HEADER HYDROLASE/DNA 10-MAR-15 4YNQ TITLE TREX1-DSDNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: THREE-PRIME REPAIR EXONUCLEASE 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 5-235; COMPND 5 SYNONYM: 3'-5' EXONUCLEASE TREX1,DNASE III; COMPND 6 EC: 3.1.11.2; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (24-MER); COMPND 11 CHAIN: E, G; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'- COMPND 15 D(P*GP*TP*GP*CP*TP*GP*AP*CP*GP*TP*CP*AP*GP*CP*AP*CP*GP*AP*CP*G)-3'); COMPND 16 CHAIN: F, H; COMPND 17 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: TREX1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTAGAMI 2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 17 ORGANISM_TAXID: 32630 KEYWDS PROTEIN-DNA COMPLEX, EXONUCLEASE, TREX1, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.M.FYE,S.HARVEY,F.W.PERRINO,T.HOLLIS REVDAT 3 27-SEP-23 4YNQ 1 REMARK REVDAT 2 30-MAR-22 4YNQ 1 SOURCE JRNL REMARK LINK REVDAT 1 27-MAY-15 4YNQ 0 JRNL AUTH J.L.GRIEVES,J.M.FYE,S.HARVEY,J.M.GRAYSON,T.HOLLIS, JRNL AUTH 2 F.W.PERRINO JRNL TITL EXONUCLEASE TREX1 DEGRADES DOUBLE-STRANDED DNA TO PREVENT JRNL TITL 2 SPONTANEOUS LUPUS-LIKE INFLAMMATORY DISEASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 112 5117 2015 JRNL REFN ESSN 1091-6490 JRNL PMID 25848017 JRNL DOI 10.1073/PNAS.1423804112 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.3 REMARK 3 NUMBER OF REFLECTIONS : 25822 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) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1246 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6964 REMARK 3 NUCLEIC ACID ATOMS : 1686 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 39 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.91000 REMARK 3 B22 (A**2) : 0.99000 REMARK 3 B33 (A**2) : -1.13000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.67000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.478 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.366 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 20.301 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4YNQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207777. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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 MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 92 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK 9.9.9.1L REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25822 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 19.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.56 REMARK 200 R MERGE FOR SHELL (I) : 0.53300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 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: 2OA8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, VAPOR DIFFUSION, TEMPERATURE REMARK 280 298K 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 42.22850 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 6780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL 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 350 REMARK 350 BIOMOLECULE: 2 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: 6730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, G, H 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 SER A 3 REMARK 465 GLN A 4 REMARK 465 SER A 167 REMARK 465 PRO A 168 REMARK 465 SER A 169 REMARK 465 GLY A 170 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 SER B 3 REMARK 465 GLN B 4 REMARK 465 SER B 169 REMARK 465 GLY B 170 REMARK 465 ASN B 171 REMARK 465 GLY B 172 REMARK 465 SER B 173 REMARK 465 THR B 235 REMARK 465 MET C 1 REMARK 465 GLY C 2 REMARK 465 SER C 3 REMARK 465 GLN C 4 REMARK 465 PRO C 168 REMARK 465 SER C 169 REMARK 465 GLY C 170 REMARK 465 ASN C 171 REMARK 465 MET D 1 REMARK 465 GLY D 2 REMARK 465 SER D 3 REMARK 465 GLN D 4 REMARK 465 SER D 166 REMARK 465 SER D 167 REMARK 465 PRO D 168 REMARK 465 SER D 169 REMARK 465 GLY D 170 REMARK 465 ASN D 171 REMARK 465 GLY D 172 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 ARG B 174 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 174 CG CD NE CZ NH1 NH2 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 109 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG C 224 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 PRO D 54 C - N - CD ANGL. DEV. = 16.1 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 HIS A 8 -5.10 77.70 REMARK 500 TYR A 129 -62.74 -120.18 REMARK 500 GLN B 164 22.42 -79.74 REMARK 500 THR B 192 -70.82 -106.70 REMARK 500 TYR C 129 -70.37 -114.40 REMARK 500 SER C 166 -60.39 -97.54 REMARK 500 ASP C 193 65.03 39.01 REMARK 500 GLN C 209 0.31 -67.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 DT H 101 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 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 18 OD1 REMARK 620 2 HOH A 401 O 54.0 REMARK 620 3 DC E 23 O3' 107.8 61.8 REMARK 620 4 DG E 24 OP1 74.6 65.3 50.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 18 OD1 REMARK 620 2 HOH B 403 O 66.3 REMARK 620 3 HOH B 406 O 70.1 94.4 REMARK 620 4 HOH B 407 O 75.9 140.7 82.3 REMARK 620 5 DC F 23 O3' 34.1 72.4 102.7 70.3 REMARK 620 6 DG F 24 OP1 33.8 72.6 102.4 70.1 0.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN C 18 OD1 REMARK 620 2 HOH C 403 O 84.9 REMARK 620 3 HOH C 405 O 75.8 81.5 REMARK 620 4 DC H 23 O3' 35.6 80.9 110.0 REMARK 620 5 DG H 24 OP1 35.2 81.3 109.8 0.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN D 18 OD1 REMARK 620 2 HOH D 401 O 50.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DT H 101 DBREF 4YNQ A 1 235 UNP Q91XB0 TREX1_MOUSE 1 235 DBREF 4YNQ B 1 235 UNP Q91XB0 TREX1_MOUSE 1 235 DBREF 4YNQ C 1 235 UNP Q91XB0 TREX1_MOUSE 1 235 DBREF 4YNQ D 1 235 UNP Q91XB0 TREX1_MOUSE 1 235 DBREF 4YNQ E 4 24 PDB 4YNQ 4YNQ 4 24 DBREF 4YNQ F 5 24 PDB 4YNQ 4YNQ 5 24 DBREF 4YNQ G 4 24 PDB 4YNQ 4YNQ 4 24 DBREF 4YNQ H 5 24 PDB 4YNQ 4YNQ 5 24 SEQADV 4YNQ ASN A 18 UNP Q91XB0 ASP 18 ENGINEERED MUTATION SEQADV 4YNQ ASN B 18 UNP Q91XB0 ASP 18 ENGINEERED MUTATION SEQADV 4YNQ ASN C 18 UNP Q91XB0 ASP 18 ENGINEERED MUTATION SEQADV 4YNQ ASN D 18 UNP Q91XB0 ASP 18 ENGINEERED MUTATION SEQRES 1 A 235 MET GLY SER GLN THR LEU PRO HIS GLY HIS MET GLN THR SEQRES 2 A 235 LEU ILE PHE LEU ASN LEU GLU ALA THR GLY LEU PRO SER SEQRES 3 A 235 SER ARG PRO GLU VAL THR GLU LEU CYS LEU LEU ALA VAL SEQRES 4 A 235 HIS ARG ARG ALA LEU GLU ASN THR SER ILE SER GLN GLY SEQRES 5 A 235 HIS PRO PRO PRO VAL PRO ARG PRO PRO ARG VAL VAL ASP SEQRES 6 A 235 LYS LEU SER LEU CYS ILE ALA PRO GLY LYS ALA CYS SER SEQRES 7 A 235 PRO GLY ALA SER GLU ILE THR GLY LEU SER LYS ALA GLU SEQRES 8 A 235 LEU GLU VAL GLN GLY ARG GLN ARG PHE ASP ASP ASN LEU SEQRES 9 A 235 ALA ILE LEU LEU ARG ALA PHE LEU GLN ARG GLN PRO GLN SEQRES 10 A 235 PRO CYS CYS LEU VAL ALA HIS ASN GLY ASP ARG TYR ASP SEQRES 11 A 235 PHE PRO LEU LEU GLN THR GLU LEU ALA ARG LEU SER THR SEQRES 12 A 235 PRO SER PRO LEU ASP GLY THR PHE CYS VAL ASP SER ILE SEQRES 13 A 235 ALA ALA LEU LYS ALA LEU GLU GLN ALA SER SER PRO SER SEQRES 14 A 235 GLY ASN GLY SER ARG LYS SER TYR SER LEU GLY SER ILE SEQRES 15 A 235 TYR THR ARG LEU TYR TRP GLN ALA PRO THR ASP SER HIS SEQRES 16 A 235 THR ALA GLU GLY ASP VAL LEU THR LEU LEU SER ILE CYS SEQRES 17 A 235 GLN TRP LYS PRO GLN ALA LEU LEU GLN TRP VAL ASP GLU SEQRES 18 A 235 HIS ALA ARG PRO PHE SER THR VAL LYS PRO MET TYR GLY SEQRES 19 A 235 THR SEQRES 1 B 235 MET GLY SER GLN THR LEU PRO HIS GLY HIS MET GLN THR SEQRES 2 B 235 LEU ILE PHE LEU ASN LEU GLU ALA THR GLY LEU PRO SER SEQRES 3 B 235 SER ARG PRO GLU VAL THR GLU LEU CYS LEU LEU ALA VAL SEQRES 4 B 235 HIS ARG ARG ALA LEU GLU ASN THR SER ILE SER GLN GLY SEQRES 5 B 235 HIS PRO PRO PRO VAL PRO ARG PRO PRO ARG VAL VAL ASP SEQRES 6 B 235 LYS LEU SER LEU CYS ILE ALA PRO GLY LYS ALA CYS SER SEQRES 7 B 235 PRO GLY ALA SER GLU ILE THR GLY LEU SER LYS ALA GLU SEQRES 8 B 235 LEU GLU VAL GLN GLY ARG GLN ARG PHE ASP ASP ASN LEU SEQRES 9 B 235 ALA ILE LEU LEU ARG ALA PHE LEU GLN ARG GLN PRO GLN SEQRES 10 B 235 PRO CYS CYS LEU VAL ALA HIS ASN GLY ASP ARG TYR ASP SEQRES 11 B 235 PHE PRO LEU LEU GLN THR GLU LEU ALA ARG LEU SER THR SEQRES 12 B 235 PRO SER PRO LEU ASP GLY THR PHE CYS VAL ASP SER ILE SEQRES 13 B 235 ALA ALA LEU LYS ALA LEU GLU GLN ALA SER SER PRO SER SEQRES 14 B 235 GLY ASN GLY SER ARG LYS SER TYR SER LEU GLY SER ILE SEQRES 15 B 235 TYR THR ARG LEU TYR TRP GLN ALA PRO THR ASP SER HIS SEQRES 16 B 235 THR ALA GLU GLY ASP VAL LEU THR LEU LEU SER ILE CYS SEQRES 17 B 235 GLN TRP LYS PRO GLN ALA LEU LEU GLN TRP VAL ASP GLU SEQRES 18 B 235 HIS ALA ARG PRO PHE SER THR VAL LYS PRO MET TYR GLY SEQRES 19 B 235 THR SEQRES 1 C 235 MET GLY SER GLN THR LEU PRO HIS GLY HIS MET GLN THR SEQRES 2 C 235 LEU ILE PHE LEU ASN LEU GLU ALA THR GLY LEU PRO SER SEQRES 3 C 235 SER ARG PRO GLU VAL THR GLU LEU CYS LEU LEU ALA VAL SEQRES 4 C 235 HIS ARG ARG ALA LEU GLU ASN THR SER ILE SER GLN GLY SEQRES 5 C 235 HIS PRO PRO PRO VAL PRO ARG PRO PRO ARG VAL VAL ASP SEQRES 6 C 235 LYS LEU SER LEU CYS ILE ALA PRO GLY LYS ALA CYS SER SEQRES 7 C 235 PRO GLY ALA SER GLU ILE THR GLY LEU SER LYS ALA GLU SEQRES 8 C 235 LEU GLU VAL GLN GLY ARG GLN ARG PHE ASP ASP ASN LEU SEQRES 9 C 235 ALA ILE LEU LEU ARG ALA PHE LEU GLN ARG GLN PRO GLN SEQRES 10 C 235 PRO CYS CYS LEU VAL ALA HIS ASN GLY ASP ARG TYR ASP SEQRES 11 C 235 PHE PRO LEU LEU GLN THR GLU LEU ALA ARG LEU SER THR SEQRES 12 C 235 PRO SER PRO LEU ASP GLY THR PHE CYS VAL ASP SER ILE SEQRES 13 C 235 ALA ALA LEU LYS ALA LEU GLU GLN ALA SER SER PRO SER SEQRES 14 C 235 GLY ASN GLY SER ARG LYS SER TYR SER LEU GLY SER ILE SEQRES 15 C 235 TYR THR ARG LEU TYR TRP GLN ALA PRO THR ASP SER HIS SEQRES 16 C 235 THR ALA GLU GLY ASP VAL LEU THR LEU LEU SER ILE CYS SEQRES 17 C 235 GLN TRP LYS PRO GLN ALA LEU LEU GLN TRP VAL ASP GLU SEQRES 18 C 235 HIS ALA ARG PRO PHE SER THR VAL LYS PRO MET TYR GLY SEQRES 19 C 235 THR SEQRES 1 D 235 MET GLY SER GLN THR LEU PRO HIS GLY HIS MET GLN THR SEQRES 2 D 235 LEU ILE PHE LEU ASN LEU GLU ALA THR GLY LEU PRO SER SEQRES 3 D 235 SER ARG PRO GLU VAL THR GLU LEU CYS LEU LEU ALA VAL SEQRES 4 D 235 HIS ARG ARG ALA LEU GLU ASN THR SER ILE SER GLN GLY SEQRES 5 D 235 HIS PRO PRO PRO VAL PRO ARG PRO PRO ARG VAL VAL ASP SEQRES 6 D 235 LYS LEU SER LEU CYS ILE ALA PRO GLY LYS ALA CYS SER SEQRES 7 D 235 PRO GLY ALA SER GLU ILE THR GLY LEU SER LYS ALA GLU SEQRES 8 D 235 LEU GLU VAL GLN GLY ARG GLN ARG PHE ASP ASP ASN LEU SEQRES 9 D 235 ALA ILE LEU LEU ARG ALA PHE LEU GLN ARG GLN PRO GLN SEQRES 10 D 235 PRO CYS CYS LEU VAL ALA HIS ASN GLY ASP ARG TYR ASP SEQRES 11 D 235 PHE PRO LEU LEU GLN THR GLU LEU ALA ARG LEU SER THR SEQRES 12 D 235 PRO SER PRO LEU ASP GLY THR PHE CYS VAL ASP SER ILE SEQRES 13 D 235 ALA ALA LEU LYS ALA LEU GLU GLN ALA SER SER PRO SER SEQRES 14 D 235 GLY ASN GLY SER ARG LYS SER TYR SER LEU GLY SER ILE SEQRES 15 D 235 TYR THR ARG LEU TYR TRP GLN ALA PRO THR ASP SER HIS SEQRES 16 D 235 THR ALA GLU GLY ASP VAL LEU THR LEU LEU SER ILE CYS SEQRES 17 D 235 GLN TRP LYS PRO GLN ALA LEU LEU GLN TRP VAL ASP GLU SEQRES 18 D 235 HIS ALA ARG PRO PHE SER THR VAL LYS PRO MET TYR GLY SEQRES 19 D 235 THR SEQRES 1 E 21 DC DG DT DG DC DT DG DA DC DG DT DC DA SEQRES 2 E 21 DG DC DA DC DG DA DC DG SEQRES 1 F 20 DG DT DG DC DT DG DA DC DG DT DC DA DG SEQRES 2 F 20 DC DA DC DG DA DC DG SEQRES 1 G 21 DC DG DT DG DC DT DG DA DC DG DT DC DA SEQRES 2 G 21 DG DC DA DC DG DA DC DG SEQRES 1 H 20 DG DT DG DC DT DG DA DC DG DT DC DA DG SEQRES 2 H 20 DC DA DC DG DA DC DG HET MG A 301 1 HET MG B 301 1 HET MG C 301 1 HET MG D 301 1 HET DT H 101 17 HETNAM MG MAGNESIUM ION HETNAM DT THYMIDINE-5'-MONOPHOSPHATE FORMUL 9 MG 4(MG 2+) FORMUL 13 DT C10 H15 N2 O8 P FORMUL 14 HOH *39(H2 O) HELIX 1 AA1 LEU A 24 ARG A 28 5 5 HELIX 2 AA2 ARG A 41 ASN A 46 1 6 HELIX 3 AA3 SER A 78 GLY A 86 1 9 HELIX 4 AA4 SER A 88 GLN A 95 1 8 HELIX 5 AA5 ASP A 101 ARG A 114 1 14 HELIX 6 AA6 TYR A 129 ARG A 140 1 12 HELIX 7 AA7 SER A 155 GLU A 163 1 9 HELIX 8 AA8 GLN A 164 SER A 166 5 3 HELIX 9 AA9 SER A 178 TRP A 188 1 11 HELIX 10 AB1 THR A 196 GLN A 209 1 14 HELIX 11 AB2 LYS A 211 ALA A 223 1 13 HELIX 12 AB3 SER A 227 VAL A 229 5 3 HELIX 13 AB4 ARG B 41 ASN B 46 1 6 HELIX 14 AB5 SER B 78 GLY B 86 1 9 HELIX 15 AB6 SER B 88 GLN B 95 1 8 HELIX 16 AB7 ASP B 101 ARG B 114 1 14 HELIX 17 AB8 TYR B 129 ARG B 140 1 12 HELIX 18 AB9 SER B 155 GLU B 163 1 9 HELIX 19 AC1 GLN B 164 SER B 166 5 3 HELIX 20 AC2 SER B 178 TRP B 188 1 11 HELIX 21 AC3 THR B 196 GLN B 209 1 14 HELIX 22 AC4 LYS B 211 ALA B 223 1 13 HELIX 23 AC5 SER B 227 VAL B 229 5 3 HELIX 24 AC6 LEU C 24 ARG C 28 5 5 HELIX 25 AC7 ARG C 41 ASN C 46 1 6 HELIX 26 AC8 SER C 78 GLY C 86 1 9 HELIX 27 AC9 SER C 88 GLN C 95 1 8 HELIX 28 AD1 ASP C 101 ARG C 114 1 14 HELIX 29 AD2 TYR C 129 ARG C 140 1 12 HELIX 30 AD3 SER C 155 GLN C 164 1 10 HELIX 31 AD4 SER C 178 TRP C 188 1 11 HELIX 32 AD5 THR C 196 GLN C 209 1 14 HELIX 33 AD6 LYS C 211 ALA C 223 1 13 HELIX 34 AD7 SER C 227 VAL C 229 5 3 HELIX 35 AD8 LEU D 24 ARG D 28 5 5 HELIX 36 AD9 ARG D 41 ASN D 46 1 6 HELIX 37 AE1 SER D 78 THR D 85 1 8 HELIX 38 AE2 SER D 88 GLN D 95 1 8 HELIX 39 AE3 ASP D 101 ARG D 114 1 14 HELIX 40 AE4 TYR D 129 ARG D 140 1 12 HELIX 41 AE5 SER D 155 GLU D 163 1 9 HELIX 42 AE6 SER D 178 TRP D 188 1 11 HELIX 43 AE7 THR D 196 GLN D 209 1 14 HELIX 44 AE8 LYS D 211 ALA D 223 1 13 HELIX 45 AE9 SER D 227 VAL D 229 5 3 SHEET 1 AA112 ARG A 224 PRO A 225 0 SHEET 2 AA112 PHE A 151 ASP A 154 -1 N CYS A 152 O ARG A 224 SHEET 3 AA112 CYS A 119 ALA A 123 1 N LEU A 121 O PHE A 151 SHEET 4 AA112 THR A 13 ALA A 21 1 N LEU A 17 O VAL A 122 SHEET 5 AA112 VAL A 31 HIS A 40 -1 O VAL A 39 N LEU A 14 SHEET 6 AA112 ASP A 65 CYS A 70 -1 O LEU A 67 N LEU A 36 SHEET 7 AA112 ASP B 65 CYS B 70 -1 O SER B 68 N LYS A 66 SHEET 8 AA112 VAL B 31 HIS B 40 -1 N ALA B 38 O ASP B 65 SHEET 9 AA112 THR B 13 ALA B 21 -1 N LEU B 14 O VAL B 39 SHEET 10 AA112 CYS B 119 ALA B 123 1 O VAL B 122 N LEU B 17 SHEET 11 AA112 PHE B 151 ASP B 154 1 O PHE B 151 N LEU B 121 SHEET 12 AA112 ARG B 224 PRO B 225 -1 O ARG B 224 N CYS B 152 SHEET 1 AA212 ARG C 224 PRO C 225 0 SHEET 2 AA212 PHE C 151 ASP C 154 -1 N CYS C 152 O ARG C 224 SHEET 3 AA212 CYS C 119 ALA C 123 1 N LEU C 121 O PHE C 151 SHEET 4 AA212 THR C 13 ALA C 21 1 N LEU C 17 O VAL C 122 SHEET 5 AA212 VAL C 31 HIS C 40 -1 O LEU C 37 N PHE C 16 SHEET 6 AA212 ASP C 65 CYS C 70 -1 O ASP C 65 N ALA C 38 SHEET 7 AA212 ASP D 65 CYS D 70 -1 O SER D 68 N LYS C 66 SHEET 8 AA212 VAL D 31 HIS D 40 -1 N LEU D 36 O LEU D 67 SHEET 9 AA212 THR D 13 ALA D 21 -1 N LEU D 14 O VAL D 39 SHEET 10 AA212 CYS D 119 ALA D 123 1 O VAL D 122 N LEU D 17 SHEET 11 AA212 PHE D 151 ASP D 154 1 O PHE D 151 N LEU D 121 SHEET 12 AA212 ARG D 224 PRO D 225 -1 O ARG D 224 N CYS D 152 LINK OD1 ASN A 18 MG MG A 301 1555 1555 2.80 LINK MG MG A 301 O HOH A 401 1555 1555 2.55 LINK MG MG A 301 O3' DC E 23 1555 1555 2.96 LINK MG MG A 301 OP1 DG E 24 1555 1555 2.84 LINK OD1 ASN B 18 MG MG B 301 1555 1555 2.60 LINK MG MG B 301 O HOH B 403 1555 1555 2.59 LINK MG MG B 301 O HOH B 406 1555 1555 2.32 LINK MG MG B 301 O HOH B 407 1555 1555 2.31 LINK MG MG B 301 O3' DC F 23 1556 1555 2.70 LINK MG MG B 301 OP1 DG F 24 1556 1555 2.58 LINK OD1 ASN C 18 MG MG C 301 1555 1555 2.21 LINK MG MG C 301 O HOH C 403 1555 1555 1.92 LINK MG MG C 301 O HOH C 405 1555 1555 2.55 LINK MG MG C 301 O3' DC H 23 1554 1555 2.92 LINK MG MG C 301 OP1 DG H 24 1554 1555 2.41 LINK OD1 ASN D 18 MG MG D 301 1555 1555 2.63 LINK MG MG D 301 O HOH D 401 1555 1555 2.76 CISPEP 1 HIS A 53 PRO A 54 0 -9.13 CISPEP 2 GLN A 117 PRO A 118 0 -4.06 CISPEP 3 HIS B 53 PRO B 54 0 -2.09 CISPEP 4 GLN B 117 PRO B 118 0 -0.04 CISPEP 5 HIS C 53 PRO C 54 0 -7.74 CISPEP 6 GLN C 117 PRO C 118 0 -6.45 CISPEP 7 HIS D 53 PRO D 54 0 -0.26 CISPEP 8 GLN D 117 PRO D 118 0 0.58 SITE 1 AC1 4 ASN A 18 HOH A 401 DC E 23 DG E 24 SITE 1 AC2 6 ASN B 18 HOH B 403 HOH B 406 HOH B 407 SITE 2 AC2 6 DC F 23 DG F 24 SITE 1 AC3 5 ASN C 18 HOH C 403 HOH C 405 DC H 23 SITE 2 AC3 5 DG H 24 SITE 1 AC4 5 ASN D 18 HIS D 124 HOH D 401 DC G 23 SITE 2 AC4 5 DG G 24 SITE 1 AC5 5 ARG B 128 DG F 21 DA F 22 DC F 23 SITE 2 AC5 5 DG H 21 CRYST1 83.142 84.457 103.000 90.00 102.15 90.00 P 1 21 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 0.012028 0.000000 0.002590 0.00000 SCALE2 0.000000 0.011840 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009931 0.00000