10 20 30 40 50 60 70 80 2OXM - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE/DNA 20-FEB-07 2OXM
TITLE CRYSTAL STRUCTURE OF A UNG2/MODIFIED DNA COMPLEX THAT TITLE 2 REPRESENT A STABILIZED SHORT-LIVED EXTRAHELICAL STATE IN TITLE 3 EZYMATIC DNA BASE FLIPPING
COMPND MOL_ID: 1; COMPND 2 MOLECULE: URACIL-DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*TP*GP*TP*TP*AP*TP*CP*TP*T)-3'); COMPND 7 CHAIN: B; COMPND 8 SYNONYM: UDG; COMPND 9 EC: 3.2.2.-; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(*AP*AP*AP*GP*AP*TP*(4MF)P*AP*CP*A)-3'); COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UNG, DGU, UNG1, UNG15; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: SYNTHETICALLY MADE; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYNTHETICALLY MADE
KEYWDS ENZYME DNA COMPLEX, UNG2, URACIL DNA GLYCOSYLASE, KEYWDS 2 HYDROLASE/DNA COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR M.A.BIANCHET,D.J.KROSKY,STIVERS J.T.,L.M.AMZEL
REVDAT 2 24-FEB-09 2OXM 1 VERSN REVDAT 1 30-OCT-07 2OXM 0
JRNL AUTH J.B.PARKER,M.A.BIANCHET,D.J.KROSKY,J.I.FRIEDMAN, JRNL AUTH 2 L.M.AMZEL,J.T.STIVERS JRNL TITL ENZYMATIC CAPTURE OF AN EXTRAHELICAL THYMINE IN JRNL TITL 2 THE SEARCH FOR URACIL IN DNA. JRNL REF NATURE V. 449 433 2007 JRNL REFN ISSN 0028-0836 JRNL PMID 17704764 JRNL DOI 10.1038/NATURE06131
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 11397 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) : 0.257 REMARK 3 R VALUE (WORKING SET) : 0.254 REMARK 3 FREE R VALUE : 0.328 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 535 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.52 REMARK 3 REFLECTION IN BIN (WORKING SET) : 523 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 62.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.3250 REMARK 3 BIN FREE R VALUE SET COUNT : 17 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1808 REMARK 3 NUCLEIC ACID ATOMS : 384 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 107 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.58 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.73000 REMARK 3 B22 (A**2) : -2.92000 REMARK 3 B33 (A**2) : 6.65000 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): 0.757 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.382 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.210 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.116 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.898 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.846 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2299 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3187 ; 1.712 ; 2.148 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 222 ; 6.268 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;38.169 ;23.708 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 307 ;18.191 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;11.617 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 330 ; 0.137 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1649 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1243 ; 0.243 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1478 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 160 ; 0.208 ; 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): 32 ; 0.224 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.242 ; 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): 1132 ; 0.442 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1796 ; 0.773 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1433 ; 1.025 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1391 ; 1.675 ; 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 : 1.20 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 REMARK 3 RIDING POSITIONS
REMARK 4 REMARK 4 2OXM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAR-07. REMARK 100 THE RCSB ID CODE IS RCSB041710.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : OSMIC MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11434 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.16200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.59900 REMARK 200 R SYM FOR SHELL (I) : 0.59000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.910 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1EMH REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: A SOLUTION OF HUMAN UNG2 (22 MG/ML) REMARK 280 IN 50 MM TRIS-OAC BUFFER PH 7.0, 150 MM NACL AND 1MM DTT WAS REMARK 280 MIXED WITH T/M DUPLEX DNA (2.5 MM)M INCUBATE AT ROOM REMARK 280 TEMPERATURE FOR 30 MIN. AND THEN CENTRIFUGATE AT 10000 G FOR 5 REMARK 280 MIN.CO-CRYSTALLIZARION CONDITION WERE 22% PEG 4000, 100 MM REMARK 280 HEPES PH 6.5 AND 1MM DTT, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 24.23350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.23600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.78350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.23600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.23350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.78350 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 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 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 O3' DT C 26 O1P 4MF C 27 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DT B 2 C1' - O4' - C4' ANGL. DEV. = -6.6 DEGREES REMARK 500 DT B 2 C3' - C2' - C1' ANGL. DEV. = -6.9 DEGREES REMARK 500 DT B 2 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES REMARK 500 DT B 4 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA B 6 O4' - C1' - N9 ANGL. DEV. = -5.1 DEGREES REMARK 500 DT B 7 O4' - C1' - C2' ANGL. DEV. = 3.0 DEGREES REMARK 500 DC B 8 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT B 7 C3' - O3' - P ANGL. DEV. = 10.4 DEGREES REMARK 500 DT B 9 O4' - C4' - C3' ANGL. DEV. = -4.4 DEGREES REMARK 500 DA C 23 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA C 22 C3' - O3' - P ANGL. DEV. = 8.2 DEGREES REMARK 500 DT C 26 O4' - C4' - C3' ANGL. DEV. = -4.9 DEGREES REMARK 500 DT C 26 C1' - O4' - C4' ANGL. DEV. = -7.5 DEGREES REMARK 500 DC C 29 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC C 29 C3' - O3' - P ANGL. DEV. = 12.0 DEGREES REMARK 500 DA C 30 O3' - P - O5' ANGL. DEV. = -15.2 DEGREES REMARK 500 DA C 30 O3' - P - OP2 ANGL. DEV. = -22.2 DEGREES REMARK 500 DA C 30 O3' - P - OP1 ANGL. DEV. = -15.9 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 GLU A 83 -167.42 168.30 REMARK 500 LEU A 93 -32.87 -131.83 REMARK 500 SER A 94 -18.83 -41.34 REMARK 500 GLN A 144 -84.43 -76.58 REMARK 500 GLN A 152 -77.04 -100.48 REMARK 500 PHE A 158 -11.55 81.38 REMARK 500 ARG A 162 127.70 -39.07 REMARK 500 VAL A 164 134.55 -28.52 REMARK 500 ASN A 215 19.46 49.77 REMARK 500 ASN A 234 -35.46 -39.78 REMARK 500 ARG A 258 1.85 -68.38 REMARK 500 PRO A 269 -4.52 -47.38 REMARK 500 LEU A 272 -9.62 -58.81 REMARK 500 SER A 273 -49.85 -143.40 REMARK 500 VAL A 274 -39.48 -12.27 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 4MF C 27
DBREF 2OXM B 2 10 PDB 2OXM 2OXM 1 9 DBREF 2OXM C 21 30 PDB 2OXM 2OXM 1 10 DBREF 2OXM A 85 304 UNP P13051 UNG_HUMAN 94 313
SEQADV 2OXM MET A 82 UNP P13051 EXPRESSION TAG SEQADV 2OXM GLU A 83 UNP P13051 EXPRESSION TAG SEQADV 2OXM PHE A 84 UNP P13051 EXPRESSION TAG
SEQRES 1 A 223 MET GLU PHE PHE GLY GLU SER TRP LYS LYS HIS LEU SER SEQRES 2 A 223 GLY GLU PHE GLY LYS PRO TYR PHE ILE LYS LEU MET GLY SEQRES 3 A 223 PHE VAL ALA GLU GLU ARG LYS HIS TYR THR VAL TYR PRO SEQRES 4 A 223 PRO PRO HIS GLN VAL PHE THR TRP THR GLN MET CYS ASP SEQRES 5 A 223 ILE LYS ASP VAL LYS VAL VAL ILE LEU GLY GLN ASP PRO SEQRES 6 A 223 TYR HIS GLY PRO ASN GLN ALA HIS GLY LEU CYS PHE SER SEQRES 7 A 223 VAL GLN ARG PRO VAL PRO PRO PRO PRO SER LEU GLU ASN SEQRES 8 A 223 ILE TYR LYS GLU LEU SER THR ASP ILE GLU ASP PHE VAL SEQRES 9 A 223 HIS PRO GLY HIS GLY ASP LEU SER GLY TRP ALA LYS GLN SEQRES 10 A 223 GLY VAL LEU LEU LEU ASN ALA VAL LEU THR VAL ARG ALA SEQRES 11 A 223 HIS GLN ALA ASN SER HIS LYS GLU ARG GLY TRP GLU GLN SEQRES 12 A 223 PHE THR ASP ALA VAL VAL SER TRP LEU ASN GLN ASN SER SEQRES 13 A 223 ASN GLY LEU VAL PHE LEU LEU TRP GLY SER TYR ALA GLN SEQRES 14 A 223 LYS LYS GLY SER ALA ILE ASP ARG LYS ARG HIS HIS VAL SEQRES 15 A 223 LEU GLN THR ALA HIS PRO SER PRO LEU SER VAL TYR ARG SEQRES 16 A 223 GLY PHE PHE GLY CYS ARG HIS PHE SER LYS THR ASN GLU SEQRES 17 A 223 LEU LEU GLN LYS SER GLY LYS LYS PRO ILE ASP TRP LYS SEQRES 18 A 223 GLU LEU SEQRES 1 B 9 DT DG DT DT DA DT DC DT DT SEQRES 1 C 10 DA DA DA DG DA DT 4MF DA DC DA
HET 4MF C 27 21
HETNAM 4MF 1-(2-DEOXY-5-O-PHOSPHONO-BETA-D-ERYTHRO- HETNAM 2 4MF PENTOFURANOSYL)-4-METHYL-1H-INDOLE
FORMUL 2 4MF C14 H18 N O6 P FORMUL 4 HOH *107(H2 O)
HELIX 1 1 GLY A 86 SER A 94 1 9 HELIX 2 2 LYS A 99 TYR A 116 1 18 HELIX 3 3 PHE A 126 GLN A 130 5 5 HELIX 4 4 ASP A 133 VAL A 137 5 5 HELIX 5 5 PRO A 167 ILE A 181 1 15 HELIX 6 6 LEU A 192 LYS A 197 1 6 HELIX 7 7 GLY A 221 SER A 237 1 17 HELIX 8 8 TYR A 248 ILE A 256 5 9 HELIX 9 9 SER A 273 GLY A 277 5 5 HELIX 10 10 ARG A 282 LYS A 293 1 12
SHEET 1 A 2 VAL A 118 TYR A 119 0 SHEET 2 A 2 VAL A 209 ARG A 210 -1 O VAL A 209 N TYR A 119 SHEET 1 B 4 VAL A 200 ASN A 204 0 SHEET 2 B 4 VAL A 139 GLY A 143 1 N ILE A 141 O LEU A 203 SHEET 3 B 4 VAL A 241 TRP A 245 1 O LEU A 243 N VAL A 140 SHEET 4 B 4 HIS A 262 THR A 266 1 O HIS A 262 N PHE A 242
LINK O3' DT C 26 P 4MF C 27 1555 1555 1.59 LINK O3' 4MF C 27 P DA C 28 1555 1555 1.59
CISPEP 1 TYR A 119 PRO A 120 0 -2.82 CISPEP 2 ARG A 162 PRO A 163 0 8.01
SITE 1 AC1 6 LYS A 91 TYR A 275 HOH A 370 DT B 4 SITE 2 AC1 6 DT C 26 DA C 28
CRYST1 48.467 65.567 98.472 90.00 90.00 90.00 P 21 21 21 4
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.020633 0.000000 0.000000 0.00000
SCALE2 0.000000 0.015252 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010155 0.00000