PDB Short entry for 3QOQ HEADER TRANSCRIPTION/DNA 10-FEB-11 3QOQ TITLE CRYSTAL STRUCTURE OF THE TRANSCRIPTION FACTOR AMRZ IN COMPLEX WITH THE TITLE 2 18 BASE PAIR AMRZ1 BINDING SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALGINATE AND MOTILITY REGULATOR Z; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 1-66; COMPND 5 SYNONYM: DNA BINDING-PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'- COMPND 9 D(*AP*CP*TP*GP*GP*CP*AP*AP*AP*AP*CP*GP*CP*CP*GP*GP*CP*A)-3'); COMPND 10 CHAIN: E; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'- COMPND 14 D(*TP*GP*CP*CP*GP*GP*CP*GP*TP*TP*TP*TP*GP*CP*CP*AP*GP*T)-3'); COMPND 15 CHAIN: F; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 STRAIN: PA01; SOURCE 5 GENE: ALGZ, AMRZ, PA3385; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET19; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS PROTEIN-DNA COMPLEX, RIBBON-HELIX-HELIX, TRANSCRIPTION FACTOR, DNA KEYWDS 2 BINDING, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.E.PRYOR JR.,D.J.WOZNIAK,T.HOLLIS REVDAT 4 08-NOV-17 3QOQ 1 REMARK REVDAT 3 17-OCT-12 3QOQ 1 AUTHOR REVDAT 2 02-MAY-12 3QOQ 1 JRNL REVDAT 1 15-FEB-12 3QOQ 0 JRNL AUTH E.E.PRYOR JR.,E.A.WALIGORA,B.XU,S.DELLOS-NOLAN,D.J.WOZNIAK, JRNL AUTH 2 T.HOLLIS JRNL TITL THE TRANSCRIPTION FACTOR AMRZ UTILIZES MULTIPLE DNA BINDING JRNL TITL 2 MODES TO RECOGNIZE ACTIVATOR AND REPRESSOR SEQUENCES OF JRNL TITL 3 PSEUDOMONAS AERUGINOSA VIRULENCE GENES. JRNL REF PLOS PATHOG. V. 8 02648 2012 JRNL REFN ISSN 1553-7366 JRNL PMID 22511872 JRNL DOI 10.1371/JOURNAL.PPAT.1002648 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.5.0063 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 11827 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) : 0.263 REMARK 3 R VALUE (WORKING SET) : 0.261 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 593 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 759 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3170 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.4460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1522 REMARK 3 NUCLEIC ACID ATOMS : 732 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 7 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 82.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.10000 REMARK 3 B22 (A**2) : -1.10000 REMARK 3 B33 (A**2) : 2.20000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 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): 0.418 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.325 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.656 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.907 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.887 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2356 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3316 ; 1.180 ; 2.352 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 187 ; 4.293 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 83 ;38.953 ;23.012 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 298 ;21.314 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;14.403 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 370 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1532 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 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 3QOQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000063911. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : SILICON(111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11900 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.54300 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: SAD REMARK 200 SOFTWARE USED: SOLVE, RESOLVE 2.14 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3% PEG8K, 0.1M MES, 0.15M NACL, 2MM REMARK 280 TCEP, PH 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 64.73250 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 76.27700 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 64.73250 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 76.27700 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 64.73250 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 76.27700 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 64.73250 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 76.27700 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 64.73250 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 76.27700 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 64.73250 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 76.27700 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 64.73250 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 76.27700 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 64.73250 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 64.73250 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 76.27700 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -77.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, 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 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 -2 REMARK 465 PRO A -1 REMARK 465 HIS A 0 REMARK 465 MSE A 1 REMARK 465 ARG A 2 REMARK 465 PRO A 3 REMARK 465 LEU A 4 REMARK 465 LYS A 5 REMARK 465 GLN A 6 REMARK 465 ALA A 7 REMARK 465 THR A 8 REMARK 465 PRO A 9 REMARK 465 LEU A 60 REMARK 465 GLN A 61 REMARK 465 ASP A 62 REMARK 465 ASN A 63 REMARK 465 LEU A 64 REMARK 465 GLY A 65 REMARK 465 VAL A 66 REMARK 465 GLY B -2 REMARK 465 PRO B -1 REMARK 465 HIS B 0 REMARK 465 MSE B 1 REMARK 465 ARG B 2 REMARK 465 PRO B 3 REMARK 465 LEU B 4 REMARK 465 LYS B 5 REMARK 465 GLN B 6 REMARK 465 ALA B 7 REMARK 465 THR B 8 REMARK 465 PRO B 9 REMARK 465 THR B 10 REMARK 465 TYR B 11 REMARK 465 SER B 12 REMARK 465 SER B 13 REMARK 465 ARG B 14 REMARK 465 THR B 15 REMARK 465 LEU B 60 REMARK 465 GLN B 61 REMARK 465 ASP B 62 REMARK 465 ASN B 63 REMARK 465 LEU B 64 REMARK 465 GLY B 65 REMARK 465 VAL B 66 REMARK 465 GLY C -2 REMARK 465 PRO C -1 REMARK 465 HIS C 0 REMARK 465 MSE C 1 REMARK 465 ARG C 2 REMARK 465 PRO C 3 REMARK 465 LEU C 4 REMARK 465 LYS C 5 REMARK 465 GLN C 6 REMARK 465 ALA C 7 REMARK 465 THR C 8 REMARK 465 PRO C 9 REMARK 465 ALA C 59 REMARK 465 LEU C 60 REMARK 465 GLN C 61 REMARK 465 ASP C 62 REMARK 465 ASN C 63 REMARK 465 LEU C 64 REMARK 465 GLY C 65 REMARK 465 VAL C 66 REMARK 465 GLY D -2 REMARK 465 PRO D -1 REMARK 465 HIS D 0 REMARK 465 MSE D 1 REMARK 465 ARG D 2 REMARK 465 PRO D 3 REMARK 465 LEU D 4 REMARK 465 LYS D 5 REMARK 465 GLN D 6 REMARK 465 ALA D 7 REMARK 465 THR D 8 REMARK 465 PRO D 9 REMARK 465 THR D 10 REMARK 465 TYR D 11 REMARK 465 SER D 12 REMARK 465 SER D 13 REMARK 465 ARG D 14 REMARK 465 THR D 15 REMARK 465 LEU D 64 REMARK 465 GLY D 65 REMARK 465 VAL D 66 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 DA E 1 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DA E 1 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC E 2 O4' - C4' - C3' ANGL. DEV. = -3.5 DEGREES REMARK 500 DC E 2 C1' - O4' - C4' ANGL. DEV. = -8.3 DEGREES REMARK 500 DC E 2 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DT E 3 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DT E 3 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG E 5 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DA E 8 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC E 14 C1' - O4' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 DG E 15 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG E 16 O4' - C4' - C3' ANGL. DEV. = -6.2 DEGREES REMARK 500 DG E 16 C1' - O4' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DG E 16 O4' - C1' - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA E 18 O4' - C4' - C3' ANGL. DEV. = -3.2 DEGREES REMARK 500 DG F 20 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DG F 20 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC F 22 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG F 24 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT F 27 O4' - C4' - C3' ANGL. DEV. = -5.1 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 GLU D 25 -71.99 -33.41 REMARK 500 LEU D 60 30.57 -97.64 REMARK 500 REMARK 500 REMARK: NULL DBREF 3QOQ A 1 66 UNP Q9RPY7 Q9RPY7_PSEAE 1 66 DBREF 3QOQ B 1 66 UNP Q9RPY7 Q9RPY7_PSEAE 1 66 DBREF 3QOQ C 1 66 UNP Q9RPY7 Q9RPY7_PSEAE 1 66 DBREF 3QOQ D 1 66 UNP Q9RPY7 Q9RPY7_PSEAE 1 66 DBREF 3QOQ E 1 18 PDB 3QOQ 3QOQ 1 18 DBREF 3QOQ F 19 36 PDB 3QOQ 3QOQ 19 36 SEQADV 3QOQ GLY A -2 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ PRO A -1 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ HIS A 0 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ GLY B -2 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ PRO B -1 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ HIS B 0 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ GLY C -2 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ PRO C -1 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ HIS C 0 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ GLY D -2 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ PRO D -1 UNP Q9RPY7 EXPRESSION TAG SEQADV 3QOQ HIS D 0 UNP Q9RPY7 EXPRESSION TAG SEQRES 1 A 69 GLY PRO HIS MSE ARG PRO LEU LYS GLN ALA THR PRO THR SEQRES 2 A 69 TYR SER SER ARG THR ALA ASP LYS PHE VAL VAL ARG LEU SEQRES 3 A 69 PRO GLU GLY MSE ARG GLU GLN ILE ALA GLU VAL ALA ARG SEQRES 4 A 69 SER HIS HIS ARG SER MSE ASN SER GLU ILE ILE ALA ARG SEQRES 5 A 69 LEU GLU GLN SER LEU LEU GLN GLU GLY ALA LEU GLN ASP SEQRES 6 A 69 ASN LEU GLY VAL SEQRES 1 B 69 GLY PRO HIS MSE ARG PRO LEU LYS GLN ALA THR PRO THR SEQRES 2 B 69 TYR SER SER ARG THR ALA ASP LYS PHE VAL VAL ARG LEU SEQRES 3 B 69 PRO GLU GLY MSE ARG GLU GLN ILE ALA GLU VAL ALA ARG SEQRES 4 B 69 SER HIS HIS ARG SER MSE ASN SER GLU ILE ILE ALA ARG SEQRES 5 B 69 LEU GLU GLN SER LEU LEU GLN GLU GLY ALA LEU GLN ASP SEQRES 6 B 69 ASN LEU GLY VAL SEQRES 1 C 69 GLY PRO HIS MSE ARG PRO LEU LYS GLN ALA THR PRO THR SEQRES 2 C 69 TYR SER SER ARG THR ALA ASP LYS PHE VAL VAL ARG LEU SEQRES 3 C 69 PRO GLU GLY MSE ARG GLU GLN ILE ALA GLU VAL ALA ARG SEQRES 4 C 69 SER HIS HIS ARG SER MSE ASN SER GLU ILE ILE ALA ARG SEQRES 5 C 69 LEU GLU GLN SER LEU LEU GLN GLU GLY ALA LEU GLN ASP SEQRES 6 C 69 ASN LEU GLY VAL SEQRES 1 D 69 GLY PRO HIS MSE ARG PRO LEU LYS GLN ALA THR PRO THR SEQRES 2 D 69 TYR SER SER ARG THR ALA ASP LYS PHE VAL VAL ARG LEU SEQRES 3 D 69 PRO GLU GLY MSE ARG GLU GLN ILE ALA GLU VAL ALA ARG SEQRES 4 D 69 SER HIS HIS ARG SER MSE ASN SER GLU ILE ILE ALA ARG SEQRES 5 D 69 LEU GLU GLN SER LEU LEU GLN GLU GLY ALA LEU GLN ASP SEQRES 6 D 69 ASN LEU GLY VAL SEQRES 1 E 18 DA DC DT DG DG DC DA DA DA DA DC DG DC SEQRES 2 E 18 DC DG DG DC DA SEQRES 1 F 18 DT DG DC DC DG DG DC DG DT DT DT DT DG SEQRES 2 F 18 DC DC DA DG DT MODRES 3QOQ MSE A 27 MET SELENOMETHIONINE MODRES 3QOQ MSE A 42 MET SELENOMETHIONINE MODRES 3QOQ MSE B 27 MET SELENOMETHIONINE MODRES 3QOQ MSE B 42 MET SELENOMETHIONINE MODRES 3QOQ MSE C 27 MET SELENOMETHIONINE MODRES 3QOQ MSE C 42 MET SELENOMETHIONINE MODRES 3QOQ MSE D 27 MET SELENOMETHIONINE MODRES 3QOQ MSE D 42 MET SELENOMETHIONINE HET MSE A 27 8 HET MSE A 42 8 HET MSE B 27 8 HET MSE B 42 8 HET MSE C 27 8 HET MSE C 42 8 HET MSE D 27 8 HET MSE D 42 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 7 HOH *7(H2 O) HELIX 1 1 GLY A 26 HIS A 38 1 13 HELIX 2 2 SER A 41 GLY A 58 1 18 HELIX 3 3 GLY B 26 HIS B 38 1 13 HELIX 4 4 SER B 41 GLU B 57 1 17 HELIX 5 5 GLY C 26 HIS C 38 1 13 HELIX 6 6 SER C 41 GLU C 57 1 17 HELIX 7 7 GLY D 26 HIS D 38 1 13 HELIX 8 8 SER D 41 GLY D 58 1 18 SHEET 1 A 2 ASP A 17 ARG A 22 0 SHEET 2 A 2 LYS B 18 LEU B 23 -1 O PHE B 19 N VAL A 21 SHEET 1 B 2 ASP C 17 LEU C 23 0 SHEET 2 B 2 ASP D 17 LEU D 23 -1 O VAL D 21 N PHE C 19 LINK C GLY A 26 N MSE A 27 1555 1555 1.33 LINK C MSE A 27 N ARG A 28 1555 1555 1.33 LINK C SER A 41 N MSE A 42 1555 1555 1.33 LINK C MSE A 42 N ASN A 43 1555 1555 1.33 LINK C GLY B 26 N MSE B 27 1555 1555 1.33 LINK C MSE B 27 N ARG B 28 1555 1555 1.33 LINK C SER B 41 N MSE B 42 1555 1555 1.33 LINK C MSE B 42 N ASN B 43 1555 1555 1.33 LINK C GLY C 26 N MSE C 27 1555 1555 1.33 LINK C MSE C 27 N ARG C 28 1555 1555 1.33 LINK C SER C 41 N MSE C 42 1555 1555 1.33 LINK C MSE C 42 N ASN C 43 1555 1555 1.33 LINK C GLY D 26 N MSE D 27 1555 1555 1.33 LINK C MSE D 27 N ARG D 28 1555 1555 1.33 LINK C SER D 41 N MSE D 42 1555 1555 1.33 LINK C MSE D 42 N ASN D 43 1555 1555 1.33 CRYST1 129.465 129.465 152.554 90.00 90.00 90.00 I 4 2 2 64 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 0.007724 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007724 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006555 0.00000