PDB Short entry for 1OMH HEADER TRANSFERASE/DNA 25-FEB-03 1OMH TITLE CONJUGATIVE RELAXASE TRWC IN COMPLEX WITH ORIT DNA. METAL-FREE TITLE 2 STRUCTURE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA OLIGONUCLEOTIDE; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: DNA FORMING A CRUCIFORM ARM; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TRWC PROTEIN; COMPND 8 CHAIN: A; COMPND 9 FRAGMENT: N-TERMINAL RELAXASE DOMAIN; COMPND 10 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, TRANSFERASE-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 4 11-OCT-17 1OMH 1 REMARK REVDAT 3 24-FEB-09 1OMH 1 VERSN REVDAT 2 09-DEC-03 1OMH 1 JRNL REVDAT 1 25-NOV-03 1OMH 0 JRNL AUTH A.GUASCH,M.LUCAS,G.MONCALIAN,M.CABEZAS,R.PEREZ-LUQUE, JRNL AUTH 2 F.X.GOMIS-RUTH,F.DE LA CRUZ,M.COLL JRNL TITL RECOGNITION AND PROCESSING OF THE ORIGIN OF TRANSFER DNA BY JRNL TITL 2 CONJUGATIVE RELAXASE TRWC. JRNL REF NAT.STRUCT.BIOL. V. 10 1002 2003 JRNL REFN ISSN 1072-8368 JRNL PMID 14625590 JRNL DOI 10.1038/NSB1017 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.GRANDOSO,P.AVILA,A.CAYON,M.A.HERNANDO,M.LLOSA,F.DE LA CRUZ REMARK 1 TITL TWO ACTIVE-SITE TYROSYL RESIDUES OF PROTEIN TRWC ACT REMARK 1 TITL 2 SEQUENTIALLY AT THE ORIGIN OF TRANSFER DURING PLASMID R388 REMARK 1 TITL 3 CONJUGATION REMARK 1 REF J.MOL.BIOL. V. 295 1163 2000 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1999.3425 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.LLOSA,F.X.GOMIS-RUTH,M.COLL,F.DE LA CRUZ REMARK 1 TITL BACTERIAL CONJUGATION: A TWO-STEP MECHANISM FOR DNA REMARK 1 TITL 2 TRANSPORT. REMARK 1 REF MOL.MICROBIOL. V. 45 1 2002 REMARK 1 REFN ISSN 0950-382X REMARK 1 DOI 10.1046/J.1365-2958.2002.03014.X REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 37051 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.247 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1851 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2226 REMARK 3 NUCLEIC ACID ATOMS : 512 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 256 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.69 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.692 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1OMH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-03. REMARK 100 THE DEPOSITION ID IS D_1000018442. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-02; NULL REMARK 200 TEMPERATURE (KELVIN) : 110.0; NULL REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; ESRF REMARK 200 BEAMLINE : ID14-4; ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795, 0.9798, 0.9796; 0.9333 REMARK 200 MONOCHROMATOR : DIAMOND; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64999 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.14600 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) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 50.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 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: MAD; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE, SNB REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 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 67.87667 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 135.75333 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 101.81500 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 169.69167 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 33.93833 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 67.87667 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 135.75333 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 169.69167 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 101.81500 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 33.93833 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 GLU A 20 REMARK 465 ASP A 21 REMARK 465 GLY A 22 REMARK 465 ALA A 23 REMARK 465 ASP A 24 REMARK 465 ASP A 25 REMARK 465 TYR A 26 REMARK 465 TYR A 27 REMARK 465 ALA A 28 REMARK 465 LYS A 29 REMARK 465 ASP A 30 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 GLN A 10 NE2 REMARK 480 GLY A 31 CA C O REMARK 480 ASP A 32 C REMARK 480 GLU A 35 CD OE1 OE2 REMARK 480 GLU A 42 OE2 REMARK 480 GLU A 43 CG REMARK 480 ILE A 63 CG1 CG2 REMARK 480 GLY A 64 C O REMARK 480 GLU A 65 C O CB CD OE1 OE2 REMARK 480 GLY A 66 N REMARK 480 ARG A 68 NE CZ NH1 NH2 REMARK 480 ILE A 69 CG2 REMARK 480 GLN A 76 OE1 NE2 REMARK 480 LYS A 108 CD CE NZ REMARK 480 ARG A 136 CD NE REMARK 480 GLN A 176 CG REMARK 480 TRP A 177 C REMARK 480 LYS A 215 O CB CD CE NZ REMARK 480 ASP A 216 CG OD1 OD2 REMARK 480 GLN A 227 OE1 NE2 REMARK 480 LYS A 258 NZ REMARK 480 LYS A 269 CG CD REMARK 480 THR A 270 O CG2 REMARK 480 SER A 271 OG REMARK 480 SER A 293 OXT REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 455 O HOH A 455 7555 1.24 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 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC B 2 C2' - C3' - O3' ANGL. DEV. = -22.4 DEGREES REMARK 500 DG B 3 N9 - C1' - C2' ANGL. DEV. = 8.6 DEGREES REMARK 500 DC B 6 N1 - C1' - C2' ANGL. DEV. = 9.0 DEGREES REMARK 500 DC B 6 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG B 12 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC B 16 N1 - C1' - C2' ANGL. DEV. = 9.4 DEGREES REMARK 500 DC B 16 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DT B 18 O4' - C1' - C2' ANGL. DEV. = 3.4 DEGREES REMARK 500 DT B 18 N1 - C1' - C2' ANGL. DEV. = 9.9 DEGREES REMARK 500 DT B 18 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 DA B 19 C2' - C3' - O3' ANGL. DEV. = -15.3 DEGREES REMARK 500 DT B 20 C2' - C3' - O3' ANGL. DEV. = -19.4 DEGREES REMARK 500 DT B 20 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT B 21 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT B 23 C2' - C3' - O3' ANGL. DEV. = -18.7 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 ASP A 32 87.84 68.45 REMARK 500 GLU A 65 29.98 -66.53 REMARK 500 GLN A 159 88.80 -158.49 REMARK 500 LYS A 215 67.18 61.54 REMARK 500 ASP A 216 -14.84 -167.47 REMARK 500 THR A 270 -154.22 -114.02 REMARK 500 VAL A 272 151.95 176.22 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 DC B 2 0.06 SIDE CHAIN REMARK 500 DG B 13 0.06 SIDE CHAIN REMARK 500 DG B 15 0.07 SIDE CHAIN REMARK 500 DG B 22 0.05 SIDE CHAIN REMARK 500 DT B 23 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 DBREF 1OMH A 1 293 UNP Q47673 Q47673_ECOLI 1 293 DBREF 1OMH B 1 25 PDB 1OMH 1OMH 1 25 SEQADV 1OMH MSE A 1 UNP Q47673 MET 1 MODIFIED RESIDUE SEQADV 1OMH MSE A 5 UNP Q47673 MET 5 MODIFIED RESIDUE SEQADV 1OMH MSE A 70 UNP Q47673 MET 70 MODIFIED RESIDUE SEQADV 1OMH 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 1OMH MSE A 1 MET SELENOMETHIONINE MODRES 1OMH MSE A 5 MET SELENOMETHIONINE MODRES 1OMH MSE A 70 MET SELENOMETHIONINE MODRES 1OMH 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 SO4 A 301 5 HET SO4 A 302 5 HET SO4 A 303 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 2 MSE 4(C5 H11 N O2 SE) FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 HOH *256(H2 O) HELIX 1 1 ASP A 11 TYR A 18 1 8 HELIX 2 2 GLY A 38 LEU A 44 1 7 HELIX 3 3 ASP A 51 GLY A 61 1 11 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 ALA A 188 1 7 HELIX 7 7 ALA A 188 LEU A 207 1 20 HELIX 8 8 ASP A 225 GLY A 231 1 7 HELIX 9 9 SER A 233 GLY A 247 1 15 HELIX 10 10 SER A 254 SER A 265 1 12 HELIX 11 11 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 ASP A 85 N MSE A 5 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 SITE 1 AC1 6 ARG A 154 HIS A 161 HIS A 163 LYS A 269 SITE 2 AC1 6 HOH A 410 DT B 25 SITE 1 AC2 4 HIS A 150 GLU A 151 THR A 152 HOH A 410 SITE 1 AC3 3 ARG A 14 ARG A 154 ARG A 266 CRYST1 90.830 90.830 203.630 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 0.011010 0.006356 0.000000 0.00000 SCALE2 0.000000 0.012713 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004911 0.00000