HEADER TRANSLATION 26-MAY-06 2H5E TITLE CRYSTAL STRUCTURE OF E.COLI POLYPEPTIDE RELEASE FACTOR RF3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE CHAIN RELEASE FACTOR RF-3; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: DH5A; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS BETA BARREL, TRANSLATION EXPDTA X-RAY DIFFRACTION AUTHOR H.W.SONG,Z.H.ZHOU REVDAT 4 13-MAR-24 2H5E 1 REMARK REVDAT 3 24-NOV-10 2H5E 1 JRNL REVDAT 2 24-FEB-09 2H5E 1 VERSN REVDAT 1 15-MAY-07 2H5E 0 JRNL AUTH H.GAO,Z.ZHOU,U.RAWAT,C.HUANG,L.BOUAKAZ,C.WANG,Z.CHENG,Y.LIU, JRNL AUTH 2 A.ZAVIALOV,R.GURSKY,S.SANYAL,M.EHRENBERG,J.FRANK,H.SONG JRNL TITL RF3 INDUCES RIBOSOMAL CONFORMATIONAL CHANGES RESPONSIBLE FOR JRNL TITL 2 DISSOCIATION OF CLASS I RELEASE FACTORS JRNL REF CELL(CAMBRIDGE,MASS.) V. 129 929 2007 JRNL REFN ISSN 0092-8674 JRNL PMID 17540173 JRNL DOI 10.1016/J.CELL.2007.03.050 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 29229 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 + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 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 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7663 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 91 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 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; 0.010 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; 1.252 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2H5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000037950. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAY-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9788, 0.9795, 0.9763 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29229 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.06800 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) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 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: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 7%-12% (W/V) PEG 3350, 0.02M DI REMARK 280 -AMMONIUM HYDROGEN CITRATE, 10% (V/V) ETHYLENE GLYCOL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 36.58700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.83850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 119.89050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.83850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.58700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 119.89050 REMARK 290 SMTRY3 4 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HEXAMER GENERATED FROM THE REMARK 300 DIMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -Y, X-Y-1, Z-1 AND - REMARK 300 X+Y, -X-1, Z-L. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 MET A 1 REMARK 465 THR A 2 REMARK 465 ALA A 39 REMARK 465 ILE A 40 REMARK 465 GLN A 41 REMARK 465 THR A 42 REMARK 465 ALA A 43 REMARK 465 GLY A 44 REMARK 465 THR A 45 REMARK 465 VAL A 46 REMARK 465 LYS A 47 REMARK 465 GLY A 48 REMARK 465 ARG A 49 REMARK 465 GLY A 50 REMARK 465 SER A 51 REMARK 465 ASN A 52 REMARK 465 GLN A 53 REMARK 465 HIS A 54 REMARK 465 ALA A 55 REMARK 465 LYS A 56 REMARK 465 SER A 57 REMARK 465 ASP A 58 REMARK 465 TRP A 59 REMARK 465 MET A 60 REMARK 465 GLU A 61 REMARK 465 MET A 62 REMARK 465 GLU A 63 REMARK 465 LYS A 64 REMARK 465 GLN A 65 REMARK 465 ARG A 66 REMARK 465 GLY A 67 REMARK 465 ILE A 68 REMARK 465 SER A 69 REMARK 465 GLY A 351 REMARK 465 ASP A 352 REMARK 465 ARG A 353 REMARK 465 SER A 354 REMARK 465 HIS A 355 REMARK 465 LEU A 407 REMARK 465 LYS A 408 REMARK 465 GLN A 409 REMARK 465 MET B 1 REMARK 465 ALA B 39 REMARK 465 ILE B 40 REMARK 465 GLN B 41 REMARK 465 THR B 42 REMARK 465 ALA B 43 REMARK 465 GLY B 44 REMARK 465 THR B 45 REMARK 465 VAL B 46 REMARK 465 LYS B 47 REMARK 465 GLY B 48 REMARK 465 ARG B 49 REMARK 465 GLY B 50 REMARK 465 SER B 51 REMARK 465 ASN B 52 REMARK 465 GLN B 53 REMARK 465 HIS B 54 REMARK 465 ALA B 55 REMARK 465 LYS B 56 REMARK 465 SER B 57 REMARK 465 ASP B 58 REMARK 465 TRP B 59 REMARK 465 MET B 60 REMARK 465 GLU B 61 REMARK 465 MET B 62 REMARK 465 GLU B 63 REMARK 465 LYS B 64 REMARK 465 GLN B 65 REMARK 465 ARG B 66 REMARK 465 GLY B 67 REMARK 465 ILE B 68 REMARK 465 SER B 69 REMARK 465 ILE B 70 REMARK 465 ASN B 306 REMARK 465 MET B 307 REMARK 465 ASP B 308 REMARK 465 PRO B 309 REMARK 465 LYS B 310 REMARK 465 HIS B 311 REMARK 465 ARG B 312 REMARK 465 ASP B 313 REMARK 465 GLY B 351 REMARK 465 ASP B 352 REMARK 465 ARG B 353 REMARK 465 SER B 354 REMARK 465 HIS B 355 REMARK 465 PRO B 406 REMARK 465 LEU B 407 REMARK 465 LYS B 408 REMARK 465 GLN B 409 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 O ASP B 188 O LYS B 208 2.18 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 ASP A 23 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 150 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 229 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 313 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 344 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 150 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 229 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP B 242 CB - CG - OD2 ANGL. DEV. = 5.5 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 PRO A 5 -55.07 -8.22 REMARK 500 HIS A 80 -120.06 55.83 REMARK 500 THR A 89 79.36 -119.34 REMARK 500 HIS A 92 -126.35 -90.20 REMARK 500 LYS A 143 36.64 77.71 REMARK 500 LYS A 197 -99.30 -90.93 REMARK 500 GLN A 202 157.46 -49.28 REMARK 500 SER A 238 -165.58 -124.56 REMARK 500 PRO A 279 111.89 -38.84 REMARK 500 ASP A 294 -112.61 -74.48 REMARK 500 LYS A 295 110.30 19.66 REMARK 500 ASN A 306 124.58 67.69 REMARK 500 PRO A 309 -113.95 -7.13 REMARK 500 HIS A 311 -150.27 -152.66 REMARK 500 ARG A 314 50.98 39.29 REMARK 500 VAL A 315 121.92 -36.14 REMARK 500 ARG A 402 129.71 -172.71 REMARK 500 ASP A 405 -140.36 -167.49 REMARK 500 GLN A 411 21.24 -79.22 REMARK 500 GLU A 422 -155.86 -75.58 REMARK 500 ASP A 496 171.78 -53.94 REMARK 500 ASP B 23 0.45 83.56 REMARK 500 HIS B 80 -117.36 58.85 REMARK 500 HIS B 92 -125.76 -87.68 REMARK 500 LYS B 143 37.98 81.74 REMARK 500 LYS B 197 -80.84 -89.87 REMARK 500 GLN B 202 155.61 -44.59 REMARK 500 ASN B 211 30.77 -99.97 REMARK 500 SER B 238 -151.64 -107.62 REMARK 500 ASP B 294 -133.01 -70.08 REMARK 500 LYS B 295 100.09 45.03 REMARK 500 VAL B 315 107.41 23.92 REMARK 500 MET B 349 160.98 -47.31 REMARK 500 THR B 380 -158.91 -124.97 REMARK 500 THR B 388 63.71 -106.98 REMARK 500 GLU B 422 -151.70 -82.59 REMARK 500 SER B 455 -76.11 -82.81 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 GDP A 2567 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 3567 DBREF 2H5E A 1 529 UNP Q2M5U3 Q2M5U3_ECOLI 1 529 DBREF 2H5E B 1 529 UNP Q2M5U3 Q2M5U3_ECOLI 1 529 SEQRES 1 A 529 MET THR LEU SER PRO TYR LEU GLN GLU VAL ALA LYS ARG SEQRES 2 A 529 ARG THR PHE ALA ILE ILE SER HIS PRO ASP ALA GLY LYS SEQRES 3 A 529 THR THR ILE THR GLU LYS VAL LEU LEU PHE GLY GLN ALA SEQRES 4 A 529 ILE GLN THR ALA GLY THR VAL LYS GLY ARG GLY SER ASN SEQRES 5 A 529 GLN HIS ALA LYS SER ASP TRP MET GLU MET GLU LYS GLN SEQRES 6 A 529 ARG GLY ILE SER ILE THR THR SER VAL MET GLN PHE PRO SEQRES 7 A 529 TYR HIS ASP CYS LEU VAL ASN LEU LEU ASP THR PRO GLY SEQRES 8 A 529 HIS GLU ASP PHE SER GLU ASP THR TYR ARG THR LEU THR SEQRES 9 A 529 ALA VAL ASP CYS CYS LEU MET VAL ILE ASP ALA ALA LYS SEQRES 10 A 529 GLY VAL GLU ASP ARG THR ARG LYS LEU MET GLU VAL THR SEQRES 11 A 529 ARG LEU ARG ASP THR PRO ILE LEU THR PHE MET ASN LYS SEQRES 12 A 529 LEU ASP ARG ASP ILE ARG ASP PRO MET GLU LEU LEU ASP SEQRES 13 A 529 GLU VAL GLU ASN GLU LEU LYS ILE GLY CYS ALA PRO ILE SEQRES 14 A 529 THR TRP PRO ILE GLY CYS GLY LYS LEU PHE LYS GLY VAL SEQRES 15 A 529 TYR HIS LEU TYR LYS ASP GLU THR TYR LEU TYR GLN SER SEQRES 16 A 529 GLY LYS GLY HIS THR ILE GLN GLU VAL ARG ILE VAL LYS SEQRES 17 A 529 GLY LEU ASN ASN PRO ASP LEU ASP ALA ALA VAL GLY GLU SEQRES 18 A 529 ASP LEU ALA GLN GLN LEU ARG ASP GLU LEU GLU LEU VAL SEQRES 19 A 529 LYS GLY ALA SER ASN GLU PHE ASP LYS GLU LEU PHE LEU SEQRES 20 A 529 ALA GLY GLU ILE THR PRO VAL PHE PHE GLY THR ALA LEU SEQRES 21 A 529 GLY ASN PHE GLY VAL ASP HIS MET LEU ASP GLY LEU VAL SEQRES 22 A 529 GLU TRP ALA PRO ALA PRO MET PRO ARG GLN THR ASP THR SEQRES 23 A 529 ARG THR VAL GLU ALA SER GLU ASP LYS PHE THR GLY PHE SEQRES 24 A 529 VAL PHE LYS ILE GLN ALA ASN MET ASP PRO LYS HIS ARG SEQRES 25 A 529 ASP ARG VAL ALA PHE MET ARG VAL VAL SER GLY LYS TYR SEQRES 26 A 529 GLU LYS GLY MET LYS LEU ARG GLN VAL ARG THR ALA LYS SEQRES 27 A 529 ASP VAL VAL ILE SER ASP ALA LEU THR PHE MET ALA GLY SEQRES 28 A 529 ASP ARG SER HIS VAL GLU GLU ALA TYR PRO GLY ASP ILE SEQRES 29 A 529 LEU GLY LEU HIS ASN HIS GLY THR ILE GLN ILE GLY ASP SEQRES 30 A 529 THR PHE THR GLN GLY GLU MET MET LYS PHE THR GLY ILE SEQRES 31 A 529 PRO ASN PHE ALA PRO GLU LEU PHE ARG ARG ILE ARG LEU SEQRES 32 A 529 LYS ASP PRO LEU LYS GLN LYS GLN LEU LEU LYS GLY LEU SEQRES 33 A 529 VAL GLN LEU SER GLU GLU GLY ALA VAL GLN VAL PHE ARG SEQRES 34 A 529 PRO ILE SER ASN ASN ASP LEU ILE VAL GLY ALA VAL GLY SEQRES 35 A 529 VAL LEU GLN PHE ASP VAL VAL VAL ALA ARG LEU LYS SER SEQRES 36 A 529 GLU TYR ASN VAL GLU ALA VAL TYR GLU SER VAL ASN VAL SEQRES 37 A 529 ALA THR ALA ARG TRP VAL GLU CYS ALA ASP ALA LYS LYS SEQRES 38 A 529 PHE GLU GLU PHE LYS ARG LYS ASN GLU SER GLN LEU ALA SEQRES 39 A 529 LEU ASP GLY GLY ASP ASN LEU ALA TYR ILE ALA THR SER SEQRES 40 A 529 MET VAL ASN LEU ARG LEU ALA GLN GLU ARG TYR PRO ASP SEQRES 41 A 529 VAL GLN PHE HIS GLN THR ARG GLU HIS SEQRES 1 B 529 MET THR LEU SER PRO TYR LEU GLN GLU VAL ALA LYS ARG SEQRES 2 B 529 ARG THR PHE ALA ILE ILE SER HIS PRO ASP ALA GLY LYS SEQRES 3 B 529 THR THR ILE THR GLU LYS VAL LEU LEU PHE GLY GLN ALA SEQRES 4 B 529 ILE GLN THR ALA GLY THR VAL LYS GLY ARG GLY SER ASN SEQRES 5 B 529 GLN HIS ALA LYS SER ASP TRP MET GLU MET GLU LYS GLN SEQRES 6 B 529 ARG GLY ILE SER ILE THR THR SER VAL MET GLN PHE PRO SEQRES 7 B 529 TYR HIS ASP CYS LEU VAL ASN LEU LEU ASP THR PRO GLY SEQRES 8 B 529 HIS GLU ASP PHE SER GLU ASP THR TYR ARG THR LEU THR SEQRES 9 B 529 ALA VAL ASP CYS CYS LEU MET VAL ILE ASP ALA ALA LYS SEQRES 10 B 529 GLY VAL GLU ASP ARG THR ARG LYS LEU MET GLU VAL THR SEQRES 11 B 529 ARG LEU ARG ASP THR PRO ILE LEU THR PHE MET ASN LYS SEQRES 12 B 529 LEU ASP ARG ASP ILE ARG ASP PRO MET GLU LEU LEU ASP SEQRES 13 B 529 GLU VAL GLU ASN GLU LEU LYS ILE GLY CYS ALA PRO ILE SEQRES 14 B 529 THR TRP PRO ILE GLY CYS GLY LYS LEU PHE LYS GLY VAL SEQRES 15 B 529 TYR HIS LEU TYR LYS ASP GLU THR TYR LEU TYR GLN SER SEQRES 16 B 529 GLY LYS GLY HIS THR ILE GLN GLU VAL ARG ILE VAL LYS SEQRES 17 B 529 GLY LEU ASN ASN PRO ASP LEU ASP ALA ALA VAL GLY GLU SEQRES 18 B 529 ASP LEU ALA GLN GLN LEU ARG ASP GLU LEU GLU LEU VAL SEQRES 19 B 529 LYS GLY ALA SER ASN GLU PHE ASP LYS GLU LEU PHE LEU SEQRES 20 B 529 ALA GLY GLU ILE THR PRO VAL PHE PHE GLY THR ALA LEU SEQRES 21 B 529 GLY ASN PHE GLY VAL ASP HIS MET LEU ASP GLY LEU VAL SEQRES 22 B 529 GLU TRP ALA PRO ALA PRO MET PRO ARG GLN THR ASP THR SEQRES 23 B 529 ARG THR VAL GLU ALA SER GLU ASP LYS PHE THR GLY PHE SEQRES 24 B 529 VAL PHE LYS ILE GLN ALA ASN MET ASP PRO LYS HIS ARG SEQRES 25 B 529 ASP ARG VAL ALA PHE MET ARG VAL VAL SER GLY LYS TYR SEQRES 26 B 529 GLU LYS GLY MET LYS LEU ARG GLN VAL ARG THR ALA LYS SEQRES 27 B 529 ASP VAL VAL ILE SER ASP ALA LEU THR PHE MET ALA GLY SEQRES 28 B 529 ASP ARG SER HIS VAL GLU GLU ALA TYR PRO GLY ASP ILE SEQRES 29 B 529 LEU GLY LEU HIS ASN HIS GLY THR ILE GLN ILE GLY ASP SEQRES 30 B 529 THR PHE THR GLN GLY GLU MET MET LYS PHE THR GLY ILE SEQRES 31 B 529 PRO ASN PHE ALA PRO GLU LEU PHE ARG ARG ILE ARG LEU SEQRES 32 B 529 LYS ASP PRO LEU LYS GLN LYS GLN LEU LEU LYS GLY LEU SEQRES 33 B 529 VAL GLN LEU SER GLU GLU GLY ALA VAL GLN VAL PHE ARG SEQRES 34 B 529 PRO ILE SER ASN ASN ASP LEU ILE VAL GLY ALA VAL GLY SEQRES 35 B 529 VAL LEU GLN PHE ASP VAL VAL VAL ALA ARG LEU LYS SER SEQRES 36 B 529 GLU TYR ASN VAL GLU ALA VAL TYR GLU SER VAL ASN VAL SEQRES 37 B 529 ALA THR ALA ARG TRP VAL GLU CYS ALA ASP ALA LYS LYS SEQRES 38 B 529 PHE GLU GLU PHE LYS ARG LYS ASN GLU SER GLN LEU ALA SEQRES 39 B 529 LEU ASP GLY GLY ASP ASN LEU ALA TYR ILE ALA THR SER SEQRES 40 B 529 MET VAL ASN LEU ARG LEU ALA GLN GLU ARG TYR PRO ASP SEQRES 41 B 529 VAL GLN PHE HIS GLN THR ARG GLU HIS HET GDP A2567 28 HET GDP B3567 28 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 GDP 2(C10 H15 N5 O11 P2) FORMUL 5 HOH *91(H2 O) HELIX 1 1 PRO A 5 LYS A 12 1 8 HELIX 2 2 GLY A 25 PHE A 36 1 12 HELIX 3 3 SER A 96 THR A 102 1 7 HELIX 4 4 LEU A 103 VAL A 106 5 4 HELIX 5 5 GLU A 120 ARG A 131 1 12 HELIX 6 6 ASP A 150 LYS A 163 1 14 HELIX 7 7 CYS A 175 PHE A 179 5 5 HELIX 8 8 ASN A 212 GLY A 220 1 9 HELIX 9 9 GLY A 220 SER A 238 1 19 HELIX 10 10 ASP A 242 ALA A 248 1 7 HELIX 11 11 GLY A 264 ALA A 276 1 13 HELIX 12 12 GLN A 411 GLU A 422 1 12 HELIX 13 13 VAL A 443 TYR A 457 1 15 HELIX 14 14 ASP A 478 ASN A 489 1 12 HELIX 15 15 SER A 507 TYR A 518 1 12 HELIX 16 16 SER B 4 LYS B 12 1 9 HELIX 17 17 GLY B 25 GLY B 37 1 13 HELIX 18 18 SER B 96 LEU B 103 1 8 HELIX 19 19 THR B 104 VAL B 106 5 3 HELIX 20 20 GLU B 120 ARG B 131 1 12 HELIX 21 21 ASP B 150 LYS B 163 1 14 HELIX 22 22 CYS B 175 PHE B 179 5 5 HELIX 23 23 ASN B 212 SER B 238 1 27 HELIX 24 24 ASP B 242 GLY B 249 1 8 HELIX 25 25 GLY B 264 ALA B 276 1 13 HELIX 26 26 GLN B 411 GLU B 422 1 12 HELIX 27 27 VAL B 443 GLU B 456 1 14 HELIX 28 28 ASP B 478 ASN B 489 1 12 HELIX 29 29 SER B 507 TYR B 518 1 12 SHEET 1 A 7 VAL A 74 TYR A 79 0 SHEET 2 A 7 CYS A 82 LEU A 87 -1 O VAL A 84 N PHE A 77 SHEET 3 A 7 ARG A 13 SER A 20 1 N PHE A 16 O ASN A 85 SHEET 4 A 7 CYS A 108 ASP A 114 1 O LEU A 110 N ILE A 19 SHEET 5 A 7 ILE A 137 ASN A 142 1 O LEU A 138 N MET A 111 SHEET 6 A 7 ILE A 251 PHE A 256 1 O PHE A 255 N MET A 141 SHEET 7 A 7 GLY A 165 PRO A 168 1 N ALA A 167 O THR A 252 SHEET 1 B 4 THR A 170 ILE A 173 0 SHEET 2 B 4 GLY A 181 HIS A 184 -1 O GLY A 181 N ILE A 173 SHEET 3 B 4 GLU A 189 LEU A 192 -1 O GLU A 189 N HIS A 184 SHEET 4 B 4 ILE A 206 VAL A 207 -1 O VAL A 207 N THR A 190 SHEET 1 C 2 ARG A 282 GLN A 283 0 SHEET 2 C 2 THR A 288 VAL A 289 -1 O VAL A 289 N ARG A 282 SHEET 1 D 7 ASP A 339 VAL A 341 0 SHEET 2 D 7 LYS A 330 GLN A 333 -1 N LEU A 331 O VAL A 340 SHEET 3 D 7 THR A 378 THR A 380 -1 O THR A 380 N ARG A 332 SHEET 4 D 7 THR A 297 ILE A 303 -1 N GLY A 298 O PHE A 379 SHEET 5 D 7 ALA A 316 SER A 322 -1 O ARG A 319 N PHE A 299 SHEET 6 D 7 ILE A 364 LEU A 367 -1 O LEU A 365 N MET A 318 SHEET 7 D 7 ALA A 345 LEU A 346 -1 N LEU A 346 O GLY A 366 SHEET 1 E 2 TYR A 325 GLU A 326 0 SHEET 2 E 2 GLU A 358 ALA A 359 -1 O ALA A 359 N TYR A 325 SHEET 1 F 2 PRO A 391 PHE A 393 0 SHEET 2 F 2 THR A 526 GLU A 528 -1 O ARG A 527 N ASN A 392 SHEET 1 G 8 ALA A 461 GLU A 464 0 SHEET 2 G 8 LEU A 397 LEU A 403 -1 N ARG A 402 O VAL A 462 SHEET 3 G 8 LEU A 436 ALA A 440 -1 O VAL A 438 N ARG A 399 SHEET 4 G 8 GLN A 426 PRO A 430 -1 N GLN A 426 O GLY A 439 SHEET 5 G 8 LEU A 493 LEU A 495 -1 O LEU A 495 N ARG A 429 SHEET 6 G 8 LEU A 501 ALA A 505 -1 O ALA A 502 N ALA A 494 SHEET 7 G 8 THR A 470 GLU A 475 -1 N ARG A 472 O TYR A 503 SHEET 8 G 8 GLN A 522 HIS A 524 -1 O HIS A 524 N TRP A 473 SHEET 1 H 7 VAL B 74 TYR B 79 0 SHEET 2 H 7 CYS B 82 LEU B 87 -1 O VAL B 84 N PHE B 77 SHEET 3 H 7 ARG B 13 ILE B 19 1 N PHE B 16 O ASN B 85 SHEET 4 H 7 CYS B 108 ASP B 114 1 O LEU B 110 N ILE B 19 SHEET 5 H 7 ILE B 137 ASN B 142 1 O LEU B 138 N MET B 111 SHEET 6 H 7 ILE B 251 PHE B 256 1 O PHE B 255 N MET B 141 SHEET 7 H 7 GLY B 165 PRO B 168 1 N GLY B 165 O THR B 252 SHEET 1 I 4 THR B 170 ILE B 173 0 SHEET 2 I 4 GLY B 181 HIS B 184 -1 O TYR B 183 N TRP B 171 SHEET 3 I 4 GLU B 189 LEU B 192 -1 O GLU B 189 N HIS B 184 SHEET 4 I 4 ARG B 205 VAL B 207 -1 O VAL B 207 N THR B 190 SHEET 1 J 2 ARG B 282 GLN B 283 0 SHEET 2 J 2 THR B 288 VAL B 289 -1 O VAL B 289 N ARG B 282 SHEET 1 K 7 LYS B 338 VAL B 341 0 SHEET 2 K 7 LYS B 330 GLN B 333 -1 N LEU B 331 O VAL B 340 SHEET 3 K 7 THR B 378 THR B 380 -1 O THR B 380 N ARG B 332 SHEET 4 K 7 THR B 297 ILE B 303 -1 N GLY B 298 O PHE B 379 SHEET 5 K 7 ALA B 316 SER B 322 -1 O PHE B 317 N PHE B 301 SHEET 6 K 7 ILE B 364 LEU B 367 -1 O LEU B 365 N MET B 318 SHEET 7 K 7 ALA B 345 LEU B 346 -1 N LEU B 346 O GLY B 366 SHEET 1 L 2 PRO B 391 PHE B 393 0 SHEET 2 L 2 THR B 526 GLU B 528 -1 O ARG B 527 N ASN B 392 SHEET 1 M 8 ALA B 461 GLU B 464 0 SHEET 2 M 8 LEU B 397 LEU B 403 -1 N ARG B 400 O GLU B 464 SHEET 3 M 8 LEU B 436 ALA B 440 -1 O VAL B 438 N ARG B 399 SHEET 4 M 8 GLN B 426 PRO B 430 -1 N GLN B 426 O GLY B 439 SHEET 5 M 8 LEU B 493 LEU B 495 -1 O LEU B 495 N ARG B 429 SHEET 6 M 8 LEU B 501 ALA B 505 -1 O ALA B 502 N ALA B 494 SHEET 7 M 8 THR B 470 GLU B 475 -1 N ARG B 472 O TYR B 503 SHEET 8 M 8 GLN B 522 HIS B 524 -1 O HIS B 524 N TRP B 473 CISPEP 1 ASP A 405 PRO A 406 0 -1.12 SITE 1 AC1 14 ASP A 23 ALA A 24 GLY A 25 LYS A 26 SITE 2 AC1 14 THR A 27 THR A 28 HIS A 92 ASN A 142 SITE 3 AC1 14 LYS A 143 ASP A 145 ARG A 146 THR A 258 SITE 4 AC1 14 ALA A 259 LEU A 260 SITE 1 AC2 15 GLY A 220 GLU A 221 ASP B 23 ALA B 24 SITE 2 AC2 15 GLY B 25 LYS B 26 THR B 27 THR B 28 SITE 3 AC2 15 HIS B 92 ASN B 142 LYS B 143 ASP B 145 SITE 4 AC2 15 THR B 258 ALA B 259 LEU B 260 CRYST1 73.174 239.781 69.677 90.00 90.00 90.00 P 21 21 21 8 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 0.013666 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004170 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014352 0.00000