PDB Short entry for 2EVI HEADER CELL CYCLE/DNA 31-OCT-05 2EVI TITLE STRUCTURE OF A NDT80-DNA COMPLEX (MSE MUTANT MA8T) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*GP*CP*GP*AP*CP*AP*CP*AP*AP*TP*AP*AP*C)-3'; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: MUTANT MSE DNA STRAND 1; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*AP*GP*TP*TP*AP*TP*TP*GP*TP*GP*TP*CP*GP*C)-3'; COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: MUTANT MSE DNA STRAND 2; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: NDT80 PROTEIN; COMPND 13 CHAIN: A; COMPND 14 FRAGMENT: NDT80 DNA BINDING DOMAIN; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: 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: SACCHAROMYCES CEREVISIAE; SOURCE 7 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 8 ORGANISM_TAXID: 4932; SOURCE 9 GENE: NDT80; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PGEX-6P1 KEYWDS BETA-BARREL, IG-FOLD TRANSCRIPTION FACTOR, CELL CYCLE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.S.LAMOUREUX,J.N.GLOVER REVDAT 5 23-AUG-23 2EVI 1 REMARK REVDAT 4 20-OCT-21 2EVI 1 SEQADV REVDAT 3 18-OCT-17 2EVI 1 REMARK REVDAT 2 24-FEB-09 2EVI 1 VERSN REVDAT 1 21-MAR-06 2EVI 0 JRNL AUTH J.S.LAMOUREUX,J.N.GLOVER JRNL TITL PRINCIPLES OF PROTEIN-DNA RECOGNITION REVEALED IN THE JRNL TITL 2 STRUCTURAL ANALYSIS OF NDT80-MSE DNA COMPLEXES. JRNL REF STRUCTURE V. 14 555 2006 JRNL REFN ISSN 0969-2126 JRNL PMID 16531239 JRNL DOI 10.1016/J.STR.2005.11.017 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 41252 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2081 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2673 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 157 REMARK 3 BIN FREE R VALUE : 0.2280 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2333 REMARK 3 NUCLEIC ACID ATOMS : 551 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 313 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.112 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.066 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.060 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3088 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2505 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4300 ; 1.448 ; 2.186 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5911 ; 0.991 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 287 ; 6.536 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 462 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2953 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 504 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 449 ; 0.190 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3046 ; 0.239 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1726 ; 0.088 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 434 ; 0.189 ; 0.500 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): 10 ; 0.198 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.296 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.361 ; 0.500 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): 1471 ; 0.832 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2428 ; 1.520 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1617 ; 1.837 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1872 ; 2.790 ; 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2EVI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035142. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-01 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0093 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK MONOCHROMATOR #1 REMARK 200 HIGH-RESOLUTION DOUBLE-CRYSTAL REMARK 200 SAGITTAL FOCUSING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41252 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB 1MNN - MINUS DNA AT SEQUENCE CHANGES AND 1 REMARK 200 BASEPAIR ADJACENT TO THOSE CHANGES REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 400, 50 MM BIS-TRIS-PROPANE PH REMARK 280 7.0, 100 MM NACL, 50 MM CACL2, AND 2 MM DTT. 1:1 MOLAR RATIO REMARK 280 PROTEIN:DNA, PROTEIN AT 10MG/ML, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 80.89100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 80.89100 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 1.000000 0.000000 0.000000 34.85650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.27300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 34.85650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.27300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 80.89100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 34.85650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 39.27300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 80.89100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 34.85650 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 39.27300 REMARK 290 SMTRY3 8 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, A 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 DT B 1 REMARK 465 GLY A -4 REMARK 465 PRO A -3 REMARK 465 LEU A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 GLU A 3 REMARK 465 MET A 4 REMARK 465 GLU A 5 REMARK 465 ASN A 6 REMARK 465 THR A 7 REMARK 465 ASP A 8 REMARK 465 PRO A 9 REMARK 465 VAL A 10 REMARK 465 LEU A 11 REMARK 465 GLN A 12 REMARK 465 ASP A 13 REMARK 465 ASP A 14 REMARK 465 LEU A 15 REMARK 465 VAL A 16 REMARK 465 SER A 17 REMARK 465 LYS A 18 REMARK 465 TYR A 19 REMARK 465 GLU A 20 REMARK 465 ARG A 21 REMARK 465 GLU A 22 REMARK 465 LEU A 23 REMARK 465 SER A 24 REMARK 465 THR A 25 REMARK 465 GLU A 26 REMARK 465 GLN A 27 REMARK 465 GLU A 28 REMARK 465 GLU A 29 REMARK 465 ASP A 30 REMARK 465 THR A 31 REMARK 465 PRO A 32 REMARK 465 GLU A 140 REMARK 465 ASP A 141 REMARK 465 SER A 142 REMARK 465 SER A 143 REMARK 465 VAL A 144 REMARK 465 GLU A 145 REMARK 465 THR A 287 REMARK 465 PHE A 288 REMARK 465 HIS A 289 REMARK 465 GLY A 290 REMARK 465 GLU A 291 REMARK 465 ASN A 292 REMARK 465 PRO A 293 REMARK 465 ARG A 336 REMARK 465 ILE A 337 REMARK 465 THR A 338 REMARK 465 VAL A 339 REMARK 465 ARG A 340 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 ARG A 208 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 286 CG OD1 OD2 REMARK 470 LYS A 303 CG CD CE NZ REMARK 470 LYS A 307 CG CD CE NZ 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 A 603 O HOH A 604 2.08 REMARK 500 O HOH A 435 O HOH A 596 2.17 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 A 604 O HOH A 604 4566 1.66 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 DA B 9 O3' DA B 9 C3' -0.038 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 B 2 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT B 11 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA C 1 O4' - C1' - C2' ANGL. DEV. = -5.3 DEGREES REMARK 500 DA C 1 O4' - C1' - N9 ANGL. DEV. = 7.1 DEGREES REMARK 500 DT C 4 O5' - C5' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 DA C 5 O4' - C1' - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 DT C 6 O4' - C1' - N1 ANGL. DEV. = -4.3 DEGREES REMARK 500 DT C 9 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG C 13 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DG C 13 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DC C 14 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 ASP A 163 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 LEU A 190 CA - CB - CG ANGL. DEV. = 14.2 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 TYR A 75 -111.37 -118.57 REMARK 500 ASP A 103 62.37 36.79 REMARK 500 ARG A 177 -116.65 54.52 REMARK 500 ASN A 206 53.76 -143.32 REMARK 500 GLN A 268 -0.05 75.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MNN RELATED DB: PDB REMARK 900 RELATED ID: 1MN4 RELATED DB: PDB REMARK 900 RELATED ID: 1M6U RELATED DB: PDB REMARK 900 RELATED ID: 1M7U RELATED DB: PDB REMARK 900 RELATED ID: 2EUV RELATED DB: PDB REMARK 900 RELATED ID: 2ETW RELATED DB: PDB REMARK 900 RELATED ID: 2EUX RELATED DB: PDB REMARK 900 RELATED ID: 2EUZ RELATED DB: PDB REMARK 900 RELATED ID: 2EUW RELATED DB: PDB REMARK 900 RELATED ID: 2EVF RELATED DB: PDB REMARK 900 RELATED ID: 2EVG RELATED DB: PDB REMARK 900 RELATED ID: 2EVH RELATED DB: PDB REMARK 900 RELATED ID: 2EHJ RELATED DB: PDB DBREF 2EVI A 1 340 UNP P38830 NDT80_YEAST 1 340 DBREF 2EVI B 1 14 PDB 2EVI 2EVI 1 14 DBREF 2EVI C 1 14 PDB 2EVI 2EVI 1 14 SEQADV 2EVI GLY A -4 UNP P38830 CLONING ARTIFACT SEQADV 2EVI PRO A -3 UNP P38830 CLONING ARTIFACT SEQADV 2EVI LEU A -2 UNP P38830 CLONING ARTIFACT SEQADV 2EVI GLY A -1 UNP P38830 CLONING ARTIFACT SEQADV 2EVI SER A 0 UNP P38830 CLONING ARTIFACT SEQADV 2EVI GLY A 146 UNP P38830 SER 146 ENGINEERED MUTATION SEQADV 2EVI THR A 200 UNP P38830 ILE 200 ENGINEERED MUTATION SEQRES 1 B 14 DT DG DC DG DA DC DA DC DA DA DT DA DA SEQRES 2 B 14 DC SEQRES 1 C 14 DA DG DT DT DA DT DT DG DT DG DT DC DG SEQRES 2 C 14 DC SEQRES 1 A 345 GLY PRO LEU GLY SER MET ASN GLU MET GLU ASN THR ASP SEQRES 2 A 345 PRO VAL LEU GLN ASP ASP LEU VAL SER LYS TYR GLU ARG SEQRES 3 A 345 GLU LEU SER THR GLU GLN GLU GLU ASP THR PRO VAL ILE SEQRES 4 A 345 LEU THR GLN LEU ASN GLU ASP GLY THR THR SER ASN TYR SEQRES 5 A 345 PHE ASP LYS ARG LYS LEU LYS ILE ALA PRO ARG SER THR SEQRES 6 A 345 LEU GLN PHE LYS VAL GLY PRO PRO PHE GLU LEU VAL ARG SEQRES 7 A 345 ASP TYR CYS PRO VAL VAL GLU SER HIS THR GLY ARG THR SEQRES 8 A 345 LEU ASP LEU ARG ILE ILE PRO ARG ILE ASP ARG GLY PHE SEQRES 9 A 345 ASP HIS ILE ASP GLU GLU TRP VAL GLY TYR LYS ARG ASN SEQRES 10 A 345 TYR PHE THR LEU VAL SER THR PHE GLU THR ALA ASN CYS SEQRES 11 A 345 ASP LEU ASP THR PHE LEU LYS SER SER PHE ASP LEU LEU SEQRES 12 A 345 VAL GLU ASP SER SER VAL GLU GLY ARG LEU ARG VAL GLN SEQRES 13 A 345 TYR PHE ALA ILE LYS ILE LYS ALA LYS ASN ASP ASP ASP SEQRES 14 A 345 ASP THR GLU ILE ASN LEU VAL GLN HIS THR ALA LYS ARG SEQRES 15 A 345 ASP LYS GLY PRO GLN PHE CYS PRO SER VAL CYS PRO LEU SEQRES 16 A 345 VAL PRO SER PRO LEU PRO LYS HIS GLN THR ILE ARG GLU SEQRES 17 A 345 ALA SER ASN VAL ARG ASN ILE THR LYS MET LYS LYS TYR SEQRES 18 A 345 ASP SER THR PHE TYR LEU HIS ARG ASP HIS VAL ASN TYR SEQRES 19 A 345 GLU GLU TYR GLY VAL ASP SER LEU LEU PHE SER TYR PRO SEQRES 20 A 345 GLU ASP SER ILE GLN LYS VAL ALA ARG TYR GLU ARG VAL SEQRES 21 A 345 GLN PHE ALA SER SER ILE SER VAL LYS LYS PRO SER GLN SEQRES 22 A 345 GLN ASN LYS HIS PHE SER LEU HIS VAL ILE LEU GLY ALA SEQRES 23 A 345 VAL VAL ASP PRO ASP THR PHE HIS GLY GLU ASN PRO GLY SEQRES 24 A 345 ILE PRO TYR ASP GLU LEU ALA LEU LYS ASN GLY SER LYS SEQRES 25 A 345 GLY MET PHE VAL TYR LEU GLN GLU MET LYS THR PRO PRO SEQRES 26 A 345 LEU ILE ILE ARG GLY ARG SER PRO SER ASN TYR ALA SER SEQRES 27 A 345 SER GLN ARG ILE THR VAL ARG FORMUL 4 HOH *313(H2 O) HELIX 1 1 SER A 59 PHE A 63 5 5 HELIX 2 2 ASP A 126 SER A 133 1 8 HELIX 3 3 LYS A 176 GLY A 180 5 5 HELIX 4 4 LYS A 197 ALA A 204 1 8 HELIX 5 5 ASN A 209 PHE A 220 1 12 HELIX 6 6 ASP A 225 VAL A 227 5 3 HELIX 7 7 ASN A 228 TYR A 232 5 5 HELIX 8 8 SER A 236 TYR A 241 5 6 HELIX 9 9 SER A 327 GLN A 335 5 9 SHEET 1 A 2 ILE A 34 LEU A 38 0 SHEET 2 A 2 THR A 44 PHE A 48 -1 O TYR A 47 N LEU A 35 SHEET 1 B 5 GLU A 70 ASP A 74 0 SHEET 2 B 5 LYS A 307 LYS A 317 -1 O GLU A 315 N VAL A 72 SHEET 3 B 5 PHE A 273 VAL A 283 -1 N ALA A 281 O VAL A 311 SHEET 4 B 5 TYR A 152 ASN A 161 -1 N TYR A 152 O VAL A 282 SHEET 5 B 5 CYS A 188 PRO A 189 -1 O CYS A 188 N ILE A 155 SHEET 1 C 5 GLU A 167 ILE A 168 0 SHEET 2 C 5 TYR A 152 ASN A 161 -1 N ALA A 159 O ILE A 168 SHEET 3 C 5 PHE A 273 VAL A 283 -1 O VAL A 282 N TYR A 152 SHEET 4 C 5 LYS A 307 LYS A 317 -1 O VAL A 311 N ALA A 281 SHEET 5 C 5 TYR A 297 ALA A 301 -1 N ASP A 298 O PHE A 310 SHEET 1 D 3 VAL A 78 GLU A 80 0 SHEET 2 D 3 PHE A 135 LEU A 137 -1 O ASP A 136 N VAL A 79 SHEET 3 D 3 LEU A 148 ARG A 149 -1 O LEU A 148 N LEU A 137 SHEET 1 E 5 ARG A 90 ARG A 97 0 SHEET 2 E 5 PHE A 114 GLU A 121 -1 O VAL A 117 N ARG A 94 SHEET 3 E 5 ALA A 250 PHE A 257 -1 O ALA A 250 N SER A 118 SHEET 4 E 5 LEU A 170 HIS A 173 -1 N VAL A 171 O GLN A 256 SHEET 5 E 5 GLN A 182 PHE A 183 -1 O PHE A 183 N GLN A 172 SHEET 1 F 3 PHE A 99 ILE A 102 0 SHEET 2 F 3 GLU A 105 TYR A 109 -1 O VAL A 107 N ASP A 100 SHEET 3 F 3 LEU A 321 ARG A 324 1 O ARG A 324 N GLY A 108 SHEET 1 G 2 TYR A 221 HIS A 223 0 SHEET 2 G 2 SER A 245 GLN A 247 -1 O ILE A 246 N LEU A 222 CRYST1 69.713 78.546 161.782 90.00 90.00 90.00 C 2 2 21 8 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 0.014340 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012730 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006180 0.00000