HEADER DNA BINDING PROTEIN/DNA 26-JAN-04 1S6M TITLE CONJUGATIVE RELAXASE TRWC IN COMPLEX WITH ORIT DNA. METAL-BOUND TITLE 2 STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (25-MER); COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: TRWC; COMPND 7 CHAIN: A; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 5 ORGANISM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN-DNA COMPLEX, BACTERIAL CONJUGATION, RELAXASE, DNA KEYWDS 2 REPLICATION, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.GUASCH,M.LUCAS,G.MONCALIAN,M.CABEZAS,R.PEREZ-LUQUE,F.X.GOMIS-RUTH, AUTHOR 2 F.DE LA CRUZ,M.COLL REVDAT 5 30-OCT-24 1S6M 1 REMARK REVDAT 4 15-NOV-23 1S6M 1 REMARK REVDAT 3 23-AUG-23 1S6M 1 REMARK SEQADV LINK REVDAT 2 30-DEC-08 1S6M 1 JRNL VERSN REVDAT 1 14-JUN-05 1S6M 0 JRNL AUTH R.BOER,S.RUSSI,A.GUASCH,M.LUCAS,A.G.BLANCO,R.PEREZ-LUQUE, JRNL AUTH 2 M.COLL,F.DE LA CRUZ JRNL TITL UNVEILING THE MOLECULAR MECHANISM OF A CONJUGATIVE RELAXASE: JRNL TITL 2 THE STRUCTURE OF TRWC COMPLEXED WITH A 27-MER DNA COMPRISING JRNL TITL 3 THE RECOGNITION HAIRPIN AND THE CLEAVAGE SITE. JRNL REF J.MOL.BIOL. V. 358 857 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16540117 JRNL DOI 10.1016/J.JMB.2006.02.018 REMARK 2 REMARK 2 RESOLUTION. 2.28 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) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 24598 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2429 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2276 REMARK 3 NUCLEIC ACID ATOMS : 512 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 162 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL 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: NULL REMARK 4 REMARK 4 1S6M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-04. REMARK 100 THE DEPOSITION ID IS D_1000021432. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.983994 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24598 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.280 REMARK 200 RESOLUTION RANGE LOW (A) : 45.264 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: 1OMH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEGMM 2000, 0.2 M AMMONIUM REMARK 280 SULPHATE, 0.1 M SODIUM ACETATE, PH 4.6, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 296K 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 69.61833 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 139.23667 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 104.42750 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 174.04583 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 34.80917 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 69.61833 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 139.23667 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 174.04583 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 104.42750 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 34.80917 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 TYR A 27 REMARK 465 ALA A 28 REMARK 465 LYS A 29 REMARK 465 ASP A 30 REMARK 465 GLY A 31 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 DA B 11 O5' C5' C3' REMARK 480 ARG A 14 CG CD CZ NH1 NH2 REMARK 480 GLY A 64 CA C O REMARK 480 GLY A 66 N REMARK 480 LYS A 108 NZ REMARK 480 ARG A 156 NH1 NH2 REMARK 480 TRP A 177 C REMARK 480 LYS A 258 NZ REMARK 480 LYS A 269 CG CD CE NZ REMARK 480 GLU A 275 OE1 OE2 REMARK 480 LYS A 286 CD CE NZ REMARK 480 SER A 293 OXT 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 DT B 14 C6 DT B 14 N1 -0.065 REMARK 500 TYR A 26 CB TYR A 26 CG 0.250 REMARK 500 TYR A 26 CD1 TYR A 26 CE1 0.162 REMARK 500 TYR A 26 CE2 TYR A 26 CD2 0.127 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 B 1 N9 - C1' - C2' ANGL. DEV. = 8.9 DEGREES REMARK 500 DG B 1 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DC B 2 C2' - C3' - O3' ANGL. DEV. = -25.1 DEGREES REMARK 500 DG B 3 O4' - C1' - C2' ANGL. DEV. = 3.5 DEGREES REMARK 500 DG B 3 N9 - C1' - C2' ANGL. DEV. = 12.8 DEGREES REMARK 500 DG B 3 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA B 5 N9 - C1' - C2' ANGL. DEV. = 9.9 DEGREES REMARK 500 DC B 6 C2' - C3' - O3' ANGL. DEV. = -23.2 DEGREES REMARK 500 DC B 6 O4' - C1' - C2' ANGL. DEV. = 4.8 DEGREES REMARK 500 DC B 6 N1 - C1' - C2' ANGL. DEV. = 10.7 DEGREES REMARK 500 DC B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 DA B 9 N9 - C1' - C2' ANGL. DEV. = 9.6 DEGREES REMARK 500 DA B 10 N9 - C1' - C2' ANGL. DEV. = 9.7 DEGREES REMARK 500 DG B 12 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT B 14 C6 - C5 - C7 ANGL. DEV. = 4.6 DEGREES REMARK 500 DC B 16 O4' - C1' - C2' ANGL. DEV. = 3.0 DEGREES REMARK 500 DC B 16 N1 - C1' - C2' ANGL. DEV. = 10.5 DEGREES REMARK 500 DC B 16 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 DT B 18 O4' - C1' - C2' ANGL. DEV. = 3.0 DEGREES REMARK 500 DT B 18 N1 - C1' - C2' ANGL. DEV. = 10.3 DEGREES REMARK 500 DT B 18 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DA B 19 N9 - C1' - C2' ANGL. DEV. = 10.8 DEGREES REMARK 500 DA B 19 C8 - N9 - C1' ANGL. DEV. = 11.7 DEGREES REMARK 500 DA B 19 C4 - N9 - C1' ANGL. DEV. = -12.3 DEGREES REMARK 500 DT B 20 C2' - C3' - O3' ANGL. DEV. = -18.6 DEGREES REMARK 500 DT B 20 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT B 20 C6 - C5 - C7 ANGL. DEV. = 3.7 DEGREES REMARK 500 ASP A 25 N - CA - C ANGL. DEV. = -18.4 DEGREES REMARK 500 TYR A 26 CA - CB - CG ANGL. DEV. = 14.8 DEGREES REMARK 500 TYR A 26 N - CA - C ANGL. DEV. = 25.2 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 MSE A 5 113.14 -164.03 REMARK 500 ASP A 21 -172.73 -68.13 REMARK 500 GLU A 65 -9.07 14.51 REMARK 500 GLN A 159 82.27 -156.51 REMARK 500 LYS A 215 -23.19 174.76 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 DG B 1 0.06 SIDE CHAIN REMARK 500 DC B 2 0.09 SIDE CHAIN REMARK 500 DA B 5 0.06 SIDE CHAIN REMARK 500 DG B 8 0.09 SIDE CHAIN REMARK 500 DA B 9 0.08 SIDE CHAIN REMARK 500 DG B 13 0.08 SIDE CHAIN REMARK 500 DG B 15 0.10 SIDE CHAIN REMARK 500 DG B 17 0.05 SIDE CHAIN REMARK 500 DA B 19 0.07 SIDE CHAIN REMARK 500 DT B 20 0.06 SIDE CHAIN REMARK 500 DT B 21 0.06 SIDE CHAIN REMARK 500 DG B 22 0.09 SIDE CHAIN REMARK 500 DT B 23 0.08 SIDE CHAIN REMARK 500 DC B 24 0.07 SIDE CHAIN 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 NI A 500 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 150 ND1 REMARK 620 2 HIS A 161 NE2 106.2 REMARK 620 3 HIS A 163 NE2 91.5 96.7 REMARK 620 4 HOH A 501 O 165.6 87.8 90.2 REMARK 620 5 HOH A 502 O 85.5 168.3 82.7 80.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OMH RELATED DB: PDB REMARK 900 RELATED ID: 1OSB RELATED DB: PDB REMARK 900 RELATED ID: 1QX0 RELATED DB: PDB DBREF 1S6M A 1 293 UNP Q47673 Q47673_ECOLI 1 293 DBREF 1S6M B 1 25 PDB 1S6M 1S6M 1 25 SEQADV 1S6M MSE A 1 UNP Q47673 MET 1 MODIFIED RESIDUE SEQADV 1S6M MSE A 5 UNP Q47673 MET 5 MODIFIED RESIDUE SEQADV 1S6M MSE A 70 UNP Q47673 MET 70 MODIFIED RESIDUE SEQADV 1S6M MSE A 169 UNP Q47673 MET 169 MODIFIED RESIDUE SEQRES 1 B 25 DG DC DG DC DA DC DC DG DA DA DA DG DG SEQRES 2 B 25 DT DG DC DG DT DA DT DT DG DT DC DT SEQRES 1 A 293 MSE LEU SER HIS MSE VAL LEU THR ARG GLN ASP ILE GLY SEQRES 2 A 293 ARG ALA ALA SER TYR TYR GLU ASP GLY ALA ASP ASP TYR SEQRES 3 A 293 TYR ALA LYS ASP GLY ASP ALA SER GLU TRP GLN GLY LYS SEQRES 4 A 293 GLY ALA GLU GLU LEU GLY LEU SER GLY GLU VAL ASP SER SEQRES 5 A 293 LYS ARG PHE ARG GLU LEU LEU ALA GLY ASN ILE GLY GLU SEQRES 6 A 293 GLY HIS ARG ILE MSE ARG SER ALA THR ARG GLN ASP SER SEQRES 7 A 293 LYS GLU ARG ILE GLY LEU ASP LEU THR PHE SER ALA PRO SEQRES 8 A 293 LYS SER VAL SER LEU GLN ALA LEU VAL ALA GLY ASP ALA SEQRES 9 A 293 GLU ILE ILE LYS ALA HIS ASP ARG ALA VAL ALA ARG THR SEQRES 10 A 293 LEU GLU GLN ALA GLU ALA ARG ALA GLN ALA ARG GLN LYS SEQRES 11 A 293 ILE GLN GLY LYS THR ARG ILE GLU THR THR GLY ASN LEU SEQRES 12 A 293 VAL ILE GLY LYS PHE ARG HIS GLU THR SER ARG GLU ARG SEQRES 13 A 293 ASP PRO GLN LEU HIS THR HIS ALA VAL ILE LEU ASN MSE SEQRES 14 A 293 THR LYS ARG SER ASP GLY GLN TRP ARG ALA LEU LYS ASN SEQRES 15 A 293 ASP GLU ILE VAL LYS ALA THR ARG TYR LEU GLY ALA VAL SEQRES 16 A 293 TYR ASN ALA GLU LEU ALA HIS GLU LEU GLN LYS LEU GLY SEQRES 17 A 293 TYR GLN LEU ARG TYR GLY LYS ASP GLY ASN PHE ASP LEU SEQRES 18 A 293 ALA HIS ILE ASP ARG GLN GLN ILE GLU GLY PHE SER LYS SEQRES 19 A 293 ARG THR GLU GLN ILE ALA GLU TRP TYR ALA ALA ARG GLY SEQRES 20 A 293 LEU ASP PRO ASN SER VAL SER LEU GLU GLN LYS GLN ALA SEQRES 21 A 293 ALA LYS VAL LEU SER ARG ALA LYS LYS THR SER VAL ASP SEQRES 22 A 293 ARG GLU ALA LEU ARG ALA GLU TRP GLN ALA THR ALA LYS SEQRES 23 A 293 GLU LEU GLY ILE ASP PHE SER MODRES 1S6M MSE A 1 MET SELENOMETHIONINE MODRES 1S6M MSE A 5 MET SELENOMETHIONINE MODRES 1S6M MSE A 70 MET SELENOMETHIONINE MODRES 1S6M MSE A 169 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 5 8 HET MSE A 70 8 HET MSE A 169 8 HET NI A 500 1 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION FORMUL 2 MSE 4(C5 H11 N O2 SE) FORMUL 3 NI NI 2+ FORMUL 4 HOH *162(H2 O) HELIX 1 1 ASP A 11 ALA A 16 1 6 HELIX 2 2 GLY A 38 LEU A 44 1 7 HELIX 3 3 ASP A 51 ALA A 60 1 10 HELIX 4 4 PRO A 91 VAL A 100 1 10 HELIX 5 5 ASP A 103 ALA A 123 1 21 HELIX 6 6 ASN A 182 LYS A 187 1 6 HELIX 7 7 ALA A 188 LYS A 206 1 19 HELIX 8 8 ASP A 225 GLY A 231 1 7 HELIX 9 9 SER A 233 ARG A 246 1 14 HELIX 10 10 ASP A 249 VAL A 253 5 5 HELIX 11 11 SER A 254 SER A 265 1 12 HELIX 12 12 ASP A 273 LEU A 288 1 16 SHEET 1 A 5 LEU A 2 THR A 8 0 SHEET 2 A 5 ARG A 81 SER A 89 -1 O GLY A 83 N LEU A 7 SHEET 3 A 5 PRO A 158 LEU A 167 -1 O ILE A 166 N LEU A 84 SHEET 4 A 5 ILE A 145 THR A 152 -1 N HIS A 150 O HIS A 161 SHEET 5 A 5 SER A 34 GLN A 37 -1 N GLU A 35 O LYS A 147 SHEET 1 B 2 GLN A 126 ILE A 131 0 SHEET 2 B 2 LYS A 134 THR A 139 -1 O GLU A 138 N ALA A 127 SHEET 1 C 2 THR A 170 LYS A 171 0 SHEET 2 C 2 TRP A 177 ARG A 178 -1 O ARG A 178 N THR A 170 SHEET 1 D 2 LEU A 211 TYR A 213 0 SHEET 2 D 2 PHE A 219 LEU A 221 -1 O ASP A 220 N ARG A 212 LINK C MSE A 1 N LEU A 2 1555 1555 1.33 LINK C HIS A 4 N MSE A 5 1555 1555 1.32 LINK C MSE A 5 N VAL A 6 1555 1555 1.33 LINK C ILE A 69 N MSE A 70 1555 1555 1.33 LINK C MSE A 70 N ARG A 71 1555 1555 1.33 LINK C ASN A 168 N MSE A 169 1555 1555 1.33 LINK C MSE A 169 N THR A 170 1555 1555 1.33 LINK ND1 HIS A 150 NI NI A 500 1555 1555 2.14 LINK NE2 HIS A 161 NI NI A 500 1555 1555 2.17 LINK NE2 HIS A 163 NI NI A 500 1555 1555 2.26 LINK NI NI A 500 O HOH A 501 1555 1555 2.26 LINK NI NI A 500 O HOH A 502 1555 1555 2.28 SITE 1 AC1 5 HIS A 150 HIS A 161 HIS A 163 HOH A 501 SITE 2 AC1 5 HOH A 502 CRYST1 92.731 92.731 208.855 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 0.010784 0.006226 0.000000 0.00000 SCALE2 0.000000 0.012452 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004788 0.00000