HEADER HYDROLASE/DNA 05-SEP-12 4GZ2 TITLE MUS MUSCULUS TDP2 EXCLUDED SSDNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSYL-DNA PHOSPHODIESTERASE 2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 118-369; COMPND 5 SYNONYM: TYR-DNA PHOSPHODIESTERASE 2, 5'-TYROSYL-DNA COMPND 6 PHOSPHODIESTERASE, 5'-TYR-DNA PHOSPHODIESTERASE, TRAF AND TNF COMPND 7 RECEPTOR-ASSOCIATED PROTEIN; COMPND 8 EC: 3.1.4.-; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: DNA (5'-D(*CP*AP*TP*CP*CP*GP*AP*AP*TP*TP*CP*G)-3'); COMPND 12 CHAIN: D, C; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: TDP2, TTRAP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG9; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS PROTEIN-DNA COMPLEX, DNA REPAIR, 5'-DNA END PROCESSING, KEYWDS 2 ENDONUCLEASE/EXONUCLEASE/PHOSPHATASE DOMAIN, EEP DOMAIN, 5'-DNA END KEYWDS 3 RECOGNITION, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.J.SCHELLENBERG,R.S.WILLIAMS REVDAT 6 28-FEB-24 4GZ2 1 REMARK LINK REVDAT 5 22-JUL-20 4GZ2 1 REMARK SEQADV REVDAT 4 02-JAN-13 4GZ2 1 JRNL REVDAT 3 28-NOV-12 4GZ2 1 JRNL REVDAT 2 21-NOV-12 4GZ2 1 JRNL REVDAT 1 31-OCT-12 4GZ2 0 JRNL AUTH M.J.SCHELLENBERG,C.D.APPEL,S.ADHIKARI,P.D.ROBERTSON, JRNL AUTH 2 D.A.RAMSDEN,R.S.WILLIAMS JRNL TITL MECHANISM OF REPAIR OF 5'-TOPOISOMERASE II-DNA ADDUCTS BY JRNL TITL 2 MAMMALIAN TYROSYL-DNA PHOSPHODIESTERASE 2. JRNL REF NAT.STRUCT.MOL.BIOL. V. 19 1363 2012 JRNL REFN ISSN 1545-9993 JRNL PMID 23104055 JRNL DOI 10.1038/NSMB.2418 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.3_928 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 45110 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2364 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 24.4742 - 4.7266 0.98 2722 168 0.2350 0.2669 REMARK 3 2 4.7266 - 3.7561 0.99 2708 140 0.1854 0.2181 REMARK 3 3 3.7561 - 3.2825 0.99 2696 136 0.1946 0.2043 REMARK 3 4 3.2825 - 2.9830 0.99 2648 167 0.1968 0.2516 REMARK 3 5 2.9830 - 2.7695 0.99 2659 138 0.2064 0.2502 REMARK 3 6 2.7695 - 2.6064 0.98 2656 144 0.1987 0.2293 REMARK 3 7 2.6064 - 2.4760 0.98 2623 142 0.2042 0.2295 REMARK 3 8 2.4760 - 2.3683 0.98 2630 140 0.1974 0.2583 REMARK 3 9 2.3683 - 2.2772 0.98 2614 147 0.2022 0.2558 REMARK 3 10 2.2772 - 2.1987 0.98 2650 124 0.1939 0.2610 REMARK 3 11 2.1987 - 2.1300 0.97 2573 142 0.1973 0.2283 REMARK 3 12 2.1300 - 2.0691 0.97 2606 129 0.2039 0.3048 REMARK 3 13 2.0691 - 2.0147 0.97 2623 133 0.1991 0.2397 REMARK 3 14 2.0147 - 1.9655 0.97 2552 125 0.2125 0.2536 REMARK 3 15 1.9655 - 1.9209 0.96 2595 125 0.2219 0.2775 REMARK 3 16 1.9209 - 1.8800 0.95 2531 127 0.2548 0.3004 REMARK 3 17 1.8800 - 1.8424 0.83 2181 137 0.2701 0.3145 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 47.82 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.960 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.29310 REMARK 3 B22 (A**2) : -0.08330 REMARK 3 B33 (A**2) : -0.20980 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.06470 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 4691 REMARK 3 ANGLE : 1.027 6500 REMARK 3 CHIRALITY : 0.061 717 REMARK 3 PLANARITY : 0.004 746 REMARK 3 DIHEDRAL : 16.637 1786 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -6.8130 -11.4818 -13.4380 REMARK 3 T TENSOR REMARK 3 T11: 0.1870 T22: 0.1014 REMARK 3 T33: 0.0840 T12: -0.0085 REMARK 3 T13: -0.0173 T23: -0.0104 REMARK 3 L TENSOR REMARK 3 L11: 1.9121 L22: 1.3846 REMARK 3 L33: 1.4380 L12: -0.3029 REMARK 3 L13: 0.2030 L23: -0.1978 REMARK 3 S TENSOR REMARK 3 S11: -0.0121 S12: 0.1147 S13: -0.0297 REMARK 3 S21: -0.1955 S22: 0.0381 S23: 0.0534 REMARK 3 S31: -0.0061 S32: -0.0475 S33: -0.0180 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -41.4073 10.7628 -47.1203 REMARK 3 T TENSOR REMARK 3 T11: 0.0650 T22: 0.0760 REMARK 3 T33: 0.1138 T12: -0.0024 REMARK 3 T13: 0.0152 T23: 0.0004 REMARK 3 L TENSOR REMARK 3 L11: 1.2429 L22: 1.0397 REMARK 3 L33: 1.1958 L12: -0.0667 REMARK 3 L13: 0.0627 L23: -0.0930 REMARK 3 S TENSOR REMARK 3 S11: 0.0014 S12: -0.0062 S13: -0.0092 REMARK 3 S21: -0.0025 S22: 0.0318 S23: -0.1305 REMARK 3 S31: 0.0193 S32: 0.1378 S33: 0.0179 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): -38.1111 1.5749 -22.8948 REMARK 3 T TENSOR REMARK 3 T11: 0.3000 T22: 0.2546 REMARK 3 T33: 0.2411 T12: 0.0355 REMARK 3 T13: -0.0418 T23: 0.1046 REMARK 3 L TENSOR REMARK 3 L11: 0.9361 L22: 1.6986 REMARK 3 L33: 4.4460 L12: -0.9563 REMARK 3 L13: -0.0311 L23: -1.1540 REMARK 3 S TENSOR REMARK 3 S11: 0.0573 S12: -0.1382 S13: -0.4578 REMARK 3 S21: 0.3024 S22: 0.1672 S23: 0.2188 REMARK 3 S31: 0.0500 S32: -0.3221 S33: -0.2109 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): -31.0475 -2.2321 -15.9866 REMARK 3 T TENSOR REMARK 3 T11: 0.3530 T22: 0.2946 REMARK 3 T33: 0.2586 T12: 0.1185 REMARK 3 T13: -0.0659 T23: 0.0543 REMARK 3 L TENSOR REMARK 3 L11: 2.0010 L22: 1.7458 REMARK 3 L33: 1.1398 L12: -0.5401 REMARK 3 L13: -1.2916 L23: -0.3511 REMARK 3 S TENSOR REMARK 3 S11: 0.0334 S12: -0.3161 S13: -0.0276 REMARK 3 S21: 0.2372 S22: 0.1868 S23: 0.1548 REMARK 3 S31: -0.2012 S32: 0.0937 S33: 0.2043 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 4GZ2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000074812. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45439 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.11900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.40400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 3350, 100MM TRIS, 250MM REMARK 280 MG(CO2)2, PH 8.5 , VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 21.48600 REMARK 290 SMTRY3 2 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, B, C 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 115 REMARK 465 ASN A 116 REMARK 465 GLY A 117 REMARK 465 LEU A 118 REMARK 465 GLU A 119 REMARK 465 ASP A 120 REMARK 465 SER A 121 REMARK 465 SER B 115 REMARK 465 ASN B 116 REMARK 465 GLY B 117 REMARK 465 LEU B 118 REMARK 465 GLU B 119 REMARK 465 ASP B 120 REMARK 465 SER B 121 REMARK 465 GLU B 333 REMARK 465 GLU B 334 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 D 6 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DT D 10 O4' - C1' - N1 ANGL. DEV. = -5.8 DEGREES REMARK 500 DC D 11 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 DC D 11 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DC C 5 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DG C 6 C3' - C2' - C1' ANGL. DEV. = -4.9 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 ALA A 175 53.58 -142.34 REMARK 500 THR A 240 153.95 83.76 REMARK 500 ASN A 274 18.47 54.16 REMARK 500 ASP A 277 131.45 -27.90 REMARK 500 GLN A 278 -10.96 66.59 REMARK 500 ARG A 324 74.09 -112.24 REMARK 500 ALA A 332 -72.32 -111.90 REMARK 500 GLU A 333 -71.09 82.23 REMARK 500 GLU A 334 21.81 -140.50 REMARK 500 ALA B 175 51.70 -140.70 REMARK 500 THR B 240 151.42 81.42 REMARK 500 ASP B 277 131.17 -27.50 REMARK 500 GLN B 278 -38.73 87.98 REMARK 500 ARG B 324 73.02 -105.80 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 132 OD1 REMARK 620 2 GLU A 162 OE1 80.6 REMARK 620 3 GLU A 162 OE2 132.8 55.5 REMARK 620 4 HOH A 556 O 87.3 103.9 87.5 REMARK 620 5 HOH A 557 O 165.8 113.3 61.3 92.2 REMARK 620 6 HOH A 603 O 79.8 159.8 144.6 79.8 86.1 REMARK 620 7 DT D 3 O2 92.3 90.3 103.3 165.5 84.7 85.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 612 O REMARK 620 2 HOH A 613 O 86.4 REMARK 620 3 HOH D 210 O 102.9 169.2 REMARK 620 4 HOH D 219 O 89.3 84.5 100.7 REMARK 620 5 HOH D 220 O 171.1 85.3 85.0 93.2 REMARK 620 6 HOH C 231 O 98.0 95.6 78.0 172.7 79.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D 218 O REMARK 620 2 HOH C 207 O 84.9 REMARK 620 3 HOH C 208 O 167.8 84.6 REMARK 620 4 HOH C 211 O 81.9 90.4 92.0 REMARK 620 5 HOH C 218 O 93.0 176.1 97.8 92.5 REMARK 620 6 HOH C 230 O 94.7 89.5 91.4 176.6 87.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 132 OD1 REMARK 620 2 GLU B 162 OE1 88.3 REMARK 620 3 HOH B 577 O 173.2 98.5 REMARK 620 4 HOH B 587 O 87.4 91.5 92.1 REMARK 620 5 HOH B 628 O 81.3 169.5 91.9 87.1 REMARK 620 6 DT C 3 O2 95.1 89.0 85.3 177.4 92.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GYZ RELATED DB: PDB REMARK 900 RELATED ID: 4GZ0 RELATED DB: PDB REMARK 900 RELATED ID: 4GZ1 RELATED DB: PDB DBREF 4GZ2 A 118 369 UNP Q9JJX7 TYDP2_MOUSE 118 369 DBREF 4GZ2 B 118 369 UNP Q9JJX7 TYDP2_MOUSE 118 369 DBREF 4GZ2 D 1 12 PDB 4GZ2 4GZ2 1 12 DBREF 4GZ2 C 1 12 PDB 4GZ2 4GZ2 1 12 SEQADV 4GZ2 SER A 115 UNP Q9JJX7 EXPRESSION TAG SEQADV 4GZ2 ASN A 116 UNP Q9JJX7 EXPRESSION TAG SEQADV 4GZ2 GLY A 117 UNP Q9JJX7 EXPRESSION TAG SEQADV 4GZ2 SER B 115 UNP Q9JJX7 EXPRESSION TAG SEQADV 4GZ2 ASN B 116 UNP Q9JJX7 EXPRESSION TAG SEQADV 4GZ2 GLY B 117 UNP Q9JJX7 EXPRESSION TAG SEQRES 1 A 255 SER ASN GLY LEU GLU ASP SER SER THR ILE SER PHE ILE SEQRES 2 A 255 THR TRP ASN ILE ASP GLY LEU ASP GLY CYS ASN LEU PRO SEQRES 3 A 255 GLU ARG ALA ARG GLY VAL CYS SER CYS LEU ALA LEU TYR SEQRES 4 A 255 SER PRO ASP VAL VAL PHE LEU GLN GLU VAL ILE PRO PRO SEQRES 5 A 255 TYR CYS ALA TYR LEU LYS LYS ARG ALA ALA SER TYR THR SEQRES 6 A 255 ILE ILE THR GLY ASN GLU GLU GLY TYR PHE THR ALA ILE SEQRES 7 A 255 LEU LEU LYS LYS GLY ARG VAL LYS PHE LYS SER GLN GLU SEQRES 8 A 255 ILE ILE PRO PHE PRO ASN THR LYS MET MET ARG ASN LEU SEQRES 9 A 255 LEU CYS VAL ASN VAL SER LEU GLY GLY ASN GLU PHE CYS SEQRES 10 A 255 LEU MET THR SER HIS LEU GLU SER THR ARG GLU HIS SER SEQRES 11 A 255 ALA GLU ARG ILE ARG GLN LEU LYS THR VAL LEU GLY LYS SEQRES 12 A 255 MET GLN GLU ALA PRO ASP SER THR THR VAL ILE PHE ALA SEQRES 13 A 255 GLY ASP THR ASN LEU ARG ASP GLN GLU VAL ILE LYS CYS SEQRES 14 A 255 GLY GLY LEU PRO ASP ASN VAL PHE ASP ALA TRP GLU PHE SEQRES 15 A 255 LEU GLY LYS PRO LYS HIS CYS GLN TYR THR TRP ASP THR SEQRES 16 A 255 LYS ALA ASN ASN ASN LEU ARG ILE PRO ALA ALA TYR LYS SEQRES 17 A 255 HIS ARG PHE ASP ARG ILE PHE PHE ARG ALA GLU GLU GLY SEQRES 18 A 255 HIS LEU ILE PRO GLN SER LEU ASP LEU VAL GLY LEU GLU SEQRES 19 A 255 LYS LEU ASP CYS GLY ARG PHE PRO SER ASP HIS TRP GLY SEQRES 20 A 255 LEU LEU CYS THR LEU ASN VAL VAL SEQRES 1 D 12 DC DA DT DC DC DG DA DA DT DT DC DG SEQRES 1 B 255 SER ASN GLY LEU GLU ASP SER SER THR ILE SER PHE ILE SEQRES 2 B 255 THR TRP ASN ILE ASP GLY LEU ASP GLY CYS ASN LEU PRO SEQRES 3 B 255 GLU ARG ALA ARG GLY VAL CYS SER CYS LEU ALA LEU TYR SEQRES 4 B 255 SER PRO ASP VAL VAL PHE LEU GLN GLU VAL ILE PRO PRO SEQRES 5 B 255 TYR CYS ALA TYR LEU LYS LYS ARG ALA ALA SER TYR THR SEQRES 6 B 255 ILE ILE THR GLY ASN GLU GLU GLY TYR PHE THR ALA ILE SEQRES 7 B 255 LEU LEU LYS LYS GLY ARG VAL LYS PHE LYS SER GLN GLU SEQRES 8 B 255 ILE ILE PRO PHE PRO ASN THR LYS MET MET ARG ASN LEU SEQRES 9 B 255 LEU CYS VAL ASN VAL SER LEU GLY GLY ASN GLU PHE CYS SEQRES 10 B 255 LEU MET THR SER HIS LEU GLU SER THR ARG GLU HIS SER SEQRES 11 B 255 ALA GLU ARG ILE ARG GLN LEU LYS THR VAL LEU GLY LYS SEQRES 12 B 255 MET GLN GLU ALA PRO ASP SER THR THR VAL ILE PHE ALA SEQRES 13 B 255 GLY ASP THR ASN LEU ARG ASP GLN GLU VAL ILE LYS CYS SEQRES 14 B 255 GLY GLY LEU PRO ASP ASN VAL PHE ASP ALA TRP GLU PHE SEQRES 15 B 255 LEU GLY LYS PRO LYS HIS CYS GLN TYR THR TRP ASP THR SEQRES 16 B 255 LYS ALA ASN ASN ASN LEU ARG ILE PRO ALA ALA TYR LYS SEQRES 17 B 255 HIS ARG PHE ASP ARG ILE PHE PHE ARG ALA GLU GLU GLY SEQRES 18 B 255 HIS LEU ILE PRO GLN SER LEU ASP LEU VAL GLY LEU GLU SEQRES 19 B 255 LYS LEU ASP CYS GLY ARG PHE PRO SER ASP HIS TRP GLY SEQRES 20 B 255 LEU LEU CYS THR LEU ASN VAL VAL SEQRES 1 C 12 DC DA DT DC DC DG DA DA DT DT DC DG HET FMT A 401 3 HET MG A 402 1 HET MG D 101 1 HET FMT B 401 3 HET MG B 402 1 HET MG C 101 1 HETNAM FMT FORMIC ACID HETNAM MG MAGNESIUM ION FORMUL 5 FMT 2(C H2 O2) FORMUL 6 MG 4(MG 2+) FORMUL 11 HOH *434(H2 O) HELIX 1 1 ASN A 138 SER A 154 1 17 HELIX 2 2 ILE A 164 ALA A 175 1 12 HELIX 3 3 THR A 240 GLU A 242 5 3 HELIX 4 4 HIS A 243 GLN A 259 1 17 HELIX 5 5 GLN A 278 CYS A 283 1 6 HELIX 6 6 ALA A 293 LEU A 297 1 5 HELIX 7 7 PRO A 300 GLN A 304 5 5 HELIX 8 8 ASN B 138 SER B 154 1 17 HELIX 9 9 ILE B 164 ALA B 175 1 12 HELIX 10 10 THR B 240 GLU B 242 5 3 HELIX 11 11 HIS B 243 ALA B 261 1 19 HELIX 12 12 GLN B 278 CYS B 283 1 6 HELIX 13 13 ALA B 293 LEU B 297 1 5 HELIX 14 14 PRO B 300 GLN B 304 5 5 SHEET 1 A 6 TYR A 178 ILE A 181 0 SHEET 2 A 6 PHE A 189 LYS A 195 -1 O LEU A 194 N THR A 179 SHEET 3 A 6 VAL A 157 VAL A 163 -1 N VAL A 158 O LEU A 193 SHEET 4 A 6 THR A 123 ASN A 130 1 N ILE A 127 O PHE A 159 SHEET 5 A 6 GLY A 361 VAL A 368 -1 O LEU A 366 N ILE A 124 SHEET 6 A 6 LEU A 337 VAL A 345 -1 N GLN A 340 O THR A 365 SHEET 1 B 6 VAL A 199 PRO A 208 0 SHEET 2 B 6 ASN A 217 LEU A 225 -1 O ASN A 222 N SER A 203 SHEET 3 B 6 ASN A 228 THR A 234 -1 O ASN A 228 N LEU A 225 SHEET 4 B 6 THR A 266 ASP A 272 1 O THR A 266 N CYS A 231 SHEET 5 B 6 ASP A 326 ARG A 331 -1 O PHE A 329 N PHE A 269 SHEET 6 B 6 VAL A 290 ASP A 292 -1 N PHE A 291 O PHE A 330 SHEET 1 C 2 TRP A 307 ASP A 308 0 SHEET 2 C 2 LYS A 322 HIS A 323 -1 O HIS A 323 N TRP A 307 SHEET 1 D 6 TYR B 178 THR B 182 0 SHEET 2 D 6 PHE B 189 LYS B 195 -1 O ILE B 192 N ILE B 181 SHEET 3 D 6 VAL B 157 VAL B 163 -1 N VAL B 158 O LEU B 193 SHEET 4 D 6 THR B 123 ASN B 130 1 N ILE B 127 O PHE B 159 SHEET 5 D 6 GLY B 361 VAL B 368 -1 O CYS B 364 N PHE B 126 SHEET 6 D 6 LEU B 337 VAL B 345 -1 N GLN B 340 O THR B 365 SHEET 1 E 6 LYS B 200 PRO B 208 0 SHEET 2 E 6 ASN B 217 LEU B 225 -1 O ASN B 222 N SER B 203 SHEET 3 E 6 ASN B 228 SER B 235 -1 O LEU B 232 N VAL B 221 SHEET 4 E 6 THR B 266 ASP B 272 1 O ILE B 268 N MET B 233 SHEET 5 E 6 ASP B 326 ARG B 331 -1 O PHE B 329 N PHE B 269 SHEET 6 E 6 VAL B 290 ASP B 292 -1 N PHE B 291 O PHE B 330 SHEET 1 F 2 TRP B 307 ASP B 308 0 SHEET 2 F 2 LYS B 322 HIS B 323 -1 O HIS B 323 N TRP B 307 LINK OD1 ASP A 132 MG MG A 402 1555 1555 2.24 LINK OE1 GLU A 162 MG MG A 402 1555 1555 2.11 LINK OE2 GLU A 162 MG MG A 402 1555 1555 2.51 LINK MG MG A 402 O HOH A 556 1555 1555 2.05 LINK MG MG A 402 O HOH A 557 1555 1555 2.05 LINK MG MG A 402 O HOH A 603 1555 1555 2.09 LINK MG MG A 402 O2 DT D 3 1555 1555 2.15 LINK O HOH A 612 MG MG D 101 1555 1555 2.06 LINK O HOH A 613 MG MG D 101 1555 1555 2.08 LINK MG MG D 101 O HOH D 210 1555 1555 2.09 LINK MG MG D 101 O HOH D 219 1555 1555 2.10 LINK MG MG D 101 O HOH D 220 1555 1555 2.03 LINK MG MG D 101 O HOH C 231 1555 1555 2.10 LINK O HOH D 218 MG MG C 101 1555 1555 2.09 LINK OD1 ASP B 132 MG MG B 402 1555 1555 2.09 LINK OE1 GLU B 162 MG MG B 402 1555 1555 2.03 LINK MG MG B 402 O HOH B 577 1555 1555 2.13 LINK MG MG B 402 O HOH B 587 1555 1555 2.02 LINK MG MG B 402 O HOH B 628 1555 1555 2.07 LINK MG MG B 402 O2 DT C 3 1555 1555 2.01 LINK MG MG C 101 O HOH C 207 1555 1555 2.09 LINK MG MG C 101 O HOH C 208 1555 1555 2.10 LINK MG MG C 101 O HOH C 211 1555 1555 2.08 LINK MG MG C 101 O HOH C 218 1555 1555 2.04 LINK MG MG C 101 O HOH C 230 1555 1555 2.07 SITE 1 AC1 2 GLN A 304 ARG A 324 SITE 1 AC2 6 ASP A 132 GLU A 162 HOH A 556 HOH A 557 SITE 2 AC2 6 HOH A 603 DT D 3 SITE 1 AC3 6 HOH A 612 HOH A 613 HOH C 231 HOH D 210 SITE 2 AC3 6 HOH D 219 HOH D 220 SITE 1 AC4 3 ASP B 156 ARG B 198 HOH B 651 SITE 1 AC5 6 ASP B 132 GLU B 162 HOH B 577 HOH B 587 SITE 2 AC5 6 HOH B 628 DT C 3 SITE 1 AC6 6 HOH C 207 HOH C 208 HOH C 211 HOH C 218 SITE 2 AC6 6 HOH C 230 HOH D 218 CRYST1 60.483 42.972 107.951 90.00 95.89 90.00 P 1 21 1 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 0.016534 0.000000 0.001707 0.00000 SCALE2 0.000000 0.023271 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009313 0.00000