HEADER CELL CYCLE 28-DEC-11 3VA4 TITLE CRYSTAL STRUCTURE OF THE MAMMALIAN MDC1 FHA DOMAIN COMPLEXED WITH CHK2 TITLE 2 PTHR68 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MEDIATOR OF DNA DAMAGE CHECKPOINT PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL FHA DOMAIN (UNP RESIDUES 29-139); COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SERINE/THREONINE-PROTEIN KINASE CHK2; COMPND 8 CHAIN: C; COMPND 9 FRAGMENT: CHK2-PTHR68 PEPTIDE (UNP RESIDUES 63-73); COMPND 10 SYNONYM: CHK2 CHECKPOINT HOMOLOG, CDS1 HOMOLOG, HUCDS1, HCDS1, COMPND 11 CHECKPOINT KINASE 2; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 STRAIN: MOUSE; SOURCE 5 GENE: MDC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS CELL CYCLE, FHA DOMAIN, DNA-DAMAGE, CHK2 AND MDC1 DIMERIZATION EXPDTA X-RAY DIFFRACTION AUTHOR H.H.WU,P.Y.WU,K.F.HUANG,Y.Y.KAO,M.D.TSAI REVDAT 2 09-OCT-24 3VA4 1 SEQADV LINK REVDAT 1 01-FEB-12 3VA4 0 JRNL AUTH H.H.WU,P.Y.WU,K.F.HUANG,Y.Y.KAO,M.D.TSAI JRNL TITL STRUCTURAL DELINEATION OF MDC1-FHA DOMAIN BINDING WITH JRNL TITL 2 CHK2-PTHR68. JRNL REF BIOCHEMISTRY 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22211259 JRNL DOI 10.1021/BI201709W REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 29179 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1546 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) : 1.54 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1951 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.1800 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1782 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.91000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.92000 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): 0.102 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.104 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1833 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2498 ; 2.293 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 224 ; 6.665 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 80 ;39.372 ;23.250 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 291 ;16.827 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;23.767 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 272 ; 0.171 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1414 ; 0.015 ; 0.022 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 1833 ; 7.855 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 62 ;20.219 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1873 ;13.584 ; 5.000 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 27 A 137 REMARK 3 RESIDUE RANGE : A 201 A 263 REMARK 3 ORIGIN FOR THE GROUP (A): 19.3651 33.6512 26.1557 REMARK 3 T TENSOR REMARK 3 T11: 0.0307 T22: 0.0315 REMARK 3 T33: 0.0114 T12: -0.0124 REMARK 3 T13: -0.0080 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 1.0035 L22: 0.0132 REMARK 3 L33: 1.1976 L12: 0.0097 REMARK 3 L13: 0.3494 L23: -0.0939 REMARK 3 S TENSOR REMARK 3 S11: -0.0627 S12: -0.0259 S13: 0.0818 REMARK 3 S21: 0.0007 S22: -0.0157 S23: -0.0041 REMARK 3 S31: 0.0369 S32: 0.0101 S33: 0.0784 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 28 B 135 REMARK 3 RESIDUE RANGE : B 201 B 279 REMARK 3 ORIGIN FOR THE GROUP (A): 17.3051 36.3626 1.0532 REMARK 3 T TENSOR REMARK 3 T11: 0.0119 T22: 0.0099 REMARK 3 T33: 0.0273 T12: 0.0054 REMARK 3 T13: 0.0077 T23: 0.0017 REMARK 3 L TENSOR REMARK 3 L11: 0.9025 L22: 0.4103 REMARK 3 L33: 0.5273 L12: 0.1643 REMARK 3 L13: 0.0262 L23: 0.0129 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: -0.0240 S13: 0.0076 REMARK 3 S21: -0.0565 S22: -0.0063 S23: -0.0373 REMARK 3 S31: -0.0255 S32: -0.0169 S33: 0.0058 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3VA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069786. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30878 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 57.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : 0.03700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.50800 REMARK 200 R SYM FOR SHELL (I) : 0.50800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 25.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.26M (NH4)2SO4, 0.2M NACL, 0.1M CHES, REMARK 280 PH 9.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 14.25400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.66750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.11200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.66750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 14.25400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.11200 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 MET A 8 REMARK 465 GLY A 9 REMARK 465 SER A 10 REMARK 465 SER A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 SER A 18 REMARK 465 SER A 19 REMARK 465 GLY A 20 REMARK 465 LEU A 21 REMARK 465 VAL A 22 REMARK 465 PRO A 23 REMARK 465 ARG A 24 REMARK 465 GLY A 25 REMARK 465 SER A 26 REMARK 465 PRO A 138 REMARK 465 LEU A 139 REMARK 465 LEU C -4 REMARK 465 GLU C -3 REMARK 465 THR C -2 REMARK 465 MET B 8 REMARK 465 GLY B 9 REMARK 465 SER B 10 REMARK 465 SER B 11 REMARK 465 HIS B 12 REMARK 465 HIS B 13 REMARK 465 HIS B 14 REMARK 465 HIS B 15 REMARK 465 HIS B 16 REMARK 465 HIS B 17 REMARK 465 SER B 18 REMARK 465 SER B 19 REMARK 465 GLY B 20 REMARK 465 LEU B 21 REMARK 465 VAL B 22 REMARK 465 PRO B 23 REMARK 465 ARG B 24 REMARK 465 GLY B 25 REMARK 465 SER B 26 REMARK 465 HIS B 27 REMARK 465 PRO B 136 REMARK 465 PRO B 137 REMARK 465 PRO B 138 REMARK 465 LEU B 139 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 N MET B 28 O HOH A 254 2664 1.99 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 TRP A 83 CE2 TRP A 83 CD2 0.074 REMARK 500 TRP B 83 CE2 TRP B 83 CD2 0.081 REMARK 500 LYS B 102 CB LYS B 102 CG -0.170 REMARK 500 GLU B 119 CD GLU B 119 OE1 -0.085 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 LEU A 34 CA - CB - CG ANGL. DEV. = -16.4 DEGREES REMARK 500 ARG B 58 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 105 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 105 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 116 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG B 116 NE - CZ - NH2 ANGL. DEV. = -7.3 DEGREES REMARK 500 ASP B 125 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 124 -126.83 55.94 REMARK 500 TYR C 5 -112.63 -126.31 REMARK 500 CYS B 92 34.22 -98.70 REMARK 500 ALA B 124 -123.43 53.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VA1 RELATED DB: PDB DBREF 3VA4 A 29 139 UNP Q5PSV9 MDC1_MOUSE 29 139 DBREF 3VA4 C -4 6 UNP O96017 CHK2_HUMAN 63 73 DBREF 3VA4 B 29 139 UNP Q5PSV9 MDC1_MOUSE 29 139 SEQADV 3VA4 MET A 8 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY A 9 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER A 10 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER A 11 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 12 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 13 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 14 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 15 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 16 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 17 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER A 18 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER A 19 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY A 20 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 LEU A 21 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 VAL A 22 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 PRO A 23 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 ARG A 24 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY A 25 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER A 26 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS A 27 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 MET A 28 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 MET B 8 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY B 9 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER B 10 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER B 11 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 12 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 13 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 14 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 15 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 16 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 17 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER B 18 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER B 19 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY B 20 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 LEU B 21 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 VAL B 22 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 PRO B 23 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 ARG B 24 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 GLY B 25 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 SER B 26 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 HIS B 27 UNP Q5PSV9 EXPRESSION TAG SEQADV 3VA4 MET B 28 UNP Q5PSV9 EXPRESSION TAG SEQRES 1 A 132 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 132 LEU VAL PRO ARG GLY SER HIS MET GLU PRO ILE GLY GLN SEQRES 3 A 132 LEU ARG LEU PHE SER GLY THR HIS GLY PRO GLU ARG ASP SEQRES 4 A 132 PHE PRO LEU TYR LEU GLY LYS ASN VAL VAL GLY ARG SER SEQRES 5 A 132 PRO ASP CYS SER VAL ALA LEU PRO PHE PRO SER ILE SER SEQRES 6 A 132 LYS GLN HIS ALA VAL ILE GLU ILE SER ALA TRP ASN LYS SEQRES 7 A 132 ALA PRO ILE LEU GLN ASP CYS GLY SER LEU ASN GLY THR SEQRES 8 A 132 GLN ILE VAL LYS PRO PRO ARG VAL LEU PRO PRO GLY VAL SEQRES 9 A 132 SER HIS ARG LEU ARG ASP GLN GLU LEU ILE LEU PHE ALA SEQRES 10 A 132 ASP PHE PRO CYS GLN TYR HIS ARG LEU ASP VAL PRO PRO SEQRES 11 A 132 PRO LEU SEQRES 1 C 11 LEU GLU THR VAL SER TPO GLN GLU LEU TYR SER SEQRES 1 B 132 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 132 LEU VAL PRO ARG GLY SER HIS MET GLU PRO ILE GLY GLN SEQRES 3 B 132 LEU ARG LEU PHE SER GLY THR HIS GLY PRO GLU ARG ASP SEQRES 4 B 132 PHE PRO LEU TYR LEU GLY LYS ASN VAL VAL GLY ARG SER SEQRES 5 B 132 PRO ASP CYS SER VAL ALA LEU PRO PHE PRO SER ILE SER SEQRES 6 B 132 LYS GLN HIS ALA VAL ILE GLU ILE SER ALA TRP ASN LYS SEQRES 7 B 132 ALA PRO ILE LEU GLN ASP CYS GLY SER LEU ASN GLY THR SEQRES 8 B 132 GLN ILE VAL LYS PRO PRO ARG VAL LEU PRO PRO GLY VAL SEQRES 9 B 132 SER HIS ARG LEU ARG ASP GLN GLU LEU ILE LEU PHE ALA SEQRES 10 B 132 ASP PHE PRO CYS GLN TYR HIS ARG LEU ASP VAL PRO PRO SEQRES 11 B 132 PRO LEU MODRES 3VA4 TPO C 1 THR PHOSPHOTHREONINE HET TPO C 1 11 HETNAM TPO PHOSPHOTHREONINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 2 TPO C4 H10 N O6 P FORMUL 4 HOH *153(H2 O) SHEET 1 A 6 ARG A 45 LEU A 49 0 SHEET 2 A 6 GLY A 32 LEU A 36 -1 N LEU A 36 O ARG A 45 SHEET 3 A 6 PHE A 126 ARG A 132 -1 O GLN A 129 N ARG A 35 SHEET 4 A 6 LEU A 120 PHE A 123 -1 N ILE A 121 O CYS A 128 SHEET 5 A 6 THR A 98 ILE A 100 -1 N GLN A 99 O LEU A 122 SHEET 6 A 6 ARG A 105 LEU A 107 -1 O ARG A 105 N ILE A 100 SHEET 1 B 5 VAL A 64 ALA A 65 0 SHEET 2 B 5 GLY A 52 GLY A 57 1 N VAL A 55 O VAL A 64 SHEET 3 B 5 ALA A 76 ILE A 80 -1 O ILE A 80 N GLY A 52 SHEET 4 B 5 ILE A 88 ASP A 91 -1 O ILE A 88 N GLU A 79 SHEET 5 B 5 HIS A 113 ARG A 114 -1 O HIS A 113 N LEU A 89 SHEET 1 C 6 ARG B 45 LEU B 49 0 SHEET 2 C 6 GLY B 32 LEU B 36 -1 N LEU B 36 O ARG B 45 SHEET 3 C 6 PHE B 126 ARG B 132 -1 O GLN B 129 N ARG B 35 SHEET 4 C 6 LEU B 120 PHE B 123 -1 N ILE B 121 O CYS B 128 SHEET 5 C 6 THR B 98 ILE B 100 -1 N GLN B 99 O LEU B 122 SHEET 6 C 6 ARG B 105 VAL B 106 -1 O ARG B 105 N ILE B 100 SHEET 1 D 5 VAL B 64 ALA B 65 0 SHEET 2 D 5 GLY B 52 GLY B 57 1 N VAL B 55 O VAL B 64 SHEET 3 D 5 ALA B 76 ILE B 80 -1 O ALA B 76 N VAL B 56 SHEET 4 D 5 ILE B 88 ASP B 91 -1 O ILE B 88 N GLU B 79 SHEET 5 D 5 HIS B 113 ARG B 114 -1 O HIS B 113 N LEU B 89 LINK C SER C 0 N TPO C 1 1555 1555 1.35 LINK C TPO C 1 N GLN C 2 1555 1555 1.36 CISPEP 1 LYS A 102 PRO A 103 0 -6.41 CISPEP 2 LYS B 102 PRO B 103 0 -9.62 CISPEP 3 ASP B 134 VAL B 135 0 14.34 CRYST1 28.508 70.224 101.335 90.00 90.00 90.00 P 21 21 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 0.035078 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014240 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009868 0.00000