506 SER A 511 0 SHEET 2 F 2 LYS A 514 GLN A 519 -1 O ILE A 516 N CYS A 509 SHEET 1 G 4 VAL A 564 ASP A 571 0 SHEET 2 G 4 ARG A 578 ARG A 584 -1 O HIS A 582 N SER A 567 SHEET 3 G 4 SER A 608 SER A 612 -1 O LEU A 609 N LEU A 581 SHEET 4 G 4 THR A 601 SER A 605 -1 N THR A 602 O HIS A 610 CISPEP 1 CYS A 237 PRO A 238 0 -7.67 CISPEP 2 SER A 560 PRO A 561 0 -3.14 SITE 1 AC1 7 PHE A 220 CYS A 241 TYR A 243 TRP A 422 SITE 2 AC1 7 ALA A 424 HOH A 757 HOH A 760 SITE 1 AC2 3 THR A 629 ASN A 630 ARG A 631 SITE 1 AC3 4 GLU A 545 ARG A 547 SER A 651 GLY A 653 SITE 1 AC4 4 GLN A 361 LYS A 543 ALA A 544 GLU A 545 SITE 1 AC5 6 GLN A 300 GLN A 301 ALA A 326 ALA A 327 SITE 2 AC5 6 LYS A 328 THR A 329 SITE 1 AC6 5 THR A 462 GLY A 463 ILE A 464 ALA D 942 SITE 2 AC6 5 SER D 943 SITE 1 AC7 1 DT C 6 SITE 1 AC8 2 TYR A 289 PHE A 348 SITE 1 AC9 4 LEU A 207 MET A 627 PHE A 628 PRO A 639 SITE 1 BC1 5 ARG A 445 PHE A 448 GLU A 580 ARG A 604 SITE 2 BC1 5 HOH A 699 CRYST1 60.153 98.866 126.313 90.00 90.00 90.00 P 21 21 21 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 0.016624 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010115 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007917 0.00000