HEADER TRANSFERASE 29-JUN-08 3DLR TITLE CRYSTAL STRUCTURE OF THE CATALYTIC CORE DOMAIN FROM PFV INTEGRASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC CORE DOMAIN; COMPND 5 SYNONYM: INTEGRASE, IN, P42IN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN SPUMARETROVIRUS; SOURCE 3 ORGANISM_COMMON: SFVCPZ(HU); SOURCE 4 ORGANISM_TAXID: 11963; SOURCE 5 STRAIN: HSRV2; SOURCE 6 GENE: POL; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PCPH6P-HSRV2(88-286) KEYWDS RETROVIRAL INTEGRASE, RVE SUPERFAMILY DOMAIN, DNA INTEGRATION, DNA KEYWDS 2 RECOMBINATION, ENDONUCLEASE, HYDROLASE, MAGNESIUM, METAL-BINDING, KEYWDS 3 MULTIFUNCTIONAL ENZYME, NUCLEASE, NUCLEOTIDYLTRANSFERASE, NUCLEUS, KEYWDS 4 TRANSFERASE, VIRION EXPDTA X-RAY DIFFRACTION AUTHOR E.VALKOV,P.CHEREPANOV REVDAT 7 30-OCT-24 3DLR 1 REMARK REVDAT 6 15-NOV-23 3DLR 1 REMARK REVDAT 5 30-AUG-23 3DLR 1 REMARK LINK REVDAT 4 23-OCT-19 3DLR 1 SEQADV REVDAT 3 24-JUL-19 3DLR 1 SOURCE REMARK LINK REVDAT 2 10-FEB-09 3DLR 1 JRNL REVDAT 1 09-DEC-08 3DLR 0 JRNL AUTH E.VALKOV,S.S.GUPTA,S.HARE,A.HELANDER,P.ROVERSI,M.MCCLURE, JRNL AUTH 2 P.CHEREPANOV JRNL TITL FUNCTIONAL AND STRUCTURAL CHARACTERIZATION OF THE INTEGRASE JRNL TITL 2 FROM THE PROTOTYPE FOAMY VIRUS. JRNL REF NUCLEIC ACIDS RES. V. 37 243 2009 JRNL REFN ISSN 0305-1048 JRNL PMID 19036793 JRNL DOI 10.1093/NAR/GKN938 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 9540 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1042 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 2.2570 - 2.2000 0.99 683 75 0.2190 0.2230 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.141 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : 0.82000 REMARK 3 B33 (A**2) : -1.23000 REMARK 3 B12 (A**2) : 0.41000 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : 0.073 201 REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: NULL REMARK 3 ORIGIN FOR THE GROUP (A): -0.0660 19.7150 14.1540 REMARK 3 T TENSOR REMARK 3 T11: -0.0593 T22: -0.1625 REMARK 3 T33: -0.1432 T12: 0.0565 REMARK 3 T13: -0.0181 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 2.0876 L22: 1.7800 REMARK 3 L33: 2.6847 L12: -0.1740 REMARK 3 L13: -0.1366 L23: -0.7742 REMARK 3 S TENSOR REMARK 3 S11: 0.0058 S12: 0.0740 S13: -0.1600 REMARK 3 S21: -0.0405 S22: 0.0673 S23: -0.0445 REMARK 3 S31: 0.2553 S32: 0.0082 S33: -0.0731 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: NULL REMARK 3 ORIGIN FOR THE GROUP (A): -9.2100 22.5060 -3.0520 REMARK 3 T TENSOR REMARK 3 T11: 0.0130 T22: 0.2407 REMARK 3 T33: -0.1504 T12: -0.1786 REMARK 3 T13: -0.0727 T23: 0.0904 REMARK 3 L TENSOR REMARK 3 L11: 29.9409 L22: 33.5029 REMARK 3 L33: 17.7010 L12: 13.1846 REMARK 3 L13: 11.6656 L23: -8.8202 REMARK 3 S TENSOR REMARK 3 S11: -0.4337 S12: 1.7411 S13: 0.8240 REMARK 3 S21: -0.4456 S22: -0.1878 S23: 0.5624 REMARK 3 S31: -0.2635 S32: 1.1541 S33: 0.6216 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3DLR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048196. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-JAN-08; 26-JAN-08 REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; ESRF REMARK 200 BEAMLINE : BM14; BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95373; 0.97837 REMARK 200 MONOCHROMATOR : SI(111) MONOCHROMATOR; SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD; MARMOSAIC REMARK 200 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10584 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 45.180 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 9.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.68100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: PDB ENTRY 1CXU REMARK 200 REMARK 200 REMARK: 1CXU WAS USED AS A SEARCH MODEL FOR MOLECULAR REPLACEMENT. REMARK 200 SOLUTION FOUND IN PHASER (EULER ANGLES 310.7, 84.0, 41.7; REMARK 200 FRACTIONAL COORDINATES -1.272, 0.422, 0.077) WAS USED AS A REMARK 200 STARTING MODEL FOR DENSITY MODIFICATION IN SOLOMON TO IMPROVE REMARK 200 AND EXTEND SE-SAD DERIVED PHASES. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 M AMMONIUM FORMATE, 0.2 M REMARK 280 MAGNESIUM CLORIDE, 5 MM DITHIOTREITOL, 0.1 M 2-(N-MORPHOLINO) REMARK 280 ETHANESULFONIC ACID, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 79.92667 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 159.85333 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 119.89000 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 199.81667 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 39.96333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 79.92667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 159.85333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 199.81667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 119.89000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 39.96333 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 300 REMARK: THE SECOND PART OF THE BIOLOGICALLY-RELEVANT DIMER IS REMARK 300 GENERATED BY THE TWO-FOLD OPERATION: X, 1-X+Y, 1/6-Z 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 0.500000 0.866025 0.000000 -26.07000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 45.15456 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 39.96333 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 GLY A 106 REMARK 465 PRO A 107 REMARK 465 GLY A 108 REMARK 465 SER A 109 REMARK 465 GLY A 110 REMARK 465 PRO A 111 REMARK 465 ILE A 112 REMARK 465 LEU A 113 REMARK 465 ARG A 114 REMARK 465 PRO A 115 REMARK 465 ASP A 116 REMARK 465 ARG A 117 REMARK 465 PRO A 118 REMARK 465 THR A 210 REMARK 465 PRO A 211 REMARK 465 TYR A 212 REMARK 465 HIS A 213 REMARK 465 PRO A 214 REMARK 465 GLN A 215 REMARK 465 SER A 216 REMARK 465 SER A 217 REMARK 465 GLY A 218 REMARK 465 LYS A 219 REMARK 465 ILE A 272 REMARK 465 ASP A 273 REMARK 465 SER A 274 REMARK 465 ASN A 275 REMARK 465 THR A 276 REMARK 465 PRO A 277 REMARK 465 PHE A 278 REMARK 465 ALA A 279 REMARK 465 ASN A 280 REMARK 465 GLN A 281 REMARK 465 ASP A 282 REMARK 465 THR A 283 REMARK 465 LEU A 284 REMARK 465 ASP A 285 REMARK 465 LEU A 286 REMARK 465 THR A 287 REMARK 465 ARG A 288 REMARK 465 GLU A 289 REMARK 465 GLU A 290 REMARK 465 GLU A 291 REMARK 465 LEU A 292 REMARK 465 PRO A 305 REMARK 465 SER A 306 REMARK 465 THR A 307 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 120 CE NZ REMARK 480 GLU A 197 CD OE1 OE2 REMARK 480 GLU A 221 CG CD OE1 OE2 REMARK 480 ARG A 222 CD NE CZ NH1 NH2 REMARK 480 LYS A 233 CD CE NZ REMARK 480 GLU A 297 CD OE1 OE2 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 LYS A 120 CD LYS A 120 CE -0.301 REMARK 500 GLU A 197 CG GLU A 197 CD -0.105 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 ARG A 238 47.25 -163.38 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 49 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 36 O REMARK 620 2 HOH A 39 O 117.1 REMARK 620 3 HOH A 43 O 87.0 100.4 REMARK 620 4 HOH A 44 O 79.8 160.3 89.9 REMARK 620 5 ASP A 128 OD1 162.4 77.7 100.2 84.1 REMARK 620 6 ASP A 185 OD1 87.5 91.0 168.6 79.3 82.5 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 MG A 49 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CXU RELATED DB: PDB REMARK 900 1.42A RESOLUTION ASV INTEGRASE CORE DOMAIN FROM CITRATE DBREF 3DLR A 108 307 UNP P14350 POL_FOAMV 859 1058 SEQADV 3DLR GLY A 106 UNP P14350 EXPRESSION TAG SEQADV 3DLR PRO A 107 UNP P14350 EXPRESSION TAG SEQADV 3DLR GLY A 108 UNP P14350 ALA 859 VARIANT SEQADV 3DLR SER A 217 UNP P14350 GLY 968 VARIANT SEQADV 3DLR GLY A 218 UNP P14350 SER 969 VARIANT SEQRES 1 A 202 GLY PRO GLY SER GLY PRO ILE LEU ARG PRO ASP ARG PRO SEQRES 2 A 202 GLN LYS PRO PHE ASP LYS PHE PHE ILE ASP TYR ILE GLY SEQRES 3 A 202 PRO LEU PRO PRO SER GLN GLY TYR LEU TYR VAL LEU VAL SEQRES 4 A 202 VAL VAL ASP GLY MSE THR GLY PHE THR TRP LEU TYR PRO SEQRES 5 A 202 THR LYS ALA PRO SER THR SER ALA THR VAL LYS SER LEU SEQRES 6 A 202 ASN VAL LEU THR SER ILE ALA ILE PRO LYS VAL ILE HIS SEQRES 7 A 202 SER ASP GLN GLY ALA ALA PHE THR SER SER THR PHE ALA SEQRES 8 A 202 GLU TRP ALA LYS GLU ARG GLY ILE HIS LEU GLU PHE SER SEQRES 9 A 202 THR PRO TYR HIS PRO GLN SER SER GLY LYS VAL GLU ARG SEQRES 10 A 202 LYS ASN SER ASP ILE LYS ARG LEU LEU THR LYS LEU LEU SEQRES 11 A 202 VAL GLY ARG PRO THR LYS TRP TYR ASP LEU LEU PRO VAL SEQRES 12 A 202 VAL GLN LEU ALA LEU ASN ASN THR TYR SER PRO VAL LEU SEQRES 13 A 202 LYS TYR THR PRO HIS GLN LEU LEU PHE GLY ILE ASP SER SEQRES 14 A 202 ASN THR PRO PHE ALA ASN GLN ASP THR LEU ASP LEU THR SEQRES 15 A 202 ARG GLU GLU GLU LEU SER LEU LEU GLN GLU ILE ARG THR SEQRES 16 A 202 SER LEU TYR HIS PRO SER THR MODRES 3DLR MSE A 149 MET SELENOMETHIONINE HET MSE A 149 8 HET MG A 49 1 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION FORMUL 1 MSE C5 H11 N O2 SE FORMUL 2 MG MG 2+ FORMUL 3 HOH *48(H2 O) HELIX 1 1 SER A 162 THR A 174 1 13 HELIX 2 2 GLY A 187 SER A 192 1 6 HELIX 3 3 SER A 192 GLY A 203 1 12 HELIX 4 4 VAL A 220 VAL A 236 1 17 HELIX 5 5 ARG A 238 THR A 240 5 3 HELIX 6 6 LYS A 241 ASN A 255 1 15 HELIX 7 7 THR A 264 PHE A 270 1 7 HELIX 8 8 SER A 293 HIS A 304 1 12 SHEET 1 A 5 THR A 153 THR A 158 0 SHEET 2 A 5 TYR A 141 ASP A 147 -1 N LEU A 143 O TYR A 156 SHEET 3 A 5 LYS A 124 ILE A 130 -1 N ASP A 128 O VAL A 144 SHEET 4 A 5 VAL A 181 ASP A 185 1 O HIS A 183 N PHE A 125 SHEET 5 A 5 HIS A 205 SER A 209 1 O GLU A 207 N ILE A 182 LINK C GLY A 148 N MSE A 149 1555 1555 1.33 LINK C MSE A 149 N THR A 150 1555 1555 1.33 LINK O HOH A 36 MG MG A 49 1555 1555 2.13 LINK O HOH A 39 MG MG A 49 1555 1555 2.07 LINK O HOH A 43 MG MG A 49 1555 1555 1.89 LINK O HOH A 44 MG MG A 49 1555 1555 2.45 LINK MG MG A 49 OD1 ASP A 128 1555 1555 2.27 LINK MG MG A 49 OD1 ASP A 185 1555 1555 2.10 CISPEP 1 GLY A 131 PRO A 132 0 5.74 SITE 1 AC1 6 HOH A 36 HOH A 39 HOH A 43 HOH A 44 SITE 2 AC1 6 ASP A 128 ASP A 185 CRYST1 52.140 52.140 239.780 90.00 90.00 120.00 P 61 2 2 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 0.019179 0.011073 0.000000 0.00000 SCALE2 0.000000 0.022146 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004170 0.00000