HEADER HYDROLASE 24-AUG-12 4B87 TITLE CRYSTAL STRUCTURE OF HUMAN DNA CROSS-LINK REPAIR 1A COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA CROSS-LINK REPAIR 1A PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 676-1040; COMPND 5 SYNONYM: SNM1 HOMOLOG A, HSNM1, HSNM1A; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS DCLRE1A, DCLRE, INTERSTRAND CROSSLINK REPAIR, HYDROLASE, NITROGEN KEYWDS 2 MUSTARD, CANCER, CHEMOTHERAPY, PSO2 HOMOLOG EXPDTA X-RAY DIFFRACTION AUTHOR C.K.ALLERSTON,G.BERRIDGE,E.P.CARPENTER,G.KOCHAN,T.KROJER,P.MAHAJAN, AUTHOR 2 M.VOLLMAR,W.W.YUE,C.H.ARROWSMITH,A.EDWARDS,C.BOUNTRA,F.VON DELFT, AUTHOR 3 O.GILEADI REVDAT 4 23-OCT-24 4B87 1 REMARK LINK REVDAT 3 24-JAN-18 4B87 1 AUTHOR JRNL REVDAT 2 05-DEC-12 4B87 1 COMPND AUTHOR JRNL REVDAT 1 28-NOV-12 4B87 0 JRNL AUTH C.K.ALLERSTON,G.BERRIDGE,E.P.CARPENTER,G.KOCHAN,T.KROJER, JRNL AUTH 2 P.MAHAJAN,M.VOLLMAR,W.W.YUE,C.H.ARROWSMITH,A.EDWARDS, JRNL AUTH 3 C.BOUNTRA,F.VON DELFT,O.GILEADI JRNL TITL CRYSTAL STRUCTURE OF HUMAN DNA CROSS-LINK REPAIR 1A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.16 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.16 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 72.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 28205 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1506 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) : 2.16 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2038 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2900 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2626 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.81000 REMARK 3 B22 (A**2) : 0.81000 REMARK 3 B33 (A**2) : -2.63000 REMARK 3 B12 (A**2) : 0.81000 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): 0.158 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.118 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.042 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2710 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3676 ; 1.950 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 333 ; 6.370 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;35.692 ;23.964 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 441 ;15.166 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;25.277 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 413 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2023 ; 0.009 ; 0.021 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): 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 696 A 767 REMARK 3 ORIGIN FOR THE GROUP (A): 1.6277 -38.0853 30.6043 REMARK 3 T TENSOR REMARK 3 T11: 0.1431 T22: 0.2326 REMARK 3 T33: 0.1295 T12: 0.0418 REMARK 3 T13: -0.0293 T23: 0.1000 REMARK 3 L TENSOR REMARK 3 L11: 0.7821 L22: 1.4504 REMARK 3 L33: 0.2565 L12: -0.3371 REMARK 3 L13: 0.0847 L23: -0.5583 REMARK 3 S TENSOR REMARK 3 S11: -0.2350 S12: -0.3007 S13: -0.0726 REMARK 3 S21: 0.0856 S22: 0.3151 S23: -0.0121 REMARK 3 S31: -0.0035 S32: -0.1602 S33: -0.0801 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 768 A 863 REMARK 3 ORIGIN FOR THE GROUP (A): -0.1197 -22.6202 22.6211 REMARK 3 T TENSOR REMARK 3 T11: 0.2115 T22: 0.1649 REMARK 3 T33: 0.1266 T12: 0.0159 REMARK 3 T13: -0.0517 T23: 0.0483 REMARK 3 L TENSOR REMARK 3 L11: 0.5725 L22: 0.4260 REMARK 3 L33: 0.9958 L12: -0.3297 REMARK 3 L13: 0.4128 L23: 0.0994 REMARK 3 S TENSOR REMARK 3 S11: -0.1994 S12: -0.1608 S13: 0.0908 REMARK 3 S21: -0.0376 S22: 0.2055 S23: -0.0001 REMARK 3 S31: -0.3890 S32: -0.0414 S33: -0.0061 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 864 A 987 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5474 -38.1710 1.0240 REMARK 3 T TENSOR REMARK 3 T11: 0.1806 T22: 0.1532 REMARK 3 T33: 0.0913 T12: -0.0662 REMARK 3 T13: -0.1088 T23: 0.0859 REMARK 3 L TENSOR REMARK 3 L11: 1.9891 L22: 0.3993 REMARK 3 L33: 4.7229 L12: -0.7759 REMARK 3 L13: 0.1888 L23: 0.6004 REMARK 3 S TENSOR REMARK 3 S11: 0.2062 S12: -0.0289 S13: -0.0118 REMARK 3 S21: -0.0781 S22: -0.0137 S23: -0.0246 REMARK 3 S31: 0.0251 S32: -0.1615 S33: -0.1924 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 988 A 1040 REMARK 3 ORIGIN FOR THE GROUP (A): 12.7215 -19.2458 18.5242 REMARK 3 T TENSOR REMARK 3 T11: 0.2411 T22: 0.1575 REMARK 3 T33: 0.1072 T12: -0.1557 REMARK 3 T13: -0.0913 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.7476 L22: 0.6685 REMARK 3 L33: 1.9410 L12: -0.6961 REMARK 3 L13: 0.0537 L23: -0.0776 REMARK 3 S TENSOR REMARK 3 S11: -0.0577 S12: -0.0564 S13: 0.1554 REMARK 3 S21: -0.0052 S22: 0.0878 S23: -0.1160 REMARK 3 S31: -0.2285 S32: 0.2877 S33: -0.0301 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. HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT. U REMARK 3 VALUES WITH TLS ADDED REMARK 4 REMARK 4 4B87 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1290053875. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29805 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 72.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.90 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.20 REMARK 200 R MERGE FOR SHELL (I) : 1.19000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17.5% PEG 3350, 0.2M KCSN PH 8.2, 5% REMARK 280 ETHYLENE GLYCOL, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 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 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 85.94700 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 171.89400 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 128.92050 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 214.86750 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 42.97350 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 85.94700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 171.89400 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 214.86750 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 128.92050 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 42.97350 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 SER A 674 REMARK 465 MET A 675 REMARK 465 ALA A 676 REMARK 465 HIS A 677 REMARK 465 GLY A 678 REMARK 465 GLY A 679 REMARK 465 LEU A 680 REMARK 465 GLN A 681 REMARK 465 ARG A 682 REMARK 465 GLY A 683 REMARK 465 ASN A 684 REMARK 465 LYS A 685 REMARK 465 LYS A 686 REMARK 465 ILE A 687 REMARK 465 PRO A 688 REMARK 465 GLU A 689 REMARK 465 SER A 690 REMARK 465 SER A 691 REMARK 465 ASN A 692 REMARK 465 VAL A 693 REMARK 465 GLY A 694 REMARK 465 GLY A 695 REMARK 465 TRP A 964 REMARK 465 THR A 965 REMARK 465 HIS A 966 REMARK 465 SER A 967 REMARK 465 ASN A 968 REMARK 465 LYS A 969 REMARK 465 PHE A 970 REMARK 465 THR A 971 REMARK 465 ARG A 972 REMARK 465 ILE A 973 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 LYS A 699 CD CE NZ REMARK 470 LYS A 760 CE NZ REMARK 470 LYS A 785 CE NZ REMARK 470 LYS A 831 CE NZ REMARK 470 LYS A 885 NZ REMARK 470 LYS A 906 CE NZ REMARK 470 LEU A 919 CD1 CD2 REMARK 470 LYS A 940 CD CE NZ REMARK 470 GLN A 943 CD OE1 NE2 REMARK 470 LYS A 947 CD CE NZ REMARK 470 LYS A 948 CE NZ REMARK 470 ASP A 975 CG OD1 OD2 REMARK 470 LYS A 981 CE NZ REMARK 470 LYS A1029 CD CE NZ REMARK 470 LYS A1035 NZ REMARK 470 LEU A1036 CD1 CD2 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 O1 EDO A 2044 O HOH A 3103 2.16 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 3172 O HOH A 3172 12545 1.22 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 ARG A 960 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A1024 CD - NE - CZ ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A1024 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A1024 NE - CZ - NH2 ANGL. DEV. = -9.3 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 SER A 742 -176.74 -170.03 REMARK 500 HIS A 793 -92.06 -120.00 REMARK 500 TYR A 879 14.43 -140.25 REMARK 500 CYS A 949 18.96 48.59 REMARK 500 ASP A 975 63.43 71.64 REMARK 500 PRO A 990 49.41 -80.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A2041 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 696 OG REMARK 620 2 HIS A 732 NE2 102.8 REMARK 620 3 HIS A 734 ND1 86.6 90.8 REMARK 620 4 HIS A 793 NE2 171.6 85.3 95.3 REMARK 620 5 ASP A 815 OD2 84.6 91.0 171.3 93.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2041 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2042 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2043 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2044 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 2045 DBREF 4B87 A 676 1040 UNP Q6PJP8 DCR1A_HUMAN 676 1040 SEQADV 4B87 SER A 674 UNP Q6PJP8 EXPRESSION TAG SEQADV 4B87 MET A 675 UNP Q6PJP8 EXPRESSION TAG SEQRES 1 A 367 SER MET ALA HIS GLY GLY LEU GLN ARG GLY ASN LYS LYS SEQRES 2 A 367 ILE PRO GLU SER SER ASN VAL GLY GLY SER ARG LYS LYS SEQRES 3 A 367 THR CYS PRO PHE TYR LYS LYS ILE PRO GLY THR GLY PHE SEQRES 4 A 367 THR VAL ASP ALA PHE GLN TYR GLY VAL VAL GLU GLY CYS SEQRES 5 A 367 THR ALA TYR PHE LEU THR HIS PHE HIS SER ASP HIS TYR SEQRES 6 A 367 ALA GLY LEU SER LYS HIS PHE THR PHE PRO VAL TYR CYS SEQRES 7 A 367 SER GLU ILE THR GLY ASN LEU LEU LYS ASN LYS LEU HIS SEQRES 8 A 367 VAL GLN GLU GLN TYR ILE HIS PRO LEU PRO LEU ASP THR SEQRES 9 A 367 GLU CYS ILE VAL ASN GLY VAL LYS VAL VAL LEU LEU ASP SEQRES 10 A 367 ALA ASN HIS CYS PRO GLY ALA VAL MET ILE LEU PHE TYR SEQRES 11 A 367 LEU PRO ASN GLY THR VAL ILE LEU HIS THR GLY ASP PHE SEQRES 12 A 367 ARG ALA ASP PRO SER MET GLU ARG SER LEU LEU ALA ASP SEQRES 13 A 367 GLN LYS VAL HIS MET LEU TYR LEU ASP THR THR TYR CYS SEQRES 14 A 367 SER PRO GLU TYR THR PHE PRO SER GLN GLN GLU VAL ILE SEQRES 15 A 367 ARG PHE ALA ILE ASN THR ALA PHE GLU ALA VAL THR LEU SEQRES 16 A 367 ASN PRO HIS ALA LEU VAL VAL CYS GLY THR TYR SER ILE SEQRES 17 A 367 GLY LYS GLU LYS VAL PHE LEU ALA ILE ALA ASP VAL LEU SEQRES 18 A 367 GLY SER LYS VAL GLY MET SER GLN GLU LYS TYR LYS THR SEQRES 19 A 367 LEU GLN CYS LEU ASN ILE PRO GLU ILE ASN SER LEU ILE SEQRES 20 A 367 THR THR ASP MET CYS SER SER LEU VAL HIS LEU LEU PRO SEQRES 21 A 367 MET MET GLN ILE ASN PHE LYS GLY LEU GLN SER HIS LEU SEQRES 22 A 367 LYS LYS CYS GLY GLY LYS TYR ASN GLN ILE LEU ALA PHE SEQRES 23 A 367 ARG PRO THR GLY TRP THR HIS SER ASN LYS PHE THR ARG SEQRES 24 A 367 ILE ALA ASP VAL ILE PRO GLN THR LYS GLY ASN ILE SER SEQRES 25 A 367 ILE TYR GLY ILE PRO TYR SER GLU HIS SER SER TYR LEU SEQRES 26 A 367 GLU MET LYS ARG PHE VAL GLN TRP LEU LYS PRO GLN LYS SEQRES 27 A 367 ILE ILE PRO THR VAL ASN VAL GLY THR TRP LYS SER ARG SEQRES 28 A 367 SER THR MET GLU LYS TYR PHE ARG GLU TRP LYS LEU GLU SEQRES 29 A 367 ALA GLY TYR HET ZN A2041 1 HET EDO A2042 4 HET EDO A2043 4 HET EDO A2044 4 HET EDO A2045 4 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 EDO 4(C2 H6 O2) FORMUL 7 HOH *176(H2 O) HELIX 1 1 PRO A 702 LYS A 705 5 4 HELIX 2 2 HIS A 734 ALA A 739 1 6 HELIX 3 3 SER A 752 LEU A 763 1 12 HELIX 4 4 GLN A 766 GLN A 768 5 3 HELIX 5 5 ASP A 819 SER A 825 5 7 HELIX 6 6 SER A 825 ASP A 829 5 5 HELIX 7 7 SER A 850 ASN A 869 1 20 HELIX 8 8 LYS A 883 LEU A 894 1 12 HELIX 9 9 SER A 901 CYS A 910 1 10 HELIX 10 10 GLU A 915 LEU A 919 1 5 HELIX 11 11 ASP A 923 SER A 927 5 5 HELIX 12 12 MET A 935 ILE A 937 5 3 HELIX 13 13 ASN A 938 LYS A 948 1 11 HELIX 14 14 CYS A 949 LYS A 952 5 4 HELIX 15 15 SER A 996 LYS A 1008 1 13 HELIX 16 16 THR A 1020 GLY A 1039 1 20 SHEET 1 AA 4 PHE A 712 VAL A 714 0 SHEET 2 AA 4 ALA A 727 PHE A 729 1 O ALA A 727 N THR A 713 SHEET 3 AA 4 VAL A 749 CYS A 751 1 N TYR A 750 O TYR A 728 SHEET 4 AA 4 ILE A 770 PRO A 772 1 O HIS A 771 N CYS A 751 SHEET 1 AB 6 CYS A 779 VAL A 781 0 SHEET 2 AB 6 VAL A 784 ASP A 790 -1 O VAL A 784 N VAL A 781 SHEET 3 AB 6 VAL A 798 TYR A 803 -1 O MET A 799 N LEU A 789 SHEET 4 AB 6 VAL A 809 HIS A 812 -1 O ILE A 810 N PHE A 802 SHEET 5 AB 6 MET A 834 LEU A 837 1 O MET A 834 N LEU A 811 SHEET 6 AB 6 LYS A1011 PRO A1014 1 O LYS A1011 N LEU A 835 SHEET 1 AC 7 ILE A 920 THR A 921 0 SHEET 2 AC 7 VAL A 898 GLY A 899 1 O VAL A 898 N THR A 921 SHEET 3 AC 7 VAL A 929 PRO A 933 1 O VAL A 929 N GLY A 899 SHEET 4 AC 7 ALA A 872 THR A 878 1 O VAL A 874 N HIS A 930 SHEET 5 AC 7 GLN A 955 PRO A 961 1 O GLN A 955 N LEU A 873 SHEET 6 AC 7 ILE A 984 ILE A 989 1 O SER A 985 N ALA A 958 SHEET 7 AC 7 GLN A 979 LYS A 981 -1 O GLN A 979 N ILE A 986 SSBOND 1 CYS A 925 CYS A 949 1555 1555 2.12 LINK OG SER A 696 ZN ZN A2041 12545 1555 2.08 LINK NE2 HIS A 732 ZN ZN A2041 1555 1555 2.09 LINK ND1 HIS A 734 ZN ZN A2041 1555 1555 2.06 LINK NE2 HIS A 793 ZN ZN A2041 1555 1555 2.17 LINK OD2 ASP A 815 ZN ZN A2041 1555 1555 2.09 SITE 1 AC1 5 SER A 696 HIS A 732 HIS A 734 HIS A 793 SITE 2 AC1 5 ASP A 815 SITE 1 AC2 5 VAL A 886 ARG A 960 PRO A 961 ILE A 989 SITE 2 AC2 5 HOH A3108 SITE 1 AC3 1 GLN A 955 SITE 1 AC4 7 HIS A 744 THR A 878 PRO A 933 MET A 934 SITE 2 AC4 7 MET A 935 EDO A2045 HOH A3103 SITE 1 AC5 2 MET A 934 EDO A2044 CRYST1 83.400 83.400 257.841 90.00 90.00 120.00 P 61 2 2 12 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 0.011990 0.006923 0.000000 0.00000 SCALE2 0.000000 0.013845 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003878 0.00000