HEADER HYDROLASE/DNA 16-NOV-11 3UOB TITLE CRYSTAL STRUCTURE OF HUMAN THYMINE DNA GLYCOSYLASE BOUND TO SUBSTRATE TITLE 2 ANALOG 2'-DEOXY-2'-BETA-FLUORO-CYTIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*AP*GP*CP*TP*CP*TP*GP*TP*AP*CP*GP*TP*GP*AP*GP*CP*AP COMPND 3 *GP*TP*GP*GP*A)-3'; COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*CP*CP*AP*CP*TP*GP*CP*TP*CP*AP*(1FC) COMPND 8 P*GP*TP*AP*CP*AP*GP*AP*GP*CP*TP*GP*T)-3'; COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: G/T MISMATCH-SPECIFIC THYMINE DNA GLYCOSYLASE; COMPND 13 CHAIN: A, B; COMPND 14 FRAGMENT: UNP RESIDUES 111-308; COMPND 15 SYNONYM: THYMINE-DNA GLYCOSYLASE, TDG; COMPND 16 EC: 3.2.2.29; COMPND 17 ENGINEERED: 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: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: TDG; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DSDNA, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.ZHANG,C.HE REVDAT 3 13-SEP-23 3UOB 1 SEQADV LINK REVDAT 2 03-JUN-15 3UOB 1 JRNL REVDAT 1 15-FEB-12 3UOB 0 JRNL AUTH L.ZHANG,X.LU,J.LU,H.LIANG,Q.DAI,G.L.XU,C.LUO,H.JIANG,C.HE JRNL TITL THYMINE DNA GLYCOSYLASE SPECIFICALLY RECOGNIZES JRNL TITL 2 5-CARBOXYLCYTOSINE-MODIFIED DNA. JRNL REF NAT.CHEM.BIOL. V. 8 328 2012 JRNL REFN ISSN 1552-4450 JRNL PMID 22327402 JRNL DOI 10.1038/NCHEMBIO.914 REMARK 2 REMARK 2 RESOLUTION. 3.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.2_869) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.73 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 69.5 REMARK 3 NUMBER OF REFLECTIONS : 11703 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.030 REMARK 3 FREE R VALUE TEST SET COUNT : 596 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.7346 - 6.0111 0.98 1931 216 0.2179 0.2763 REMARK 3 2 6.0111 - 4.7759 0.98 1884 208 0.2187 0.2581 REMARK 3 3 4.7759 - 4.1736 0.94 1763 201 0.1799 0.2534 REMARK 3 4 4.1736 - 3.7926 0.82 1552 169 0.2173 0.2977 REMARK 3 5 3.7926 - 3.5211 0.70 1311 147 0.2384 0.2888 REMARK 3 6 3.5211 - 3.3137 0.55 1023 116 0.2641 0.2910 REMARK 3 7 3.3137 - 3.1479 0.41 764 83 0.2961 0.3427 REMARK 3 8 3.1479 - 3.0110 0.16 301 34 0.3225 0.3566 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.86 REMARK 3 K_SOL : 0.27 REMARK 3 B_SOL : 45.41 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.990 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.740 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -19.06060 REMARK 3 B22 (A**2) : -19.06060 REMARK 3 B33 (A**2) : 38.12110 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 3948 REMARK 3 ANGLE : 1.523 5524 REMARK 3 CHIRALITY : 0.144 600 REMARK 3 PLANARITY : 0.007 545 REMARK 3 DIHEDRAL : 24.076 1548 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3UOB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000069004. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-OCT-11 REMARK 200 TEMPERATURE (KELVIN) : 180 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 : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : CRYOGENICALLY-COOLED SINGLE REMARK 200 CRYSTAL SI(220) SIDE BOUNCE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11703 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 59.3 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : 0.09600 REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 59.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.530 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: PDB ENTRY 2RBA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG3350, 0.2 M TRIPOTASSIUM REMARK 280 CITRATE MONOHYDRATE, PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 36.46733 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 18.23367 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 27.35050 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 9.11683 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 45.58417 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, A, 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 SER A 108 REMARK 465 ASN A 109 REMARK 465 ALA A 110 REMARK 465 PHE A 111 REMARK 465 ASN A 112 REMARK 465 GLY A 113 REMARK 465 VAL A 114 REMARK 465 SER A 115 REMARK 465 GLU A 116 REMARK 465 ALA A 117 REMARK 465 GLU A 118 REMARK 465 LEU A 119 REMARK 465 LEU A 120 REMARK 465 THR A 121 REMARK 465 LYS A 122 REMARK 465 ARG A 304 REMARK 465 ASN A 305 REMARK 465 MET A 306 REMARK 465 ASP A 307 REMARK 465 VAL A 308 REMARK 465 SER B 108 REMARK 465 ASN B 109 REMARK 465 ALA B 110 REMARK 465 PHE B 111 REMARK 465 ASN B 112 REMARK 465 GLY B 113 REMARK 465 VAL B 114 REMARK 465 SER B 115 REMARK 465 GLU B 116 REMARK 465 ALA B 117 REMARK 465 GLU B 118 REMARK 465 LEU B 119 REMARK 465 LEU B 120 REMARK 465 THR B 121 REMARK 465 LYS B 122 REMARK 465 ARG B 275 REMARK 465 CYS B 276 REMARK 465 ALA B 277 REMARK 465 GLN B 278 REMARK 465 PHE B 279 REMARK 465 PRO B 280 REMARK 465 ARG B 281 REMARK 465 ALA B 282 REMARK 465 GLN B 283 REMARK 465 ASP B 284 REMARK 465 ASN B 305 REMARK 465 MET B 306 REMARK 465 ASP B 307 REMARK 465 VAL B 308 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 OP1 DT C 5 NZ LYS A 246 2.02 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 C 15 O3' DA C 15 C3' -0.047 REMARK 500 CYS A 162 CB CYS A 162 SG -0.113 REMARK 500 TYR A 267 CB TYR A 267 CG -0.098 REMARK 500 CYS B 162 CB CYS B 162 SG -0.104 REMARK 500 VAL B 247 C LYS B 248 N 0.187 REMARK 500 ASN B 249 C LEU B 250 N 0.227 REMARK 500 CYS B 266 CB CYS B 266 SG -0.136 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 C 12 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DT C 13 O5' - C5' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 DT C 13 N3 - C4 - O4 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG C 14 C3' - C2' - C1' ANGL. DEV. = -5.9 DEGREES REMARK 500 DG C 14 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC C 17 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 DA C 18 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG C 19 P - O5' - C5' ANGL. DEV. = -9.8 DEGREES REMARK 500 DT C 20 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DG C 21 O4' - C1' - N9 ANGL. DEV. = 6.0 DEGREES REMARK 500 DC D 2 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG D 6 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT D 8 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 DT D 8 N3 - C4 - O4 ANGL. DEV. = 3.9 DEGREES REMARK 500 DT D 8 C5 - C4 - O4 ANGL. DEV. = -4.2 DEGREES REMARK 500 DG D 12 O4' - C1' - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DT D 13 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC D 15 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 DC D 20 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT D 21 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 TYR A 185 CB - CG - CD1 ANGL. DEV. = 3.7 DEGREES REMARK 500 PRO A 198 C - N - CA ANGL. DEV. = 13.4 DEGREES REMARK 500 PRO A 198 C - N - CD ANGL. DEV. = -13.0 DEGREES REMARK 500 MET B 176 CG - SD - CE ANGL. DEV. = -9.7 DEGREES REMARK 500 ASN B 249 N - CA - C ANGL. DEV. = 19.2 DEGREES REMARK 500 ASN B 249 CA - C - N ANGL. DEV. = -17.8 DEGREES REMARK 500 TYR B 267 CB - CG - CD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 TYR B 267 CB - CG - CD1 ANGL. DEV. = -6.3 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 ILE A 234 -74.73 -52.27 REMARK 500 PHE A 279 77.90 -118.50 REMARK 500 ILE B 139 -76.70 -80.33 REMARK 500 GLN B 172 108.98 -59.41 REMARK 500 THR B 197 154.16 178.33 REMARK 500 ASN B 249 60.38 23.92 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 PRO A 198 GLY A 199 -31.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 PHE A 159 0.11 SIDE CHAIN REMARK 500 PHE A 208 0.08 SIDE CHAIN REMARK 500 ARG A 225 0.19 SIDE CHAIN REMARK 500 TYR A 267 0.14 SIDE CHAIN REMARK 500 TYR B 147 0.12 SIDE CHAIN REMARK 500 TYR B 152 0.16 SIDE CHAIN REMARK 500 PHE B 208 0.08 SIDE CHAIN REMARK 500 ARG B 225 0.13 SIDE CHAIN REMARK 500 TYR B 267 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PRO A 198 -13.38 REMARK 500 ASN B 249 -12.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UO7 RELATED DB: PDB DBREF 3UOB A 111 308 UNP Q13569 TDG_HUMAN 111 308 DBREF 3UOB B 111 308 UNP Q13569 TDG_HUMAN 111 308 DBREF 3UOB D 1 23 PDB 3UOB 3UOB 1 23 DBREF 3UOB C 1 23 PDB 3UOB 3UOB 1 23 SEQADV 3UOB SER A 108 UNP Q13569 EXPRESSION TAG SEQADV 3UOB ASN A 109 UNP Q13569 EXPRESSION TAG SEQADV 3UOB ALA A 110 UNP Q13569 EXPRESSION TAG SEQADV 3UOB SER B 108 UNP Q13569 EXPRESSION TAG SEQADV 3UOB ASN B 109 UNP Q13569 EXPRESSION TAG SEQADV 3UOB ALA B 110 UNP Q13569 EXPRESSION TAG SEQRES 1 C 23 DC DA DG DC DT DC DT DG DT DA DC DG DT SEQRES 2 C 23 DG DA DG DC DA DG DT DG DG DA SEQRES 1 D 23 DC DC DA DC DT DG DC DT DC DA 1FC DG DT SEQRES 2 D 23 DA DC DA DG DA DG DC DT DG DT SEQRES 1 A 201 SER ASN ALA PHE ASN GLY VAL SER GLU ALA GLU LEU LEU SEQRES 2 A 201 THR LYS THR LEU PRO ASP ILE LEU THR PHE ASN LEU ASP SEQRES 3 A 201 ILE VAL ILE ILE GLY ILE ASN PRO GLY LEU MET ALA ALA SEQRES 4 A 201 TYR LYS GLY HIS HIS TYR PRO GLY PRO GLY ASN HIS PHE SEQRES 5 A 201 TRP LYS CYS LEU PHE MET SER GLY LEU SER GLU VAL GLN SEQRES 6 A 201 LEU ASN HIS MET ASP ASP HIS THR LEU PRO GLY LYS TYR SEQRES 7 A 201 GLY ILE GLY PHE THR ASN MET VAL GLU ARG THR THR PRO SEQRES 8 A 201 GLY SER LYS ASP LEU SER SER LYS GLU PHE ARG GLU GLY SEQRES 9 A 201 GLY ARG ILE LEU VAL GLN LYS LEU GLN LYS TYR GLN PRO SEQRES 10 A 201 ARG ILE ALA VAL PHE ASN GLY LYS CYS ILE TYR GLU ILE SEQRES 11 A 201 PHE SER LYS GLU VAL PHE GLY VAL LYS VAL LYS ASN LEU SEQRES 12 A 201 GLU PHE GLY LEU GLN PRO HIS LYS ILE PRO ASP THR GLU SEQRES 13 A 201 THR LEU CYS TYR VAL MET PRO SER SER SER ALA ARG CYS SEQRES 14 A 201 ALA GLN PHE PRO ARG ALA GLN ASP LYS VAL HIS TYR TYR SEQRES 15 A 201 ILE LYS LEU LYS ASP LEU ARG ASP GLN LEU LYS GLY ILE SEQRES 16 A 201 GLU ARG ASN MET ASP VAL SEQRES 1 B 201 SER ASN ALA PHE ASN GLY VAL SER GLU ALA GLU LEU LEU SEQRES 2 B 201 THR LYS THR LEU PRO ASP ILE LEU THR PHE ASN LEU ASP SEQRES 3 B 201 ILE VAL ILE ILE GLY ILE ASN PRO GLY LEU MET ALA ALA SEQRES 4 B 201 TYR LYS GLY HIS HIS TYR PRO GLY PRO GLY ASN HIS PHE SEQRES 5 B 201 TRP LYS CYS LEU PHE MET SER GLY LEU SER GLU VAL GLN SEQRES 6 B 201 LEU ASN HIS MET ASP ASP HIS THR LEU PRO GLY LYS TYR SEQRES 7 B 201 GLY ILE GLY PHE THR ASN MET VAL GLU ARG THR THR PRO SEQRES 8 B 201 GLY SER LYS ASP LEU SER SER LYS GLU PHE ARG GLU GLY SEQRES 9 B 201 GLY ARG ILE LEU VAL GLN LYS LEU GLN LYS TYR GLN PRO SEQRES 10 B 201 ARG ILE ALA VAL PHE ASN GLY LYS CYS ILE TYR GLU ILE SEQRES 11 B 201 PHE SER LYS GLU VAL PHE GLY VAL LYS VAL LYS ASN LEU SEQRES 12 B 201 GLU PHE GLY LEU GLN PRO HIS LYS ILE PRO ASP THR GLU SEQRES 13 B 201 THR LEU CYS TYR VAL MET PRO SER SER SER ALA ARG CYS SEQRES 14 B 201 ALA GLN PHE PRO ARG ALA GLN ASP LYS VAL HIS TYR TYR SEQRES 15 B 201 ILE LYS LEU LYS ASP LEU ARG ASP GLN LEU LYS GLY ILE SEQRES 16 B 201 GLU ARG ASN MET ASP VAL MODRES 3UOB 1FC D 11 DC HET 1FC D 11 23 HETNAM 1FC 4-AMINO-1-(2-DEOXY-2-FLUORO-5-O-PHOSPHONO-BETA-D- HETNAM 2 1FC ARABINOFURANOSYL)-2-OXO-1,2-DIHYDROPYRIMIDINE-5- HETNAM 3 1FC CARBOXYLIC ACID FORMUL 2 1FC C10 H13 F N3 O9 P HELIX 1 1 GLY A 142 GLY A 149 1 8 HELIX 2 2 HIS A 158 GLY A 167 1 10 HELIX 3 3 ASN A 174 LEU A 181 5 8 HELIX 4 4 SER A 204 GLN A 223 1 20 HELIX 5 5 GLY A 231 VAL A 242 1 12 HELIX 6 6 ARG A 281 GLU A 303 1 23 HELIX 7 7 GLY B 142 GLY B 149 1 8 HELIX 8 8 ASN B 157 SER B 166 1 10 HELIX 9 9 ASN B 174 ASP B 178 5 5 HELIX 10 10 THR B 180 TYR B 185 1 6 HELIX 11 11 GLY B 199 LEU B 203 5 5 HELIX 12 12 SER B 204 GLN B 223 1 20 HELIX 13 13 GLY B 231 PHE B 243 1 13 HELIX 14 14 VAL B 286 ARG B 304 1 19 SHEET 1 A 5 ILE A 187 ASN A 191 0 SHEET 2 A 5 ILE A 134 GLY A 138 1 N ILE A 136 O THR A 190 SHEET 3 A 5 ILE A 226 ASN A 230 1 O VAL A 228 N ILE A 137 SHEET 4 A 5 LEU A 265 MET A 269 1 O TYR A 267 N PHE A 229 SHEET 5 A 5 GLY A 253 LYS A 258 -1 N GLN A 255 O CYS A 266 SHEET 1 B 5 GLY B 188 ASN B 191 0 SHEET 2 B 5 ILE B 134 GLY B 138 1 N ILE B 136 O THR B 190 SHEET 3 B 5 ILE B 226 PHE B 229 1 O VAL B 228 N VAL B 135 SHEET 4 B 5 LEU B 265 VAL B 268 1 O LEU B 265 N ALA B 227 SHEET 5 B 5 GLY B 253 LYS B 258 -1 N GLN B 255 O CYS B 266 LINK O3' DA D 10 P 1FC D 11 1555 1555 1.61 CISPEP 1 GLY A 154 PRO A 155 0 -28.51 CISPEP 2 PRO A 155 GLY A 156 0 21.25 CISPEP 3 GLY A 199 SER A 200 0 -8.80 CISPEP 4 GLY B 154 PRO B 155 0 6.27 CRYST1 163.418 163.418 54.701 90.00 90.00 120.00 P 65 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 0.006119 0.003533 0.000000 0.00000 SCALE2 0.000000 0.007066 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018281 0.00000