HEADER REPLICATION/DNA 26-FEB-07 2EFW TITLE CRYSTAL STRUCTURE OF THE RTP:NRB COMPLEX FROM BACILLUS SUBTILIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*DCP*DT*DAP*DTP*DGP*DTP*DAP*DCP*DCP*DAP*DAP*DAP*DTP*DGP*DTP*DTP*DCP COMPND 4 *DAP*DGP*DTP*DC)-3'); COMPND 5 CHAIN: D, I; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: THE B SITE SEQUENCE OF TERI; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'- COMPND 10 D(*DGP*DAP*DCP*DTP*DGP*DAP*DAP*DCP*DAP*DTP*DTP*DTP*DGP*DGP*DTP*DAP*DC COMPND 11 P*DAP*DTP*DAP*DG)-3'); COMPND 12 CHAIN: E, J; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: THE B SITE SEQUENCE OF TERI; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: REPLICATION TERMINATION PROTEIN; COMPND 17 CHAIN: A, B, F, G; COMPND 18 SYNONYM: REPLICATION TERMINATOR PROTEIN; COMPND 19 ENGINEERED: YES; COMPND 20 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 7 ORGANISM_TAXID: 1423; SOURCE 8 GENE: RTP; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET-9 KEYWDS PROTEIN-DNA COMPLEX, 'WINGED'-HELIX PROTEIN, DNA REPLICATION KEYWDS 2 TERMINATION, REPLICATION FORK ARREST, REPLICATION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.P.VIVIAN,C.J.PORTER,J.A.WILCE,M.C.J.WILCE REVDAT 5 25-OCT-23 2EFW 1 REMARK REVDAT 4 10-NOV-21 2EFW 1 SEQADV REVDAT 3 13-JUL-11 2EFW 1 VERSN REVDAT 2 24-FEB-09 2EFW 1 VERSN REVDAT 1 26-FEB-08 2EFW 0 JRNL AUTH J.P.VIVIAN,C.J.PORTER,J.A.WILCE,M.C.J.WILCE JRNL TITL AN ASYMMETRIC STRUCTURE OF THE BACILLUS SUBTILIS REPLICATION JRNL TITL 2 TERMINATOR PROTEIN IN COMPLEX WITH DNA JRNL REF J.MOL.BIOL. V. 370 481 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17521668 JRNL DOI 10.1016/J.JMB.2007.02.067 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 32161 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) : 0.293 REMARK 3 R VALUE (WORKING SET) : 0.291 REMARK 3 FREE R VALUE : 0.332 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1729 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2275 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.3550 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.4180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3787 REMARK 3 NUCLEIC ACID ATOMS : 1546 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 52.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.25000 REMARK 3 B22 (A**2) : -3.33000 REMARK 3 B33 (A**2) : 7.58000 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): 0.530 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.349 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.321 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.275 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.881 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.855 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5574 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7786 ; 1.532 ; 2.345 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 448 ; 5.665 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;40.025 ;24.483 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 842 ;21.391 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;19.929 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 873 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3506 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1397 ; 0.245 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2730 ; 0.309 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 113 ; 0.242 ; 0.200 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): 39 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.247 ; 0.200 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): 2329 ; 0.408 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3609 ; 0.712 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4201 ; 1.041 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4177 ; 1.694 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 8 A 122 REMARK 3 RESIDUE RANGE : B 8 B 122 REMARK 3 RESIDUE RANGE : D 3 D 21 REMARK 3 RESIDUE RANGE : E 1 E 19 REMARK 3 ORIGIN FOR THE GROUP (A): 18.7683 24.5397 120.5285 REMARK 3 T TENSOR REMARK 3 T11: -0.0435 T22: -0.0017 REMARK 3 T33: -0.1289 T12: 0.0043 REMARK 3 T13: 0.0335 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 3.3382 L22: 1.5522 REMARK 3 L33: 0.5232 L12: -1.3891 REMARK 3 L13: 0.7711 L23: -0.1581 REMARK 3 S TENSOR REMARK 3 S11: 0.1109 S12: 0.1336 S13: 0.0345 REMARK 3 S21: -0.1176 S22: -0.0939 S23: 0.0900 REMARK 3 S31: 0.0215 S32: -0.0718 S33: -0.0170 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : F 8 F 122 REMARK 3 RESIDUE RANGE : G 8 G 122 REMARK 3 RESIDUE RANGE : I 3 I 21 REMARK 3 RESIDUE RANGE : J 1 J 19 REMARK 3 ORIGIN FOR THE GROUP (A): -22.4091 53.3192 35.7942 REMARK 3 T TENSOR REMARK 3 T11: 0.2296 T22: -0.1022 REMARK 3 T33: -0.3417 T12: 0.0321 REMARK 3 T13: -0.0944 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 0.8728 L22: 3.2238 REMARK 3 L33: 2.2399 L12: -0.2623 REMARK 3 L13: -0.2955 L23: 0.4256 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: 0.0070 S13: -0.0679 REMARK 3 S21: -0.0750 S22: 0.0137 S23: 0.2311 REMARK 3 S31: -0.1615 S32: -0.1844 S33: -0.0025 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: NULL REMARK 4 REMARK 4 2EFW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-MAR-07. REMARK 100 THE DEPOSITION ID IS D_1000026614. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32161 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 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 (%) : 94.3 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.34100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1F4K (WITH RESIDUES 72 TO 88 AND THE DNA REMARK 200 REMOVED) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% PEG 4000, 125MM SODIUM ACETATE, PH REMARK 280 4.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.61050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.61050 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 62.00600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.81300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 62.00600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.81300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.61050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 62.00600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.81300 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 62.61050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 62.00600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 64.81300 REMARK 290 SMTRY3 8 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 APPLY THE FOLLOWING TO CHAINS: D, E, A, B 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 APPLY THE FOLLOWING TO CHAINS: I, J, F, G 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 DC D 1 REMARK 465 DT D 2 REMARK 465 DA E 20 REMARK 465 DG E 21 REMARK 465 DC I 1 REMARK 465 DT I 2 REMARK 465 DA J 20 REMARK 465 DG J 21 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 GLU A 3 REMARK 465 GLU A 4 REMARK 465 LYS A 5 REMARK 465 ARG A 6 REMARK 465 SER A 7 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 GLU B 3 REMARK 465 GLU B 4 REMARK 465 LYS B 5 REMARK 465 ARG B 6 REMARK 465 SER B 7 REMARK 465 MET F 1 REMARK 465 LYS F 2 REMARK 465 GLU F 3 REMARK 465 GLU F 4 REMARK 465 LYS F 5 REMARK 465 ARG F 6 REMARK 465 SER F 7 REMARK 465 MET G 1 REMARK 465 LYS G 2 REMARK 465 GLU G 3 REMARK 465 GLU G 4 REMARK 465 LYS G 5 REMARK 465 ARG G 6 REMARK 465 SER G 7 REMARK 465 LYS G 77 REMARK 465 GLU G 78 REMARK 465 GLY G 79 REMARK 465 ALA G 80 REMARK 465 LYS G 81 REMARK 465 LEU G 82 REMARK 465 GLN G 83 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 DA D 3 P OP1 OP2 REMARK 470 DA I 3 P OP1 OP2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 N2 DG D 19 N3 DC E 3 1.96 REMARK 500 N3 DC D 9 N2 DG E 13 1.97 REMARK 500 REMARK 500 REMARK: NULL 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 DC E 3 O3' DC E 3 C3' -0.048 REMARK 500 DA E 6 O3' DA E 6 C3' -0.041 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 DA D 3 C3' - O3' - P ANGL. DEV. = 11.9 DEGREES REMARK 500 DG D 5 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG D 5 C3' - O3' - P ANGL. DEV. = 9.0 DEGREES REMARK 500 DT D 6 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT D 6 N3 - C2 - O2 ANGL. DEV. = -4.0 DEGREES REMARK 500 DA D 7 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DC D 8 C1' - O4' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DC D 8 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC D 9 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA D 10 N1 - C6 - N6 ANGL. DEV. = 4.3 DEGREES REMARK 500 DA D 11 O4' - C1' - N9 ANGL. DEV. = -4.7 DEGREES REMARK 500 DA D 11 N1 - C6 - N6 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA D 12 C5 - N7 - C8 ANGL. DEV. = -3.3 DEGREES REMARK 500 DT D 13 O4' - C1' - C2' ANGL. DEV. = -7.3 DEGREES REMARK 500 DT D 13 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES REMARK 500 DT D 13 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT D 13 C6 - C5 - C7 ANGL. DEV. = -4.3 DEGREES REMARK 500 DT D 15 C3' - O3' - P ANGL. DEV. = 8.4 DEGREES REMARK 500 DT D 16 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT D 16 C2 - N3 - C4 ANGL. DEV. = -3.7 DEGREES REMARK 500 DT D 16 N3 - C2 - O2 ANGL. DEV. = -4.2 DEGREES REMARK 500 DC D 17 O4' - C1' - N1 ANGL. DEV. = 3.9 DEGREES REMARK 500 DA D 18 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT D 20 N1 - C1' - C2' ANGL. DEV. = 8.5 DEGREES REMARK 500 DT D 20 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT D 20 N3 - C2 - O2 ANGL. DEV. = -3.9 DEGREES REMARK 500 DC D 21 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DG E 1 O4' - C1' - N9 ANGL. DEV. = 9.2 DEGREES REMARK 500 DA E 2 O5' - C5' - C4' ANGL. DEV. = -5.1 DEGREES REMARK 500 DA E 2 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC E 3 O4' - C1' - N1 ANGL. DEV. = 6.1 DEGREES REMARK 500 DA E 6 O4' - C1' - N9 ANGL. DEV. = -5.8 DEGREES REMARK 500 DA E 6 N1 - C6 - N6 ANGL. DEV. = 4.6 DEGREES REMARK 500 DA E 9 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT E 10 O4' - C1' - C2' ANGL. DEV. = -6.3 DEGREES REMARK 500 DT E 10 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT E 10 N3 - C2 - O2 ANGL. DEV. = -5.9 DEGREES REMARK 500 DT E 11 C1' - O4' - C4' ANGL. DEV. = -10.5 DEGREES REMARK 500 DT E 11 O4' - C1' - N1 ANGL. DEV. = 5.8 DEGREES REMARK 500 DT E 11 C2 - N3 - C4 ANGL. DEV. = -4.5 DEGREES REMARK 500 DT E 12 O4' - C4' - C3' ANGL. DEV. = -5.2 DEGREES REMARK 500 DT E 12 C1' - O4' - C4' ANGL. DEV. = -8.7 DEGREES REMARK 500 DT E 12 C4' - C3' - C2' ANGL. DEV. = -7.5 DEGREES REMARK 500 DT E 12 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DT E 12 N3 - C2 - O2 ANGL. DEV. = -5.0 DEGREES REMARK 500 DG E 14 C3' - O3' - P ANGL. DEV. = 8.3 DEGREES REMARK 500 DA E 18 C3' - O3' - P ANGL. DEV. = 9.1 DEGREES REMARK 500 DT E 19 O4' - C1' - N1 ANGL. DEV. = 5.3 DEGREES REMARK 500 DT I 6 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT I 13 C1' - O4' - C4' ANGL. DEV. = -7.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 57 ANGLE DEVIATIONS. 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 LYS A 51 68.45 -115.60 REMARK 500 ALA A 80 11.52 84.81 REMARK 500 LEU A 82 76.58 26.07 REMARK 500 GLN A 83 -122.02 -99.64 REMARK 500 GLU A 84 134.44 172.79 REMARK 500 LYS A 91 -73.74 -92.44 REMARK 500 PHE B 11 -142.85 -78.63 REMARK 500 LYS B 77 109.37 -47.80 REMARK 500 GLU B 78 106.85 -31.18 REMARK 500 THR F 9 8.11 -65.01 REMARK 500 LEU F 12 -175.64 -48.48 REMARK 500 LEU F 21 -61.60 -20.63 REMARK 500 THR F 25 -70.77 -43.30 REMARK 500 GLU F 30 99.82 170.26 REMARK 500 ARG F 31 94.09 -57.86 REMARK 500 LEU F 37 -5.38 -46.01 REMARK 500 GLU F 47 -9.49 -36.18 REMARK 500 ASN F 53 -81.62 -87.90 REMARK 500 HIS F 54 -15.76 159.34 REMARK 500 SER F 60 -76.91 -75.85 REMARK 500 ALA F 80 -7.30 179.61 REMARK 500 LEU F 82 70.14 13.41 REMARK 500 PHE F 90 146.40 -34.42 REMARK 500 TYR F 93 30.31 -82.79 REMARK 500 LYS F 97 -75.40 -63.01 REMARK 500 LEU F 98 -66.87 -24.61 REMARK 500 VAL F 105 -75.04 -34.87 REMARK 500 GLU F 106 -39.13 -36.99 REMARK 500 GLU F 115 -41.25 -24.09 REMARK 500 PHE G 11 -151.34 -96.65 REMARK 500 GLN G 15 -77.43 -32.40 REMARK 500 ARG G 16 -65.11 -26.98 REMARK 500 TYR G 22 -70.53 -43.88 REMARK 500 MET G 23 -41.36 -24.15 REMARK 500 GLU G 30 4.75 59.32 REMARK 500 TYR G 33 -150.34 -173.36 REMARK 500 LEU G 35 69.94 -57.92 REMARK 500 LYS G 36 -10.89 -152.22 REMARK 500 LEU G 37 -86.47 -28.32 REMARK 500 LEU G 38 -81.47 -19.39 REMARK 500 GLU G 39 38.69 -69.67 REMARK 500 VAL G 40 -57.00 -144.00 REMARK 500 ARG G 42 -80.32 -51.30 REMARK 500 SER G 43 -25.79 -27.10 REMARK 500 PHE G 45 -115.14 -108.18 REMARK 500 LYS G 46 -65.57 45.72 REMARK 500 HIS G 62 -18.77 -41.78 REMARK 500 VAL G 75 -155.58 -139.54 REMARK 500 PHE G 90 112.45 -30.13 REMARK 500 ALA G 95 25.89 -70.21 REMARK 500 REMARK 500 THIS ENTRY HAS 57 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BM9 RELATED DB: PDB REMARK 900 THIS IS THE WILD-TYPE APO-RTP STRUCTURE REMARK 900 RELATED ID: 1J0R RELATED DB: PDB REMARK 900 THIS IS THE APO RTP.C110S STRUCTURE REMARK 900 RELATED ID: 1F4K RELATED DB: PDB REMARK 900 THIS IS A SIMILAR RTP/DNA COMPLEX EXCEPT WITH A SYMMETRIC DNA REMARK 900 SEQUENCE DBREF 2EFW A 1 122 UNP P68732 RTP_BACSU 1 122 DBREF 2EFW B 1 122 UNP P68732 RTP_BACSU 1 122 DBREF 2EFW F 1 122 UNP P68732 RTP_BACSU 1 122 DBREF 2EFW G 1 122 UNP P68732 RTP_BACSU 1 122 DBREF 2EFW D 1 21 PDB 2EFW 2EFW 1 21 DBREF 2EFW I 1 21 PDB 2EFW 2EFW 1 21 DBREF 2EFW E 1 21 PDB 2EFW 2EFW 1 21 DBREF 2EFW J 1 21 PDB 2EFW 2EFW 1 21 SEQADV 2EFW SER A 110 UNP P68732 CYS 110 ENGINEERED MUTATION SEQADV 2EFW SER B 110 UNP P68732 CYS 110 ENGINEERED MUTATION SEQADV 2EFW SER F 110 UNP P68732 CYS 110 ENGINEERED MUTATION SEQADV 2EFW SER G 110 UNP P68732 CYS 110 ENGINEERED MUTATION SEQRES 1 D 21 DC DT DA DT DG DT DA DC DC DA DA DA DT SEQRES 2 D 21 DG DT DT DC DA DG DT DC SEQRES 1 E 21 DG DA DC DT DG DA DA DC DA DT DT DT DG SEQRES 2 E 21 DG DT DA DC DA DT DA DG SEQRES 1 I 21 DC DT DA DT DG DT DA DC DC DA DA DA DT SEQRES 2 I 21 DG DT DT DC DA DG DT DC SEQRES 1 J 21 DG DA DC DT DG DA DA DC DA DT DT DT DG SEQRES 2 J 21 DG DT DA DC DA DT DA DG SEQRES 1 A 122 MET LYS GLU GLU LYS ARG SER SER THR GLY PHE LEU VAL SEQRES 2 A 122 LYS GLN ARG ALA PHE LEU LYS LEU TYR MET ILE THR MET SEQRES 3 A 122 THR GLU GLN GLU ARG LEU TYR GLY LEU LYS LEU LEU GLU SEQRES 4 A 122 VAL LEU ARG SER GLU PHE LYS GLU ILE GLY PHE LYS PRO SEQRES 5 A 122 ASN HIS THR GLU VAL TYR ARG SER LEU HIS GLU LEU LEU SEQRES 6 A 122 ASP ASP GLY ILE LEU LYS GLN ILE LYS VAL LYS LYS GLU SEQRES 7 A 122 GLY ALA LYS LEU GLN GLU VAL VAL LEU TYR GLN PHE LYS SEQRES 8 A 122 ASP TYR GLU ALA ALA LYS LEU TYR LYS LYS GLN LEU LYS SEQRES 9 A 122 VAL GLU LEU ASP ARG SER LYS LYS LEU ILE GLU LYS ALA SEQRES 10 A 122 LEU SER ASP ASN PHE SEQRES 1 B 122 MET LYS GLU GLU LYS ARG SER SER THR GLY PHE LEU VAL SEQRES 2 B 122 LYS GLN ARG ALA PHE LEU LYS LEU TYR MET ILE THR MET SEQRES 3 B 122 THR GLU GLN GLU ARG LEU TYR GLY LEU LYS LEU LEU GLU SEQRES 4 B 122 VAL LEU ARG SER GLU PHE LYS GLU ILE GLY PHE LYS PRO SEQRES 5 B 122 ASN HIS THR GLU VAL TYR ARG SER LEU HIS GLU LEU LEU SEQRES 6 B 122 ASP ASP GLY ILE LEU LYS GLN ILE LYS VAL LYS LYS GLU SEQRES 7 B 122 GLY ALA LYS LEU GLN GLU VAL VAL LEU TYR GLN PHE LYS SEQRES 8 B 122 ASP TYR GLU ALA ALA LYS LEU TYR LYS LYS GLN LEU LYS SEQRES 9 B 122 VAL GLU LEU ASP ARG SER LYS LYS LEU ILE GLU LYS ALA SEQRES 10 B 122 LEU SER ASP ASN PHE SEQRES 1 F 122 MET LYS GLU GLU LYS ARG SER SER THR GLY PHE LEU VAL SEQRES 2 F 122 LYS GLN ARG ALA PHE LEU LYS LEU TYR MET ILE THR MET SEQRES 3 F 122 THR GLU GLN GLU ARG LEU TYR GLY LEU LYS LEU LEU GLU SEQRES 4 F 122 VAL LEU ARG SER GLU PHE LYS GLU ILE GLY PHE LYS PRO SEQRES 5 F 122 ASN HIS THR GLU VAL TYR ARG SER LEU HIS GLU LEU LEU SEQRES 6 F 122 ASP ASP GLY ILE LEU LYS GLN ILE LYS VAL LYS LYS GLU SEQRES 7 F 122 GLY ALA LYS LEU GLN GLU VAL VAL LEU TYR GLN PHE LYS SEQRES 8 F 122 ASP TYR GLU ALA ALA LYS LEU TYR LYS LYS GLN LEU LYS SEQRES 9 F 122 VAL GLU LEU ASP ARG SER LYS LYS LEU ILE GLU LYS ALA SEQRES 10 F 122 LEU SER ASP ASN PHE SEQRES 1 G 122 MET LYS GLU GLU LYS ARG SER SER THR GLY PHE LEU VAL SEQRES 2 G 122 LYS GLN ARG ALA PHE LEU LYS LEU TYR MET ILE THR MET SEQRES 3 G 122 THR GLU GLN GLU ARG LEU TYR GLY LEU LYS LEU LEU GLU SEQRES 4 G 122 VAL LEU ARG SER GLU PHE LYS GLU ILE GLY PHE LYS PRO SEQRES 5 G 122 ASN HIS THR GLU VAL TYR ARG SER LEU HIS GLU LEU LEU SEQRES 6 G 122 ASP ASP GLY ILE LEU LYS GLN ILE LYS VAL LYS LYS GLU SEQRES 7 G 122 GLY ALA LYS LEU GLN GLU VAL VAL LEU TYR GLN PHE LYS SEQRES 8 G 122 ASP TYR GLU ALA ALA LYS LEU TYR LYS LYS GLN LEU LYS SEQRES 9 G 122 VAL GLU LEU ASP ARG SER LYS LYS LEU ILE GLU LYS ALA SEQRES 10 G 122 LEU SER ASP ASN PHE FORMUL 9 HOH *24(H2 O) HELIX 1 1 LYS A 14 GLU A 30 1 17 HELIX 2 2 TYR A 33 PHE A 45 1 13 HELIX 3 3 ASN A 53 ASP A 67 1 15 HELIX 4 4 ASP A 92 PHE A 122 1 31 HELIX 5 5 LYS B 14 GLN B 29 1 16 HELIX 6 6 LYS B 36 LYS B 46 1 11 HELIX 7 7 ASN B 53 ASP B 67 1 15 HELIX 8 8 ASP B 92 PHE B 122 1 31 HELIX 9 9 LYS F 14 GLU F 30 1 17 HELIX 10 10 LEU F 35 GLU F 47 1 13 HELIX 11 11 HIS F 54 ASP F 66 1 13 HELIX 12 12 GLU F 94 ASN F 121 1 28 HELIX 13 13 LYS G 14 GLN G 29 1 16 HELIX 14 14 LEU G 37 ARG G 42 1 6 HELIX 15 15 SER G 43 PHE G 45 5 3 HELIX 16 16 ASN G 53 GLY G 68 1 16 HELIX 17 17 TYR G 93 ASN G 121 1 29 SHEET 1 A 2 LEU A 70 VAL A 75 0 SHEET 2 A 2 VAL A 85 PHE A 90 -1 O VAL A 85 N VAL A 75 SHEET 1 B 2 LEU B 70 LYS B 76 0 SHEET 2 B 2 GLU B 84 PHE B 90 -1 O VAL B 85 N VAL B 75 SHEET 1 C 2 LEU F 70 LYS F 76 0 SHEET 2 C 2 GLU F 84 PHE F 90 -1 O VAL F 85 N VAL F 75 SHEET 1 D 2 LEU G 70 LYS G 71 0 SHEET 2 D 2 GLN G 89 PHE G 90 -1 O GLN G 89 N LYS G 71 SHEET 1 E 2 LYS G 74 VAL G 75 0 SHEET 2 E 2 VAL G 85 VAL G 86 -1 O VAL G 85 N VAL G 75 CRYST1 124.012 129.626 125.221 90.00 90.00 90.00 C 2 2 21 32 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 0.008064 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007715 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007986 0.00000