HEADER HYDROLASE 18-JAN-10 3LFU TITLE CRYSTAL STRUCTURE OF E. COLI UVRD COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA HELICASE II; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL TRUNCATION (UNP RESIDUES 1-647); COMPND 5 EC: 3.6.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: B3813, JW3786, MUTU, PDEB, RAD, RECL, UVRD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA HELICASE, SF1 HELICASE, ATP-BINDING, DNA DAMAGE, DNA REPAIR, DNA KEYWDS 2 REPLICATION, DNA-BINDING, HELICASE, HYDROLASE, NUCLEOTIDE-BINDING, KEYWDS 3 SOS RESPONSE EXPDTA X-RAY DIFFRACTION AUTHOR S.KOROLEV,G.WAKSMAN,T.M.LOHMAN REVDAT 6 21-FEB-24 3LFU 1 REMARK REVDAT 5 17-JUL-19 3LFU 1 REMARK REVDAT 4 01-NOV-17 3LFU 1 REMARK REVDAT 3 30-NOV-11 3LFU 1 JRNL VERSN REVDAT 2 06-JUL-11 3LFU 1 JRNL REVDAT 1 02-FEB-11 3LFU 0 JRNL AUTH H.JIA,S.KOROLEV,A.NIEDZIELA-MAJKA,N.K.MALUF,G.H.GAUSS, JRNL AUTH 2 S.MYONG,T.HA,G.WAKSMAN,T.M.LOHMAN JRNL TITL ROTATIONS OF THE 2B SUB-DOMAIN OF E. COLI UVRD JRNL TITL 2 HELICASE/TRANSLOCASE COUPLED TO NUCLEOTIDE AND DNA BINDING. JRNL REF J.MOL.BIOL. V. 411 633 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21704638 JRNL DOI 10.1016/J.JMB.2011.06.019 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 67970 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3393 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5193 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 250 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 721 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.03000 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): 0.140 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.730 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5143 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6944 ; 1.763 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 628 ; 6.802 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 265 ;35.092 ;23.509 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 903 ;16.260 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;21.233 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 751 ; 0.180 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3932 ; 0.013 ; 0.021 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): 3132 ; 1.554 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4987 ; 2.577 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2011 ; 4.284 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1957 ; 6.297 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3LFU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JAN-10. REMARK 100 THE DEPOSITION ID IS D_1000057225. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-99 REMARK 200 TEMPERATURE (KELVIN) : 130 REMARK 200 PH : 9.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99188 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70609 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.22400 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 M (NH4)2SO4, PH 9.1, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -X+1/2,Y+1/2,-Z 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 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 -1.000000 0.000000 0.000000 97.27150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.36950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 97.27150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.36950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 ASP A 2 REMARK 465 GLN A 160 REMARK 465 SER A 161 REMARK 465 TYR A 162 REMARK 465 GLY A 163 REMARK 465 TYR A 521 REMARK 465 ASN A 522 REMARK 465 GLU A 523 REMARK 465 GLU A 524 REMARK 465 ASP A 525 REMARK 465 ALA A 542 REMARK 465 ASP A 587 REMARK 465 GLU A 588 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 VAL A 3 CG1 CG2 REMARK 470 HIS A 157 CG ND1 CD2 CE1 NE2 REMARK 470 HIS A 158 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 159 CB CG1 CG2 CD1 REMARK 470 ASN A 164 CB CG OD1 ND2 REMARK 470 PRO A 165 CG CD REMARK 470 GLU A 167 CG CD OE1 OE2 REMARK 470 GLN A 168 CG CD OE1 NE2 REMARK 470 SER A 520 OG REMARK 470 GLU A 526 CG CD OE1 OE2 REMARK 470 GLU A 544 CB CG CD OE1 OE2 REMARK 470 GLN A 546 CB CG CD OE1 NE2 REMARK 470 ALA A 547 CB REMARK 470 ASP A 548 CG OD1 OD2 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 SG CYS A 52 O HOH A 716 2.07 REMARK 500 ND1 HIS A 91 O HOH A 803 2.15 REMARK 500 O HOH A 832 O HOH A 1316 2.16 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 ARG A 42 NE - CZ - NH1 ANGL. DEV. = 7.9 DEGREES REMARK 500 ARG A 42 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP A 110 C - N - CA ANGL. DEV. = -15.2 DEGREES REMARK 500 PRO A 165 N - CA - CB ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 211 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 211 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 220 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 224 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 278 NE - CZ - NH1 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 278 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 SER A 285 CB - CA - C ANGL. DEV. = 11.8 DEGREES REMARK 500 LEU A 290 CB - CG - CD1 ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG A 361 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 361 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 LEU A 397 CB - CG - CD1 ANGL. DEV. = 10.2 DEGREES REMARK 500 LEU A 437 CB - CG - CD1 ANGL. DEV. = 11.3 DEGREES REMARK 500 LEU A 509 CB - CG - CD1 ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG A 596 CD - NE - CZ ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 596 NE - CZ - NH1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 596 NE - CZ - NH2 ANGL. DEV. = -9.2 DEGREES REMARK 500 ARG A 618 CG - CD - NE ANGL. DEV. = -16.3 DEGREES REMARK 500 ARG A 618 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 110 55.84 -107.89 REMARK 500 ASP A 133 102.92 -59.80 REMARK 500 HIS A 157 -130.26 -93.60 REMARK 500 HIS A 158 -91.13 -95.80 REMARK 500 GLU A 497 73.86 -100.04 REMARK 500 LEU A 540 -80.49 -78.89 REMARK 500 GLU A 544 171.45 58.08 REMARK 500 GLN A 546 45.58 83.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 273 ALA A 274 -128.28 REMARK 500 LEU A 528 MET A 529 131.97 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 ARG A 596 0.08 SIDE CHAIN REMARK 500 ARG A 618 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 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1003 DBREF 3LFU A 1 647 UNP P03018 UVRD_ECOLI 1 647 SEQRES 1 A 647 MET ASP VAL SER TYR LEU LEU ASP SER LEU ASN ASP LYS SEQRES 2 A 647 GLN ARG GLU ALA VAL ALA ALA PRO ARG SER ASN LEU LEU SEQRES 3 A 647 VAL LEU ALA GLY ALA GLY SER GLY LYS THR ARG VAL LEU SEQRES 4 A 647 VAL HIS ARG ILE ALA TRP LEU MET SER VAL GLU ASN CYS SEQRES 5 A 647 SER PRO TYR SER ILE MET ALA VAL THR PHE THR ASN LYS SEQRES 6 A 647 ALA ALA ALA GLU MET ARG HIS ARG ILE GLY GLN LEU MET SEQRES 7 A 647 GLY THR SER GLN GLY GLY MET TRP VAL GLY THR PHE HIS SEQRES 8 A 647 GLY LEU ALA HIS ARG LEU LEU ARG ALA HIS HIS MET ASP SEQRES 9 A 647 ALA ASN LEU PRO GLN ASP PHE GLN ILE LEU ASP SER GLU SEQRES 10 A 647 ASP GLN LEU ARG LEU LEU LYS ARG LEU ILE LYS ALA MET SEQRES 11 A 647 ASN LEU ASP GLU LYS GLN TRP PRO PRO ARG GLN ALA MET SEQRES 12 A 647 TRP TYR ILE ASN SER GLN LYS ASP GLU GLY LEU ARG PRO SEQRES 13 A 647 HIS HIS ILE GLN SER TYR GLY ASN PRO VAL GLU GLN THR SEQRES 14 A 647 TRP GLN LYS VAL TYR GLN ALA TYR GLN GLU ALA CYS ASP SEQRES 15 A 647 ARG ALA GLY LEU VAL ASP PHE ALA GLU LEU LEU LEU ARG SEQRES 16 A 647 ALA HIS GLU LEU TRP LEU ASN LYS PRO HIS ILE LEU GLN SEQRES 17 A 647 HIS TYR ARG GLU ARG PHE THR ASN ILE LEU VAL ASP GLU SEQRES 18 A 647 PHE GLN ASP THR ASN ASN ILE GLN TYR ALA TRP ILE ARG SEQRES 19 A 647 LEU LEU ALA GLY ASP THR GLY LYS VAL MET ILE VAL GLY SEQRES 20 A 647 ASP ASP ASP GLN SER ILE TYR GLY TRP ARG GLY ALA GLN SEQRES 21 A 647 VAL GLU ASN ILE GLN ARG PHE LEU ASN ASP PHE PRO GLY SEQRES 22 A 647 ALA GLU THR ILE ARG LEU GLU GLN ASN TYR ARG SER THR SEQRES 23 A 647 SER ASN ILE LEU SER ALA ALA ASN ALA LEU ILE GLU ASN SEQRES 24 A 647 ASN ASN GLY ARG LEU GLY LYS LYS LEU TRP THR ASP GLY SEQRES 25 A 647 ALA ASP GLY GLU PRO ILE SER LEU TYR CYS ALA PHE ASN SEQRES 26 A 647 GLU LEU ASP GLU ALA ARG PHE VAL VAL ASN ARG ILE LYS SEQRES 27 A 647 THR TRP GLN ASP ASN GLY GLY ALA LEU ALA GLU CYS ALA SEQRES 28 A 647 ILE LEU TYR ARG SER ASN ALA GLN SER ARG VAL LEU GLU SEQRES 29 A 647 GLU ALA LEU LEU GLN ALA SER MET PRO TYR ARG ILE TYR SEQRES 30 A 647 GLY GLY MET ARG PHE PHE GLU ARG GLN GLU ILE LYS ASP SEQRES 31 A 647 ALA LEU SER TYR LEU ARG LEU ILE ALA ASN ARG ASN ASP SEQRES 32 A 647 ASP ALA ALA PHE GLU ARG VAL VAL ASN THR PRO THR ARG SEQRES 33 A 647 GLY ILE GLY ASP ARG THR LEU ASP VAL VAL ARG GLN THR SEQRES 34 A 647 SER ARG ASP ARG GLN LEU THR LEU TRP GLN ALA CYS ARG SEQRES 35 A 647 GLU LEU LEU GLN GLU LYS ALA LEU ALA GLY ARG ALA ALA SEQRES 36 A 647 SER ALA LEU GLN ARG PHE MET GLU LEU ILE ASP ALA LEU SEQRES 37 A 647 ALA GLN GLU THR ALA ASP MET PRO LEU HIS VAL GLN THR SEQRES 38 A 647 ASP ARG VAL ILE LYS ASP SER GLY LEU ARG THR MET TYR SEQRES 39 A 647 GLU GLN GLU LYS GLY GLU LYS GLY GLN THR ARG ILE GLU SEQRES 40 A 647 ASN LEU GLU GLU LEU VAL THR ALA THR ARG GLN PHE SER SEQRES 41 A 647 TYR ASN GLU GLU ASP GLU ASP LEU MET PRO LEU GLN ALA SEQRES 42 A 647 PHE LEU SER HIS ALA ALA LEU GLU ALA GLY GLU GLY GLN SEQRES 43 A 647 ALA ASP THR TRP GLN ASP ALA VAL GLN LEU MET THR LEU SEQRES 44 A 647 HIS SER ALA LYS GLY LEU GLU PHE PRO GLN VAL PHE ILE SEQRES 45 A 647 VAL GLY MET GLU GLU GLY MET PHE PRO SER GLN MET SER SEQRES 46 A 647 LEU ASP GLU GLY GLY ARG LEU GLU GLU GLU ARG ARG LEU SEQRES 47 A 647 ALA TYR VAL GLY VAL THR ARG ALA MET GLN LYS LEU THR SEQRES 48 A 647 LEU THR TYR ALA GLU THR ARG ARG LEU TYR GLY LYS GLU SEQRES 49 A 647 VAL TYR HIS ARG PRO SER ARG PHE ILE GLY GLU LEU PRO SEQRES 50 A 647 GLU GLU CYS VAL GLU GLU VAL ARG LEU ARG HET SO4 A1000 5 HET SO4 A1001 5 HET SO4 A1002 5 HET SO4 A1003 5 HETNAM SO4 SULFATE ION FORMUL 2 SO4 4(O4 S 2-) FORMUL 6 HOH *721(H2 O) HELIX 1 1 VAL A 3 ASP A 8 1 6 HELIX 2 2 ASN A 11 ALA A 19 1 9 HELIX 3 3 GLY A 34 VAL A 49 1 16 HELIX 4 4 SER A 53 TYR A 55 5 3 HELIX 5 5 THR A 63 GLY A 79 1 17 HELIX 6 6 PHE A 90 HIS A 101 1 12 HELIX 7 7 HIS A 102 ASN A 106 5 5 HELIX 8 8 ASP A 115 MET A 130 1 16 HELIX 9 9 PRO A 138 GLU A 152 1 15 HELIX 10 10 PRO A 165 GLY A 185 1 21 HELIX 11 11 PHE A 189 LYS A 203 1 15 HELIX 12 12 LYS A 203 PHE A 214 1 12 HELIX 13 13 GLU A 221 THR A 225 5 5 HELIX 14 14 ASN A 226 GLY A 238 1 13 HELIX 15 15 ASP A 248 SER A 252 5 5 HELIX 16 16 TYR A 254 GLY A 258 5 5 HELIX 17 17 GLU A 262 PHE A 271 1 10 HELIX 18 18 THR A 286 GLU A 298 1 13 HELIX 19 19 GLU A 326 ASN A 343 1 18 HELIX 20 20 ALA A 346 ALA A 348 5 3 HELIX 21 21 SER A 356 ALA A 358 5 3 HELIX 22 22 GLN A 359 ALA A 370 1 12 HELIX 23 23 ARG A 381 GLU A 384 5 4 HELIX 24 24 ARG A 385 ASN A 400 1 16 HELIX 25 25 ASP A 403 VAL A 411 1 9 HELIX 26 26 GLY A 419 ARG A 433 1 15 HELIX 27 27 THR A 436 GLU A 447 1 12 HELIX 28 28 ALA A 451 THR A 472 1 22 HELIX 29 29 PRO A 476 SER A 488 1 13 HELIX 30 30 GLY A 489 GLN A 496 1 8 HELIX 31 31 GLY A 499 SER A 520 1 22 HELIX 32 32 MET A 529 GLU A 541 1 13 HELIX 33 33 HIS A 560 LYS A 563 5 4 HELIX 34 34 ARG A 591 THR A 604 1 14 HELIX 35 35 SER A 630 LEU A 636 1 7 HELIX 36 36 PRO A 637 GLU A 639 5 3 SHEET 1 A 6 TRP A 86 THR A 89 0 SHEET 2 A 6 ILE A 57 THR A 61 1 N ALA A 59 O TRP A 86 SHEET 3 A 6 ASN A 216 VAL A 219 1 O LEU A 218 N VAL A 60 SHEET 4 A 6 LYS A 242 GLY A 247 1 O MET A 244 N ILE A 217 SHEET 5 A 6 LEU A 25 ALA A 29 1 N VAL A 27 O ILE A 245 SHEET 6 A 6 GLU A 275 LEU A 279 1 O ILE A 277 N LEU A 26 SHEET 1 B 2 GLN A 112 LEU A 114 0 SHEET 2 B 2 LEU A 186 ASP A 188 1 O VAL A 187 N LEU A 114 SHEET 1 C 6 TYR A 374 ILE A 376 0 SHEET 2 C 6 VAL A 554 THR A 558 1 O LEU A 556 N ARG A 375 SHEET 3 C 6 CYS A 350 TYR A 354 1 N CYS A 350 O GLN A 555 SHEET 4 C 6 PHE A 567 ILE A 572 1 O PHE A 571 N LEU A 353 SHEET 5 C 6 ALA A 606 LEU A 620 1 O MET A 607 N PHE A 567 SHEET 6 C 6 LYS A 623 TYR A 626 -1 O LYS A 623 N LEU A 620 SHEET 1 D 7 TYR A 374 ILE A 376 0 SHEET 2 D 7 VAL A 554 THR A 558 1 O LEU A 556 N ARG A 375 SHEET 3 D 7 CYS A 350 TYR A 354 1 N CYS A 350 O GLN A 555 SHEET 4 D 7 PHE A 567 ILE A 572 1 O PHE A 571 N LEU A 353 SHEET 5 D 7 ALA A 606 LEU A 620 1 O MET A 607 N PHE A 567 SHEET 6 D 7 ILE A 318 ASN A 325 1 N ALA A 323 O TYR A 614 SHEET 7 D 7 VAL A 641 GLU A 643 1 O GLU A 642 N ILE A 318 CISPEP 1 THR A 413 PRO A 414 0 -3.33 CISPEP 2 PHE A 580 PRO A 581 0 7.70 SITE 1 AC1 9 ALA A 31 GLY A 32 GLN A 251 ARG A 284 SITE 2 AC1 9 GLY A 564 ARG A 605 HOH A 856 HOH A 951 SITE 3 AC1 9 HOH A1341 SITE 1 AC2 8 THR A 63 ASN A 64 LYS A 65 ARG A 211 SITE 2 AC2 8 HOH A 779 HOH A 977 HOH A1090 HOH A1227 SITE 1 AC3 10 GLY A 34 LYS A 35 THR A 36 ARG A 37 SITE 2 AC3 10 ARG A 73 HOH A 839 HOH A 892 HOH A 908 SITE 3 AC3 10 HOH A1289 HOH A1295 SITE 1 AC4 7 LYS A 135 ARG A 460 HOH A 875 HOH A1066 SITE 2 AC4 7 HOH A1107 HOH A1238 HOH A1338 CRYST1 194.543 58.739 69.418 90.00 90.00 90.00 P 21 21 2 4 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 0.005140 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017024 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014405 0.00000