HEADER HYDROLASE/DNA 19-MAR-03 1OE4 TITLE XENOPUS SMUG1, AN ANTI-MUTATOR URACIL-DNA GLYCOSYLASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SINGLE-STRAND SELECTIVE MONOFUNCTIONAL URACIL DNA COMPND 3 GLYCOSYLASE; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: RESIDUES 1-247; COMPND 6 SYNONYM: SMUG1; COMPND 7 EC: 3.2.2.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: 5'-D(*CP*CP*CP*GP*TP*GP*AP*GP*TP*CP*CP*G)-3'; COMPND 11 CHAIN: E; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: 5'-D(*CP*GP*GP*AP*CP*TP*3DR*AP*CP*GP*GP*G)-3'; COMPND 14 CHAIN: F SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES KEYWDS HYDROLASE-DNA COMPLEX, HYDROLASE, DNA GLYCOSYLASE, SINGLE STRANDED EXPDTA X-RAY DIFFRACTION AUTHOR J.E.A.WIBLEY,L.H.PEARL REVDAT 3 17-JUL-13 1OE4 1 HEADER COMPND KEYWDS JRNL REVDAT 3 2 REMARK VERSN DBREF SEQRES REVDAT 3 3 HETSYN FORMUL LINK SITE REVDAT 3 4 SCALE1 ATOM HETATM TER REVDAT 3 5 CONECT MASTER REVDAT 2 24-FEB-09 1OE4 1 VERSN REVDAT 1 11-JUL-03 1OE4 0 JRNL AUTH J.E.A.WIBLEY,T.R.WATERS,K.HAUSHALTER,G.L.VERDINE,L.H.PEARL JRNL TITL STRUCTURE AND SPECIFICITY OF THE VERTEBRATE ANTI-MUTATOR JRNL TITL 2 URACIL-DNA GLYCOSYLASE SMUG1 JRNL REF MOL.CELL V. 11 1647 2003 JRNL REFN ISSN 1097-2765 JRNL PMID 12820976 JRNL DOI 10.1016/S1097-2765(03)00235-1 REMARK 2 REMARK 2 RESOLUTION. 2.0 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 46033 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2451 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3399 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3891 REMARK 3 NUCLEIC ACID ATOMS : 467 REMARK 3 HETEROGEN ATOMS : 51 REMARK 3 SOLVENT ATOMS : 673 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.357 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4562 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3883 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6273 ; 1.303 ; 2.099 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9134 ; 1.144 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 490 ; 5.982 ; 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): 657 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4659 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 795 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 895 ; 0.195 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4413 ; 0.230 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2395 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 478 ; 0.164 ; 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): 16 ; 0.118 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 87 ; 0.265 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 47 ; 0.146 ; 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): 2452 ; 0.701 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3974 ; 1.371 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2110 ; 1.940 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2297 ; 3.251 ; 4.500 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 REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 1OE4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-MAR-03. REMARK 100 THE PDBE ID CODE IS EBI-12401. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48465 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.28000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: SOLVE/RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 60.84050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.96800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.84050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.96800 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: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2281 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2305 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2004 LIES ON A SPECIAL POSITION. 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 THR A 35 REMARK 465 GLY A 281 REMARK 465 THR B 35 REMARK 465 GLY B 281 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 PRO A 143 O HOH A 2145 2.18 REMARK 500 OE1 GLU B 36 O HOH B 2005 1.24 REMARK 500 OD2 ASP B 117 O3 GOL B 1281 2.18 REMARK 500 OP2 DC E 291 O HOH E 2029 2.20 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 E 2004 O HOH E 2004 2656 1.18 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 GLU B 36 C GLU B 36 O 0.151 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 GLU B 36 CA - C - N ANGL. DEV. = 15.3 DEGREES REMARK 500 ASP B 60 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 DC E 281 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC E 282 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG E 286 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 DT E 289 C1' - O4' - C4' ANGL. DEV. = -6.2 DEGREES REMARK 500 DG F 294 O4' - C1' - N9 ANGL. DEV. = -4.3 DEGREES REMARK 500 DG F 295 O4' - C1' - N9 ANGL. DEV. = -4.3 DEGREES REMARK 500 DC F 297 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DT F 298 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DC F 301 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG F 304 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 60 -103.10 91.68 REMARK 500 VAL A 70 -67.51 -97.34 REMARK 500 SER A 126 -143.50 -98.62 REMARK 500 ASP B 60 -89.89 94.05 REMARK 500 SER B 126 -149.73 -98.53 REMARK 500 LYS B 195 -39.60 -39.45 REMARK 500 LYS B 246 -169.39 -127.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLN B 59 ASP B 60 143.62 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 GOL A1281 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1282 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1283 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1284 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1281 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1282 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B1283 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OE5 RELATED DB: PDB REMARK 900 XENOPUS SMUG1, AN ANTI-MUTATOR URACIL-DNA REMARK 900 GLYCOSYLASE REMARK 900 RELATED ID: 1OE6 RELATED DB: PDB REMARK 900 XENOPUS SMUG1, AN ANTI-MUTATOR URACIL-DNA REMARK 900 GLYCOSYLASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE 3DR IN CHAIN F IS THE RESULT OF DEGLYCOSYLATION REMARK 999 OF DEOXYURACIL DBREF 1OE4 A 35 281 UNP Q9YGN6 Q9YGN6 1 247 DBREF 1OE4 B 35 281 UNP Q9YGN6 Q9YGN6 1 247 DBREF 1OE4 E 281 292 PDB 1OE4 1OE4 281 292 DBREF 1OE4 F 293 304 PDB 1OE4 1OE4 293 304 SEQRES 1 A 247 THR GLU SER PRO ALA ASP SER PHE LEU LYS VAL GLU LEU SEQRES 2 A 247 GLU LEU ASN LEU LYS LEU SER ASN LEU VAL PHE GLN ASP SEQRES 3 A 247 PRO VAL GLN TYR VAL TYR ASN PRO LEU VAL TYR ALA TRP SEQRES 4 A 247 ALA PRO HIS GLU ASN TYR VAL GLN THR TYR CYS LYS SER SEQRES 5 A 247 LYS LYS GLU VAL LEU PHE LEU GLY MET ASN PRO GLY PRO SEQRES 6 A 247 PHE GLY MET ALA GLN THR GLY VAL PRO PHE GLY GLU VAL SEQRES 7 A 247 ASN HIS VAL ARG ASP TRP LEU GLN ILE GLU GLY PRO VAL SEQRES 8 A 247 SER LYS PRO GLU VAL GLU HIS PRO LYS ARG ARG ILE ARG SEQRES 9 A 247 GLY PHE GLU CYS PRO GLN SER GLU VAL SER GLY ALA ARG SEQRES 10 A 247 PHE TRP SER LEU PHE LYS SER LEU CYS GLY GLN PRO GLU SEQRES 11 A 247 THR PHE PHE LYS HIS CYS PHE VAL HIS ASN HIS CYS PRO SEQRES 12 A 247 LEU ILE PHE MET ASN HIS SER GLY LYS ASN LEU THR PRO SEQRES 13 A 247 THR ASP LEU PRO LYS ALA GLN ARG ASP THR LEU LEU GLU SEQRES 14 A 247 ILE CYS ASP GLU ALA LEU CYS GLN ALA VAL ARG VAL LEU SEQRES 15 A 247 GLY VAL LYS LEU VAL ILE GLY VAL GLY ARG PHE SER GLU SEQRES 16 A 247 GLN ARG ALA ARG LYS ALA LEU MET ALA GLU GLY ILE ASP SEQRES 17 A 247 VAL THR VAL LYS GLY ILE MET HIS PRO SER PRO ARG ASN SEQRES 18 A 247 PRO GLN ALA ASN LYS GLY TRP GLU GLY ILE VAL ARG GLY SEQRES 19 A 247 GLN LEU LEU GLU LEU GLY VAL LEU SER LEU LEU THR GLY SEQRES 1 B 247 THR GLU SER PRO ALA ASP SER PHE LEU LYS VAL GLU LEU SEQRES 2 B 247 GLU LEU ASN LEU LYS LEU SER ASN LEU VAL PHE GLN ASP SEQRES 3 B 247 PRO VAL GLN TYR VAL TYR ASN PRO LEU VAL TYR ALA TRP SEQRES 4 B 247 ALA PRO HIS GLU ASN TYR VAL GLN THR TYR CYS LYS SER SEQRES 5 B 247 LYS LYS GLU VAL LEU PHE LEU GLY MET ASN PRO GLY PRO SEQRES 6 B 247 PHE GLY MET ALA GLN THR GLY VAL PRO PHE GLY GLU VAL SEQRES 7 B 247 ASN HIS VAL ARG ASP TRP LEU GLN ILE GLU GLY PRO VAL SEQRES 8 B 247 SER LYS PRO GLU VAL GLU HIS PRO LYS ARG ARG ILE ARG SEQRES 9 B 247 GLY PHE GLU CYS PRO GLN SER GLU VAL SER GLY ALA ARG SEQRES 10 B 247 PHE TRP SER LEU PHE LYS SER LEU CYS GLY GLN PRO GLU SEQRES 11 B 247 THR PHE PHE LYS HIS CYS PHE VAL HIS ASN HIS CYS PRO SEQRES 12 B 247 LEU ILE PHE MET ASN HIS SER GLY LYS ASN LEU THR PRO SEQRES 13 B 247 THR ASP LEU PRO LYS ALA GLN ARG ASP THR LEU LEU GLU SEQRES 14 B 247 ILE CYS ASP GLU ALA LEU CYS GLN ALA VAL ARG VAL LEU SEQRES 15 B 247 GLY VAL LYS LEU VAL ILE GLY VAL GLY ARG PHE SER GLU SEQRES 16 B 247 GLN ARG ALA ARG LYS ALA LEU MET ALA GLU GLY ILE ASP SEQRES 17 B 247 VAL THR VAL LYS GLY ILE MET HIS PRO SER PRO ARG ASN SEQRES 18 B 247 PRO GLN ALA ASN LYS GLY TRP GLU GLY ILE VAL ARG GLY SEQRES 19 B 247 GLN LEU LEU GLU LEU GLY VAL LEU SER LEU LEU THR GLY SEQRES 1 E 12 DC DC DC DG DT DG DA DG DT DC DC DG SEQRES 1 F 12 DC DG DG DA DC DT 3DR DA DC DG DG DG HET 3DR F 299 11 HET GOL A1281 6 HET GOL A1282 6 HET GOL A1283 6 HET GOL A1284 6 HET GOL B1281 6 HET GOL B1282 6 HET IPA B1283 4 HETNAM 3DR 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE HETNAM GOL GLYCEROL HETNAM IPA ISOPROPYL ALCOHOL HETSYN 3DR ABASIC DIDEOXYRIBOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN IPA 2-PROPANOL FORMUL 5 3DR C5 H11 O6 P FORMUL 6 GOL 6(C3 H8 O3) FORMUL 7 IPA C3 H8 O FORMUL 8 HOH *673(H2 O) HELIX 1 1 PRO A 38 ASN A 55 1 18 HELIX 2 2 ASN A 67 ALA A 72 1 6 HELIX 3 3 ALA A 72 CYS A 84 1 13 HELIX 4 4 GLY A 101 GLY A 106 1 6 HELIX 5 5 GLU A 111 TRP A 118 1 8 HELIX 6 6 ARG A 138 CYS A 142 5 5 HELIX 7 7 GLU A 146 GLY A 161 1 16 HELIX 8 8 GLN A 162 LYS A 168 1 7 HELIX 9 9 THR A 189 LEU A 193 5 5 HELIX 10 10 PRO A 194 GLY A 217 1 24 HELIX 11 11 GLY A 225 GLU A 239 1 15 HELIX 12 12 ASN A 255 ASN A 259 5 5 HELIX 13 13 GLY A 261 GLY A 274 1 14 HELIX 14 14 VAL A 275 THR A 280 1 6 HELIX 15 15 PRO B 38 SER B 54 1 17 HELIX 16 16 ASN B 67 ALA B 72 1 6 HELIX 17 17 ALA B 72 CYS B 84 1 13 HELIX 18 18 GLY B 101 GLY B 106 1 6 HELIX 19 19 GLU B 111 TRP B 118 1 8 HELIX 20 20 ARG B 138 CYS B 142 5 5 HELIX 21 21 GLU B 146 GLY B 161 1 16 HELIX 22 22 GLN B 162 LYS B 168 1 7 HELIX 23 23 THR B 189 LEU B 193 5 5 HELIX 24 24 PRO B 194 GLY B 217 1 24 HELIX 25 25 GLY B 225 ALA B 238 1 14 HELIX 26 26 ASN B 255 LYS B 260 5 6 HELIX 27 27 GLY B 261 GLY B 274 1 14 HELIX 28 28 VAL B 275 THR B 280 1 6 SHEET 1 AA 3 TYR A 64 TYR A 66 0 SHEET 2 AA 3 ILE A 179 MET A 181 -1 O ILE A 179 N TYR A 66 SHEET 3 AA 3 ASN A 187 LEU A 188 -1 O LEU A 188 N PHE A 180 SHEET 1 AB 4 CYS A 170 ASN A 174 0 SHEET 2 AB 4 VAL A 90 GLY A 94 1 O VAL A 90 N PHE A 171 SHEET 3 AB 4 LEU A 220 VAL A 224 1 O LEU A 220 N LEU A 91 SHEET 4 AB 4 THR A 244 ILE A 248 1 O THR A 244 N VAL A 221 SHEET 1 BA 3 TYR B 64 TYR B 66 0 SHEET 2 BA 3 ILE B 179 MET B 181 -1 O ILE B 179 N TYR B 66 SHEET 3 BA 3 ASN B 187 LEU B 188 -1 O LEU B 188 N PHE B 180 SHEET 1 BB 4 CYS B 170 ASN B 174 0 SHEET 2 BB 4 VAL B 90 GLY B 94 1 O VAL B 90 N PHE B 171 SHEET 3 BB 4 LEU B 220 VAL B 224 1 O LEU B 220 N LEU B 91 SHEET 4 BB 4 THR B 244 ILE B 248 1 O THR B 244 N VAL B 221 LINK P 3DR F 299 O3' DT F 298 1555 1555 1.60 LINK O3' 3DR F 299 P DA F 300 1555 1555 1.60 SITE 1 AC1 7 ASN A 113 ASP A 117 HOH A2328 ALA B 150 SITE 2 AC1 7 ARG B 151 SER B 154 HOH B2214 SITE 1 AC2 7 TYR A 71 ALA A 72 TRP A 73 ALA A 74 SITE 2 AC2 7 PRO A 124 SER A 126 HOH A2330 SITE 1 AC3 7 TYR A 66 ASN A 67 VAL A 70 TYR A 71 SITE 2 AC3 7 PRO A 128 HOH A2331 HOH A2332 SITE 1 AC4 3 GLN A 230 HOH A2334 HOH A2335 SITE 1 AC5 7 HIS A 114 ALA A 150 ARG A 151 SER A 154 SITE 2 AC5 7 HIS B 114 ASP B 117 HOH B2268 SITE 1 AC6 4 PRO B 253 ARG B 254 HOH B2269 DG E 292 SITE 1 AC7 7 TYR B 66 ASN B 67 VAL B 70 TYR B 71 SITE 2 AC7 7 PRO B 128 GLU B 129 HOH B2096 CRYST1 121.681 85.936 79.126 90.00 118.36 90.00 C 1 2 1 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 0.008218 0.000000 0.004436 0.00000 SCALE2 0.000000 0.011637 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014362 0.00000